Positions

Research Areas research areas

Overview

  • Increasing our understanding of the mechanisms of molecular change and developing a critical link between molecular and organismal evolution are key components of my research programs. Current research in my lab focuses on the application of next generation sequencing technologies to understanding the response of organisms to environmental change and patterns of global biodiversity.
  • Publications

    Academic Article

    Year Title
    2018 Biodiversity estimates and ecological interpretations of meiofaunal communities are biased by the taxonomic approach.Commun Biol.  1:112. 2018
    2018 Erratum: Author Correction: Biodiversity estimates and ecological interpretations of meiofaunal communities are biased by the taxonomic approach.Commun Biol.  1:237. 2018
    2017 Permanent Draft Genome Sequences for Mesorhizobium sp. Strains LCM 4576, LCM 4577, and ORS3428, Salt-Tolerant, Nitrogen-Fixing Bacteria Isolated from Senegalese Soils.Genome Announcements.  5:e01154-17-e01154-17. 2017
    2017 Permanent Draft Genome Sequence of Photorhabdus temperata Strain Hm, an Entomopathogenic Bacterium Isolated from Nematodes.Genome Announcements.  5. 2017
    2017 Spatial and temporal variation of intertidal nematodes in the northern Gulf of Mexico after the Deepwater Horizon oil spill.Marine Environmental Research.  130:200-212. 2017
    2017 Permanent Draft Genome Sequence for Frankia sp. Strain Cc1.17, a Nitrogen-Fixing Actinobacterium Isolated from Root Nodules of Colletia cruciata.Genome Announcements.  5. 2017
    2017 Introduction to Nematode Genome and Transcriptome Announcements in the Journal of Nematology.Journal of Nematology.  49:125-126. 2017
    2017 PALADIN: protein alignment for functional profiling whole metagenome shotgun data.Bioinformatics Computer Applications in the Biosciences.  33:1473-1478. 2017
    2017 A New Reference Genome Assembly for the Microcrustacean Daphnia pulex.G3: Genes, Genomes, Genetics.  7:1405-1416. 2017
    2017 Permanent Draft Genome Sequence of Rhizobium sp. Strain LCM 4573, a Salt-Tolerant, Nitrogen-Fixing Bacterium Isolated from Senegalese Soils.Genome Announcements.  5:e00285-17-e00285-17. 2017
    2017 Permanent Draft Genome Sequence of the French Bean Symbiont Rhizobium sp. Strain RSm-3 Isolated from the Eastern Himalayan Region of India.Genome Announcements.  5:e00175-17-e00175-17. 2017
    2017 Permanent Draft Genome Sequences of Three Frankia sp. Strains That Are Atypical, Noninfective, Ineffective Isolates.Genome Announcements.  5:e00174-17-e00174-17. 2017
    2017 Permanent Draft Genome Sequence of Ensifer sp. Strain LCM 4579, a Salt-Tolerant, Nitrogen-Fixing Bacterium Isolated from Senegalese Soil.Genome Announcements.  5:e00117-17-e00117-17. 2017
    2017 Genomic Methods and Microbiological Technologies for Profiling Novel and Extreme Environments for the Extreme Microbiome Project (XMP)Journal of Biomolecular Techniques.  28:31-39. 2017
    2017 Draft Genome Sequence of the Symbiotic Frankia Sp. Strain KB5 Isolated from Root Nodules of Casuarina equisetifolia.Journal of Genomics.  5:64-67. 2017
    2017 Permanent Draft Genome sequence for Frankia sp. strain CcI49, a Nitrogen-Fixing Bacterium Isolated from Casuarina cunninghamiana that Infects Elaeagnaceae.Journal of Genomics.  5:119-123. 2017
    2016 Comparative genomics of Prauserella sp Am3, an actinobacterium isolated from root nodules of Alnus nepalensis in IndiaSymbiosis.  70:49-58. 2016
    2016 Genetic drift, selection and the evolution of the mutation rate.Nature Reviews Genetics.  17:704-714. 2016
    2016 Chronic nitrogen additions fundamentally restructure the soil fungal community in a temperate forestFungal Ecology.  23:48-57. 2016
    2016 Permanent Draft Genome Sequence of Frankia sp. Strain BR, a Nitrogen-Fixing Actinobacterium Isolated from the Root Nodules of Casuarina equisetifolia.Genome Announcements.  4:e01000-16-e01000-16. 2016
    2016 The ecologist's field guide to sequence-based identification of biodiversityMethods in Ecology and Evolution.  7:1008-1018. 2016
    2016 Permanent Draft Genome Sequence for Frankia sp. Strain EI5c, a Single-Spore Isolate of a Nitrogen-Fixing Actinobacterium, Isolated from the Root Nodules of Elaeagnus angustifolia.Genome Announcements.  4. 2016
    2016 Permanent Draft Genome Sequence of Frankia sp. Strain Allo2, a Salt-Tolerant Nitrogen-Fixing Actinobacterium Isolated from the Root Nodules of Allocasuarina.Genome Announcements.  4. 2016
    2016 Coexisting cryptic species of the Litoditis marina complex (Nematoda) show differential resource use and have distinct microbiomes with high intraspecific variability.Molecular Ecology.  25:2093-2110. 2016
    2016 Permanent Draft Genome Sequence for Frankia sp. Strain CeD, a Nitrogen-Fixing Actinobacterium Isolated from the Root Nodules of Casuarina equistifolia Grown in Senegal.Genome Announcements.  4. 2016
    2016 Draft Genome Sequence of Photorhabdus luminescens subsp. laumondii HP88, an Entomopathogenic Bacterium Isolated from Nematodes.Genome Announcements.  4. 2016
    2016 Mitogenomics reveals high synteny and long evolutionary histories of sympatric cryptic nematode species.Ecology and Evolution.  6:1854-1870. 2016
    2016 Permanent Draft Genome Sequences for Two Variants of Frankia sp. Strain CpI1, the First Frankia Strain Isolated from Root Nodules of Comptonia peregrina.Genome Announcements.  4. 2016
    2015 Permanent Draft Genome Sequence of Frankia sp. Strain AvcI1, a Nitrogen-Fixing Actinobacterium Isolated from the Root Nodules of Alnus viridis subsp. crispa Grown in Canada.Genome Announcements.  3. 2015
    2015 Permanent Draft Genome Sequence of Frankia sp. Strain ACN1ag, a Nitrogen-Fixing Actinobacterium Isolated from the Root Nodules of Alnus glutinosa.Genome Announcements.  3. 2015
    2015 A Male-Specific Genetic Map of the Microcrustacean Daphnia pulex Based on Single-Sperm Whole-Genome Sequencing.Genetics.  201:31-38. 2015
    2015 METAGENOMICS FOR ADVANCING NEMATODE SYSTEMATICS AND PHYLOGEOGRAPHY.Journal of Nematology.  47:273-274. 2015
    2015 Genome sequence and comparative analysis of a putative entomopathogenic Serratia isolated from Caenorhabditis briggsae.BMC Genomics.  16:531. 2015
    2015 The Mitochondrial Genomes of the Nudibranch Mollusks, Melibe leonina and Tritonia diomedea, and Their Impact on Gastropod Phylogeny (vol 10, e0127519, 2015)PLoS ONE.  10:e0132861-e0132861. 2015
    2015 Development of diagnostic microsatellite markers from whole-genome sequences of Ammodramus sparrows for assessing admixture in a hybrid zone.Ecology and Evolution.  5:2267-2283. 2015
    2015 Environmental metabarcoding reveals heterogeneous drivers of microbial eukaryote diversity in contrasting estuarine ecosystems.ISME Journal.  9:1208-1221. 2015
    2015 The mitochondrial genomes of the nudibranch mollusks, Melibe leonina and Tritonia diomedea, and their impact on gastropod phylogenyIntegrative and Comparative Biology American Zoologist.  55:E164-E164. 2015
    2015 FlowClus: efficiently filtering and denoising pyrosequenced amplicons.BMC Bioinformatics.  16:105. 2015
    2015 Polybrominated Diphenyl Ether (PBDE)-Induced Suppression of Phosphoenolpyruvate Carboxykinase (PEPCK) Decreases Hepatic Glyceroneogenesis and Disrupts Hepatic Lipid Homeostasis.Journal of Toxicology and Environmental Health - Part A Journal of Toxicology and Environmental Health.  78:1437-1449. 2015
    2015 The Mitochondrial Genomes of the Nudibranch Mollusks, Melibe leonina and Tritonia diomedea, and Their Impact on Gastropod Phylogeny.PLoS ONE.  10:e0127519. 2015
    2014 Draft Genome Sequence of Photorhabdus temperata Strain Meg1, an Entomopathogenic Bacterium Isolated from Heterorhabditis megidis Nematodes.Genome Announcements.  2. 2014
    2014 Nematodes from galls on Myrtaceae. IX. Fergusobia rosettae n. sp. on Melaleuca quinquenervia and F. tolgaensis n. sp. on Syzygium luehmannii, from QueenslandZootaxa.  3889:214-214. 2014
    2014 An SNP-based second-generation genetic map of Daphnia magna and its application to QTL analysis of phenotypic traits.BMC Genomics.  15:1033. 2014
    2014 Metagenetic analysis of patterns of distribution and diversity of marine meiobenthic eukaryotesGlobal Ecology and Biogeography.  23:1293-1302. 2014
    2014 Nematodes from galls on Myrtaceae. VIII. Fergusobia from small galls on shoot buds, with descriptions of four new species.Zootaxa.  3857:1-40. 2014
    2014 Nematodes from galls on Myrtaceae. VII. Fergusobia from 'leafy' leaf bud galls in Australia, with re-description of Fergusobia tumifaciens (Currie 1937) Wachek 1955 and descriptions of Fergusobia planchonianae n. sp. and Fergusobia viminalisae n. sp.Zootaxa.  3856:529-554. 2014
    2014 Draft Genome Sequence of Frankia sp. Strain BMG5.23, a Salt-Tolerant Nitrogen-Fixing Actinobacterium Isolated from the Root Nodules of Casuarina glauca Grown in Tunisia.Genome Announcements.  2. 2014
    2014 A critique of Rossberg et al.: Noise obscures the genetic signal of meiobiotal ecospecies in ecogenomic datasets.Proceedings of the Royal Society B: Biological Sciences.  281:20133076. 2014
    2014 Draft Genome Sequence of Frankia sp. Strain Thr, a Nitrogen-Fixing Actinobacterium Isolated from the Root Nodules of Casuarina cunninghamiana Grown in Egypt.Genome Announcements.  2. 2014
    2014 Draft Genome Sequence of Photorhabdus luminescens Strain BA1, an Entomopathogenic Bacterium Isolated from Nematodes Found in Egypt.Genome Announcements.  2. 2014
    2014 Draft Genome Sequence of Frankia sp. Strain CcI6, a Salt-Tolerant Nitrogen-Fixing Actinobacterium Isolated from the Root Nodule of Casuarina cunninghamiana.Genome Announcements.  2. 2014
    2013 The genome of Romanomermis culicivorax: revealing fundamental changes in the core developmental genetic toolkit in Nematoda.BMC Genomics.  14:923. 2013
    2013 Nematodes from galls on Myrtaceae. IV. Fergusobia from flat leaf galls on¬†Eucalyptus and Corymbia, with descriptions of two new species.Zootaxa.  3741:151-171. 2013
    2013 Nematodes from galls on Myrtaceae. V. Fergusobia from large multilocular shoot bud galls from Angophora and Eucalyptus in Australia, with descriptions of six new species.Zootaxa.  3741:101-140. 2013
    2013 Large-scale detection of in vivo transcription errors.Proceedings of the National Academy of Sciences of the United States of America.  110:18584-18589. 2013
    2013 PDE inhibitors as potential pesticides targeting parasitic nematodesFASEB Journal.  27. 2013
    2013 Chronic N-amended soils exhibit an altered bacterial community structure in Harvard Forest, MA, USA.FEMS Microbiology Ecology.  83:478-493. 2013
    2013 Assessing the consequences of denoising marker-based metagenomic data.PLoS ONE.  8:e60458. 2013
    2013 Intra-genomic variation in the ribosomal repeats of nematodes.PLoS ONE.  8:e78230. 2013
    2012 Metagenomics will highlight and drive links to taxonomic data: reply to MurrayTrends in Ecology and Ecolution.  27:652-653. 2012
    2012 Extraordinary genome stability in the ciliate Paramecium tetraurelia.Proceedings of the National Academy of Sciences of the United States of America.  109:19339-19344. 2012
    2012 DNA base identification by electron microscopy.Microscopy and Microanalysis.  18:1049-1053. 2012
    2012 Sequencing and analysis of the gastrula transcriptome of the brittle star Ophiocoma wendtii.EvoDevo.  3:19. 2012
    2012 Differentially expressed genes in aortic smooth muscle cells from atherosclerosis-susceptible and atherosclerosis-resistant pigeons.Poultry Science.  91:1315-1325. 2012
    2012 Sequencing and analysis of the gastrula transcriptome of the brittle star Ophiocoma wendtiiIntegrative and Comparative Biology American Zoologist.  52:E342-E342. 2012
    2012 Sequencing our way towards understanding global eukaryotic biodiversity.Trends in Ecology and Ecolution.  27:233-243. 2012
    2012 Metagenetic community analysis of microbial eukaryotes illuminates biogeographic patterns in deep-sea and shallow water sediments.Molecular Ecology.  21:1048-1059. 2012
    2012 The nature and frequency of chimeras in eukaryotic metagenetic samples.Journal of Nematology.  44:18-25. 2012
    2012 Community annotation and bioinformatics workforce development in concert--Little Skate Genome Annotation Workshops and Jamborees.Database : the journal of biological databases and curation.  2012:bar064. 2012
    2012 Dramatic shifts in benthic microbial eukaryote communities following the Deepwater Horizon oil spill.PLoS ONE.  7:e38550. 2012
    2012 Nematode spatial and ecological patterns from tropical and temperate rainforests.PLoS ONE.  7:e44641. 2012
    2011 Shifting patterns of natural variation in the nuclear genome of caenorhabditis elegans.BMC Evolutionary Biology.  11:168. 2011
    2011 An insect pathogenic symbiosis between a Caenorhabditis and Serratia.Virulence.  2:158-161. 2011
    2011 Response to 'Bugs don't make worms kill'Journal of Experimental Biology.  214:1053-1054. 2011
    2011 The ecoresponsive genome of Daphnia pulex.Science The Scientific monthly.  331:555-561. 2011
    2011 A critique of current methods in nematode taxonomyAfrican Journal of Biotechnology.  10:312-323. 2011
    2011 p53 Superfamily proteins in marine bivalve cancer and stress biology.Advances in Marine Biology.  59:1-36. 2011
    2010 Low endemism, continued deep-shallow interchanges, and evidence for cosmopolitan distributions in free-living marine nematodes (order Enoplida).BMC Evolutionary Biology.  10:389. 2010
    2010 Simple sequence repeat variation in the Daphnia pulex genome.BMC Genomics.  11:691. 2010
    2010 Ecometagenetics confirm high tropical rainforest nematode diversity.Molecular Ecology.  19:5521-5530. 2010
    2010 Moving towards a complete molecular framework of the Nematoda: a focus on the Enoplida and early-branching clades.BMC Evolutionary Biology.  10:353. 2010
    2010 Second-generation environmental sequencing unmasks marine metazoan biodiversity.Nature Communications.  1:98. 2010
    2010 Nematodes from galls on Myrtaceae. I. Fergusobia/Fergusonina galls on Corymbia spp., with re-description of F. magna and notes on its phylogenetic relationshipsZootaxa.  25-40. 2010
    2010 The nematode genus Fergusobia (Nematoda: Neotylenchidae): molecular phylogeny, descriptions of clades and associated galls, host plants and Fergusonina fly larvaeZootaxa.  1-66. 2010
    2010 An entomopathogenic Caenorhabditis briggsae.Journal of Experimental Biology.  213:3223-3229. 2010
    2010 ECOMETAGENETICS FOR THE ANALYSIS OF NEMATODE COMMUNITIES IN A TROPICAL RAIN FORESTJournal of Nematology.  42:273-273. 2010
    2010 INTRA-GENOMIC VARIATION IN THE RIBOSOMAL REPEATS OF NEMATODESJournal of Nematology.  42:242-242. 2010
    2010 PHYLOGENOMIC ANALYSIS IN THE PHYLUM NEMATODAJournal of Nematology.  42:259-259. 2010
    2010 Reproducibility of read numbers in high-throughput sequencing analysis of nematode community composition and structure.Molecular Ecology Resources.  10:666-676. 2010
    2010 Linking operational clustered taxonomic units (OCTUs) from parallel ultra sequencing (PUS) to nematode speciesZootaxa.  2427:55-63. 2010
    2010 Ultrasequencing of the meiofaunal biosphere: practice, pitfalls and promises.Molecular Ecology.  19 Suppl 1:4-20. 2010
    2010 Acrostichus megaloptae n. sp (Nematoda: Diplogastridae), a phoretic associate of Megalopta spp. (Hymenoptera: Halictidae) in Central AmericaNematology Fundamental and Applied Nematology Nematologica.  12:453-468. 2010
    2010 Acrostichus puri n. sp (Nematoda: Diplogastridae), a phoretic associate of Augochlora pura mosieri Cockerell (Hymenoptera: Halictidae)Nematology Fundamental and Applied Nematology Nematologica.  12:49-64. 2010
    2010 Diversity and distribution of nematodes associated with wild bees in TurkeyNematology Fundamental and Applied Nematology Nematologica.  12:65-80. 2010
    2009 EVALUATING PUTATIVE ORTHOLOGS FOR PHYLOGENOMIC ANALYSIS ACROSS THE PHYLUM NEMATODAJournal of Nematology.  41:360-360. 2009
    2009 INTRON GAIN AND LOSS IN CAENORHABDITIS.Journal of Nematology.  41:332-332. 2009
    2009 LINKING OPERATIONAL CLUSTERED TAXONOMICAL UNITS TO NEMATODE SPECIES IN PARALLEL-TAGGED ULTRASEQUENCING.Journal of Nematology.  41:371-371. 2009
    2009 NEMATODE ASSOCIATIONS WITH WILD BEES FROM GLOBAL DIVERSITY SURVEYS.Journal of Nematology.  41:331-332. 2009
    2009 OCTUPUS: A PACKAGE FOR DEFINING "OPERATIONAL CLUSTERED TAXONOMIC UNITS FROM PARALLEL-TAGGED ULTRA-SEQUENCING".Journal of Nematology.  41:383-383. 2009
    2009 PHYLOGENOMIC ANALYSES IN THE AGE OF NEXT-GEN SEQUENCING: THE SCOURGE OF GENE DUPLICATION AND THE USE OF TRANSCRIPTOME DATASETS.Journal of Nematology.  41:387-387. 2009
    2009 Extensive, recent intron gains in Daphnia populations.Science The Scientific monthly.  326:1260-1262. 2009
    2009 Evaluating high-throughput sequencing as a method for metagenomic analysis of nematode diversity.Molecular Ecology Resources.  9:1439-1450. 2009
    2009 A genome-wide view of Caenorhabditis elegans base-substitution mutation processes.Proceedings of the National Academy of Sciences of the United States of America.  106:16310-16314. 2009
    2009 Teratodiplogaster fignewmani gen. nov., sp. nov. (Nematoda: Diplogastridae) from the syconia of Ficus racemose in Australia.Zoological Science.  26:569-578. 2009
    2009 Ficotylus congestae gen. n., sp n. (Anguinata), from Ficus congesta (Moraceae) sycones in AustraliaNematology Fundamental and Applied Nematology Nematologica.  11:63-75. 2009
    2008 A genome-wide view of the spectrum of spontaneous mutations in yeast.Proceedings of the National Academy of Sciences of the United States of America.  105:9272-9277. 2008
    2008 The rate and spectrum of microsatellite mutation in Caenorhabditis elegans and Daphnia pulex.Genetics.  178:2113-2121. 2008
    2008 Longitudinal changes in zinc transport kinetics, metallothionein and zinc transporter expression in a blood-brain barrier model in response to a moderately excessive zinc environment.Journal of Nutritional Biochemistry.  19:129-137. 2008
    2008 Molecular variability of Schistonchus caprifici (Nematoda: Aphelenchoididae) from Ficus carica in TurkeyNematology Fundamental and Applied Nematology Nematologica.  10:639-649. 2008
    2008 Morphological and molecular analysis of six aphelenchoidoids from Australian conifers and their relationship to Bursaphelenchus (Fuchs, 1937)Nematology Fundamental and Applied Nematology Nematologica.  10:663-678. 2008
    2007 Bursaphelenchus debrae n. sp (Nematoda : Parasitaphelenchidae), an associate of the bee Halictus brunnescens in TurkeyNematology Fundamental and Applied Nematology Nematologica.  9:777-789. 2007
    2007 Molecular phylogenetics and the evolution of host plant associations in the nematode genus Fergusobia (Tylenchida: Fergusobiinae).Molecular Phylogenetics and Evolution.  45:123-141. 2007
    2007 Bradynema listronoti n. sp (Nematoda : Allantonematidae), a parasite of the carrot weevil Listronotus oregonensis (Coleoptera : Curculionidae) in Quebec, CanadaNematology Fundamental and Applied Nematology Nematologica.  9:609-623. 2007
    2007 Biodiversity of littoral nematodes from two sites in the Gulf of CaliforniaHydrobiologia Journal of Aquatic Ecosystem Stress and Recovery.  586:179-189. 2007
    2007 NemAToL: Database for the nematode branch of the tree of life.Phytopathology.  97:S157-S157. 2007
    2007 Phylogenetic relationships among Bursaphelenchus species (Nematoda: Parasitaphelenchidae) inferred from nuclear ribosomal and mitochondrial DNA sequence data.Molecular Phylogenetics and Evolution.  43:1185-1197. 2007
    2007 454 pyrosequencing for metagenomic analysis of nematode diversity.Journal of Nematology.  39:90-90. 2007
    2007 Nematol: Database for the nematode branch of the tree of life.Journal of Nematology.  39:93-93. 2007
    2007 Relational database for the identification of pan- and clade-specific orthologous gene sets in the phylum nematoda.Journal of Nematology.  39:93-94. 2007
    2006 A position paper on the electronic publication of nematode taxonomic manuscripts.Journal of Nematology.  38:305-311. 2006
    2006 Morphology and systematics of Bursaphelenchus gerberae n. sp (Nematoda : Parasitaphelenchidae), a rare associate of the palm weevil, Rhynchophorus palmarum in TrinidadZootaxa.  39-53. 2006
    2006 Morphology and Description of Bursaphelenchus platzeri n. sp. (Nematoda: Parasitaphelenchidae), an Associate of Nitidulid Beetles.Journal of Nematology.  38:150-157. 2006
    2006 Stomatal Ultrastructure, Molecular Phylogeny, and Description of Parasitodiplogaster laevigata n. sp. (Nematoda: Diplogastridae), a Parasite of Fig Wasps.Journal of Nematology.  38:137-149. 2006
    2005 A white paper on nematode comparative genomics.Journal of Nematology.  37:408-416. 2005
    2005 Gene discovery in Daphnia by expressed sequence tag sequencingIntegrative and Comparative Biology American Zoologist.  45:979-979. 2005
    2005 An integrated approach to fast and informative morphological vouchering of nematodes for applications in molecular barcoding.Philosophical Transactions of the Royal Society B: Biological Sciences.  360:1945-1958. 2005
    2005 Bursaphelenchus anatolius n. sp. (Nematoda: Parasitaphelenchidae), an Associate of Bees in the Genus Halictus.Journal of Nematology.  37:336-342. 2005
    2005 Mutation rates, spectra and hotspots in mismatch repair-deficient Caenorhabditis elegans.Genetics.  170:107-113. 2005
    2005 The transcriptional consequences of mutation and natural selection in Caenorhabditis elegans.Nature Genetics.  37:544-548. 2005
    2004 Nematode diversity in the Gulf of Maine, USA, and a Web-accessible, relational databaseJournal of the Marine Biological Association of the United Kingdom.  84:1159-1167. 2004
    2004 High mutation rate and predominance of insertions in the Caenorhabditis elegans nuclear genome.Nature Nature: New biology.  430:679-682. 2004
    2004 Abundance, distribution, and mutation rates of homopolymeric nucleotide runs in the genome of Caenorhabditis elegans.Journal of Molecular Evolution.  58:584-595. 2004
    2004 Mutation accumulation in populations of varying size: the distribution of mutational effects for fitness correlates in Caenorhabditis elegans.Genetics.  166:1269-1279. 2004
    2003 Evolution of Parasitism in Insect-transmitted Plant Nematodes.Journal of Nematology.  35:133-141. 2003
    2003 Phylogenetics in Caenorhabditis elegans: an analysis of divergence and outcrossing.Molecular Biology and Evolution.  20:393-400. 2003
    2001 Comparative survey of early embryogenesis of Secernentea (Nematoda), with phylogenetic implicationsCanadian Journal of Zoology.  79:82-94. 2001
    2000 High direct estimate of the mutation rate in the mitochondrial genome of Caenorhabditis elegans.Science The Scientific monthly.  289:2342-2344. 2000
    2000 Nuclear and Mitochondrial DNA Sequence Diversity in the Antarctic Nematode Scottnema lindsayae.Journal of Nematology.  32:143-153. 2000
    2000 Phylogenetic Analysis of Geographically Diverse Radopholus similis via rDNA Sequence Reveals a Monomorphic Motif.Journal of Nematology.  32:134-142. 2000
    2000 Evolution of vulva development in the Cephalobina (Nematoda).Developmental Biology.  221:68-86. 2000
    1999 Morphological, molecular and biological characterization of Mehdinema alii (Nematoda: Diplogasterida) from the decorated cricket (Gryllodes sigillatus).Journal of Parasitology.  85:1053-1064. 1999
    1999 Molecular and morphological characterisation of two reproductively isolated species with mirror-image anatomy (Nematoda : Cephalobidae)Nematology Fundamental and Applied Nematology Nematologica.  1:591-612. 1999
    1999 Molecular and morphological analysis of isolates of Pratylenchus coffeae and closely related speciesNematropica.  29:61-80. 1999
    1999 Testing and balancing an existing occupied animal laboratoryLab Animal.  28:42-44. 1999
    1998 A molecular evolutionary framework for the phylum Nematoda.Nature Nature: New biology.  392:71-75. 1998
    1998 Embryonic axis specification in nematodes: evolution of the first step in development.Current Biology.  8:157-160. 1998
    1997 An evolutionary framework for the study of developmental evolution in a set of nematodes related to Caenorhabditis elegans.Molecular Phylogenetics and Evolution.  8:249-259. 1997
    1997 DNA sequences from formalin-fixed nematodes: integrating molecular and morphological approaches to taxonomy.Journal of Nematology.  29:250-254. 1997
    1997 The buccal capsule of Aduncospiculum halicti (Nemata:Diplogasterina): An ultrastructural and molecular phylogenetic studyCanadian Journal of Zoology.  75:407-423. 1997
    1996 Genetic substructure of the Pacific harbor seal (Phoca vittulina richardsi) off Washington, Oregon, and CaliforniaMarine Mammal Science.  12:402-413. 1996
    1994 A MOLECULAR APPROACH FOR THE IDENTIFICATION OF MEIOFAUNAL TURBELLARIANS (PLATYHELMINTHES, TURBELLARIA)Marine Biology.  120:437-442. 1994
    1994 MITOCHONDRIAL-DNA POLYMORPHISM IN UNIQUE RUNS OF CHINOOK SALMON (ONCORHYNCHUS-TSHAWYTSCHA) FROM THE SACRAMENTO-SAN-JOAQUIN RIVER BASINConservation Biology.  8:882-884. 1994
    1994 A molecular evolutionary framework for eukaryotic model organisms.Current Biology.  4:596-603. 1994
    1994 Phylogenetic analysis of the Coscoroba coscoroba using mitochondrial srRNA gene sequences.Molecular Phylogenetics and Evolution.  3:85-91. 1994
    1994 The marsupial mitochondrial genome and the evolution of placental mammals.Genetics.  137:243-256. 1994
    1994 DIFFERENCES IN GENETIC DIVERSITY FOR MITOCHONDRIAL-DNA BETWEEN HATCHERY AND WILD POPULATIONS OF ONCORHYNCHUSCanadian Journal of Fisheries and Aquatic Sciences.  51:290-297. 1994
    1993 A recent origin of marmots.Molecular Phylogenetics and Evolution.  2:330-336. 1993
    1993 MITOCHONDRIAL-DNA SEQUENCE DIVERSITY AND THE COLONIZATION OF SCANDINAVIA BY HOUSE MICE FROM EAST HOLSTENBiological Journal of the Linnean Society.  50:85-122. 1993
    1993 WILSON,ALLAN,C. - 1934-1991Journal of Molecular Evolution.  37:311-311. 1993
    1993 DNA sequences from old tissue remains.Methods in Enzymology.  224:406-419. 1993
    1993 Sequencing of polymerase chain reaction-amplified DNAs.Methods in Enzymology.  224:391-399. 1993
    1992 Mitochondrial DNA-like sequence in the nuclear genome of an akodontine rodent.Molecular Biology and Evolution.  9:204-215. 1992
    1991 Rearrangements of mitochondrial transfer RNA genes in marsupials.Journal of Molecular Evolution.  33:426-430. 1991
    1991 Mode and tempo of molecular evolution in the nematode caenorhabditis: cytochrome oxidase II and calmodulin sequences.Genetics.  128:269-279. 1991
    1990 Spatial and temporal continuity of kangaroo rat populations shown by sequencing mitochondrial DNA from museum specimens.Journal of Molecular Evolution.  31:101-112. 1990
    1990 Intraspecific sequence variation in the mitochondrial genome of rainbow trout (Oncorhynchus mykiss).Genome Canadian Journal of Genetics and Cytology.  33:13-15. 1990
    1990 Length heteroplasmy of sturgeon mitochondrial DNA: an illegitimate elongation model.Genetics.  124:157-163. 1990
    1989 Shifting constraints on tRNA genes during mitochondrial DNA evolution in animals.New Biol.  1:93-100. 1989
    1989 Variation in salmonid mitochondrial DNA: evolutionary constraints and mechanisms of substitution.Journal of Molecular Evolution.  29:233-245. 1989
    1989 Dynamics of mitochondrial DNA evolution in animals: amplification and sequencing with conserved primers.Proceedings of the National Academy of Sciences of the United States of America.  86:6196-6200. 1989
    1987 MITOCHONDRIAL-DNA ANALYSIS OF PACIFIC-NORTHWEST POPULATIONS OF ONCORHYNCHUS-TSHAWYTSCHACanadian Journal of Fisheries and Aquatic Sciences.  44:1301-1305. 1987
    1986 MITOCHONDRIAL-DNA RESTRICTION SITE VARIATION IN THE TOWNSEND VOLE, MICROTUS-TOWNSENDIICanadian Journal of Zoology.  64:2750-2756. 1986
    1986 MITOCHONDRIAL-DNA ANALYSIS OF PACIFIC SALMONID EVOLUTIONCanadian Journal of Zoology.  64:1058-1064. 1986
    1985 INTRA-SPECIFIC AND INTER-SPECIFIC MITOCHONDRIAL-DNA SEQUENCE DIVERGENCE IN SALMO - RAINBOW, STEELHEAD, AND CUTTHROAT TROUTSCanadian Journal of Zoology.  63:2088-2094. 1985
    Divergent selection and drift shape the genomes of two avian sister species spanning a saline-freshwater ecotoneMolecular Ecology
    Major changes in the core developmental pathways of nematodes: Romanomermis culicivorax reveals the derived status of the Caenorhabditis elegans model

    Conference Proceeding

    Year Title
    2016 PROPOSAL FOR GENOME AND TRANSCRIPTOME ANNOUNCEMENT ARTICLES IN THE JOURNAL OF NEMATOLOGYJournal of Nematology. 313-313. 2016
    2004 Coevolution between Fergusobia and Fergusonina mutualistsNematology Monographs and Perspectives. 407-417. 2004
    1994 PHYLOGEOGRAPHIC PATTERNS IN CALIFORNIA STEELHEAD AS DETERMINED BY MTDNA AND MICROSATELLITE ANALYSESCalifornia Cooperative Oceanic Fisheries, Investigations Reports. 90-92. 1994

    Principal Investigator On

  • Genomic Responses to the Deepwater Horizon Event and the Development of High-throughput Biological Assays for Oil Spills  awarded by Gulf of Mexico Research Initiative 2016 - 2019
  • Collaborative Research RCN: EukHiTs: Eukaryotic Biodiversity Research Using High-Throughput Sequencing  awarded by National Science Foundation (NSF) 2013 - 2019
  • The Rate and Molecular Spectrum of Spontaneous Mutations  awarded by Indiana University 2014 - 2017
  • Acquisition of an Illumina HiSeq 2000  awarded by National Science Foundation (NSF) 2012 - 2016
  • IIII-CXT: Interactive and Intelligent Searching of Biological Images by Query and Network Navigation with Learning Capabilities  awarded by National Science Foundation (NSF) 2008 - 2012
  • Daphnia Comparative Resources  awarded by University of Notre Dame 2010 - 2012
  • RAPID: Taxonomic and Metagenetic Test of Species Distribution for Marine Meiofauna from the Gulf of Mexico  awarded by National Science Foundation (NSF) 2010 - 2011
  • The Rate and Molecular Spectrum of Spontaneous Mutations  awarded by Indiana University 2009 - 2011
  • The Rate and Molecular Spectrum of Spontaneous Mutations  awarded by Indiana University 2006 - 2011
  • Daphnia Functional Comparative Genomics Resouces  awarded by Utah State University 2007 - 2011
  • Phylum Nematoda: Integrating Multidisciplinary Expertise  awarded by National Science Foundation (NSF) 2002 - 2009
  • Phase I Optimization of Hybridization Protocols for Probes and Substrates  awarded by ZS Genetics 2006 - 2009
  • Accelerating Molecular Morphological Bioinventory  awarded by University of California at Riverside 2003 - 2008
  • Causes and Consequences Recombination  awarded by Indiana University 2003 - 2007
  • Consequences of Deleterious Mutation  awarded by Indiana University 2002 - 2006
  • BAC Libraries From Diverse Crustacean Taxa  awarded by National Science Foundation (NSF) 2001 - 2003
  • Investigator On

  • NH IDeA Network of Biological Research Excellence  awarded by Dartmouth College 2018 - 2019
  • Center of Integrated Biomedical and Bioengineering Research (CIBBR)  awarded by US DHHS, National Institutes of Health 2018 - 2019
  • NH IDeA Network of Biological Research Excellence  awarded by Dartmouth College 2017 - 2018
  • Center of Integrated Biomedical and Bioengineering Research (CIBBR)  awarded by US DHHS, National Institutes of Health 2017 - 2018
  • NH IDeA Network of Biological Research Excellence  awarded by Dartmouth College 2016 - 2017
  • NH IDeA Network of Biological Research Excellence  awarded by Dartmouth College 2015 - 2016
  • Integrative Approaches to Biomedical Research  awarded by Dartmouth College 2014 - 2015
  • Integrative Approaches to Biomedical Research  awarded by Dartmouth College 2010 - 2015
  • Integrative Approaches to Biomedical Research  awarded by Dartmouth College 2013 - 2014
  • North East Cyberinfrastructure Consortium  awarded by National Science Foundation (NSF) 2009 - 2013
  • Integrative Approaches to Biomedical Research Year 3  awarded by Dartmouth College 2012 - 2013
  • Integrative Approaches to Biomedical Research-Year 2  awarded by Dartmouth College 2011 - 2012
  • 2006-08 Sea Grant Program  awarded by US DOC, National Oceanic & Atmospheric Administration (NOAA) 2006 - 2012
  • Phase I Optimization of Hybridization Protocols for Probes and Substrates  awarded by ZS Genetics 2006 - 2009
  • An Exploration of the use of Parasitic Nematodes for the Biological Control of Variable Milfoil  awarded by NH Department of Environmental Services 2005 - 2007
  • Teaching Activities

  • Doctoral Thesis Taught course 2018
  • Intro to Research in Life Sci Taught course 2018
  • Rsrch Exp/MCBS Taught course 2018
  • Applied Bioinformatics Taught course 2018
  • Doctoral Research Taught course 2018
  • Human Genetics Taught course 2018
  • Doctoral Research Taught course 2017
  • Applied Bioinformatics Taught course 2017
  • Human Genetics Taught course 2017
  • Field Experience Taught course 2016
  • Intr Bioinformatic Programming Taught course 2016
  • Intro to Research in Life Sci Taught course 2016
  • Applied Bioinformatics Taught course 2016
  • Human Genetics Taught course 2016
  • Intr Bioinformatic Programming Taught course 2015
  • Intro to Research in Life Sci Taught course 2015
  • Applied Bioinformatics Taught course 2015
  • Human Genetics Taught course 2015
  • Adv Rsrch Exp/MCBS Taught course 2014
  • Doctoral Research Taught course 2014
  • Intro to Research in Life Sci Taught course 2014
  • Applied Bioinformatics Taught course 2014
  • Doctoral Research Taught course 2014
  • Doctoral Research Taught course 2014
  • Human Genetics Taught course 2014
  • Principles of Genetics Taught course 2014
  • Education And Training

  • B.S. Biology, University of Redlands
  • M.S. Biology, Simon Fraser University
  • Ph.D. Biology, Simon Fraser University
  • Full Name

  • William Thomas