All Stories

  1. Correction for Dietz et al., “2019 Novel Coronavirus (COVID-19) Pandemic: Built Environment Considerations To Reduce Transmission”

    Article • mSystems, May 2020, ASM Journals

    Prof. Jonathan A. Eisen

  2. Environmental control on the distribution of metabolic strategies of benthic microbial mats in Lake Fryxell, Antarctica

    Article • PLoS ONE, April 2020, PLOS

    Prof. Jonathan A. Eisen

  3. 2019 Novel Coronavirus (COVID-19) Pandemic: Built Environment Considerations To Reduce Transmission

    Article • mSystems, April 2020, ASM Journals

    Prof. Jonathan A. Eisen

  4. All small things considered: the diversity of fungi, bacteria and oomycota isolated from the seagrass, Zostera marina

    Article • March 2020, Cold Spring Harbor Laboratory Press

    Prof. Jonathan A. Eisen

  5. Author Correction: Metagenome-assembled genomes provide new insight into the microbial diversity of two thermal pools in Kamchatka, Russia

    Article • Scientific Reports, February 2020, Springer Science + Business Media

    Prof. Jonathan A. Eisen

  6. Teredinibacter waterburyi sp. nov., a marine, cellulolytic endosymbiotic bacterium isolated from the gills of the wood-boring mollusc Bankia setacea (Bivalvia: Teredinidae) and emended description of the genus Teredinibacter

    Article • INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, February 2020, Society for General Microbiology

    Prof. Jonathan A. Eisen

  7. Whole genome sequence analysis reveals the broad distribution of the RtxA type 1 secretion system and four novel putative type 1 secretion systems throughout the Legionella genus

    Article • PLoS ONE, January 2020, PLOS

    Prof. Jonathan A. Eisen

  8. Bacteria isolated from Bengal cat (Felis catus × Prionailurus bengalensis) anal sac secretions produce volatile compounds potentially associated with animal signaling

    Article • PLoS ONE, September 2019, PLOS

    Prof. Jonathan A. Eisen

  9. Whole genome sequence analysis reveals broad distribution of the RtxA type 1 secretion system and four novel type 1 secretion systems throughout the Legionella genus

    Article • September 2019, Cold Spring Harbor Laboratory Press

    Prof. Jonathan A. Eisen

  10. Characterization of the mycobiome of the seagrass, Zostera marina, reveals putative associations with marine chytrids

    Article • August 2019, Cold Spring Harbor Laboratory Press

    Prof. Jonathan A. Eisen

  11. Bacteria isolated from bengal cat (Felis catus × Prionailurus bengalensis) anal sac secretions produce volatile compounds associated with animal signaling

    Article • May 2019, Cold Spring Harbor Laboratory Press

    Prof. Jonathan A. Eisen

  12. Metagenome-assembled genomes provide new insight into the microbial diversity of two thermal pools in Kamchatka, Russia

    Article • Scientific Reports, February 2019, Springer Science + Business Media

    Prof. Jonathan A. Eisen

  13. Bacterial communities associated with cell phones and shoes

    Article • February 2019, PeerJ

    Prof. Jonathan A. Eisen

  14. Bacterial communities associated with cell phones and shoes

    Article • February 2019, PeerJ

    Prof. Jonathan A. Eisen

  15. Network analysis to evaluate the impact of research funding on research community consolidation

    Article • January 2019, Cold Spring Harbor Laboratory Press

    Prof. Jonathan A. Eisen

  16. Marine probiotics: increasing coral resistance to bleaching through microbiome manipulation

    Article • The ISME Journal, December 2018, Springer Science + Business Media

    Prof. Jonathan A. Eisen

  17. The Cloacal Microbiome of Five Wild Duck Species Varies by Species and Influenza A Virus Infection Status

    Article • mSphere, October 2018, ASM Journals

    Prof. Jonathan A. Eisen

  18. There and back again: metagenome-assembled genomes provide new insights into two thermal pools in Kamchatka, Russia

    Article • August 2018, Cold Spring Harbor Laboratory Press

    Prof. Jonathan A. Eisen

  19. Nitrogen fixation in a landrace of maize is supported by a mucilage-associated diazotrophic microbiota

    Article • PLoS Biology, August 2018, PLOS

    Prof. Jonathan A. Eisen

  20. Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea

    Article • Nature Biotechnology, July 2018, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  21. Insights into the evolution of oxygenic photosynthesis from a phylogenetically novel, low-light cyanobacterium

    Article • June 2018, Cold Spring Harbor Laboratory Press

    Prof. Jonathan A. Eisen

  22. Effects of preservation method on canine (Canis lupus familiaris) fecal microbiota

    Article • PeerJ, May 2018, PeerJ

    Prof. Jonathan A. Eisen

  23. American Gut: an Open Platform for Citizen Science Microbiome Research

    Article • mSystems, May 2018, ASM Journals

    Prof. Jonathan A. Eisen

  24. Effects of preservation method on canine (Canis lupus familiaris) fecal microbiota

    Article • May 2018, PeerJ

    Prof. Jonathan A. Eisen

  25. Effects of preservation method on canine (Canis lupus familiaris) fecal microbiota

    Article • May 2018, PeerJ

    Prof. Jonathan A. Eisen

  26. Characterization of shifts of koala (Phascolarctos cinereus) intestinal microbial communities associated with antibiotic treatment

    Article • PeerJ, March 2018, PeerJ

    Prof. Jonathan A. Eisen

  27. Correction: A microbial survey of the International Space Station (ISS)

    Article • PeerJ, February 2018, PeerJ

    Prof. Jonathan A. Eisen

  28. Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea

    Article • Nature Biotechnology, February 2018, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  29. A microbial survey of the International Space Station (ISS)

    Article • PeerJ, December 2017, PeerJ

    Prof. Jonathan A. Eisen

  30. Rokubacteria: Genomic Giants among the Uncultured Bacterial Phyla

    Article • Frontiers in Microbiology, November 2017, Frontiers

    Prof. Jonathan A. Eisen

  31. The Green Berry Consortia of the Sippewissett Salt Marsh: Millimeter-Sized Aggregates of Diazotrophic Unicellular Cyanobacteria

    Article • Frontiers in Microbiology, September 2017, Frontiers

    Prof. Jonathan A. Eisen

  32. Microbiome succession during ammonification in eelgrass bed sediments

    Article • PeerJ, August 2017, PeerJ

    Prof. Jonathan A. Eisen

  33. Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea

    Article • Nature Biotechnology, August 2017, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Susannah Green Tringe, Dr Nikos C Kyrpides, William Nelson

  34. 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life

    Article • Nature Biotechnology, June 2017, Springer Science + Business Media

    PhD David Paez-Espino, Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  35. Complete Genome Sequence of Dolosigranulum pigrum from a Patient with Interstitial Lung Disease Using Single-Molecule Real-Time Sequencing Technology

    Article • Genome Announcements, May 2017, ASM Journals

    Prof. Jonathan A. Eisen

  36. Microbiome succession during ammonification in eelgrass bed sediments

    Article • April 2017, PeerJ

    Prof. Jonathan A. Eisen

  37. Microbiome succession during ammonification in eelgrass bed sediments

    Article • April 2017, PeerJ

    Prof. Jonathan A. Eisen

  38. Gut Check: The evolution of an educational board game

    Article • PLoS Biology, April 2017, PLOS

    Prof. Jonathan A. Eisen

  39. Complete Genome Sequence of a Paenalcaligenes hominis Strain Isolated from a Paraplegic Patient with Neurogenic Bladder Using Single-Molecule Real-Time Sequencing Technology

    Article • Genome Announcements, April 2017, ASM Journals

    Prof. Jonathan A. Eisen

  40. Microbial communities in sediment from Zostera marina patches, but not the Z. marina leaf or root microbiomes, vary in relation to distance from patch edge

    Article • PeerJ, April 2017, PeerJ

    Prof. Jonathan A. Eisen

  41. Global-Scale Structure of the Eelgrass Microbiome

    Article • Applied and Environmental Microbiology, April 2017, ASM Journals

    Prof. Jonathan A. Eisen

  42. Draft Genome Sequences of Pseudomonas moraviensis UCD-KL30, Vibrio ostreicida UCD-KL16, Colwellia sp. Strain UCD-KL20, Shewanella sp. Strain UCD-KL12, and Shewanella sp. Strain UCD-KL21, Isolated from Seagrass

    Article • Genome Announcements, March 2017, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  43. Research priorities for harnessing plant microbiomes in sustainable agriculture

    Article • PLoS Biology, March 2017, PLOS

    Prof. Jonathan A. Eisen

  44. Draft Genome Sequence of Propionibacterium avidum Strain UCD-PD2 Isolated from a Feline Anal Sac

    Article • Genome Announcements, March 2017, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  45. Genomic attributes of extended-spectrum β-lactamase-producing Escherichia coli isolated from patients in Lebanon

    Article • Future Microbiology, March 2017, Future Medicine

    Prof. Jonathan A. Eisen

  46. Community-Level Differences in the Microbiome of Healthy Wild Mallards and Those Infected by Influenza A Viruses

    Article • mSystems, February 2017, ASM Journals

    Prof. Jonathan A. Eisen

  47. Draft Genome Sequences of Dermacoccus nishinomiyaensis Strains UCD-KPL2534 and UCD-KPL2528 Isolated from an Indoor Track Facility

    Article • Genome Announcements, February 2017, ASM Journals

    Prof. Jonathan A. Eisen

  48. Draft Genome Sequence of Arthrobacter sp. Strain UCD-GKA (Phylum Actinobacteria)

    Article • Genome Announcements, February 2017, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  49. Complete genome sequence of Jiangella gansuensis strain YIM 002T (DSM 44835T), the type species of the genus Jiangella and source of new antibiotic compounds

    Article • Standards in Genomic Sciences, February 2017, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  50. Draft genome sequences of eight bacteria isolated from the indoor environment: Staphylococcus capitis strain H36, S. capitis strain H65, S. cohnii strain H62, S. hominis strain H69, Microbacterium sp. strain H83, Mycobacterium iranicum strain H39, Plan...

    Article • Standards in Genomic Sciences, January 2017, Springer Science + Business Media

    Prof. Jonathan A. Eisen

  51. Recent Outbreaks of Shigellosis in California Caused by Two Distinct Populations of Shigella sonnei with either Increased Virulence or Fluoroquinolone Resistance

    Article • mSphere, December 2016, ASM Journals

    Dr. Varvara K Kozyreva, Prof. Jonathan A. Eisen

  52. Draft Genome Sequence of Enterococcus faecalis Strain UCD-PD3

    Article • Genome Announcements, December 2016, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  53. Genome Analysis of Streptococcus pyogenes Associated with Pharyngitis and Skin Infections

    Article • PLoS ONE, December 2016, PLOS

    Prof. Jonathan A. Eisen

  54. Global-scale structure of the eelgrass microbiome

    Article • November 2016, Cold Spring Harbor Laboratory Press

    Prof. Jonathan A. Eisen

  55. Ten questions concerning the microbiomes of buildings

    Article • Building and Environment, November 2016, Elsevier

    Prof. Jonathan A. Eisen

  56. Draft Genome Sequence of Tenacibaculum soleae UCD-KL19

    Article • Genome Announcements, October 2016, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  57. Draft Genome Sequence of Gordonia sp. Strain UCD-TK1 (Phylum Actinobacteria )

    Article • Genome Announcements, October 2016, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  58. Draft Genome Sequence of Curtobacterium sp. Strain UCD-KPL2560 (Phylum Actinobacteria )

    Article • Genome Announcements, October 2016, ASM Journals

    Prof. Jonathan A. Eisen

  59. Genes Required for the Anti-fungal Activity of a Bacterial Endophyte Isolated from a Corn Landrace Grown Continuously by Subsistence Farmers Since 1000 BC

    Article • Frontiers in Microbiology, October 2016, Frontiers

    Prof. Jonathan A. Eisen

  60. Seagrass Microbiome Sample Collection and Preservation v1 (protocols.io.fxzbpp6)

    Article • September 2016, ZappyLab, Inc.

    Prof. Jonathan A. Eisen

  61. Root-hair endophyte stacking in finger millet creates a physicochemical barrier to trap the fungal pathogen Fusarium graminearum

    Article • Nature Microbiology, September 2016, Springer Science + Business Media

    Prof. Jonathan A. Eisen

  62. Root hair-endophyte stacking (RHESt) in an ancient Afro-Indian crop creates an unusual physico-chemical barrier to trap pathogen(s)

    Article • August 2016, Cold Spring Harbor Laboratory Press

    Prof. Jonathan A. Eisen

  63. Genome Sequence of a Multidrug-Resistant Strain of Bacillus pumilus , CB01, Isolated from the Feces of an American Crow, Corvus brachyrhynchos

    Article • Genome Announcements, August 2016, ASM Journals

    Prof. Jonathan A. Eisen

  64. Recent Outbreaks of Shigellosis in California Caused by Two Distinct Populations ofShigella sonneiWith Increased Virulence or Fluoroquinolone Resistance

    Article • July 2016, Cold Spring Harbor Laboratory Press

    Prof. Jonathan A. Eisen, Dr. Varvara K Kozyreva

  65. The Metagenomics and Metadesign of the Subways and Urban Biomes (MetaSUB) International Consortium inaugural meeting report

    Article • Microbiome, June 2016, Springer Science + Business Media

    Nicolas Rascovan, Prof. Jonathan A. Eisen, Maria Mercedes Zambrano

  66. Draft Genome Sequence ofKlebsiella pneumoniaeUCD-JA29 Isolated from a Patient with Sepsis

    Article • Genome Announcements, May 2016, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  67. Growth of 48 built environment bacterial isolates on board the International Space Station (ISS)

    Article • PeerJ, March 2016, PeerJ

    Prof. Jonathan A. Eisen

  68. Draft Genome Sequences of Two Pseudoalteromonas porphyrae Strains Isolated from Seagrass Sediment

    Article • Genome Announcements, March 2016, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  69. Draft Genome Sequence of Cobetia sp. UCD-24C, Isolated from Roots and Leaves of the Seagrass Zostera marina

    Article • Genome Announcements, March 2016, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  70. Draft Genome Sequences of Two Pseudoalteromonas Strains Isolated from Roots and Leaf Blades of the Seagrass Zostera marina

    Article • Genome Announcements, February 2016, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  71. Draft Genome Sequences of TwoVibrio splendidusStrains, Isolated from Seagrass Sediment

    Article • Genome Announcements, February 2016, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  72. Draft Genome Sequences of Acinetobacter baumannii Strains Harboring the bla NDM-1 Gene Isolated in Lebanon from Civilians Wounded during the Syrian Civ...

    Article • Genome Announcements, January 2016, ASM Journals

    Prof. Jonathan A. Eisen

  73. Draft Genome Sequence of Klebsiella pneumoniae KGM-IMP216 Harboring bla CTX-M-15 , bla DHA-1 ...

    Article • Genome Announcements, January 2016, ASM Journals

    Prof. Jonathan A. Eisen

  74. Additional Draft Genome Sequences of Escherichia coli Strains Isolated from Septic Patients: Table 1 

    Article • Genome Announcements, January 2016, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  75. Growth of 48 built environment bacterial isolates on board the International Space Station (ISS)

    Article • January 2016, PeerJ

    Prof. Jonathan A. Eisen

  76. Growth of 48 built environment bacterial isolates on board the International Space Station (ISS)

    Article • January 2016, PeerJ

    Prof. Jonathan A. Eisen

  77. PHYLOGENETIC DIVERSITY OF THE MICROBIAL MATS IN LAKE FRYXELL, ANTARCTICA

    Article • January 2016, Geological Society of America

    Prof. Jonathan A. Eisen

  78. Transcriptomes of post-mitotic neurons identify the usage of alternative pathways during adult and embryonic neuronal differentiation

    Article • BMC Genomics, December 2015, Springer Science + Business Media

    Prof. Jonathan A. Eisen

  79. Draft Genome Sequence of Porphyrobacter mercurialis (sp. nov.) Strain Coronado

    Article • Genome Announcements, November 2015, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  80. Draft Genome Sequence of Bacillus safensis JPL-MERTA-8-2, Isolated from a Mars-Bound Spacecraft

    Article • Genome Announcements, November 2015, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  81. Draft Genome Sequence of Bacillus vietnamensis Strain UCD-SED5 (Phylum Firmicutes )

    Article • Genome Announcements, November 2015, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  82. Microbial Mat Communities along an Oxygen Gradient in a Perennially Ice-Covered Antarctic Lake

    Article • Applied and Environmental Microbiology, November 2015, ASM Journals

    Prof. Jonathan A. Eisen

  83. Comparative Genomics of the Genus Porphyromonas Identifies Adaptations for Heme Synthesis within the Prevalent Canine Oral Species Porphyromonas cangingivalis

    Article • Genome Biology and Evolution, November 2015, Oxford University Press (OUP)

    Prof. Jonathan A. Eisen

  84. Automated and Accurate Estimation of Gene Family Abundance from Shotgun Metagenomes

    Article • PLoS Computational Biology, November 2015, PLOS

    Prof. Jonathan A. Eisen

  85. Porphyrobacter mercurialis sp. nov., isolated from a stadium seat and emended description of the genus Porphyrobacter

    Article • PeerJ, November 2015, PeerJ

    Prof. Jonathan A. Eisen

  86. Draft Genome Sequence of Pseudoalteromonas tetraodonis Strain UCD-SED8 (Phylum Gammaproteobacteria )

    Article • Genome Announcements, November 2015, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  87. Draft Genome Sequence of Planomicrobium glaciei UCD-HAM (Phylum Firmicutes )

    Article • Genome Announcements, October 2015, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  88. Automated and accurate estimation of gene family abundance from shotgun metagenomes

    Article • July 2015, Cold Spring Harbor Laboratory Press

    Prof. Jonathan A. Eisen

  89. The United States Culture Collection Network (USCCN): Enhancing Microbial Genomics Research through Living Microbe Culture Collections

    Article • Applied and Environmental Microbiology, June 2015, ASM Journals

    Prof. Jonathan A. Eisen

  90. Prediction of remission in obsessive compulsive disorder using a novel machine learning strategy

    Article • International Journal of Methods in Psychiatric Research, May 2015, Wiley

    Prof. Jonathan A. Eisen, Dr Christina Boisseau

  91. Genomic Encyclopedia of Bacterial and Archaeal Type Strains, Phase III: the genomes of soil and plant-associated and newly described type strains

    Article • Standards in Genomic Sciences, May 2015, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Professor Peter A Vandamme, Dr Nikos C Kyrpides

  92. Swabs to genomes: a comprehensive workflow

    Article • PeerJ, May 2015, PeerJ

    Prof. Jonathan A. Eisen

  93. Forensic analysis of the microbiome of phones and shoes

    Article • Microbiome, May 2015, Springer Science + Business Media

    Prof. Jonathan A. Eisen

  94. Deep-sea hydrothermal vent bacteria related to human pathogenic Vibrio species

    Article • Proceedings of the National Academy of Sciences, May 2015, Proceedings of the National Academy of Sciences

    Prof. Jonathan A. Eisen

  95. ThinkLab as a vetting system for traditional grants

    Article • April 2015, Thinklab

    Prof. Jonathan A. Eisen

  96. Draft Genome Sequences of 26 Porphyromonas Strains Isolated from the Canine Oral Microbiome: Table 1

    Article • Genome Announcements, April 2015, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  97. Whole genome sequencing of extended-spectrum β-lactamase producing Klebsiella pneumoniae isolated from a patient in Lebanon

    Article • Frontiers in Cellular and Infection Microbiology, April 2015, Frontiers

    Prof. Jonathan A. Eisen

  98. Genome Sequence of the Sulfate-Reducing Thermophilic Bacterium Thermodesulfovibrio yellowstonii Strain DSM 11347 T (Phylum Nitrospirae )

    Article • Genome Announcements, January 2015, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  99. Genome Sequence of a Sulfate-Reducing Thermophilic Bacterium, Thermodesulfobacterium commune DSM 2178T(PhylumThermodesulfobacteria)

    Article • Genome Announcements, January 2015, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  100. Swabs to genomes: a comprehensive workflow

    Article • January 2015, PeerJ

    Prof. Jonathan A. Eisen

  101. Swabs to genomes: a comprehensive workflow

    Article • January 2015, PeerJ

    Prof. Jonathan A. Eisen

  102. Draft Genome Sequence of Enterobacter sp. Strain UCD-UG_FMILLET (PhylumProteobacteria)

    Article • Genome Announcements, January 2015, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  103. Draft Genome Sequence of Burkholderia gladioli Strain UCD-UG_CHAPALOTE (Phylum Proteobacteria )

    Article • Genome Announcements, January 2015, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  104. Structure, variation, and assembly of the root-associated microbiomes of rice

    Article • Proceedings of the National Academy of Sciences, January 2015, Proceedings of the National Academy of Sciences

    Prof. Jonathan A. Eisen

  105. 11+ things everyone needs to know about microbes

    Article • The Winnower, January 2015, The Winnower, LLC

    Prof. Jonathan A. Eisen

  106. Methylisothiazolinone in household items - a growing (or well, killing) problem #germophobia

    Article • The Winnower, January 2015, The Winnower, LLC

    Prof. Jonathan A. Eisen

  107. What does the term microbiome mean? And where did it come from? A bit of a surprise ..

    Article • The Winnower, January 2015, The Winnower, LLC

    Prof. Jonathan A. Eisen

  108. Draft Genome Sequences of Escherichia coli Strains Isolated from Septic Patients

    Article • Genome Announcements, December 2014, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  109. The microbes we eat: abundance and taxonomy of microbes consumed in a day’s worth of meals for three diet types

    Article • PeerJ, December 2014, PeerJ

    Prof. Jonathan A. Eisen

  110. Phylogenetically Driven Sequencing of Extremely Halophilic Archaea Reveals Strategies for Static and Dynamic Osmo-response

    Article • PLoS Genetics, November 2014, PLOS

    Prof. Jonathan A. Eisen

  111. Draft Genome Sequence of the Pyridinediol-Fermenting Bacterium Synergistes jonesii 78-1

    Article • Genome Announcements, August 2014, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  112. Swabs to Genomes: A Comprehensive Workflow

    Article • August 2014, PeerJ

    Prof. Jonathan A. Eisen

  113. Genomic Encyclopedia of Bacteria and Archaea: Sequencing a Myriad of Type Strains

    Article • PLoS Biology, August 2014, PLOS

    Professor Julian Parkhill, Dr Timothy J Donohue, Prof. Jonathan A. Eisen, Prof George M Garrity, Prof. Dr. Dr. h.c. Michael Wagner, PhD, Microbiology Edward R.B. Moore, Antoine Danchin, Dr Nikos C Kyrpides

  114. Draft Genome Sequence of the Endosymbiont "Candidatus Ruthia magnifica" UCD-CM (Phylum Proteobacteria)

    Article • Genome Announcements, July 2014, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  115. microBEnet: Lessons Learned from Building an Interdisciplinary Scientific Community in the Online Sphere

    Article • PLoS Biology, June 2014, PLOS

    Prof. Jonathan A. Eisen

  116. Play up your lab’s leadership in open science!

    Article • June 2014, Thinklab

    Prof. Jonathan A. Eisen

  117. Microbial resistance to disinfectants in animal shelters

    Article • June 2014, Thinklab

    Prof. Jonathan A. Eisen

  118. Microbial resistance to disinfectants in animal shelters

    Article • June 2014, Thinklab

    Prof. Jonathan A. Eisen

  119. Strain- and plasmid-level deconvolution of a synthetic metagenome by sequencing proximity ligation products

    Article • PeerJ, May 2014, PeerJ

    Prof. Jonathan A. Eisen

  120. Draft Genome Sequences of Streptococcus pyogenes Strains Associated with Throat and Skin Infections in Lebanon

    Article • Genome Announcements, May 2014, ASM Journals

    Prof. Jonathan A. Eisen

  121. Complete Genome Sequence of Coprothermobacter proteolyticus DSM 5265

    Article • Genome Announcements, May 2014, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  122. Genome sequence of the Thermotoga thermarum type strain (LA3T) from an African solfataric spring

    Article • Standards in Genomic Sciences, May 2014, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  123. Draft Genome Sequence of Tatumella sp. Strain UCD-D_suzukii (Phylum Proteobacteria) Isolated from Drosophila suzukii Larvae

    Article • Genome Announcements, April 2014, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  124. Genome sequence of the mud-dwelling archaeon Methanoplanus limicola type strain (DSM 2279T), reclassification of Methanoplanus petrolearius as Methanolacinia petrolearia and emended descriptions of the genera Methanoplanus and Methanolacinia

    Article • Standards in Genomic Sciences, March 2014, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  125. Strain- and plasmid-level deconvolution of a synthetic metagenome by sequencing proximity ligation products

    Article • February 2014, PeerJ

    Prof. Jonathan A. Eisen

  126. Strain- and plasmid-level deconvolution of a synthetic metagenome by sequencing proximity ligation products

    Article • February 2014, PeerJ

    Prof. Jonathan A. Eisen

  127. Microscale sulfur cycling in the phototrophic pink berry consortia of the Sippewissett Salt Marsh

    Article • Environmental Microbiology, February 2014, Wiley

    Jonathan Eisen, Prof. Jonathan A. Eisen

  128. Complete Genome Sequence of the Extreme Thermophile Dictyoglomus thermophilum H-6-12

    Article • Genome Announcements, February 2014, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  129. Draft Genome Sequence of Extended-Spectrum  -Lactamase-Producing Klebsiella pneumoniae Isolated from a Patient in Lebanon

    Article • Genome Announcements, February 2014, ASM Journals

    Prof. Jonathan A. Eisen

  130. Draft Genome Sequences of Extended-Spectrum  -Lactamase-Producing Escherichia coli Strains Isolated from Patients in Lebanon

    Article • Genome Announcements, February 2014, ASM Journals

    Prof. Jonathan A. Eisen

  131. PhyloSift: phylogenetic analysis of genomes and metagenomes

    Article • PeerJ, January 2014, PeerJ

    Jonathan Eisen, Prof. Jonathan A. Eisen

  132. Open Science and Reporting Animal Studies: Who's Accountable?

    Article • PLoS Biology, January 2014, PLOS

    Jonathan Eisen, Prof. Jonathan A. Eisen

  133. The genome of the intracellular bacterium of the coastal bivalve, Solemya velum: a blueprint for thriving in and out of symbiosis

    Article • BMC Genomics, January 2014, Springer Science + Business Media

    Prof. Jonathan A. Eisen

  134. Complete genome sequence of Planctomyces brasiliensis type strain (DSM 5305T), phylogenomic analysis and reclassification of Planctomycetes including the descriptions of Gimesia gen. nov., Planctopirus gen. nov. and Rubinisphaera gen. nov. and emended ...

    Article • Standards in Genomic Sciences, January 2014, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  135. Genomic Encyclopedia of Type Strains, Phase I: The one thousand microbial genomes (KMG-I) project

    Article • Standards in Genomic Sciences, December 2013, Springer Science + Business Media

    Jonathan Eisen, Prof. Jonathan A. Eisen, Prof George M Garrity, Dr Nikos C Kyrpides

  136. Draft Genome Sequence of the Arsenate-Respiring Bacterium Chrysiogenes arsenatis Strain DSM 11915

    Article • Genome Announcements, November 2013, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  137. MIxS-BE: a MIxS extension defining a minimum information standard for sequence data from the built environment

    Article • The ISME Journal, October 2013, Oxford University Press (OUP)

    Jonathan Eisen, Dr Jason Stajich, Prof. Jonathan A. Eisen

  138. Systematic Identification of Gene Families for Use as “Markers” for Phylogenetic and Phylogeny-Driven Ecological Studies of Bacteria and Archaea and Their Major Subgroups

    Article • PLoS ONE, October 2013, PLOS

    Jonathan Eisen, Prof. Jonathan A. Eisen

  139. Expert Failure: Re-evaluating Research Assessment

    Article • PLoS Biology, October 2013, PLOS

    Jonathan Eisen, Prof. Jonathan A. Eisen

  140. The Impact of Helicobacter pylori Infection on the Gastric Microbiota of the Rhesus Macaque

    Article • PLoS ONE, October 2013, PLOS

    Jonathan Eisen, Professor Jay V Solnick, Prof. Jonathan A. Eisen

  141. Genome sequence of the moderately thermophilic sulfur-reducing bacterium Thermanaerovibrio velox type strain (Z-9701T) and emended description of the genus Thermanaerovibrio

    Article • Standards in Genomic Sciences, October 2013, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  142. Genome sequence of Frateuria aurantia type strain (Kondô 67T), a xanthomonade isolated from Lilium auratium Lindl.

    Article • Standards in Genomic Sciences, October 2013, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  143. Extraordinary phylogenetic diversity and metabolic versatility in aquifer sediment

    Article • Nature Communications, August 2013, Springer Science + Business Media

    Jonathan Eisen, Dr Susannah Green Tringe, Prof. Jonathan A. Eisen

  144. Prokaryotic Super Program Advisory Committee DOE Joint Genome Institute, Walnut Creek, CA, March 27, 2013

    Article • Standards in Genomic Sciences, July 2013, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Cameron R Currie, Prof George M Garrity

  145. Insights into the phylogeny and coding potential of microbial dark matter

    Article • Nature, July 2013, Nature

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  146. Draft Genome Sequence of Leucobacter sp. Strain UCD-THU (Phylum Actinobacteria)

    Article • Genome Announcements, June 2013, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  147. Genome sequence of the phylogenetically isolated spirochete Leptonema illini type strain (3055T)

    Article • Standards in Genomic Sciences, May 2013, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  148. Genome sequence of the free-living aerobic spirochete Turneriella parva type strain (HT), and emendation of the species Turneriella parva

    Article • Standards in Genomic Sciences, May 2013, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  149. Complete genome sequence of the halophilic bacterium Spirochaeta africana type strain (Z-7692T) from the alkaline Lake Magadi in the East African Rift

    Article • Standards in Genomic Sciences, May 2013, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  150. Draft Genome Sequence of Curtobacterium flaccumfaciens Strain UCD-AKU (Phylum Actinobacteria)

    Article • Genome Announcements, May 2013, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  151. Draft Genome Sequence of Kocuria sp. Strain UCD-OTCP (Phylum Actinobacteria)

    Article • Genome Announcements, May 2013, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  152. Draft Genome Sequence of Dietzia sp. Strain UCD-THP (Phylum Actinobacteria)

    Article • Genome Announcements, May 2013, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  153. Phylogeny of Bacterial and Archaeal Genomes Using Conserved Genes: Supertrees and Supermatrices

    Article • PLoS ONE, April 2013, PLOS

    Jonathan Eisen, Prof. Jonathan A. Eisen

  154. High-quality-draft genome sequence of the yellow-pigmented flavobacterium Joostella marina type strain (En5T)

    Article • Standards in Genomic Sciences, April 2013, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  155. Genome sequence of the thermophilic fresh-water bacterium Spirochaeta caldaria type strain (H1T), reclassification of Spirochaeta caldaria, Spirochaeta stenostrepta, and Spirochaeta zuelzerae in the genus Treponema as Treponema caldaria comb. nov., Tre...

    Article • Standards in Genomic Sciences, April 2013, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  156. Complete genome sequence of the moderate thermophile Anaerobaculum mobile type strain (NGAT)

    Article • Standards in Genomic Sciences, April 2013, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  157. Complete genome sequence of the bile-resistant pigment-producing anaerobe Alistipes finegoldii type strain (AHN2437T)

    Article • Standards in Genomic Sciences, April 2013, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  158. Complete genome sequence of Coriobacterium glomerans type strain (PW2T) from the midgut of Pyrrhocoris apterus L. (red soldier bug)

    Article • Standards in Genomic Sciences, April 2013, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  159. Draft Genome Sequence of an Actinobacterium, Brachybacterium muris Strain UCD-AY4

    Article • Genome Announcements, March 2013, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  160. Draft Genome Sequence of Microbacterium sp. Strain UCD-TDU (Phylum Actinobacteria)

    Article • Genome Announcements, March 2013, ASM Journals

    Jonathan Eisen, Prof. Jonathan A. Eisen

  161. Insights into the evolution of Darwin’s finches from comparative analysis of the Geospiza magnirostris genome sequence

    Article • BMC Genomics, February 2013, Springer Science + Business Media

    Jonathan Eisen, Dr Arkhat Abzhanov, Dr Richard D Emes, Prof. Jonathan A. Eisen

  162. Improving the coverage of the cyanobacterial phylum using diversity-driven genome sequencing

    Article • Proceedings of the National Academy of Sciences, December 2012, Proceedings of the National Academy of Sciences

    Prof. Jonathan A. Eisen

  163. Genome sequence of the flexirubin-pigmented soil bacterium Niabella soli type strain (JS13-8T)

    Article • Standards in Genomic Sciences, December 2012, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  164. Gene Conservation among Endospore-Forming Bacteria Reveals Additional Sporulation Genes in Bacillus subtilis

    Article • Journal of Bacteriology, November 2012, ASM Journals

    Prof. Jonathan A. Eisen

  165. Incorporating 16S Gene Copy Number Information Improves Estimates of Microbial Diversity and Abundance

    Article • PLoS Computational Biology, October 2012, PLOS

    Jonathan Eisen, Prof. Jonathan A. Eisen

  166. Sifting through genomes with iterative-sequence clustering produces a large, phylogenetically diverse protein-family resource

    Article • BMC Bioinformatics, October 2012, Springer Science + Business Media

    Jonathan Eisen, Prof. Jonathan A. Eisen, Morgan Langille

  167. Genome sequence of the orange-pigmented seawater bacterium Owenweeksia hongkongensis type strain (UST20020801T)

    Article • Standards in Genomic Sciences, October 2012, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  168. Genome sequence of the Antarctic rhodopsins-containing flavobacterium Gillisia limnaea type strain (R-8282T)

    Article • Standards in Genomic Sciences, October 2012, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  169. Functional Biogeography of Ocean Microbes Revealed through Non-Negative Matrix Factorization

    Article • PLoS ONE, September 2012, PLOS

    Jonathan Eisen, Prof. Jonathan A. Eisen, Morgan Langille

  170. An Integrated Pipeline for de Novo Assembly of Microbial Genomes

    Article • PLoS ONE, September 2012, PLOS

    Jonathan Eisen, Prof. Jonathan A. Eisen

  171. Yeast Communities of Diverse Drosophila Species: Comparison of Two Symbiont Groups in the Same Hosts

    Article • Applied and Environmental Microbiology, August 2012, ASM Journals

    Prof. Jonathan A. Eisen

  172. Sequencing of Seven Haloarchaeal Genomes Reveals Patterns of Genomic Flux

    Article • PLoS ONE, July 2012, PLOS

    Jonathan Eisen, Prof. Jonathan A. Eisen, Morgan Langille, Dr Robert A Edwards

  173. Complete genome sequence of the moderately thermophilic mineral-sulfide-oxidizing firmicute Sulfobacillus acidophilus type strain (NALT)

    Article • Standards in Genomic Sciences, July 2012, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  174. Badomics words and the power and peril of the ome-meme

    Article • GigaScience, July 2012, Oxford University Press (OUP)

    Jonathan Eisen, Prof. Jonathan A. Eisen

  175. MicrobeDB: a locally maintainable database of microbial genomic sequences

    Article • Bioinformatics, May 2012, Oxford University Press (OUP)

    Prof. Jonathan A. Eisen, Morgan Langille

  176. Permanent draft genome sequence of the gliding predator Saprospira grandis strain Sa g1 (= HR1)

    Article • Standards in Genomic Sciences, May 2012, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  177. Genome sequence of the moderately thermophilic, amino-acid-degrading and sulfur-reducing bacterium Thermovirga lienii type strain (Cas60314T)

    Article • Standards in Genomic Sciences, May 2012, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  178. Genome sequence of the homoacetogenic bacterium Holophaga foetida type strain (TMBS4T)

    Article • Standards in Genomic Sciences, May 2012, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  179. Complete genome sequence of the thermophilic sulfate-reducing ocean bacterium Thermodesulfatator indicus type strain (CIR29812T)

    Article • Standards in Genomic Sciences, May 2012, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  180. Complete genome sequence of the termite hindgut bacterium Spirochaeta coccoides type strain (SPN1T), reclassification in the genus Sphaerochaeta as Sphaerochaeta coccoides comb. nov. and emendations of the family Spirochaetaceae and the genus Sphaeroch...

    Article • Standards in Genomic Sciences, May 2012, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  181. Complete genome sequence of the facultatively anaerobic, appendaged bacterium Muricauda ruestringensis type strain (B1T)

    Article • Standards in Genomic Sciences, May 2012, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  182. Complete genome sequence of the aquatic bacterium Runella slithyformis type strain (LSU 4T)

    Article • Standards in Genomic Sciences, May 2012, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  183. Complete genome sequence of the orange-red pigmented, radioresistant Deinococcus proteolyticus type strain (MRPT)

    Article • Standards in Genomic Sciences, April 2012, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  184. Complete genome sequence of the sulfur compounds oxidizing chemolithoautotroph Sulfuricurvum kujiense type strain (YK-1T)

    Article • Standards in Genomic Sciences, March 2012, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  185. Complete genome sequence of the aerobic, heterotroph Marinithermus hydrothermalis type strain (T1T) from a deep-sea hydrothermal vent chimney

    Article • Standards in Genomic Sciences, March 2012, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  186. Accounting For Alignment Uncertainty in Phylogenomics

    Article • PLoS ONE, January 2012, PLOS

    Jonathan Eisen, Prof. Jonathan A. Eisen

  187. Genome sequence of the filamentous, gliding Thiothrix nivea neotype strain (JP2T)

    Article • Standards in Genomic Sciences, December 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  188. Complete genome sequence of the thermophilic sulfur-reducer Desulfurobacterium thermolithotrophum type strain (BSAT) from a deep-sea hydrothermal vent

    Article • Standards in Genomic Sciences, December 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  189. Genome-Scale Analysis of Programmed DNA Elimination Sites in Tetrahymena thermophila

    Article • G3 Genes Genomes Genetics, November 2011, Genetics Society of America

    Prof. Jonathan A. Eisen

  190. Non-contiguous finished genome sequence and contextual data of the filamentous soil bacterium Ktedonobacter racemifer type strain (SOSP1-21T)

    Article • Standards in Genomic Sciences, October 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  191. Non-contiguous finished genome sequence of the opportunistic oral pathogen Prevotella multisaccharivorax type strain (PPPA20T)

    Article • Standards in Genomic Sciences, September 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  192. Genome sequence of the moderately thermophilic halophile Flexistipes sinusarabici strain (MAS10T)

    Article • Standards in Genomic Sciences, September 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  193. Complete genome sequence of the thermophilic, hydrogen-oxidizing Bacillus tusciae type strain (T2T) and reclassification in the new genus, Kyrpidia gen. nov. as Kyrpidia tusciae comb. nov. and emendation of the family Alicyclobacillaceae da Costa and R...

    Article • Standards in Genomic Sciences, September 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen

  194. Complete genome sequence of the gliding, heparinolytic Pedobacter saltans type strain (113T)

    Article • Standards in Genomic Sciences, September 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  195. Complete genome sequence of the gliding freshwater bacterium Fluviicola taffensis type strain (RW262T)

    Article • Standards in Genomic Sciences, September 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  196. Bacterial Communities of Diverse Drosophila Species: Ecological Context of a Host–Microbe Model System

    Article • PLoS Genetics, September 2011, PLOS

    Jonathan Eisen, Prof. Jonathan A. Eisen

  197. Phosphate transporters in marine phytoplankton and their viruses: cross-domain commonalities in viral-host gene exchanges

    Article • Environmental Microbiology, September 2011, Wiley

    Prof. Jonathan A. Eisen

  198. The Phylogenetic Diversity of Metagenomes

    Article • PLoS ONE, August 2011, PLOS

    Jonathan Eisen, Prof. Jonathan A. Eisen

  199. Mauve Assembly Metrics

    Article • Bioinformatics, August 2011, Oxford University Press (OUP)

    Prof. Jonathan A. Eisen

  200. Aggregating, Tagging and Integrating Biodiversity Research

    Article • PLoS ONE, August 2011, PLOS

    Jonathan Eisen, Prof. Jonathan A. Eisen

  201. Complete genome sequence of the hyperthermophilic chemolithoautotroph Pyrolobus fumarii type strain (1AT)

    Article • Standards in Genomic Sciences, July 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  202. Complete genome sequence of Nitratifractor salsuginis type strain (E9I37-1T)

    Article • Standards in Genomic Sciences, July 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  203. Complete genome sequence of Syntrophobotulus glycolicus type strain (FlGlyRT)

    Article • Standards in Genomic Sciences, July 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  204. Complete genome sequence of Tsukamurella paurometabola type strain (no. 33T)

    Article • Standards in Genomic Sciences, June 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  205. Complete genome sequence of Treponema succinifaciens type strain (6091T)

    Article • Standards in Genomic Sciences, June 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  206. Complete genome sequence of the thermophilic sulfur-reducer Hippea maritima type strain (MH2T)

    Article • Standards in Genomic Sciences, June 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  207. Complete genome sequence of the extremely halophilic Halanaerobium praevalens type strain (GSLT)

    Article • Standards in Genomic Sciences, June 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  208. Complete genome sequence of the acetate-degrading sulfate reducer Desulfobacca acetoxidans type strain (ASRB2T)

    Article • Standards in Genomic Sciences, June 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  209. Complete genome sequence of Mahella australiensis type strain (50-1 BONT)

    Article • Standards in Genomic Sciences, June 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  210. Complete genome sequence of Haliscomenobacter hydrossis type strain (OT)

    Article • Standards in Genomic Sciences, June 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  211. Towards Automated Phylogenomic Inference

    Article • May 2011, Wiley

    Jonathan Eisen, Prof. Jonathan A. Eisen

  212. Environmental Shotgun Sequencing: Its Potential and Challenges for Studying the Hidden World of Microbes

    Article • May 2011, Wiley

    Jonathan Eisen, Prof. Jonathan A. Eisen

  213. Non-contiguous finished genome sequence of Bacteroides coprosuis type strain (PC139T)

    Article • Standards in Genomic Sciences, April 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  214. Complete genome sequence of Odoribacter splanchnicus type strain (1651/6T)

    Article • Standards in Genomic Sciences, April 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  215. Complete genome sequence of Oceanithermus profundus type strain (506T)

    Article • Standards in Genomic Sciences, April 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  216. Complete genome sequence of Marivirga tractuosa type strain (H-43T)

    Article • Standards in Genomic Sciences, April 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  217. Complete genome sequence of Hydrogenobacter thermophilus type strain (TK-6T)

    Article • Standards in Genomic Sciences, April 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  218. Complete genome sequence of Desulfurococcus mucosus type strain (O7/1T)

    Article • Standards in Genomic Sciences, April 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  219. Complete genome sequence of Cellulophaga lytica type strain (LIM-21T)

    Article • Standards in Genomic Sciences, April 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  220. Complete genome sequence of Bacteroides salanitronis type strain (BL78T)

    Article • Standards in Genomic Sciences, April 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  221. Complete genome sequence of Riemerella anatipestifer type strain (ATCC 11845T)

    Article • Standards in Genomic Sciences, April 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  222. Drivers of bacterial β-diversity depend on spatial scale

    Article • Proceedings of the National Academy of Sciences, April 2011, Proceedings of the National Academy of Sciences

    Prof. Jonathan A. Eisen

  223. Complete genome sequence of Leadbetterella byssophila type strain (4M15T)

    Article • Standards in Genomic Sciences, April 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  224. Stalking the Fourth Domain in Metagenomic Data: Searching for, Discovering, and Interpreting Novel, Deep Branches in Marker Gene Phylogenetic Trees

    Article • PLoS ONE, March 2011, PLOS

    Jonathan Eisen, Prof. Jonathan A. Eisen

  225. Complete genome sequence of Weeksella virosa type strain (9751T)

    Article • Standards in Genomic Sciences, February 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  226. Complete genome sequence of Truepera radiovictrix type strain (RQ-24T)

    Article • Standards in Genomic Sciences, February 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  227. Complete genome sequence of Cellulophaga algicola type strain (IC166T)

    Article • Standards in Genomic Sciences, February 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  228. Complete genome sequence of Bacteroides helcogenes type strain (P 36-108T)

    Article • Standards in Genomic Sciences, February 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  229. Complete genome sequence of Deinococcus maricopensis type strain (LB-34T)

    Article • Standards in Genomic Sciences, February 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  230. Complete genome sequence of Thermomonospora curvata type strain (B9T)

    Article • Standards in Genomic Sciences, February 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  231. Complete genome sequence of Paludibacter propionicigenes type strain (WB4T)

    Article • Standards in Genomic Sciences, February 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  232. Complete genome sequence of Isosphaera pallida type strain (IS1BT)

    Article • Standards in Genomic Sciences, February 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  233. Complete genome sequence of Desulfobulbus propionicus type strain (1pr3T)

    Article • Standards in Genomic Sciences, February 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  234. Complete genome sequence of Calditerrivibrio nitroreducens type strain (Yu37-1T)

    Article • Standards in Genomic Sciences, February 2011, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  235. PhylOTU: A High-Throughput Procedure Quantifies Microbial Community Diversity and Resolves Novel Taxa from Metagenomic Data

    Article • PLoS Computational Biology, January 2011, PLOS

    Jonathan Eisen, Prof. Jonathan A. Eisen

  236. Complete genome sequence of Syntrophothermus lipocalidus type strain (TGB-C1T)

    Article • Standards in Genomic Sciences, December 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  237. Complete genome sequence of Ferrimonas balearica type strain (PATT)

    Article • Standards in Genomic Sciences, October 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  238. Complete genome sequence of Candidatus Ruthia magnifica

    Article • Standards in Genomic Sciences, October 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen

  239. Complete genome sequence of ‘Thermobaculum terrenum’ type strain (YNP1T)

    Article • Standards in Genomic Sciences, October 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  240. Complete genome sequence of Spirochaeta smaragdinae type strain (SEBR 4228T)

    Article • Standards in Genomic Sciences, October 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  241. Complete genome sequence of Vulcanisaeta distributa type strain (IC-017T)

    Article • Standards in Genomic Sciences, September 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  242. Complete genome sequence of Thermosediminibacter oceani type strain (JW/IW-1228PT)

    Article • Standards in Genomic Sciences, September 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  243. Complete genome sequence of Arcanobacterium haemolyticum type strain (11018T)

    Article • Standards in Genomic Sciences, September 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  244. Permanent draft genome sequence of Dethiosulfovibrio peptidovorans type strain (SEBR 4207T)

    Article • Standards in Genomic Sciences, August 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  245. Complete genome sequence of Olsenella uli type strain (VPI D76D-27CT)

    Article • Standards in Genomic Sciences, August 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  246. Complete genome sequence of Ignisphaera aggregans type strain (AQ1.S1T)

    Article • Standards in Genomic Sciences, August 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  247. Complete genome sequence of Acetohalobium arabaticum type strain (Z-7288T)

    Article • Standards in Genomic Sciences, August 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  248. Complete genome sequence of Planctomyces limnophilus type strain (Mü 290T)

    Article • Standards in Genomic Sciences, July 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  249. Complete genome sequence of Meiothermus silvanus type strain (VI-R2T)

    Article • Standards in Genomic Sciences, July 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  250. Complete genome sequence of Meiothermus ruber type strain (21T)

    Article • Standards in Genomic Sciences, July 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  251. Complete genome sequence of Cellulomonas flavigena type strain (134T)

    Article • Standards in Genomic Sciences, July 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  252. Complete genome sequence of Acidaminococcus fermentans type strain (VR4T)

    Article • Standards in Genomic Sciences, July 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  253. Erratum to: Complete genome sequence of Atopobium parvulum type strain (IPP 1246T)

    Article • Standards in Genomic Sciences, July 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  254. Complete genome sequence of Thermosphaera aggregans type strain (M11TLT)

    Article • Standards in Genomic Sciences, June 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  255. Complete genome sequence of Thermobispora bispora type strain (R51T)

    Article • Standards in Genomic Sciences, June 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  256. Complete genome sequence of Denitrovibrio acetiphilus type strain (N2460T)

    Article • Standards in Genomic Sciences, June 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  257. Complete genome sequence of Coraliomargarita akajimensis type strain (04OKA010-24T)

    Article • Standards in Genomic Sciences, June 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  258. Complete genome sequence of Brachyspira murdochii type strain (56-150T)

    Article • Standards in Genomic Sciences, June 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  259. Complete genome sequence of Arcobacter nitrofigilis type strain (CIT)

    Article • Standards in Genomic Sciences, June 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  260. Complete genome sequence of Archaeoglobus profundus type strain (AV18T)

    Article • Standards in Genomic Sciences, June 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  261. Complete genome sequence of Aminobacterium colombiense type strain (ALA-1T)

    Article • Standards in Genomic Sciences, June 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  262. Introducing W.A.T.E.R.S.: a Workflow for the Alignment, Taxonomy, and Ecology of Ribosomal Sequences

    Article • BMC Bioinformatics, June 2010, Springer Science + Business Media

    Jonathan Eisen, Prof. Jonathan A. Eisen

  263. Metagenomic Sequencing of an In Vitro-Simulated Microbial Community

    Article • PLoS ONE, April 2010, PLOS

    Jonathan Eisen, Prof. Jonathan A. Eisen

  264. BioTorrents: A File Sharing Service for Scientific Data

    Article • PLoS ONE, April 2010, PLOS

    Jonathan Eisen, Prof. Jonathan A. Eisen, Morgan Langille

  265. Complete genome sequence of Thermocrinis albus type strain (HI 11/12T)

    Article • Standards in Genomic Sciences, March 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  266. Complete genome sequence of Spirosoma linguale type strain (1T)

    Article • Standards in Genomic Sciences, March 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  267. Complete genome sequence of Segniliparus rotundus type strain (CDC 1076T)

    Article • Standards in Genomic Sciences, March 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  268. Complete genome sequence of Sebaldella termitidis type strain (NCTC 11300T)

    Article • Standards in Genomic Sciences, March 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  269. Complete genome sequence of Nakamurella multipartita type strain (Y-104T)

    Article • Standards in Genomic Sciences, March 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  270. Complete genome sequence of Kribbella flavida type strain (IFO 14399T)

    Article • Standards in Genomic Sciences, March 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  271. Complete genome sequence of Geodermatophilus obscurus type strain (G-20T)

    Article • Standards in Genomic Sciences, March 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  272. Complete genome sequence of Conexibacter woesei type strain (ID131577T)

    Article • Standards in Genomic Sciences, March 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  273. Erratum to: Complete genome sequence of Pirellula staleyi type strain (ATCC 27377T)

    Article • Standards in Genomic Sciences, March 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  274. Complete genome sequence of Sulfurospirillum deleyianum type strain (5175T)

    Article • Standards in Genomic Sciences, March 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  275. The Complete Genome Sequence of Haloferax volcanii DS2, a Model Archaeon

    Article • PLoS ONE, March 2010, PLOS

    Jonathan Eisen, Prof. Jonathan A. Eisen, Dr. Mechthild Pohlschroder

  276. Complete genome sequence of Haloterrigena turkmenica type strain (4kT)

    Article • Standards in Genomic Sciences, February 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  277. Complete genome sequence of Chitinophaga pinensis type strain (UQM 2034T)

    Article • Standards in Genomic Sciences, February 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  278. Complete genome sequence of Xylanimonas cellulosilytica type strain (XIL07T)

    Article • Standards in Genomic Sciences, January 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  279. Complete genome sequence of Veillonella parvula type strain (Te3T)

    Article • Standards in Genomic Sciences, January 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  280. Complete genome sequence of Streptosporangium roseum type strain (NI 9100T)

    Article • Standards in Genomic Sciences, January 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  281. Complete genome sequence of Sphaerobacter thermophilus type strain (S 6022T)

    Article • Standards in Genomic Sciences, January 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  282. Complete genome sequence of Haliangium ochraceum type strain (SMP-2T)

    Article • Standards in Genomic Sciences, January 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  283. Complete genome sequence of Gordonia bronchialis type strain (3410T)

    Article • Standards in Genomic Sciences, January 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  284. Complete genome sequence of Desulfohalobium retbaense type strain (HR100T)

    Article • Standards in Genomic Sciences, January 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  285. Complete genome sequence of Alicyclobacillus acidocaldarius type strain (104-IAT)

    Article • Standards in Genomic Sciences, January 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  286. The Genome Sequence ofMethanohalophilus mahiiSLPTReveals Differences in the Energy Metabolism among Members of theMethanosarcinaceaeInhabiting Freshwater and Saline Environments

    Article • Archaea, January 2010, Hindawi Publishing Corporation

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  287. Non-contiguous finished genome sequence of Aminomonas paucivorans type strain (GLU-3T)

    Article • Standards in Genomic Sciences, January 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  288. Meeting Report: The Terabase Metagenomics Workshop and the Vision of an Earth Microbiome Project

    Article • Standards in Genomic Sciences, January 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  289. Complete genome sequence of Thermaerobacter marianensis type strain (7p75aT)

    Article • Standards in Genomic Sciences, January 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  290. Complete genome sequence of Nocardiopsis dassonvillei type strain (IMRU 509T)

    Article • Standards in Genomic Sciences, January 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  291. Complete genome sequence of Methanothermus fervidus type strain (V24ST)

    Article • Standards in Genomic Sciences, January 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  292. Complete genome sequence of Intrasporangium calvum type strain (7 KIPT)

    Article • Standards in Genomic Sciences, January 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  293. Complete genome sequence of Ilyobacter polytropus type strain (CuHbu1T)

    Article • Standards in Genomic Sciences, January 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  294. Complete genome sequence of Desulfarculus baarsii type strain (2st14T)

    Article • Standards in Genomic Sciences, January 2010, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  295. Complete genome sequence of Streptobacillus moniliformis type strain (9901T)

    Article • Standards in Genomic Sciences, December 2009, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  296. Complete genome sequence of Stackebrandtia nassauensis type strain (LLR-40K-21T)

    Article • Standards in Genomic Sciences, December 2009, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  297. Complete genome sequence of Pirellula staleyi type strain (ATCC 27377T)

    Article • Standards in Genomic Sciences, December 2009, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  298. Complete genome sequence of Rhodothermus marinus type strain (R-10T)

    Article • Standards in Genomic Sciences, December 2009, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  299. A phylogeny-driven genomic encyclopaedia of Bacteria and Archaea

    Article • Nature, December 2009, Nature

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  300. Jonathan Eisen discusses GEBA project at DOE JGI

    Article • December 2009, SciVee, Inc

    Prof. Jonathan A. Eisen

  301. Complete genome sequence of Thermanaerovibrio acidaminovorans type strain (Su883T)

    Article • Standards in Genomic Sciences, November 2009, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  302. Complete genome sequence of Slackia heliotrinireducens type strain (RHS 1T)

    Article • Standards in Genomic Sciences, November 2009, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  303. Complete genome sequence of Kangiella koreensis type strain (SW-125T)

    Article • Standards in Genomic Sciences, November 2009, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  304. Complete genome sequence of Jonesia denitrificans type strain (Prevot 55134T)

    Article • Standards in Genomic Sciences, November 2009, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  305. Complete genome sequence of Halorhabdus utahensis type strain (AX-2T)

    Article • Standards in Genomic Sciences, November 2009, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  306. Complete genome sequence of Halomicrobium mukohataei type strain (arg-2T)

    Article • Standards in Genomic Sciences, November 2009, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  307. Complete genome sequence of Desulfotomaculum acetoxidans type strain (5575T)

    Article • Standards in Genomic Sciences, November 2009, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  308. Genomics of Emerging Infectious Disease: A PLoS Collection

    Article • PLoS Biology, October 2009, PLOS

    Jonathan Eisen, Prof. Jonathan A. Eisen

  309. Human gut microbiome adopts an alternative state following small bowel transplantation

    Article • Proceedings of the National Academy of Sciences, October 2009, Proceedings of the National Academy of Sciences

    Prof. Jonathan A. Eisen

  310. Complete genome sequence of Eggerthella lenta type strain (IPP VPI 0255T)

    Article • Standards in Genomic Sciences, September 2009, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  311. Complete genome sequence of Sanguibacter keddieii type strain (ST-74T)

    Article • Standards in Genomic Sciences, September 2009, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  312. Complete genome sequence of Saccharomonospora viridis type strain (P101T)

    Article • Standards in Genomic Sciences, September 2009, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  313. Complete genome sequence of Leptotrichia buccalis type strain (C-1013-bT)

    Article • Standards in Genomic Sciences, September 2009, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  314. Complete genome sequence of Halogeometricum borinquense type strain (PR3T)

    Article • Standards in Genomic Sciences, September 2009, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  315. Complete genome sequence of Dyadobacter fermentans type strain (NS114T)

    Article • Standards in Genomic Sciences, September 2009, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  316. Complete genome sequence of Cryptobacterium curtum type strain (12-3T)

    Article • Standards in Genomic Sciences, September 2009, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  317. Complete genome sequence of Catenulispora acidiphila type strain (ID 139908T)

    Article • Standards in Genomic Sciences, September 2009, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  318. Complete genome sequence of Capnocytophaga ochracea type strain (VPI 2845T)

    Article • Standards in Genomic Sciences, September 2009, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  319. Complete genome sequence of Anaerococcus prevotii type strain (PC1T)

    Article • Standards in Genomic Sciences, September 2009, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  320. Complete genome sequence of Atopobium parvulum type strain (IPP 1246T)

    Article • Standards in Genomic Sciences, September 2009, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  321. Complete genome sequence of Pedobacter heparinus type strain (HIM 762-3T)

    Article • Standards in Genomic Sciences, July 2009, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  322. Complete genome sequence of Kytococcus sedentarius type strain (541T)

    Article • Standards in Genomic Sciences, July 2009, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  323. Complete genome sequence of Desulfomicrobium baculatum type strain (XT)

    Article • Standards in Genomic Sciences, July 2009, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  324. Complete genome sequence of Brachybacterium faecium type strain (Schefferle 6-10T)

    Article • Standards in Genomic Sciences, July 2009, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  325. Complete genome sequence of Beutenbergia cavernae type strain (HKI 0122T)

    Article • Standards in Genomic Sciences, July 2009, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  326. Complete genome sequence of Actinosynnema mirum type strain (101T)

    Article • Standards in Genomic Sciences, July 2009, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  327. Complete genome sequence of Acidimicrobium ferrooxidans type strain (ICPT)

    Article • Standards in Genomic Sciences, July 2009, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  328. The Complete Genome of Teredinibacter turnerae T7901: An Intracellular Endosymbiont of Marine Wood-Boring Bivalves (Shipworms)

    Article • PLoS ONE, July 2009, PLOS

    Prof. Jonathan A. Eisen

  329. Assembling the Marine Metagenome, One Cell at a Time

    Article • PLoS ONE, April 2009, PLOS

    Jonathan Eisen, Prof. Jonathan A. Eisen

  330. Adaptations to Submarine Hydrothermal Environments Exemplified by the Genome of Nautilia profundicola

    Article • PLoS Genetics, February 2009, PLOS

    Jonathan Eisen, Prof. Jonathan A. Eisen

  331. Complete Genome Sequence of the Aerobic CO-Oxidizing Thermophile Thermomicrobium roseum

    Article • PLoS ONE, January 2009, PLOS

    Jonathan Eisen, Prof. Jonathan A. Eisen

  332. Acidithiobacillus ferrooxidans metabolism: from genome sequence to industrial applications

    Article • BMC Genomics, December 2008, Springer Science + Business Media

    Jonathan Eisen, Prof. Jonathan A. Eisen, Dr Raquel Quatrini

  333. Correction: An Automated Phylogenetic Tree-Based Small Subunit rRNA Taxonomy and Alignment Pipeline (STAP)

    Article • PLoS ONE, July 2008, PLOS

    Jonathan Eisen, Prof. Jonathan A. Eisen

  334. An Automated Phylogenetic Tree-Based Small Subunit rRNA Taxonomy and Alignment Pipeline (STAP)

    Article • PLoS ONE, July 2008, PLOS

    Jonathan Eisen, Prof. Jonathan A. Eisen

  335. Evolution . By Nicholas H. Barton, Derek E. G. Briggs, Jonathan A. Eisen, David Goldstein, and Nipam H. Patel. Cold Spring Harbor (New York): Cold Spring Harbor Laboratory Press. $100.00. xiv + 833 p.; ill.; index. 978‐0‐87969‐684‐9. 2007.

    Article • The Quarterly Review of Biology, June 2008, University of Chicago Press

    Prof. Jonathan A. Eisen

  336. PLoS Biology 2.0

    Article • PLoS Biology, February 2008, PLOS

    Jonathan Eisen, Prof. Jonathan A. Eisen

  337. CompostBin: A DNA Composition-Based Algorithm for Binning Environmental Shotgun Reads

    Article • January 2008, Springer Science + Business Media

    Jonathan Eisen, Prof. Jonathan A. Eisen

  338. A simple, fast, and accurate method of phylogenomic inference

    Article • Genome Biology, January 2008, Springer Science + Business Media

    Jonathan Eisen, Prof. Jonathan A. Eisen

  339. Refined annotation and assembly of the Tetrahymena thermophila genome sequence through EST analysis, comparative genomic hybridization, and targeted gap closure

    Article • BMC Genomics, January 2008, Springer Science + Business Media

    Prof. Jonathan A. Eisen

  340. A genomic analysis of the archaeal system Ignicoccus hospitalis-Nanoarchaeum equitans

    Article • Genome Biology, January 2008, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Nikos C Kyrpides

  341. Sequence Characterization and Comparative Analysis of Three Plasmids Isolated from Environmental Vibrio spp.

    Article • Applied and Environmental Microbiology, October 2007, ASM Journals

    Prof. Jonathan A. Eisen

  342. Detecting Natural Versus Unnatural DNA

    Article • October 2007, Defense Technical Information Center (DTIC)

    Prof. Jonathan A. Eisen

  343. On the taxonomic status of the intracellular bacterium Wolbachia pipientis: should this species name include the intracellular bacteria of filarial nematodes?

    Article • INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, August 2007, Society for General Microbiology

    Prof. Jonathan A. Eisen, Dr Kenneth M. Pfarr

  344. Identification of a fourth family of lycopene cyclases in photosynthetic bacteria

    Article • Proceedings of the National Academy of Sciences, July 2007, Proceedings of the National Academy of Sciences

    Prof. Jonathan A. Eisen

  345. Genetic and Physical Mapping of DNA Replication Origins in Haloferax volcanii

    Article • PLoS Genetics, May 2007, PLOS

    Jonathan Eisen, Prof. Jonathan A. Eisen

  346. Environmental Shotgun Sequencing: Its Potential and Challenges for Studying the Hidden World of Microbes

    Article • PLoS Biology, March 2007, PLOS

    Jonathan Eisen, Prof. Jonathan A. Eisen

  347. The Sorcerer II Global Ocean Sampling Expedition: Northwest Atlantic through Eastern Tropical Pacific

    Article • PLoS Biology, March 2007, PLOS

    Prof. Jonathan A. Eisen, Professor Giselle Tamayo-Castillo

  348. The Sorcerer II Global Ocean Sampling Expedition: Expanding the Universe of Protein Families

    Article • PLoS Biology, March 2007, PLOS

    Prof. Jonathan A. Eisen

  349. The Calyptogena magnifica Chemoautotrophic Symbiont Genome

    Article • Science, February 2007, American Association for the Advancement of Science

    Prof. Jonathan A. Eisen

  350. Correction for Goldman et al., Evolution of sensory complexity recorded in a myxobacterial genome

    Article • Proceedings of the National Academy of Sciences, December 2006, Proceedings of the National Academy of Sciences

    Prof. Jonathan A. Eisen

  351. Evolution of sensory complexity recorded in a myxobacterial genome

    Article • Proceedings of the National Academy of Sciences, October 2006, Proceedings of the National Academy of Sciences

    Prof. Jonathan A. Eisen

  352. Use of HAPPY mapping for the higher order assembly of the Tetrahymena genome

    Article • Genomics, October 2006, Elsevier

    Jonathan Eisen, Prof. Jonathan A. Eisen

  353. Macronuclear Genome Sequence of the Ciliate Tetrahymena thermophila, a Model Eukaryote

    Article • PLoS Biology, August 2006, PLOS

    Prof. Jonathan A. Eisen

  354. Metabolic Complementarity and Genomics of the Dual Bacterial Symbiosis of Sharpshooters

    Article • PLoS Biology, June 2006, PLOS

    Jonathan Eisen, Prof. Jonathan A. Eisen

  355. Taking the First Steps towards a Standard for Reporting on Phylogenies: Minimum Information about a Phylogenetic Analysis (MIAPA)

    Article • OMICS A Journal of Integrative Biology, June 2006, Mary Ann Liebert Inc

    Prof. Jonathan A. Eisen

  356. Osmium-Catalyzed Olefin Dihydroxylation and Aminohydroxylation in the Second Catalytic Cycle

    Article • Advanced Synthesis & Catalysis, June 2006, Wiley

    Prof. Jonathan A. Eisen

  357. Characterization of Bacterial Communities Associated with Deep-Sea Corals on Gulf of Alaska Seamounts

    Article • Applied and Environmental Microbiology, February 2006, ASM Journals

    Prof. Jonathan A. Eisen

  358. Comparative Genomics of Emerging Human Ehrlichiosis Agents

    Article • PLoS Genetics, January 2006, PLOS

    Prof. Jonathan A. Eisen, William Nelson

  359. Correction: Comparative Genomics of Emerging Human Ehrlichiosis Agents

    Article • PLoS Genetics, January 2006, PLOS

    Prof. Jonathan A. Eisen, William Nelson

  360. Correction: Life in Hot Carbon Monoxide: The Complete Genome Sequence of Carboxydothermus hydrogenoformans Z-2901

    Article • PLoS Genetics, January 2006, PLOS

    Prof. Jonathan A. Eisen, William Nelson

  361. Patellamide A and C biosynthesis by a microcin-like pathway inProchloron didemni, the cyanobacterial symbiont ofLissoclinum patella

    Article • Proceedings of the National Academy of Sciences, May 2005, Proceedings of the National Academy of Sciences

    Prof. Jonathan A. Eisen

  362. Genomic analysis of Hyphomonas neptunium contradicts 16S rRNA gene-based phylogenetic analysis: implications for the taxonomy of the orders 'Rhodobacterales' and Caulobacterales

    Article • INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, May 2005, Society for General Microbiology

    Prof. Jonathan A. Eisen

  363. Genome Sequence of the PCE-Dechlorinating Bacterium Dehalococcoides ethenogenes

    Article • Science, January 2005, American Association for the Advancement of Science

    Prof. Jonathan A. Eisen, William Nelson

  364. Genetic and physical mapping of DNA replication origins in Haloferax volcanii

    Article • PLoS Genetics, January 2005, PLOS

    Jonathan Eisen, Prof. Jonathan A. Eisen

  365. Life in Hot Carbon Monoxide: The Complete Genome Sequence of Carboxydothermus hydrogenoformans Z-2901

    Article • PLoS Genetics, January 2005, PLOS

    Prof. Jonathan A. Eisen, William Nelson

  366. Article • Genome Biology, January 2005, Springer Science + Business Media

    Prof. Jonathan A. Eisen

  367. Genome sequence of Silicibacter pomeroyi reveals adaptations to the marine environment

    Article • December 2004

    William Whitman, Prof. Jonathan A. Eisen, William Nelson

  368. Genomic Insights into Methanotrophy: The Complete Genome Sequence of Methylococcus capsulatus (Bath)

    Article • PLoS Biology, September 2004, PLOS

    Prof. Jonathan A. Eisen, William Nelson

  369. Faculty of 1000 evaluation for Preserving genome integrity: the DdrA protein of Deinococcus radiodurans R1.

    Article • September 2004, Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  370. Faculty of 1000 evaluation for An RNA ligase from Deinococcus radiodurans.

    Article • September 2004, Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  371. Analysis of Deinococcus radiodurans's Transcriptional Response to Ionizing Radiation and Desiccation Reveals Novel Proteins That Contribute to Extreme Radioresistance

    Article • Genetics, September 2004, Genetics Society of America

    Prof. Jonathan A. Eisen

  372. Faculty of 1000 evaluation for Genetic manipulation of carotenoid biosynthesis in the green sulfur bacterium Chlorobium tepidum.

    Article • August 2004, Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  373. The genome sequence of the anaerobic, sulfate-reducing bacterium Desulfovibrio vulgaris Hildenborough

    Article • Nature Biotechnology, April 2004, Nature

    Prof. Jonathan A. Eisen, William Nelson

  374. Environmental Genome Shotgun Sequencing of the Sargasso Sea

    Article • Science, April 2004, American Association for the Advancement of Science

    Prof. Jonathan A. Eisen, William Nelson

  375. Comparison of the genome of the oral pathogen Treponema denticola with other spirochete genomes

    Article • Proceedings of the National Academy of Sciences, April 2004, Proceedings of the National Academy of Sciences

    Prof. Jonathan A. Eisen

  376. Gene synteny and evolution of genome architecture in trypanosomatids

    Article • Molecular and Biochemical Parasitology, April 2004, Elsevier

    Professor Elodie Ghedin, Prof. Jonathan A. Eisen

  377. Phylogenomics of the Reproductive Parasite Wolbachia pipientis wMel: A Streamlined Genome Overrun by Mobile Genetic Elements

    Article • PLoS Biology, March 2004, PLOS

    Prof. Jonathan A. Eisen, William Nelson

  378. Complete Genome Sequence of the Oral Pathogenic BacteriumPorphyromonas gingivalis StrainW83

    Article • Journal of Bacteriology, January 2004, ASM Journals

    Prof. Jonathan A. Eisen

  379. Genome of Geobacter sulfurreducens: Metal Reduction in Subsurface Environments

    Article • Science, December 2003, American Association for the Advancement of Science

    Prof. Jonathan A. Eisen, William Nelson

  380. Erratum to “Comparative studies of resistin expression and phylogenomics in human and mouse” [Biochem. Biophys. Res. Commun. 310 (2003) 927–935]

    Article • Biochemical and Biophysical Research Communications, December 2003, Elsevier

    Prof. Jonathan A. Eisen

  381. Comparative studies of resistin expression and phylogenomics in human and mouse

    Article • Biochemical and Biophysical Research Communications, October 2003, Elsevier

    Prof. Jonathan A. Eisen

  382. Complete Genome Sequence of the Oral Pathogenic Bacterium Porphyromonas gingivalis Strain W83

    Article • Journal of Bacteriology, September 2003, ASM Journals

    Prof. Jonathan A. Eisen, William Nelson

  383. Complete Genome Sequence of the Broad-Host-Range Vibriophage KVP40: Comparative Genomics of a T4-Related Bacteriophage

    Article • Journal of Bacteriology, September 2003, ASM Journals

    Prof. Jonathan A. Eisen, William Nelson

  384. Complete genome sequence and comparative analysis of the metabolically versatile Pseudomonas putida KT2440

    Article • Environmental Microbiology, July 2003, Wiley

    Prof. Jonathan A. Eisen, William Nelson

  385. Phylogenomics: Intersection of Evolution and Genomics

    Article • Science, June 2003, American Association for the Advancement of Science

    Prof. Jonathan A. Eisen

  386. Modeling Bacterial Evolution with Comparative-Genome-Based Marker Systems: Application to Mycobacterium tuberculosis Evolution and Pathogenesis

    Article • Journal of Bacteriology, June 2003, ASM Journals

    Prof. Jonathan A. Eisen

  387. The genome sequence of Bacillus anthracis Ames and comparison to closely related bacteria

    Article • Nature, May 2003, Springer Science + Business Media

    Roger D Plaut, Prof. Jonathan A. Eisen, William Nelson

  388. Complete genome sequence of the Q-fever pathogenCoxiellaburnetii

    Article • Proceedings of the National Academy of Sciences, April 2003, Proceedings of the National Academy of Sciences

    Prof. Jonathan A. Eisen, William Nelson

  389. Role of Mobile DNA in the Evolution of Vancomycin-Resistant Enterococcus faecalis

    Article • Science, March 2003, American Association for the Advancement of Science

    Prof. Jonathan A. Eisen, William Nelson

  390. Article • Plant Molecular Biology, January 2003, Springer Science + Business Media

    Prof. Jonathan A. Eisen

  391. Deep submergence synergy: Alvin and ABE explore the Galapagos Rift at 86°W

    Article • Eos, January 2003, American Geophysical Union (AGU)

    Prof. Jonathan A. Eisen

  392. The Value of Complete Microbial Genome Sequencing (You Get What You Pay For)

    Article • Journal of Bacteriology, December 2002, ASM Journals

    Prof. Jonathan A. Eisen

  393. Complete genome sequence and comparative analysis of the metabolically versatile Pseudomonas putida KT2440

    Article • Environmental Microbiology, December 2002, Wiley

    Prof. Jonathan A. Eisen, William Nelson

  394. Genome sequence of the dissimilatory metal ion–reducing bacterium Shewanella oneidensis

    Article • Nature Biotechnology, October 2002, Nature

    Prof. Jonathan A. Eisen, William Nelson

  395. Genome sequence of the human malaria parasite Plasmodium falciparum

    Article • Nature, October 2002, Springer Science + Business Media

    Professor Alan H Fairlamb, Prof. Jonathan A. Eisen, Chris Mungall

  396. Whole-Genome Comparison of Mycobacterium tuberculosis Clinical and Laboratory Strains

    Article • Journal of Bacteriology, October 2002, ASM Journals

    Prof. Jonathan A. Eisen, William Nelson

  397. The Brucella suis genome reveals fundamental similarities between animal and plant pathogens and symbionts

    Article • Proceedings of the National Academy of Sciences, September 2002, Proceedings of the National Academy of Sciences

    Prof. Jonathan A. Eisen, William Nelson

  398. Complete genome sequence and comparative genomic analysis of an emerging human pathogen, serotype VStreptococcus agalactiae

    Article • Proceedings of the National Academy of Sciences, August 2002, Proceedings of the National Academy of Sciences

    Prof. Jonathan A. Eisen

  399. The complete genome sequence of Chlorobium tepidum TLS, a photosynthetic, anaerobic, green-sulfur bacterium

    Article • Proceedings of the National Academy of Sciences, July 2002, Proceedings of the National Academy of Sciences

    Prof. Jonathan A. Eisen, William Nelson

  400. Phylogenetic Analysis and Gene Functional Predictions: Phylogenomics in Action

    Article • Theoretical Population Biology, June 2002, Elsevier

    Jonathan Eisen, Prof. Jonathan A. Eisen

  401. A cut above: Discovery of an alternative excision repair pathway in bacteria

    Article • Proceedings of the National Academy of Sciences, March 2002, Proceedings of the National Academy of Sciences

    Prof. Jonathan A. Eisen

  402. Brouhaha over the other yeast

    Article • Nature, February 2002, Springer Science + Business Media

    Jonathan Eisen, Prof. Jonathan A. Eisen

  403. Unsuspected diversity among marine aerobic anoxygenic phototrophs

    Article • Nature, February 2002, Springer Science + Business Media

    Jonathan Eisen, Prof. Jonathan A. Eisen, William Nelson

  404. Sequencing and analysis of a 63 kb bacterial artificial chromosome insert from the Wolbachia endosymbiont of the human filarial parasite Brugia malayi

    Article • International Journal for Parasitology, February 2002, Elsevier

    Jonathan Eisen, Prof. Jonathan A. Eisen

  405. The Genome of the Natural Genetic Engineer Agrobacterium tumefaciens C58

    Article • Science, December 2001, American Association for the Advancement of Science

    Prof. Jonathan A. Eisen

  406. Sequenced strains must be saved from extinction

    Article • Nature, November 2001, Springer Science + Business Media

    Jonathan Eisen, Prof. Jonathan A. Eisen

  407. Shotgun Sequencing of Plasmids from Marine Sediment Bacteria - Genetic Exploration

    Article • September 2001, Defense Technical Information Center (DTIC)

    Prof. Jonathan A. Eisen

  408. Complete Genome Sequence of a Virulent Isolate of Streptococcus pneumoniae

    Article • Science, July 2001, American Association for the Advancement of Science

    Prof. Jonathan A. Eisen, William Nelson

  409. Microbial Genes in the Human Genome: Lateral Transfer or Gene Loss?

    Article • Science, May 2001, American Association for the Advancement of Science

    Prof. Jonathan A. Eisen

  410. Sequence and analysis of the Arabidopsis genome

    Article • Current Opinion in Plant Biology, April 2001, Elsevier

    Prof. Jonathan A. Eisen

  411. Complete genome sequence of Caulobacter crescentus

    Article • Proceedings of the National Academy of Sciences, March 2001, Proceedings of the National Academy of Sciences

    Prof. Jonathan A. Eisen, William Nelson, Professor Craig M Stephens

  412. Gastrogenomics

    Article • Nature, January 2001, Springer Science + Business Media

    Jonathan Eisen, Prof. Jonathan A. Eisen

  413. Genome of Thermotoga maritima MSB8

    Article • January 2001, Elsevier

    Jonathan Eisen, Prof. Jonathan A. Eisen

  414. TIGRFAMs: a protein family resource for the functional identification of proteins

    Article • Nucleic Acids Research, January 2001, Oxford University Press (OUP)

    Prof. Jonathan A. Eisen

  415. Article • Photosynthesis Research, January 2001, Springer Science + Business Media

    Prof. Jonathan A. Eisen

  416. Horizontal gene transfer among microbial genomes: new insights from complete genome analysis

    Article • Current Opinion in Genetics & Development, December 2000, Elsevier

    Jonathan Eisen, Prof. Jonathan A. Eisen

  417. A Case for Evolutionary Genomics and the Comprehensive Examination of Sequence Biodiversity

    Article • Molecular Biology and Evolution, December 2000, Oxford University Press (OUP)

    Prof. Jonathan A. Eisen

  418. Analysis of the genome sequence of the flowering plant Arabidopsis thaliana

    Article • Nature, December 2000, Springer Science + Business Media

    Prof. Jonathan A. Eisen, Dr Joseph R Ecker

  419. Assessing evolutionary relationships among microbes from whole-genome analysis

    Article • Current Opinion in Microbiology, October 2000, Elsevier

    Jonathan Eisen, Prof. Jonathan A. Eisen

  420. Comparative Genomics and Understanding of Microbial Biology

    Article • October 2000, Centers for Disease Control and Prevention (CDC)

    Prof. Jonathan A. Eisen

  421. Article • Nature, August 2000, Nature

    Prof. Jonathan A. Eisen

  422. Article • Nature, August 2000, Nature

    Prof. Jonathan A. Eisen

  423. Genome data: what do we learn?

    Article • Current Opinion in Structural Biology, June 2000, Elsevier

    Jonathan Eisen, Prof. Jonathan A. Eisen

  424. Cloning and Characterization of HARP/SMARCAL1: A Prokaryotic HepA-Related SNF2 Helicase Protein from Human and Mouse

    Article • Genomics, May 2000, Elsevier

    Jonathan Eisen, Prof. Jonathan A. Eisen

  425. Genome sequences of Chlamydia trachomatis MoPn and Chlamydia pneumoniae AR39

    Article • Nucleic Acids Research, March 2000, Oxford University Press (OUP)

    Prof. Jonathan A. Eisen, William Nelson

  426. Complete Genome Sequence of Neisseria meningitidis Serogroup B Strain MC58

    Article • Science, March 2000, American Association for the Advancement of Science

    Prof. Jonathan A. Eisen, William Nelson

  427. Microbial genome sequencing 2000: new insights into physiology, evolution and expression analysis

    Article • Research in Microbiology, March 2000, Elsevier

    Jonathan Eisen, Prof. Jonathan A. Eisen

  428. Article • Nature, December 1999, Nature

    Prof. Jonathan A. Eisen

  429. A phylogenomic study of DNA repair genes, proteins, and processes

    Article • Mutation Research/DNA Repair, December 1999, Elsevier

    Jonathan Eisen, Prof. Jonathan A. Eisen

  430. Genome Sequence of the Radioresistant Bacterium Deinococcus radiodurans R1

    Article • Science, November 1999, American Association for the Advancement of Science

    Prof. Jonathan A. Eisen, William Nelson

  431. Going to extremes

    Article • Trends in Genetics, June 1999, Elsevier

    Jonathan Eisen, Prof. Jonathan A. Eisen

  432. Article • Nature, May 1999, Nature

    Prof. Jonathan A. Eisen

  433. A phylogenomic study of the MutS family of proteins

    Article • Nucleic Acids Research, September 1998, Oxford University Press (OUP)

    Prof. Jonathan A. Eisen

  434. In silico-initiated cloning and molecular characterization of a novel human member of the L1 gene family of neural cell adhesion molecules

    Article • Human Genetics, September 1998, Springer Science + Business Media

    Prof. Jonathan A. Eisen

  435. A science renga

    Article • Nature, June 1998, Springer Science + Business Media

    Jonathan Eisen, Prof. Jonathan A. Eisen

  436. The phylogenetic relationships of Chlorobium tepidum and Chloroflexus aurantiacus based upon their RecA sequences

    Article • FEMS Microbiology Letters, May 1998, Oxford University Press (OUP)

    Jonathan Eisen, Prof. Jonathan A. Eisen

  437. The phylogenetic relationships of Chlorobium tepidum and Chloroflexus aurantiacus based upon their RecA sequences

    Article • FEMS Microbiology Letters, May 1998, Oxford University Press (OUP)

    Prof. Jonathan A. Eisen

  438. Phylogenomics: Improving Functional Predictions for Uncharacterized Genes by Evolutionary Analysis

    Article • Genome Research, March 1998, Cold Spring Harbor Laboratory Press

    Prof. Jonathan A. Eisen

  439. Second gene for gonadotropin-releasing hormone in humans

    Article • Proceedings of the National Academy of Sciences, January 1998, Proceedings of the National Academy of Sciences

    Prof. Jonathan A. Eisen

  440. Gastrogenomic delights: A movable feast

    Article • Nature Reports Stem Cells, October 1997, Springer Science + Business Media

    Jonathan Eisen, Prof. Jonathan A. Eisen

  441. The Genetic Data Environment

    Article • January 1997, Springer Science + Business Media

    Jonathan Eisen, Prof. Jonathan A. Eisen

  442. The RecA protein as a model molecule for molecular systematic studies of bacteria: Comparison of trees of RecAs and 16S rRNAs from the same species

    Article • Journal of Molecular Evolution, December 1995, Springer Science + Business Media

    Prof. Jonathan A. Eisen

  443. Evolution of the SNF2 family of proteins: subfamilies with distinct sequences and functions

    Article • Nucleic Acids Research, January 1995, Oxford University Press (OUP)

    Jonathan Eisen, Prof. Jonathan A. Eisen

  444. Sequence similarity of putative transposases links the maize Mutator autonomous element and a group of bacterial insertion sequences

    Article • Nucleic Acids Research, January 1994, Oxford University Press (OUP)

    Jonathan Eisen, Prof. Jonathan A. Eisen

  445. recA mutations that reduce the constitutive coprotease activity of the RecA1202(Prtc) protein: possible involvement of interfilament association in proteolytic and recombination activities.

    Article • Journal of Bacteriology, January 1993, ASM Journals

    Prof. Jonathan A. Eisen

  446. Phylogenetic relationships of chemoautotrophic bacterial symbionts of Solemya velum say (Mollusca: Bivalvia) determined by 16S rRNA gene sequence analysis.

    Article • Journal of Bacteriology, January 1992, ASM Journals

    Prof. Jonathan A. Eisen

  447. PhyloMETAGenomics

    Article • SciVee, Inc

    Prof. Jonathan A. Eisen

  448. A genomic encyclopedia of bacteria and archaea

    Article • SciVee, Inc

    Prof. Jonathan A. Eisen

  449. "A genomic encyclopedia of bacteria and archaea" talk by Jonathan Eisen

    Article • SciVee, Inc

    Prof. Jonathan A. Eisen

  450. A personal perspective on open access publishing

    Article • SciVee, Inc

    Prof. Jonathan A. Eisen

  451. Faculty of 1000 evaluation for Automated protein subfamily identification and classification.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  452. Faculty of 1000 evaluation for The 1.2-megabase genome sequence of Mimivirus.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  453. Faculty of 1000 evaluation for Mechanisms of evolution in Rickettsia conorii and R. prowazekii.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  454. Faculty of 1000 evaluation for A phylogenomic approach to microbial evolution.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  455. Faculty of 1000 evaluation for Effects of size and temperature on metabolic rate.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  456. Faculty of 1000 evaluation for Meiotic arrest and aneuploidy in MLH3-deficient mice.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  457. Faculty of 1000 evaluation for Identification of a DNA nonhomologous end-joining complex in bacteria.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  458. Faculty of 1000 evaluation for The methionine salvage pathway in Bacillus subtilis.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  459. Faculty of 1000 evaluation for Evolutionary origins of genomic repertoires in bacteria.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  460. Faculty of 1000 evaluation for Microbial ecology of four coral atolls in the Northern Line Islands.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  461. Faculty of 1000 evaluation for Metagenomic DNA fragments that affect Escherichia coli mutational pathways.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  462. Faculty of 1000 evaluation for Identification of multiple distinct Snf2 subfamilies with conserved structural motifs.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  463. Faculty of 1000 evaluation for Microbial diversity in the deep sea and the underexplored "rare biosphere".

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  464. Faculty of 1000 evaluation for Symbiosis insights through metagenomic analysis of a microbial consortium.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  465. Faculty of 1000 evaluation for Biochemical and molecular characterisation of Tetrahymena thermophila extracellular cysteine proteases.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  466. Faculty of 1000 evaluation for The metagenomics RAST server - a public resource for the automatic phylogenetic and functional analysis of metagenomes.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  467. Faculty of 1000 evaluation for Origins and evolution of the recA/RAD51 gene family: evidence for ancient gene duplication and endosymbiotic gene transfer.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  468. Faculty of 1000 evaluation for Ten species in one: DNA barcoding reveals cryptic species in the neotropical skipper butterfly Astraptes fulgerator.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  469. Faculty of 1000 evaluation for Population genomics: whole-genome analysis of polymorphism and divergence in Drosophila simulans.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  470. Faculty of 1000 evaluation for The bacterial catalase from filarial DNA preparations derives from common pseudomonad contaminants and not from Wolbachia endosymbionts.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  471. Faculty of 1000 evaluation for Convergent evolution of MutS and topoisomerase II for clamping DNA crossovers and stacked Holliday junctions.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  472. Faculty of 1000 evaluation for A simple algorithm to infer gene duplication and speciation events on a gene tree.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  473. Faculty of 1000 evaluation for Trends between gene content and genome size in prokaryotic species with larger genomes.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  474. Jonathan Eisen and the GEBA project - video linked to news release re Dec. 2009 Nature paper

    Article • SciVee, Inc

    Prof. Jonathan A. Eisen

  475. Jonathan Eisen and the GEBA project - video linked to news release re Dec. 2009 Nature paper

    Article • SciVee, Inc

    Prof. Jonathan A. Eisen

  476. Faculty of 1000 evaluation for UniFrac--an online tool for comparing microbial community diversity in a phylogenetic context.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  477. Faculty of 1000 evaluation for The Wolbachia genome of Brugia malayi: endosymbiont evolution within a human pathogenic nematode.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  478. Faculty of 1000 evaluation for The uvrA, uvrB and uvrC genes are required for repair of ultraviolet light induced DNA photoproducts in Halobacterium sp. NRC-1.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  479. Faculty of 1000 evaluation for The role of endosymbiotic Wolbachia bacteria in the pathogenesis of river blindness.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  480. Faculty of 1000 evaluation for Textpresso: an ontology-based information retrieval and extraction system for biological literature.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  481. Faculty of 1000 evaluation for Report of the ad hoc committee for the re-evaluation of the species definition in bacteriology.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  482. Faculty of 1000 evaluation for Nine mutants of Chlorobium tepidum each unable to synthesize a different chlorosome protein still assemble functional chlorosomes.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  483. Faculty of 1000 evaluation for Prevalence and evolution of core photosystem II genes in marine cyanobacterial viruses and their hosts.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  484. Faculty of 1000 evaluation for Marine T4-type bacteriophages, a ubiquitous component of the dark matter of the biosphere.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  485. Faculty of 1000 evaluation for Convergent evolution of chromosomal sex-determining regions in the animal and fungal kingdoms.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  486. Faculty of 1000 evaluation for High allelic diversity in the methyltransferase gene of a phase variable type III restriction-modification system has implications for the fitness of Haemophilus influenzae.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  487. Faculty of 1000 evaluation for Genome sequence of the endocellular obligate symbiont of tsetse flies, Wigglesworthia glossinidia.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  488. Faculty of 1000 evaluation for Evolutionary analysis of Arabidopsis, cyanobacterial, and chloroplast genomes reveals plastid phylogeny and thousands of cyanobacterial genes in the nucleus.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  489. Faculty of 1000 evaluation for Evidence that plant-like genes in Chlamydia species reflect an ancestral relationship between Chlamydiaceae, cyanobacteria, and the chloroplast.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  490. Faculty of 1000 evaluation for Enhanced repair of cyclobutane pyrimidine dimers and improved UV resistance in photolyase transgenic mice.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  491. Faculty of 1000 evaluation for Distribution, expression, and motif variability of ankyrin domain genes in Wolbachia pipientis.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  492. Faculty of 1000 evaluation for Discovery-based science education: functional genomic dissection in Drosophila by undergraduate researchers.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  493. Faculty of 1000 evaluation for A Sanger/pyrosequencing hybrid approach for the generation of high-quality draft assemblies of marine microbial genomes.

    Article • Faculty of 1000, Ltd.

    Prof. Jonathan A. Eisen

  494. "Genomic Encyclopedia of Bacteria and Archaea (GEBA)"- Jonathan Eisen @ '09 DOE JGI User Meeting

    Article • SciVee, Inc

    Prof. Jonathan A. Eisen