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  1. Pea‐Saving Partners: Bacillus and Pseudomonas Combat Downy Mildew in Pea Crops

    Article • Plant Pathology, November 2025, Wiley

    Dr David J Studholme, Prof. Dr. Omur Baysal

  2. Genome sequences of distinct genotypes of bacterial pathogen Xanthomonas euvesicatoria pv. euvesicatoria from pepper (Capsicum annuum L.) in Serbia

    Article • November 2025, Society for General Microbiology

    Dr David J Studholme

  3. Seventeen complete genome assemblies to augment sequencing coverage of bacterial plant pathogens in the UK Plant Health Risk Register

    Article • Access Microbiology, November 2025, Society for General Microbiology

    Dr David J Studholme

  4. Identification of Race‐Specific, Clade‐Specific and Broad‐Spectrum Resistance to Xanthomonas campestris pv. campestris in Brassica Diversity Fixed Foundation Sets

    Article • Plant Pathology, October 2025, Wiley

    Dr David J Studholme

  5. Seventeen complete genome assemblies to augment sequencing coverage of bacterial plant pathogens in the UK Plant Health Risk Register

    Article • September 2025, Society for General Microbiology

    Dr David J Studholme

  6. Triosephosphate isomerase from Fasciola hepatica: high-resolution crystal structure as a drug target

    Article • Acta Crystallographica Section F Structural Biology Communications, August 2025, International Union of Crystallography

    Georgios Kontellas, Dr David J Studholme

  7. RNAi Strategies Against Downy Mildews: Insights Into dsRNA Uptake and Silencing

    Article • Molecular Plant Pathology, August 2025, Wiley

    Dr David J Studholme

  8. Complete genome sequences of bacterial pathogens in the UK Plant Health Risk Register

    Article • July 2025, Society for General Microbiology

    Dr David J Studholme

  9. DiPPER2 – a user-friendly pipeline for picking and evaluating taxon-specific PCR primers

    Article • June 2025, Cold Spring Harbor Laboratory Press

    Dr David J Studholme

  10. Advancing RNAi-Based Strategies Against Downy Mildews: Insights Into dsRNA Uptake and Gene Silencing

    Article • April 2025, Cold Spring Harbor Laboratory Press

    Dr David J Studholme

  11. Non-target effects on the soil microbiome of a plant root exudate biocontrol for Fusarium wilt

    Article • February 2025, Cold Spring Harbor Laboratory Press

    Dr David J Studholme

  12. Pea-Saving Partners: Bacillus and Pseudomonas combat downy mildew in pea crops

    Article • January 2025, Cold Spring Harbor Laboratory Press

    Prof. Dr. Omur Baysal, Dr David J Studholme

  13. Genome sequence data for 61 isolates of Xanthomonas campestris pv. campestris from brassica crops in Serbia

    Article • September 2024, Society for General Microbiology

    Dr David J Studholme

  14. DIAMOND2GO: A rapid Gene Ontology assignment and enrichment tool for functional genomics

    Article • August 2024, Cold Spring Harbor Laboratory Press

    Dr David J Studholme

  15. Genome sequence data for 61 isolates of Xanthomonas campestris pv. campestris from brassica crops in Serbia

    Article • June 2024, Society for General Microbiology

    Dr David J Studholme

  16. Genome variation in the Batrachochytrium pathogens of amphibians

    Article • PLoS Pathogens, May 2024, PLOS

    Dr David J Studholme

  17. Genome sequence of the plant-growth-promoting bacterium Bacillus velezensis EU07

    Article • Access Microbiology, May 2024, Society for General Microbiology

    Prof. Dr. Omur Baysal, Dr David J Studholme

  18. Genome sequence of the plant-growth-promoting bacterium Bacillus velezensis EU07

    Article • April 2024, Society for General Microbiology

    Prof. Dr. Omur Baysal, Dr David J Studholme

  19. Synchronization of Circadian Clock Gene Expression inArabidopsisandHyaloperonospora arabidopsidisand its Impact on Host-Pathogen Interactions

    Article • March 2024, Cold Spring Harbor Laboratory Press

    Dr David J Studholme

  20. Targeted genome sequencing for tuberculosis drug susceptibility testing in South Africa: A proposed diagnostic pipeline

    Article • February 2024, Society for General Microbiology

    Dr David J Studholme

  21. Targeted genome sequencing for tuberculosis drug susceptibility testing in South Africa: a proposed diagnostic pipeline

    Article • Access Microbiology, February 2024, Society for General Microbiology

    Dr David J Studholme

  22. Genome sequence of the plant-growth-promoting bacterium Bacillus velezensis EU07

    Article • January 2024, Society for General Microbiology

    Prof. Dr. Omur Baysal, Dr David J Studholme

  23. Targeted genome sequencing for tuberculosis drug susceptibility testing in South Africa: A proposed diagnostic pipeline

    Article • November 2023, Society for General Microbiology

    Dr David J Studholme

  24. Manipulating multi-level selection in a fungal entomopathogen reveals social conflicts and a method for improving biocontrol traits

    Article • October 2023, Cold Spring Harbor Laboratory Press

    Dr David J Studholme

  25. First Identification of Xanthomonas nasturtii as the Cause of Black Rot of Watercress in Hawaii

    Article • Plant Disease, August 2023, Scientific Societies

    Dr David J Studholme

  26. Draft genome sequences for ten strains of Xanthomonas species that have phylogenomic importance

    Article • Access Microbiology, July 2023, Society for General Microbiology

    Dr David J Studholme

  27. De novo genome assembly of Akanthomyces muscarius, a biocontrol agent of insect agricultural pests

    Article • Access Microbiology, June 2023, Society for General Microbiology

    Dr David J Studholme

  28. Draft genome sequences for ten strains of Xanthomonas species that have phylogenomic importance

    Article • April 2023, Society for General Microbiology

    Dr David J Studholme

  29. De-novo genome assembly for Akanthomyces muscarius, a biocontrol agent of insect agricultural pests

    Article • March 2023, Society for General Microbiology

    Dr David J Studholme

  30. De-novo genome assembly for Akanthomyces muscarius, a biocontrol agent of insect agricultural pests

    Article • January 2023, Society for General Microbiology

    Dr David J Studholme

  31. Data management challenges for artificial intelligence in plant and agricultural research

    Article • F1000Research, January 2023, Faculty of 1000, Ltd.

    Dr David J Studholme

  32. Phylogenomic Analysis Supports the Transfer of 20 Pathovars from Xanthomonas campestris into Xanthomonas euvesicatoria

    Article • Taxonomy, January 2023, MDPI AG

    Dr David J Studholme

  33. Genome Sequence Data Reveal at Least Two Distinct Incursions of the Tropical Race 4 Variant of Fusarium Wilt into South America

    Article • Phytopathology, January 2023, Scientific Societies

    Dr David J Studholme

  34. Draft genome sequences for ten strains of Xanthomonas species that have phylogenomic importance

    Article • November 2022, Society for General Microbiology

    Dr David J Studholme

  35. First report of black rot caused by Xanthomonas nasturtii on watercress in Spain and Portugal

    Article • New Disease Reports, October 2022, Wiley

    Dr David J Studholme

  36. De-novo assembly of Xanthomonas genomes from Illumina NovaSeq reads v1

    Article • August 2022, ZappyLab, Inc.

    Dr David J Studholme

  37. Phylogenomic analysis of Xanthomonas v1

    Article • August 2022, ZappyLab, Inc.

    Dr David J Studholme

  38. Culturing Xanthomonas v1

    Article • August 2022, ZappyLab, Inc.

    Dr David J Studholme

  39. DNA extraction using the Qiagen 67563 MagAttract HMW DNA Kit (48) v1

    Article • August 2022, Springer Science + Business Media

    Dr David J Studholme

  40. Molecular and Pathogenic Characterization of Fusarium Species Associated with Corm Rot Disease in Saffron from China

    Article • Journal of Fungi, May 2022, MDPI AG

    Dr David J Studholme

  41. Identification and Characterization of Fusarium nirenbergiae Associated with Saffron Corm Rot Disease

    Article • Plant Disease, February 2022, Scientific Societies

    Dr David J Studholme

  42. Genome sequence data reveal at least two distinct incursions of the tropical race 4 (TR4) variant ofFusariumwilt into South America

    Article • January 2022, Cold Spring Harbor Laboratory Press

    Dr David J Studholme

  43. Taxonomic Revision of the Banana Fusarium Wilt TR4 Pathogen Is Premature

    Article • Phytopathology, December 2021, Scientific Societies

    Dr David J Studholme

  44. Two-speed genome expansion drives the evolution of pathogenicity in animal fungal pathogens

    Article • November 2021, Cold Spring Harbor Laboratory Press

    Professor Matthew C Fisher, Dr David J Studholme

  45. Haustorium formation and a distinct biotrophic transcriptome characterize infection of Nicotiana benthamiana by the tree pathogen Phytophthora kernoviae

    Article • Molecular Plant Pathology, May 2021, Wiley

    Dr David J Studholme

  46. Common bacterial blight of bean: a model of seed transmission and pathological convergence

    Article • Molecular Plant Pathology, May 2021, Wiley

    Dr David J Studholme

  47. Trends in Molecular Diagnosis and Diversity Studies for Phytosanitary Regulated Xanthomonas

    Article • Microorganisms, April 2021, MDPI AG

    Dr David J Studholme

  48. SNP‐based genotyping and whole‐genome sequencing reveal previously unknown genetic diversity in Xanthomonas vasicola pv. musacearum, causal agent of banana xanthomonas wilt, in its presumed Ethiopian origin

    Article • Plant Pathology, November 2020, Wiley

    Dr David J Studholme

  49. Halophytic bacterial endophytome: a potential source of beneficial microbes for a sustainable agriculture

    Article • July 2020, Cold Spring Harbor Laboratory Press

    Dr Ilias Lagkouvardos, Dr David J Studholme

  50. A Grain Rot of Rice in Iran Caused by a Xanthomonas Strain Closely Related to X. sacchari

    Article • Plant Disease, June 2020, Scientific Societies

    Dr David J Studholme

  51. A newly developed genetic sex marker and its application to understanding chemically induced feminisation in roach ( Rutilus rutilus )

    Article • Molecular Ecology Resources, April 2020, Wiley

    Josie Paris, Dr David J Studholme

  52. Genomics-Informed Molecular Detection of Xanthomonas vasicola pv. vasculorum Strains Causing Severe Bacterial Leaf Streak of Corn

    Article • Phytopathology, January 2020, Scientific Societies

    Dr David J Studholme

  53. Transfer of Xanthomonas campestris pv. arecae and X. campestris pv. musacearum to X. vasicola (Vauterin) as X. vasicola pv. arecae comb. nov. and X. vasicola pv. musacearum comb. nov. and Description of X. vasicola pv. vasculorum pv. nov.

    Article • Phytopathology, January 2020, Scientific Societies

    Dr David J Studholme

  54. AzeR, a transcriptional regulator that responds to azelaic acid in Pseudomonas nitroreducens

    Article • Microbiology, October 2019, Society for General Microbiology

    Dr David J Studholme

  55. The genome (DNA) of banana-killing fungus

    Article • Microbiology Resource Announcements, September 2019, ASM Journals

    Dr David J Studholme

  56. Evaluation of 20 enset (Ensete ventricosum) landraces for response to Xanthomonas vasicola pv. musacearum infection

    Article • August 2019, Cold Spring Harbor Laboratory Press

    Dr David J Studholme

  57. Improved method for genotyping the causative agent of crayfish plague (Aphanomyces astaci) based on mitochondrial DNA

    Article • Parasitology, April 2019, Cambridge University Press

    Dr David J Studholme

  58. The Zymoseptoria tritici ORFeome: a functional genomics community resource

    Article • March 2019, Cold Spring Harbor Laboratory Press

    Dr David J Studholme

  59. Transfer of Xanthomonas campestris pv. arecae, and Xanthomonas campestris pv. musacearum to Xanthomonas vasicola (Vauterin) as Xanthomonas vasicola pv. arecae comb. nov., and Xanthomonas vasicola pv. musacearum comb. nov. and description of Xanthomonas...

    Article • March 2019, Cold Spring Harbor Laboratory Press

    Dr David J Studholme

  60. Genome Resequencing of Laboratory Stocks of Burkholderia pseudomallei K96243

    Article • Microbiology Resource Announcements, February 2019, ASM Journals

    Dr David J Studholme

  61. Draft Genome Sequence and intraspecific diversification of the wild crop relative Brassica cretica Lam. using demographic model selection: Supplementary Table S4: xls file containing Information for all genomes obtained from the GenBank

    Article • January 2019, Cold Spring Harbor Laboratory Press

    Dr David J Studholme

  62. A highly specific tool for identification of Xanthomonas vasicola pv. musacearum based on five Xvm-specific coding sequences

    Article • Heliyon, December 2018, Elsevier

    Dr David J Studholme

  63. Draft Genome Sequences of Pathotype Strains for Three Pathovars Belonging to Three Xanthomonas Species

    Article • Microbiology Resource Announcements, September 2018, ASM Journals

    Dr David J Studholme

  64. Publisher Correction: Environmental fluctuations accelerate molecular evolution of thermal tolerance in a marine diatom

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

    Dr David J Studholme

  65. Identifying molecular markers suitable for Frl selection in tomato breeding

    Article • Theoretical and Applied Genetics, July 2018, Springer Science + Business Media

    Dr David J Studholme

  66. New genotyping method for the causative agent of crayfish plague ( Aphanomyces astaci ) based on whole genome data

    Article • Journal of Invertebrate Pathology, July 2018, Elsevier

    Dr David J Studholme

  67. Genome Sequence of Staphylococcus aureus Ex1, Isolated from a Patient with Spinal Osteomyelitis

    Article • Genome Announcements, June 2018, ASM Journals

    Dr David J Studholme

  68. Environmental fluctuations accelerate molecular evolution of thermal tolerance in a marine diatom

    Article • Nature Communications, April 2018, Springer Science + Business Media

    Dr David J Studholme

  69. Coping with Environmental Eukaryotes; Identification of Pseudomonas syringae Genes during the Interaction with Alternative Hosts or Predators

    Article • Microorganisms, April 2018, MDPI AG

    Dr David J Studholme

  70. Ash leaf metabolomes reveal differences between trees tolerant and susceptible to ash dieback disease

    Article • Scientific Data, December 2017, Nature

    Dr David J Studholme

  71. Morphological Variation and Inter-Relationships of Quantitative Traits in Enset (Ensete ventricosum (welw.) Cheesman) Germplasm from South and South-Western Ethiopia

    Article • Plants, December 2017, MDPI AG

    Dr David J Studholme

  72. Metagenomic analysis of the complex microbial consortium associated with cultures of the oil-rich alga Botryococcus braunii

    Article • MicrobiologyOpen, June 2017, Wiley

    Dr David J Studholme

  73. Genome sequences of 12 isolates of the EU1 lineage of Phytophthora ramorum, a fungus-like pathogen that causes extensive damage and mortality to a wide range of trees and other plants

    Article • Genomics Data, February 2017, Elsevier

    Dr David J Studholme

  74. Genome sequences of six Phytophthora species associated with forests in New Zealand

    Article • Genomics Data, March 2016, Elsevier

    Dr David J Studholme

  75. Draft Genome Sequences of Two Strains of Xanthomonas arboricola pv. celebensis Isolated from Banana Plants

    Article • Genome Announcements, February 2016, ASM Journals

    Dr David J Studholme

  76. Draft Genome Sequence of Pseudomonas syringae pv. syringae ALF3 Isolated from Alfalfa

    Article • Genome Announcements, February 2016, ASM Journals

    Dr David J Studholme

  77. Draft Genome Sequences of Achromobacter piechaudii GCS2, Agrobacterium sp. Strain SUL3, Microbacterium sp. Strain GCS4, ...

    Article • Genome Announcements, January 2016, ASM Journals

    Dr David J Studholme

  78. Genome Update. Let the consumer beware:Streptomycesgenome sequence quality

    Article • Microbial Biotechnology, January 2016, Wiley

    Dr David J Studholme

  79. New and Improved Techniques for the Study of Pathogenic Fungi

    Article • Trends in Microbiology, January 2016, Elsevier

    Dr David J Studholme

  80. Draft genome sequences of seven isolates of Phytophthora ramorum EU2 from Northern Ireland

    Article • Genomics Data, December 2015, Elsevier

    Dr David J Studholme

  81. Draft genome sequences of Phytophthora kernoviae and Phytophthora ramorum lineage EU2 from Scotland

    Article • Genomics Data, December 2015, Elsevier

    Dr David J Studholme

  82. Draft Genome Sequence of the Enteropathogenic Bacterium Campylobacter jejuni Strain cj255

    Article • Genome Announcements, October 2015, ASM Journals

    Dr David J Studholme

  83. Genome sequencing reveals a new lineage associated with lablab bean and genetic exchange between Xanthomonas axonopodis pv. phaseoli and Xanthomonas fuscans subsp. fuscans

    Article • Frontiers in Microbiology, October 2015, Frontiers

    Dr David J Studholme, Dr Melanie Sapp

  84. Genome analyses of the sunflower pathogen Plasmopara halstedii provide insights into effector evolution in downy mildews and Phytophthora

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

    Dr David J Studholme, Dr Sebastian Schornack, Miloslav Kitner

  85. English

    Article • African Journal of Plant Science, September 2015, Academic Journals

    Dr David J Studholme

  86. Exploitation of sulfonylurea resistance marker and non-homologous end joining mutants for functional analysis in Zymoseptoria tritici

    Article • Fungal Genetics and Biology, June 2015, Elsevier

    Dr David J Studholme

  87. Construction and high-throughput phenotypic screening ofZymoseptoria tritici over-expression strains

    Article • Fungal Genetics and Biology, June 2015, Elsevier

    Dr David J Studholme

  88. A codon-optimized green fluorescent protein for live cell imaging in Zymoseptoria tritici

    Article • Fungal Genetics and Biology, June 2015, Elsevier

    Dr David J Studholme

  89. Chloroplasts play a central role in plant defence and are targeted by pathogen effectors

    Article • Nature Plants, June 2015, Nature

    Dr David J Studholme

  90. Genome-Enabled Phylogeographic Investigation of the Quarantine Pathogen Ralstonia solanacearum Race 3 Biovar 2 and Screening for Sources of Resistance Against Its Core Effectors

    Article • Phytopathology, May 2015, Scientific Societies

    Dr David J Studholme

  91. Development of molecular markers tightly linked to Pvr4 gene in pepper using next-generation sequencing

    Article • Molecular Breeding, March 2015, Springer Science + Business Media

    Dr David J Studholme

  92. Molecular detection identified a type six secretion system inCampylobacter jejunifrom various sources but not from human cases

    Article • Journal of Applied Microbiology, March 2015, Wiley

    Dr David J Studholme, Mr Akram Muhammad

  93. Assessing the performance of the Oxford Nanopore Technologies MinION

    Article • Biomolecular Detection and Quantification, March 2015, Elsevier

    Dr David J Studholme

  94. Evolutionary resurrection of flagellar motility via rewiring of the nitrogen regulation system

    Article • Science, February 2015, American Association for the Advancement of Science

    Dr David J Studholme

  95. Assessing the Accuracy of Quantitative Molecular Microbial Profiling

    Article • International Journal of Molecular Sciences, November 2014, MDPI AG

    Dr David J Studholme

  96. Differences in carbon source utilisation distinguish Campylobacter jejuni from Campylobacter coli

    Article • BMC Microbiology, October 2014, Springer Science + Business Media

    Dr David J Studholme

  97. Draft genome sequence of Xanthomonas axonopodis pathovar vasculorum NCPPB 900

    Article • FEMS Microbiology Letters, October 2014, Oxford University Press (OUP)

    Dr David J Studholme

  98. Development of a lateral flow device for in-field detection and evaluation of PCR-based diagnostic methods forXanthomonas campestrispv.musacearum, the causal agent of banana xanthomonas wilt

    Article • Plant Pathology, October 2014, Wiley

    Dr David J Studholme

  99. Burkholderia pseudomallei sequencing identifies genomic clades with distinct recombination, accessory, and epigenetic profiles

    Article • Genome Research, September 2014, Cold Spring Harbor Laboratory Press

    Professor Julian Parkhill, Dr David J Studholme

  100. Some (bacilli) like it hot: genomics of G eobacillus species

    Article • Microbial Biotechnology, September 2014, Wiley

    Dr David J Studholme

  101. Recently published S treptomyces genome sequences

    Article • Microbial Biotechnology, August 2014, Wiley

    Dr David J Studholme

  102. Draft Genome Sequence of Beneficial Rice Rhizosphere Isolate Pseudomonas aeruginosa PUPa3

    Article • Genome Announcements, July 2014, ASM Journals

    Dr David J Studholme, PhD Milan Kojic

  103. Identification of Possible Virulence Marker from Campylobacter jejuni Isolates

    Article • Emerging Infectious Diseases, June 2014, Centers for Disease Control and Prevention (CDC)

    Dr David J Studholme

  104. Genome Sequencing of Xanthomonas vasicola Pathovar vasculorum Reveals Variation in Plasmids and Genes Encoding Lipopolysaccharide Synthesis, Type-IV Pilus and Type-III Secretion Effectors

    Article • Pathogens, March 2014, MDPI AG

    Dr David J Studholme

  105. A Draft Genome Sequence for Ensete ventricosum, the Drought-Tolerant “Tree Against Hunger”

    Article • Agronomy, January 2014, MDPI AG

    Dr David J Studholme

  106. The rulB gene of plasmid pWW 0 is a hotspot for the site‐specific insertion of integron‐like elemen...

    Article • Environmental Microbiology, January 2014, Wiley

    Dr David J Studholme

  107. Salmonella Gallinarum field isolates from laying hens are related to the vaccine strain SG9R

    Article • Vaccine, October 2013, Elsevier

    Professor Freddy Haesebrouck, Dr David J Studholme, Prof. Dr. Marc Heyndrickx

  108. Genome-wide sequencing ofPhytophthora lateralisreveals genetic variation among isolates from Lawson cypress (Chamaecyparis lawsoniana) in Northern Ireland

    Article • FEMS Microbiology Letters, June 2013, Oxford University Press (OUP)

    Dr David J Studholme

  109. Nonagricultural reservoirs contribute to emergence and evolution of Pseudomonas syringae crop pathogens

    Article • New Phytologist, May 2013, Wiley

    Dr David J Studholme

  110. Draft Genome Sequence of Erwinia toletana, a Bacterium Associated with Olive Knots Caused by Pseudomonas savastanoi pv. Savastanoi

    Article • Genome Announcements, May 2013, ASM Journals

    Dr David J Studholme

  111. Genome characterization of a novel Burkholderia cepacia complex genomovar isolated from dieback affected mango orchards

    Article • World Journal of Microbiology and Biotechnology, May 2013, Springer Science + Business Media

    Dr David J Studholme

  112. Using False Discovery Rates to Benchmark SNP-callers in next-generation sequencing projects

    Article • Scientific Reports, March 2013, Springer Science + Business Media

    Dr David J Studholme, Professor Matthew C Fisher

  113. Progress in metagenomics requires a balanced appraisal of the available technologies

    Article • European Journal of Clinical Microbiology & Infectious Diseases, February 2013, Springer Science + Business Media

    Dr David J Studholme

  114. Pseudomonas fluorescens NZI7 repels grazing by C. elegans, a natural predator

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

    Dr David J Studholme

  115. Isolation of Salmonella Mutants Resistant to the Inhibitory Effect of Salicylidene acylhydrazides on Flagella-Mediated Motility

    Article • PLOS One, January 2013, PLOS

    Dr David J Studholme

  116. Investigating the beneficial traits of Trichoderma hamatum GD12 for sustainable agriculture—insights from genomics

    Article • Frontiers in Plant Science, January 2013, Frontiers

    Dr David J Studholme

  117. Considerations for the development and application of control materials to improve metagenomic microbial community profiling

    Article • Accreditation and Quality Assurance, December 2012, Springer Science + Business Media

    Dr David J Studholme

  118. Genome-Wide Sequencing Reveals Two Major Sub-Lineages in the Genetically Monomorphic Pathogen Xanthomonas Campestris Pathovar Musacearum

    Article • Genes, July 2012, MDPI AG

    Dr David J Studholme

  119. Draft Genome Sequence of Pseudomonas syringae Pathovar Syringae Strain FF5, Causal Agent of Stem Tip Dieback Disease on Ornamental Pear

    Article • Journal of Bacteriology, June 2012, ASM Journals

    Dr David J Studholme

  120. Pseudomonas syringae pv. actinidiae (PSA) Isolates from Recent Bacterial Canker of Kiwifruit Outbreaks Belong to the Same Genetic Lineage

    Article • PLOS One, May 2012, PLOS

    Dr David J Studholme

  121. Draft Genome Sequence of Pseudomonas fuscovaginae, a Broad-Host-Range Pathogen of Plants

    Article • Journal of Bacteriology, April 2012, ASM Journals

    Dr David J Studholme

  122. Coverage-based consensus calling (CbCC) of short sequence reads and comparison of CbCC results to identify SNPs in chickpea (Cicer arietinum; Fabaceae), a crop species without a reference genome

    Article • American Journal of Botany, February 2012, Botanical Society of America

    Dr David J Studholme

  123. Correction: Studholme et al., Draft Genome Sequences of Xanthomonas sacchari and Two Banana-Associated Xanthomonads Reveal Insights into the Xanthomonas Group 1 clade. Genes 2011, 2, 1050–1065.

    Article • Genes, January 2012, MDPI AG

    Dr David J Studholme

  124. Deep sequencing of small RNAs in plants: applied bioinformatics

    Article • Briefings in Functional Genomics, December 2011, Oxford University Press (OUP)

    Dr David J Studholme

  125. Draft Genome Sequences of Xanthomonas sacchari and Two Banana-Associated Xanthomonads Reveal Insights into the Xanthomonas Group 1 Clade

    Article • Genes, December 2011, MDPI AG

    Dr David J Studholme

  126. Multiple Candidate Effectors from the Oomycete Pathogen Hyaloperonospora arabidopsidis Suppress Host Plant Immunity

    Article • PLoS Pathogens, November 2011, PLOS

    Dr David J Studholme

  127. High-Throughput Sequencing Data Analysis Software: Current State and Future Developments

    Article • September 2011, Springer Science + Business Media

    Dr David J Studholme

  128. Application of High-Throughput DNA Sequencing in Phytopathology

    Article • Annual Review of Phytopathology, September 2011, Annual Reviews

    Dr David J Studholme

  129. The Plant Pathogen Pseudomonas syringae pv. tomato Is Genetically Monomorphic and under Strong Selection to Evade Tomato Immunity

    Article • PLoS Pathogens, August 2011, PLOS

    Dr David J Studholme

  130. Gene Gain and Loss during Evolution of Obligate Parasitism in the White Rust Pathogen of Arabidopsis thaliana

    Article • PLoS Biology, July 2011, PLOS

    Dr David J Studholme, Eric Kemen

  131. Application of high‐throughput genome sequencing to intrapathovar variation in Pseudomonas syringae

    Article • Molecular Plant Pathology, April 2011, Wiley

    Dr David J Studholme

  132. Signatures of Adaptation to Obligate Biotrophy in the Hyaloperonospora arabidopsidis Genome

    Article • Science, December 2010, American Association for the Advancement of Science

    Dr Marcus C Chibucos, Dr David J Studholme

  133. Genome Evolution Following Host Jumps in the Irish Potato Famine Pathogen Lineage

    Article • Science, December 2010, American Association for the Advancement of Science

    Dr David J Studholme

  134. Genome-wide sequencing data reveals virulence factors implicated in banana Xanthomonas wilt

    Article • FEMS Microbiology Letters, August 2010, Oxford University Press (OUP)

    Dr David J Studholme, Eric Kemen, Dr Sebastian Schornack

  135. De novo assembly of short sequence reads

    Article • Briefings in Bioinformatics, August 2010, Oxford University Press (OUP)

    Dr David J Studholme

  136. Genome-wide survey of Arabidopsis natural variation in downy mildew resistance using combined association and linkage mapping

    Article • Proceedings of the National Academy of Sciences, May 2010, Proceedings of the National Academy of Sciences

    Dr David J Studholme

  137. Comparative Genome Analysis Provides Insights into the Evolution and Adaptation of Pseudomonas syringae pv. aesculi on Aesculus hippocastanum

    Article • PLOS One, April 2010, PLOS

    Dr David J Studholme

  138. Evidence for Large Complex Networks of Plant Short Silencing RNAs

    Article • PLOS One, March 2010, PLOS

    Dr David J Studholme

  139. Finding sRNA generative locales from high-throughput sequencing data with NiBLS

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

    Dr David J Studholme

  140. A Boolean Model of the Pseudomonas syringae hrp Regulon Predicts a Tightly Regulated System

    Article • PLOS One, February 2010, PLOS

    Dr David J Studholme

  141. Pseudomonas syringae Strains Naturally Lacking the Classical P. syringae hrp/hrc Locus Are Common Leaf Colonizers Equipped with an Atypical Type III Secretion System

    Article • Molecular Plant-Microbe Interactions, February 2010, Scientific Societies

    Dr David J Studholme

  142. Genome sequence and analysis of the Irish potato famine pathogen Phytophthora infestans

    Article • Nature, September 2009, Springer Science + Business Media

    Dr Marcus C Chibucos, Benjamin Schwessinger, Dr David J Studholme, Dr Sebastian Schornack, Niklaus J Grunwald, Lucio Conti

  143. Uniparental expression of PolIV-dependent siRNAs in developing endosperm of Arabidopsis

    Article • Nature, June 2009, Springer Science + Business Media

    Dr David J Studholme

  144. Genome Sequence of Azotobacter vinelandii, an Obligate Aerobe Specialized To Support Diverse Anaerobic Metabolic Processes

    Article • Journal of Bacteriology, May 2009, ASM Journals

    Dr Patricia C Dos Santos, Dr David J Studholme

  145. Phosphoproteomic analysis of nuclei-enriched fractions from Arabidopsis thaliana

    Article • Journal of Proteomics, April 2009, Elsevier

    Dr David J Studholme

  146. De novo assembly of the Pseudomonas syringae pv. syringae B728a genome using Illumina/Solexa short sequence reads

    Article • FEMS Microbiology Letters, February 2009, Oxford University Press (OUP)

    Dr David J Studholme, Eric Kemen

  147. In the news

    Article • Nature Reviews Microbiology, February 2009, Nature

    Dr David J Studholme

  148. A draft genome sequence and functional screen reveals the repertoire of type III secreted proteins of Pseudomonas syringae pathovar tabaci 11528

    Article • BMC Genomics, January 2009, Springer Science + Business Media

    Dr David J Studholme

  149. A draft genome sequence and functional screen reveals the repertoire of type III secreted proteins of Pseudomonas syringae pathovar tabaci 11528

    Article • BMC Genomics, January 2009, Springer Science + Business Media

    Dr David J Studholme

  150. A Draft Genome Sequence of Pseudomonas syringae pv. tomato T1 Reveals a Type III Effector Repertoire Significantly Divergent from That of Pseudomonas syringae pv. tomato DC3000

    Article • Molecular Plant-Microbe Interactions, January 2009, Scientific Societies

    Dr David J Studholme, Eric Kemen

  151. A toolkit for analysing large-scale plant small RNA datasets

    Article • Bioinformatics, August 2008, Oxford University Press (OUP)

    Dr David J Studholme

  152. PhosCalc: A tool for evaluating the sites of peptide phosphorylation from Mass Spectrometer data

    Article • BMC Research Notes, June 2008, Springer Science + Business Media

    Dr David J Studholme

  153. Heterologous expression of pyruvate decarboxylase in Geobacillus thermoglucosidasius

    Article • Biotechnology Letters, March 2008, Springer Science + Business Media

    Dr David J Studholme

  154. PolIVb influences RNA-directed DNA methylation independently of its role in siRNA biogenesis

    Article • Proceedings of the National Academy of Sciences, February 2008, Proceedings of the National Academy of Sciences

    Dr David J Studholme

  155. Marker development for the genetic study of natural variation in Arabidopsis thaliana

    Article • Bioinformatics, November 2007, Oxford University Press (OUP)

    Dr David J Studholme

  156. Deletion of a previously uncharacterized flagellar-hook-length control gene fliK modulates the  54-dependent regulon in Campylobacter jejuni

    Article • Microbiology, September 2007, Society for General Microbiology

    Dr David J Studholme

  157. Integrated bioinformatic and phenotypic analysis of RpoN‐dependent traits in the plant growth‐promoting bacterium Pseudomonas fluorescens SBW25

    Article • Environmental Microbiology, August 2007, Wiley

    Dr David J Studholme

  158. miRNAs control gene expression in the single-cell alga Chlamydomonas reinhardtii

    Article • Nature, May 2007, Springer Science + Business Media

    Dr David J Studholme

  159. SDE5, the putative homologue of a human mRNA export factor, is required for transgene silencing and accumulation of trans-acting endogenous siRNA

    Article • The Plant Journal, March 2007, Wiley

    Dr David J Studholme

  160. Multidimensional Protein Identification Technology (MudPIT) Analysis of Ubiquitinated Proteins in Plants

    Article • Molecular & Cellular Proteomics, January 2007, American Society for Biochemistry & Molecular Biology (ASBMB)

    Dr David J Studholme

  161. G8: a novel domain associated with polycystic kidney disease and non-syndromic hearing loss

    Article • Bioinformatics, April 2006, Oxford University Press (OUP)

    Dr David J Studholme

  162. Profiling the secretomes of plant pathogenic Proteobacteria

    Article • FEMS Microbiology Reviews, April 2005, Oxford University Press (OUP)

    Dr David J Studholme

  163. Profiling the secretomes of plant pathogenic Proteobacteria

    Article • FEMS Microbiology Reviews, April 2005, Wiley

    Dr David J Studholme

  164. Protein domains and architectural innovation in plant-associated Proteobacteria

    Article • BMC Genomics, February 2005, Springer Science + Business Media

    Dr David J Studholme

  165. Transcriptomic analyses support the similarity of gene expression between brain and testis in human as well as mouse

    Article • Cytogenetic and Genome Research, January 2005, Karger Publishers

    Dr David J Studholme

  166. InterPro, progress and status in 2005

    Article • Nucleic Acids Research, December 2004, Oxford University Press (OUP)

    Dr David J Studholme

  167. NCD3G: a novel nine-cysteine domain in family 3 GPCRs

    Article • Trends in Biochemical Sciences, November 2004, Elsevier

    Dr David J Studholme

  168. DNA Binding Activity of the Escherichia coli Nitric Oxide Sensor NorR Suggests a Conserved Target Sequence in Diverse Proteobacteria

    Article • Journal of Bacteriology, October 2004, ASM Journals

    Dr David J Studholme

  169. NCD3G: a novel nine-cysteine domain in family 3 GPCRs

    Article • Trends in Biochemical Sciences, September 2004, Elsevier

    Dr David J Studholme

  170. Novel protein domains and motifs in the marine planctomycete Rhodopirellula baltica

    Article • FEMS Microbiology Letters, July 2004, Oxford University Press (OUP)

    Dr David J Studholme, Professor John A Fuerst

  171. Novel protein domains and motifs in the marine planctomycete Rhodopirellula baltica

    Article • FEMS Microbiology Letters, July 2004, Oxford University Press (OUP)

    Dr David J Studholme

  172. Bioinformatic identification of novel regulatory DNA sequence motifs in Streptomyces coelicolor

    Article • BMC Microbiology, April 2004, Springer Science + Business Media

    Dr David J Studholme

  173. MANSC: a seven-cysteine-containing domain present in animal membrane and extracellular proteins

    Article • Trends in Biochemical Sciences, April 2004, Elsevier

    Dr David J Studholme

  174. In silico analysis of the σ54-dependent enhancer-binding proteins inPirellulaspecies strain 1

    Article • FEMS Microbiology Letters, January 2004, Oxford University Press (OUP)

    Dr David J Studholme

  175. Article • BMC Microbiology, January 2004, Springer Science + Business Media

    Dr David J Studholme

  176. A DNA element recognised by the molybdenum-responsive transcription factor ModE is conserved in Proteobacteria, green sulphur bacteria and Archaea

    Article • BMC Microbiology, December 2003, Springer Science + Business Media

    Dr David J Studholme

  177. A comparison of Pfam and MEROPS: Two databases, one comprehensive, and one specialised.

    Article • BMC Bioinformatics, May 2003, Springer Science + Business Media

    Dr David J Studholme

  178. Domain Architectures of σ54-Dependent Transcriptional Activators

    Article • Journal of Bacteriology, March 2003, ASM Journals

    Dr David J Studholme

  179. Article • BMC Microbiology, January 2003, Springer Science + Business Media

    Dr David J Studholme, John Bannantine

  180. Mechanism of Action of the Escherichia coli Phage Shock Protein PspA in Repression of the AAA Family Transcription Factor PspF

    Article • Journal of Molecular Biology, June 2002, Elsevier

    Dr David J Studholme

  181. Identification of potential σN-dependent promoters in bacterial genomes

    Article • Microbiology, December 2000, Society for General Microbiology

    Dr David J Studholme

  182. The alternative sigma factor σ28of the extreme thermophileAquifex aeolicusrestores motility to anEscherichia coli fliAmutant

    Article • FEMS Microbiology Letters, October 2000, Oxford University Press (OUP)

    Dr David J Studholme

  183. The alternative sigma factor σ28 of the extreme thermophile Aquifex aeolicus restores motility to an Escherichia coli fliA mutant

    Article • FEMS Microbiology Letters, October 2000, Oxford University Press (OUP)

    Dr David J Studholme

  184. The Bacterial Enhancer-Dependent ς54(ςN) Transcription Factor

    Article • Journal of Bacteriology, August 2000, ASM Journals

    Dr David J Studholme

  185. The biology of enhancer-dependent transcriptional regulation in bacteria: insights from genome sequences

    Article • FEMS Microbiology Letters, May 2000, Oxford University Press (OUP)

    Dr David J Studholme

  186. The biology of enhancer-dependent transcriptional regulation in bacteria: insights from genome sequences

    Article • FEMS Microbiology Letters, May 2000, Oxford University Press (OUP)

    Dr David J Studholme

  187. Functionality of Purified ςN(ς54) and a NifA-Like Protein from the HyperthermophileAquifex aeolicus

    Article • Journal of Bacteriology, March 2000, ASM Journals

    Dr David J Studholme

  188. Novel roles of σN in small genomes

    Article • Microbiology, January 2000, Society for General Microbiology

    Dr David J Studholme

  189. The C-Terminal 12 Amino Acids of ςN Are Required for Structure and Function

    Article • Archives of Biochemistry and Biophysics, November 1999, Elsevier

    Dr David J Studholme

  190. Phylogenetic analysis of transformable strains of thermophilicBacillusspecies

    Article • FEMS Microbiology Letters, March 1999, Oxford University Press (OUP)

    Dr David J Studholme

  191. Phylogenetic analysis of transformable strains of thermophilic Bacillus species

    Article • FEMS Microbiology Letters, March 1999, Oxford University Press (OUP)

    Dr David J Studholme