All Stories

  1. Neighboring inteins interfere with one another’s homing capacity
  2. Using the pan-genomic framework for the discovery of genomic islands in the haloarchaeon Halorubrum ezzemoulense
  3. The Evolutionary History of a DNA Methylase Reveals Frequent Horizontal Transfer and Within-Gene Recombination
  4. The Evolutionary History of a DNA Methylase Reveals Frequent Horizontal Transfer and Within-Gene Recombination
  5. Bacterial cooperation through horizontal gene transfer
  6. An Efficient, Nonphylogenetic Method for Detecting Genes Sharing Evolutionary Signals in Phylogenomic Data Sets
  7. Improving Phylogenies Based on Average Nucleotide Identity, Incorporating Saturation Correction and Nonparametric Bootstrap Support
  8. The Evolutionary Origins of Extreme Halophilic Archaeal Lineages
  9. Systematic Detection of Large-Scale Multigene Horizontal Transfer in Prokaryotes
  10. Insights into gene expression changes under conditions that facilitate horizontal gene transfer (mating) of a model Archaeon
  11. The Impact of Restriction-Modification Systems on Mating in Haloferax volcanii
  12. Interaction of two strongly divergent archaellins stabilizes the structure of the Halorubrum archaellum
  13. Expanding the utility of sequence comparisons using data from whole genomes
  14. Reconstructing the evolutionary origins of extreme halophilic Archaeal lineages
  15. Identification and characterization of putative Aeromonas spp. T3SS effectors
  16. Complete Genome Sequence of Halorubrum ezzemoulense Strain Fb21
  17. The Patchy Distribution of Restriction–Modification System Genes and the Conservation of Orphan Methyltransferases in Halobacteria
  18. Identification and characterization of putative Aeromonas spp. T3SS effectors
  19. The Patchy Distribution of Restriction-Modification System Genes and the Conservation of Orphan Methyltransferases in Halobacteria.
  20. Factors influencing bacterial microbiome composition in a wild non-human primate community in Taï National Park, Côte d’Ivoire
  21. Comparative Analysis of Surface Layer Glycoproteins and Genes Involved in Protein Glycosylation in the Genus Haloferax
  22. Characterizing the DNA Methyltransferases of Haloferax volcanii via Bioinformatics, Gene Deletion, and SMRT Sequencing
  23. Short branches lead to systematic artifacts when BLAST searches are used as surrogate for phylogenetic reconstruction
  24. Does Sequence Conservation Provide Evidence for Biological Function?
  25. Is LUCA a thermophilic progenote?
  26. Leisingera sp. JC1, a Bacterial Isolate from Hawaiian Bobtail Squid Eggs, Produces Indigoidine and Differentially Inhibits Vibrios
  27. Impact of a homing intein on recombination frequency and organismal fitness
  28. Horizontal gene transfer: building the web of life
  29. The pan-genome as a shared genomic resource: mutual cheating, cooperation and the black queen hypothesis
  30. Ancient horizontal gene transfer and the last common ancestors
  31. Comparative genomics of Roseobacter clade bacteria isolated from the accessory nidamental gland of Euprymna scolopes
  32. Bioinformatic Genome Comparisons for Taxonomic and Phylogenetic Assignments Using Aeromonas as a Test Case
  33. Inteins as indicators of gene flow in the halobacteria
  34. AST: An Automated Sequence-Sampling Method for Improving the Taxonomic Diversity of Gene Phylogenetic Trees
  35. Population and genomic analysis of the genus Halorubrum
  36. Evidence from phylogenetic and genome fingerprinting analyses suggests rapidly changing variation in Halorubrum and Haloarcula populations
  37. Reconstructed Ancestral Myo-Inositol-3-Phosphate Synthases Indicate That Ancestors of the Thermococcales and Thermotoga Species Were More Thermophilic than Their Descendants
  38. The effects of model choice and mitigating bias on the ribosomal tree of life
  39. Distribution and Evolution of the Mobile vma-1b Intein
  40. Thermotoga lettingae Can Salvage Cobinamide To Synthesize Vitamin B12
  41. Reconstruction of Ancestral 16S rRNA Reveals Mutation Bias in the Evolution of Optimal Growth Temperature in the Thermotogae Phylum
  42. Orthologues, Paralogues and Horizontal Gene Transfer in the Human Holobiont
  43. Systematic inference of highways of horizontal gene transfer in prokaryotes
  44. Biased Gene Transfer Contributes to Maintaining the Tree of Life
  45. Pre-Posting and OLEB
  46. The impact of HGT on phylogenomic reconstruction methods
  47. Erratum to: Molecular Evolution of Aminoacyl tRNA Synthetase Proteins in the Early History of Life
  48. Genes for the Major Structural Components of Thermotogales Species’ Togas Revealed by Proteomic and Evolutionary Analyses of OmpA and OmpB Homologs
  49. How Bacterial Lineages Emerge
  50. Ancient origin of the divergent forms of leucyl-tRNA synthetases in the Halobacteriales
  51. Quantifying Homologous Replacement of Loci between Haloarchaeal Species
  52. Quartet decomposition server: a platform for analyzing phylogenetic trees
  53. The Role of Reticulate Evolution in Creating Innovation and Complexity
  54. Vitamin B12 Synthesis and Salvage Pathways Were Acquired by Horizontal Gene Transfer to the Thermotogales
  55. Molecular Evolution of Aminoacyl tRNA Synthetase Proteins in the Early History of Life
  56. Genome Sequence of Thermotoga sp. Strain RQ2, a Hyperthermophilic Bacterium Isolated from a Geothermally Heated Region of the Seafloor near Ribeira Quente, the Azores
  57. Genome Sequence of Kosmotoga olearia Strain TBF 19.5.1, a Thermophilic Bacterium with a Wide Growth Temperature Range, Isolated from the Troll B Oil Platform in the North Sea
  58. Multilevel populations and the evolution of antibiotic resistance through horizontal gene transfer
  59. Detecting Highways of Horizontal Gene Transfer
  60. Reassessment of the Lineage Fusion Hypothesis for the Origin of Double Membrane Bacteria
  61. Biased gene transfer in microbial evolution
  62. Complex Evolutionary History of the Aeromonas veronii Group Revealed by Host Interaction and DNA Sequence Data
  63. Home and away- the evolutionary dynamics of homing endonucleases
  64. Evolution of the archaea: emerging views on origins and phylogeny
  65. A Rooted Net of Life
  66. Biased gene transfer and its implications for the concept of lineage
  67. Biased gene transfer mimics patterns created through shared ancestry
  68. Natural taxonomy in light of horizontal gene transfer
  69. Using comparative genome analysis to identify problems in annotated microbial genomes
  70. Inferring the Ancient History of the Translation Machinery and Genetic Code via Recapitulation of Ribosomal Subunit Assembly Orders
  71. Rooting the Ribosomal Tree of Life
  72. Bioinformatics Research and Applications
  73. Detecting Highways of Horizontal Gene Transfer
  74. Filling the gaps in the genomic landscape
  75. Evolution of Genes and Organisms
  76. Horizontal gene transfer from extinct and extant lineages: biological innovation and the coral of life
  77. On the chimeric nature, thermophilic origin, and phylogenetic placement of the Thermotogales
  78. Estimating the size of the bacterial pan-genome
  79. Horizontal Gene Transfer
  80. Gene Transfer: Who Benefits?
  81. Ancient Gene Transfer as a Tool in Phylogenetic Reconstruction
  82. Trees in the Web of Life
  83. Insertion sequence content reflects genome plasticity in strains of the root nodule actinobacterium Frankia
  84. Prokaryotic evolution and the tree of life are two different things
  85. Conservation of intron and intein insertion sites: implications for life histories of parasitic genetic elements
  86. Intertwined Evolutionary Histories of Marine Synechococcus and Prochlorococcus marinus
  87. Computational Methods for Understanding Bacterial and Archaeal Genomes
  88. HORIZONTAL GENE TRANSFER: ITS DETECTION AND ROLE IN MICROBIAL EVOLUTION
  89. Orthologues, Paralogues and Xenologues in Human and Other Genomes
  90. Computational Methods for Understanding Bacterial and Archaeal Genomes
  91. Concerted gene recruitment in early plant evolution
  92. Evolution of mal ABC transporter operons in the Thermococcales and Thermotogales
  93. Unsupervised Learning in Detection of Gene Transfer
  94. Evolution of Acetoclastic Methanogenesis in Methanosarcina via Horizontal Gene Transfer from Cellulolytic Clostridia
  95. Signature of a Primitive Genetic Code in Ancient Protein Lineages
  96. Gene Transfer and the Reconstruction of Life’s Early History from Genomic Data
  97. GPX: A Tool for the Exploration and Visualization of Genome Evolution
  98. A hyperconserved protein in Prochlorococcus and marine Synechococcus
  99. The Evolution of Eukaryotes
  100. BranchClust: a phylogenetic algorithm for selecting gene families
  101. Did an ancient chlamydial endosymbiosis facilitate the establishment of primary plastids?
  102. The power of phylogenetic approaches to detect horizontally transferred genes
  103. Unsupervised Learning in Spectral Genome Analysis
  104. Structural stability and endonuclease activity of a PI-SceI GFP-fusion protein
  105. Genome characteristics of facultatively symbiotic Frankia sp. strains reflect host range and host plant biogeography
  106. Phylogenetic analyses of cyanobacterial genomes: Quantification of horizontal gene transfer events
  107. Orthologs, Paralogs and Xenologs in Human and Other Genomes
  108. Ancient horizontal gene transfer can benefit phylogenetic reconstruction
  109. Distribution of F- and A/V-type ATPases in Thermus scotoductus and other closely related species
  110. Ancient gene duplications and the root(s) of the tree of life
  111. Evolutionary and Diagnostic Implications of Intragenomic Heterogeneity in the 16S rRNA Gene in Aeromonas Strains
  112. Horizontal gene transfer, genome innovation and evolution
  113. The Presence of a Haloarchaeal Type Tyrosyl-tRNA Synthetase Marks the Opisthokonts as Monophyletic
  114. Cladistics: A Practical Primer on CD-ROM. By Peter Skelton and Andrew Smith, with accompanying booklet by NealeMonks. Cambridge University Press, 40 West 20th Street, New York, NY 10011-4211, ISBN: 0-521-52341-9, Price $55.00
  115. Were arachnids the first to use combinatorial peptide libraries?
  116. Erratum: Cladogenesis, coalescence and the evolution of the three domains of life
  117. Genome mosaicism and organismal lineages
  118. Cladogenesis, coalescence and the evolution of the three domains of life
  119. Spliceosomal Introns: New Insights into their Evolution
  120. Evolution of photosynthetic prokaryotes: a maximum-likelihood mapping approach
  121. Gene Transfer: Gene Swapping Craze Reaches Eukaryotes
  122. Prokaryotic Evolution in Light of Gene Transfer
  123. Whole-Genome Analysis of Photosynthetic Prokaryotes
  124. Inteins: Structure, Function, and Evolution
  125. Progenote
  126. Horizontal Gene Transfer
  127. Comparing trees in a phylogenetic relationship repository
  128. Horizontal Transfer of Archaeal Genes into the Deinococcaceae: Detection by Molecular and Computer-Based Approaches
  129. Orthologs, paralogs and genome comparisons
  130. Horizontal Gene Transfer: Pitfalls and Promises
  131. Gene Transfer in Early Evolution
  132. The Prokaryote-to-Eukaryote Transition Reflected in the Evolution of the V/F/A-ATPase Catalytic and Proteolipid Subunits
  133. cDNA cloning of a mandibular organ inhibiting hormone from the spider crabLibinia emarginata
  134. Dating the Cenancester of Organisms
  135. Dating the Cenancester of Organisms
  136. Gene duplications and horizontal gene transfer during early evolution
  137. The V-ATPase A subunit gene (vma-1 from Giardia lamblia
  138. The effects of heavy meteorite bombardment on the early evolution — The emergence of the three Domains of life
  139. The early evolution of cellular life
  140. A Second Cell Wall Acid Invertase Gene in Arabidopsis thaliana
  141. Which is the most conserved group of proteins? Homology-orthology, paralogy, xenology, and the fusion of independent lineages
  142. Letter to the editor
  143. A conserved intron in the V-ATPase A subunit genes of plants and algae
  144. Horizontal transfer of ATPase genes — the tree of life becomes a net of life
  145. Evolution of proton pumping ATPases: Rooting the tree of life
  146. Evolution of structure and function of V-ATPases
  147. The Use of Antisense mRNA to Inhibit the Tonoplast H+ ATPase in Carrot
  148. Tracing origins with molecular sequences: rooting the universal tree of life
  149. Evolution of the vacuolar H+-ATPase: implications for the origin of eukaryotes.
  150. The H+ ATPase regulatory subunit of Methanococcus thermolithotrophicus : Amplification of an 800 bp fragment by polymerase chain reaction
  151. Substrate specifity of the hexose carrier in the plasmalemma of Chenopodium suspension cells probed by transmembrane exchange diffusion
  152. The electrogenic proton/hexose carrier in the plasmalemma of Chenopodium rubrum suspension cells: effects of Δc, ΔpH and Δψ on hexose exchange diffusion
  153. Sugar nucleotides dissipate ATP-generated transmembrane pH gradient in Golgi vesicles from suspension-cell protoplasts ofChenopodium rubrum L.
  154. Physical properties of the cell wall of photoautotrophic suspension cells fromChenopodium rubrum L.
  155. ATP-dependent acidification and tonoplast hyperpolarization in isolated vacuoles from green suspension cells of Chenopodium rubrum L
  156. Lateral electrophoresis versus 2D-diffusion
  157. A Patch Clamp Study of Tonoplast Electrical Properties in Vacuoles Isolated from Chenopodium rubrum Suspension Cells
  158. Kinetics and Specificity of ATP-dependent Proton Translocation Measured with Acridine Orange in Microsomal Fractions from Green Suspension Cells of Chenopodium rubrum L.
  159. Phlorizin inhibits hexose transport across the plasmalemma of Riccia fluitans
  160. Fluxes and compartmentation of 3-O-methyl-D-glucose in Riccia fluitans
  161. What’s in a Tree?
  162. Horizontal gene transfer, gene histories, and the root of the tree of life
  163. Gene Transfer and the Reconstruction of Life’s Early History from Genomic Data
  164. II.11. Evolution in the Prokaryotic Grade