Susannah G Tringe

Summary

Affiliation: Lawrence Berkeley National Laboratory
Country: USA

Publications

  1. pmc Differences in sequencing technologies improve the retrieval of anammox bacterial genome from metagenomes
    Fabio Gori
    Radboud University Nijmegen, Institute for Computing and Information Science, Heyendaalseweg 135, 6525 AJ Nijmegen, The Netherlands
    BMC Genomics 14:7. 2013
  2. pmc Bioprospecting metagenomics of decaying wood: mining for new glycoside hydrolases
    Luen Luen Li
    Brookhaven National Laboratory, Upton, NY, USA
    Biotechnol Biofuels 4:23. 2011
  3. doi request reprint A renaissance for the pioneering 16S rRNA gene
    Susannah G Tringe
    DOE Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA 94598, USA
    Curr Opin Microbiol 11:442-6. 2008
  4. pmc High-resolution phylogenetic microbial community profiling
    Esther Singer
    US Department of Energy, Joint Genome Institute, Walnut Creek, CA, USA
    ISME J 10:2020-32. 2016
  5. pmc Plant compartment and biogeography affect microbiome composition in cultivated and native Agave species
    Devin Coleman-Derr
    Department of Energy, Joint Genome Institute, Walnut Creek, CA, 94598, USA
    New Phytol 209:798-811. 2016
  6. pmc Impact of library preparation protocols and template quantity on the metagenomic reconstruction of a mock microbial community
    Robert M Bowers
    Microbial Genomics Program Lead, DOE Joint Genome Institute, 2800 Mitchell Dr, Walnut Creek, CA, USA
    BMC Genomics 16:856. 2015
  7. pmc Comparative analyses of foregut and hindgut bacterial communities in hoatzins and cows
    Filipa Godoy-Vitorino
    Department of Biology, University of Puerto Rico, Rio Piedras, San Juan, Puerto Rico
    ISME J 6:531-41. 2012
  8. doi request reprint Validation of two ribosomal RNA removal methods for microbial metatranscriptomics
    Shaomei He
    Department of Energy Joint Genome Institute, Walnut Creek, California, USA
    Nat Methods 7:807-12. 2010
  9. doi request reprint Metagenomic discovery of biomass-degrading genes and genomes from cow rumen
    Matthias Hess
    Department of Energy, Joint Genome Institute, Walnut Creek, CA 94598, USA
    Science 331:463-7. 2011

Collaborators

  • Philip Hugenholtz
  • Axel Visel
  • Feng Chen
  • Roderick I Mackie
  • Eoin L Brodie
  • Tao Zhang
  • Rotem Sorek
  • Matthias Hess
  • Zhong Wang
  • Devin Coleman-Derr
  • Tanja Woyke
  • Robert M Bowers
  • Esther Singer
  • Jan Fang Cheng
  • Fabio Gori
  • Kanwar Singh
  • Filipa Godoy-Vitorino
  • Luen Luen Li
  • Shaomei He
  • Hans Peter Klenk
  • Scott Clingenpeel
  • Alex Copeland
  • Steven J Hallam
  • Brett Bowman
  • Laila P Partida-Martinez
  • Brian Bushnell
  • Stephen Gross
  • Asaf Levy
  • Damaris Desgarennes
  • Esther A Gies
  • Gretchen North
  • Citlali Fonseca-GarcĂ­a
  • Hope Tice
  • Alicia Clum
  • Doina Ciobanu
  • Joanne Lim
  • Chew Yee Ngan
  • Huub J M Op den Camp
  • Sacha A F T van Hijum
  • Gianluigi Folino
  • Mike S M Jetten
  • Elena Marchiori
  • Maria A Garcia-Amado
  • Katherine C Goldfarb
  • Ulas Karaoz
  • Sara Leal
  • Maria Gloria Dominguez-Bello
  • Daniel Van Der Lelie
  • Colleen Drinkwater
  • William S Adney
  • Safiyh Taghavi
  • Sean M McCorkle
  • Roman Brunecky
  • DAVID A MEAD
  • PHILLIP BRUMM
  • Michael E Himmel
  • Yian Biao Zhang
  • Michael G Blewitt
  • Jeff L Froula
  • Suzan Yilmaz
  • Omri Wurtzel
  • Erika A Lindquist

Detail Information

Publications9

  1. pmc Differences in sequencing technologies improve the retrieval of anammox bacterial genome from metagenomes
    Fabio Gori
    Radboud University Nijmegen, Institute for Computing and Information Science, Heyendaalseweg 135, 6525 AJ Nijmegen, The Netherlands
    BMC Genomics 14:7. 2013
    ..fulgida). These datasets were obtained using Roche 454 FLX and Sanger sequencing with two different libraries (shotgun and fosmid)...
  2. pmc Bioprospecting metagenomics of decaying wood: mining for new glycoside hydrolases
    Luen Luen Li
    Brookhaven National Laboratory, Upton, NY, USA
    Biotechnol Biofuels 4:23. 2011
    ..Our goal was to discover and characterize new glycoside hydrolases (GHases) from microbial biomass decay communities, especially those from unknown or never previously cultivated microorganisms...
  3. doi request reprint A renaissance for the pioneering 16S rRNA gene
    Susannah G Tringe
    DOE Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA 94598, USA
    Curr Opin Microbiol 11:442-6. 2008
    ..The standard conclusion that microbial ecosystems are remarkably complex and diverse is now being replaced by detailed insights into microbial ecology and evolution based only on this one historically important marker gene...
  4. pmc High-resolution phylogenetic microbial community profiling
    Esther Singer
    US Department of Energy, Joint Genome Institute, Walnut Creek, CA, USA
    ISME J 10:2020-32. 2016
    ..Thus, PhyloTags provide a reliable adjunct or alternative to cost-effective iTags, enabling more accurate phylogenetic resolution of microbial communities and predictions on their metabolic potential. ..
  5. pmc Plant compartment and biogeography affect microbiome composition in cultivated and native Agave species
    Devin Coleman-Derr
    Department of Energy, Joint Genome Institute, Walnut Creek, CA, 94598, USA
    New Phytol 209:798-811. 2016
    ..Agaves shared core prokaryotic and fungal taxa known to promote plant growth and confer tolerance to abiotic stress, which suggests common principles underpinning Agave-microbe interactions. ..
  6. pmc Impact of library preparation protocols and template quantity on the metagenomic reconstruction of a mock microbial community
    Robert M Bowers
    Microbial Genomics Program Lead, DOE Joint Genome Institute, 2800 Mitchell Dr, Walnut Creek, CA, USA
    BMC Genomics 16:856. 2015
    ..Until recently, one of the major bottlenecks of shotgun metagenomics has been the requirement for large initial DNA template quantities during library preparation...
  7. pmc Comparative analyses of foregut and hindgut bacterial communities in hoatzins and cows
    Filipa Godoy-Vitorino
    Department of Biology, University of Puerto Rico, Rio Piedras, San Juan, Puerto Rico
    ISME J 6:531-41. 2012
    ..Regardless of the independent origin of foregut fermentation in birds and mammals, organ function has led to convergence of the microbial community structure in phylogenetically distant hosts...
  8. doi request reprint Validation of two ribosomal RNA removal methods for microbial metatranscriptomics
    Shaomei He
    Department of Energy Joint Genome Institute, Walnut Creek, California, USA
    Nat Methods 7:807-12. 2010
    ..Illumina sequencing itself also can compromise quantitative data analysis by introducing a G+C bias between runs...
  9. doi request reprint Metagenomic discovery of biomass-degrading genes and genomes from cow rumen
    Matthias Hess
    Department of Energy, Joint Genome Institute, Walnut Creek, CA 94598, USA
    Science 331:463-7. 2011
    ..These data sets provide a substantially expanded catalog of genes and genomes participating in the deconstruction of cellulosic biomass...