Searching journal content for articles similar to Yoon et al. 23 (11): 1839.

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  1. Research: Methane yield phenotypes linked to differential gene expression in the sheep rumen microbiome
    • Weibing Shi,
    • Christina D. Moon,
    • Sinead C. Leahy,
    • Dongwan Kang,
    • Jeff Froula,
    • Sandra Kittelmann,
    • Christina Fan,
    • Samuel Deutsch,
    • Dragana Gagic,
    • Henning Seedorf,
    • William J. Kelly,
    • Renee Atua,
    • Carrie Sang,
    • Priya Soni,
    • Dong Li,
    • Cesar S. Pinares-Patiño,
    • John C. McEwan,
    • Peter H. Janssen,
    • Feng Chen,
    • Axel Visel,
    • Zhong Wang,
    • Graeme T. Attwood,
    • and Edward M. Rubin
    Genome Res. September 2014 24: 1517-1525; Published in Advance June 6, 2014, doi:10.1101/gr.168245.113
    ...of functionally relevant methanogenesis genes, three major methanogenesis pathways were examined: the predominant CO2/H2 pathway (Fig. 3A) of hydrogenotrophic methanogens, as well as the alternative aceticlastic and methylotrophic pathways, which have genes in common with other nonmethanogenic pathways...
  2. Research: Parallel evolution of transcriptome architecture during genome reorganization
    • Sung Ho Yoon,
    • David J. Reiss,
    • J. Christopher Bare,
    • Dan Tenenbaum,
    • Min Pan,
    • Joseph Slagel,
    • Robert L. Moritz,
    • Sujung Lim,
    • Murray Hackett,
    • Angeli Lal Menon,
    • Michael W.W. Adams,
    • Adam Barnebey,
    • Steven M. Yannone,
    • John A. Leigh,
    • and Nitin S. Baliga
    Genome Res. November 2011 21: 1892-1904; Published in Advance July 12, 2011, doi:10.1101/gr.122218.111
    ...NRC-1), a hydrogenotrophic methanogen ( Methanococcus maripaludis S2), an acidophilic and aerobic thermophile ( Sulfolobus solfataricus P2), and an anaerobic hyperthermophile ( Pyrococcus furiosus DSM 3638). We demonstrate how the evolution of transcriptional elements (promoters and terminators...
  3. ARTICLE: The Genome of M. acetivorans Reveals Extensive Metabolic and Physiological Diversity
    • James E. Galagan,
    • Chad Nusbaum,
    • Alice Roy,
    • Matthew G. Endrizzi,
    • Pendexter Macdonald,
    • Will FitzHugh,
    • Sarah Calvo,
    • Reinhard Engels,
    • Serge Smirnov,
    • Deven Atnoor,
    • Adam Brown,
    • Nicole Allen,
    • Jerome Naylor,
    • Nicole Stange-Thomann,
    • Kurt DeArellano,
    • Robin Johnson,
    • Lauren Linton,
    • Paul McEwan,
    • Kevin McKernan,
    • Jessica Talamas,
    • Andrea Tirrell,
    • Wenjuan Ye,
    • Andrew Zimmer,
    • Robert D. Barber,
    • Isaac Cann,
    • David E. Graham,
    • David A. Grahame,
    • Adam M. Guss,
    • Reiner Hedderich,
    • Cheryl Ingram-Smith,
    • H. Craig Kuettner,
    • Joseph A. Krzycki,
    • John A. Leigh,
    • Weixi Li,
    • Jinfeng Liu,
    • Biswarup Mukhopadhyay,
    • John N. Reeve,
    • Kerry Smith,
    • Timothy A. Springer,
    • Lowell A. Umayam,
    • Owen White,
    • Robert H. White,
    • Everly Conway de Macario,
    • James G. Ferry,
    • Ken F. Jarrell,
    • Hua Jing,
    • Alberto J.L. Macario,
    • Ian Paulsen,
    • Matthew Pritchett,
    • Kevin R. Sowers,
    • Ronald V. Swanson,
    • Steven H. Zinder,
    • Eric Lander,
    • William W. Metcalf,
    • and Bruce Birren
    Genome Res. April 1, 2002 12: 532-542; doi:10.1101/gr.223902
    ...in M. acetivorans , whereas both are present in M. barkeri , which is capable of methanogenesis using H 2 /CO 2 . The presence of these two genes in hydrogen-utilizing methanogens, and their absence in M. acetivorans , provides compelling evidence for their roles in hydrogenotrophic methanogenesis...
  4. Method: Detecting differential growth of microbial populations with Gaussian process regression
    • Peter D. Tonner,
    • Cynthia L. Darnell,
    • Barbara E. Engelhardt,
    • and Amy K. Schmid
    Genome Res. February 2017 27: 320-333; Published in Advance November 18, 2016, doi:10.1101/gr.210286.116
    ...architecture and function in response to stress (Schmid et al. 2009, 2011; Todor et al. 2013, 2014; Tonner et al. 2015). A gene regulatory network inferred from transcriptomic data predicts that over 70 transcription factors (TFs)may regulate genes whose products adjust physiology and repair damage incurred...
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