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Author Details

Luke R Thompson
Northern Gulf Institute, Mississippi State University
2006
39
25
PMIDPaper TitleJournal TitlePublished Year
37060640Decoding dissolved information: environmental DNA sequencing at global scale to monitor a changing ocean.Curr Opin Biotechnol2023
37695074Investigation of machine learning algorithms for taxonomic classification of marine metagenomes.Microbiol Spectr2023
35867581Dominance of <i>Sulfurospirillum</i> in Metagenomes Associated with the Methane Ice Worm (Sirsoe methanicola).Appl Environ Microbiol2022
37938691MIxS-SA: a MIxS extension defining the minimum information standard for sequence data from symbiont-associated micro-organisms.ISME Commun2022
35902092Tourmaline: A containerized workflow for rapid and iterable amplicon sequence analysis using QIIME 2 and Snakemake.Gigascience2022
33947809Correction for Vangay et al., "Microbiome Metadata Standards: Report of the National Microbiome Data Collaborative's Workshop and Follow-On Activities".mSystems2021
35607674Subsurface automated samplers for eDNA (SASe) for biological monitoring and research.HardwareX2021
33622857Microbiome Metadata Standards: Report of the National Microbiome Data Collaborative's Workshop and Follow-On Activities.mSystems2021
32968071Two hundred and fifty-four metagenome-assembled bacterial genomes from the bank vole gut microbiota.Sci Data2020
31028022Red Sea SAR11 and <i>Prochlorococcus</i> Single-Cell Genomes Reflect Globally Distributed Pangenomes.Appl Environ Microbiol2019
29995839Evolutionary trends in host physiology outweigh dietary niche in structuring primate gut microbiomes.ISME J2019
31600339Parasite microbiome project: Grand challenges.PLoS Pathog2019
31399723Author Correction: Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2.Nat Biotechnol2019
31341288Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2.Nat Biotechnol2019
31629686MetaMiner: A Scalable Peptidogenomics Approach for Discovery of Ribosomal Peptide Natural Products with Blind Modifications from Microbial Communities.Cell Syst2019
30801021A Novel Sparse Compositional Technique Reveals Microbial Perturbations.mSystems2019
29795328Best practices for analysing microbiomes.Nat Rev Microbiol2018
30188995The genome of a novel isolate of Prochlorococcus from the Red Sea contains transcribed genes for compatible solute biosynthesis.FEMS Microbiol Ecol2018
29988064Environmental radiation alters the gut microbiome of the bank vole Myodes glareolus.ISME J2018
30377376Species-level functional profiling of metagenomes and metatranscriptomes.Nat Methods2018
29668882Hopanoid-producing bacteria in the Red Sea include the major marine nitrite oxidizers.FEMS Microbiol Ecol2018
29789621Taxon-specific aerosolization of bacteria and viruses in an experimental ocean-atmosphere mesocosm.Nat Commun2018
29795809American Gut: an Open Platform for Citizen Science Microbiome Research.mSystems2018
27420030Metagenomic covariation along densely sampled environmental gradients in the Red Sea.ISME J2017
28152560Transcriptional characterization of Vibrio fischeri during colonization of juvenile Euprymna scolopes.Environ Microbiol2017
28289731Deblur Rapidly Resolves Single-Nucleotide Community Sequence Patterns.mSystems2017
29088705A communal catalogue reveals Earth's multiscale microbial diversity.Nature2017
26868398Draft Genome Sequence of Uncultured SAR324 Bacterium lautmerah10, Binned from a Red Sea Metagenome.Genome Announc2016
26657285Microbial community assembly and metabolic function during mammalian corpse decomposition.Science2016
27788196Gene Expression Patterns during Light and Dark Infection of Prochlorococcus by Cyanophage.PLoS One2016
27377622A catalogue of 136 microbial draft genomes from Red Sea metagenomes.Sci Data2016
25350156Physiology and evolution of nitrate acquisition in Prochlorococcus.ISME J2015
26116859Selection Maintains Low Genomic GC Content in Marine SAR11 Lineages.Mol Biol Evol2015
24888561Distribution and diversity of Prochlorococcus ecotypes in the Red Sea.FEMS Microbiol Lett2014
23789085Patterns of ecological specialization among microbial populations in the Red Sea and diverse oligotrophic marine environments.Ecol Evol2013
21844365Phage auxiliary metabolic genes and the redirection of cyanobacterial host carbon metabolism.Proc Natl Acad Sci U S A2011
20662890Genomic analysis of oceanic cyanobacterial myoviruses compared with T4-like myoviruses from diverse hosts and environments.Environ Microbiol2010
19352512Choreography of the transcriptome, photophysiology, and cell cycle of a minimal photoautotroph, prochlorococcus.PLoS One2009
16802857Prevalence and evolution of core photosystem II genes in marine cyanobacterial viruses and their hosts.PLoS Biol2006
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Collaborators

Rob Knight
University of California
Co-authored papers 18
Daniel McDonald
University of California San Diego
Co-authored papers 6
Antonio Gonzalez
University of California San Diego School of Medicine
Co-authored papers 6
Pieter C Dorrestein
Co-authored papers 5
Qiyun Zhu
Biodesign Center for Fundamental and Applied Microbiomics, Arizona State University
Co-authored papers 5
Sean M Gibbons
Institute for Systems Biology
Co-authored papers 5
Lynn M Schriml
University of Maryland School of Medicine, Institute for Genome Sciences
Co-authored papers 4
Gregory Humphrey
University of California
Co-authored papers 4
Yoshiki V??zquez-Baeza
Center for Microbiome Innovation, University of California San Diego
Co-authored papers 4
Curtis Huttenhower
Broad Institute of MIT and Harvard
Co-authored papers 4
Stefan Janssen
Co-authored papers 4
Clarisse Marotz
University of California San Diego
Co-authored papers 4
Austin D Swafford
Center for Microbiome Innovation, University of California San Diego
Co-authored papers 4
Joshua Ladau
Lawrence Berkeley National Laboratory
Co-authored papers 4
Jack A Gilbert
Scripps Institution of Oceanography, University of California San Diego
Co-authored papers 3
Nicola Segata
University of Trento
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Dan Knights
University of Minnesota
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Gail Ackermann
University of California San Diego
Co-authored papers 3
Morgan G I Langille
Dalhousie University
Co-authored papers 2
Eric J Alm
Massachusetts Institute of Technology 21 Ames St. Cambridge
Co-authored papers 2
Pavel A Pevzner
University of California
Co-authored papers 2
Lee Ann McCue
Pacific Northwest National Laboratory
Co-authored papers 2
Lorna Richardson
European Bioinformatics Institute (EMBL-EBI)
Co-authored papers 2
Emiley A Eloe-Fadrosh
DOE Joint Genome Institute, Lawrence Berkeley National Laboratory
Co-authored papers 2
Pajau Vangay
University of Minnesota
Co-authored papers 2
Peter J Turnbaugh
University of California san francisco
Co-authored papers 2
Libusha Kelly
Albert Einstein College of Medicine
Co-authored papers 2
Alan K Jarmusch
Co-authored papers 2
Simon Roux
DOE Joint Genome Institute, Lawrence Berkeley National Laboratory
Co-authored papers 2
Stanton L Martin
Oak Ridge National Laboratory
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Release 1.2