Found 185 results
Filters: Author is Hugenholtz, Philip  [Clear All Filters]
2015
Soo RM, Woodcroft B.J., Parks DH, Tyson GW, Hugenholtz P.  2015.  Back from the dead; the curious tale of the predatory cyanobacterium Vampirovibrio chlorellavorus.. PeerJ. 3:e968.
Parks DH, Imelfort M, Skennerton CT, Hugenholtz P, Tyson GW.  2015.  CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes.. Genome research.
Wang JTH, Daly JN, Willner DL, Patil J, Hall RA, Schembri MA, Tyson GW, Hugenholtz P.  2015.  Do you kiss your mother with that mouth? An authentic large-scale undergraduate research experience in mapping the human oral microbiome. Journal of microbiology & biology education. 16:50-60.
Sekiguchi Y, Ohashi A, Parks DH, Yamauchi T, Tyson GW, Hugenholtz P.  2015.  First genomic insights into members of a candidate bacterial phylum responsible for wastewater bulking.. PeerJ. 3:e740.
Whitman WB, Woyke T, Klenk H-P, Zhou Y, Lilburn TG, Beck BJ, De Vos P, Vandamme P, Eisen JA, Garrity G et al..  2015.  Genomic Encyclopedia of Bacterial and Archaeal Type Strains, Phase III: the genomes of soil and plant-associated and newly described type strains. Standards in Genomic Sciences. 10(1)
Rahman NAbdul, Parks DH, Willner DL, Engelbrektson AL, Goffredi SK, Warnecke F, Scheffrahn RH, Hugenholtz P.  2015.  A molecular survey of Australian and North American termite genera indicates that vertical inheritance is the primary force shaping termite gut microbiomes.. Microbiome. 3:5.
Paungfoo-Lonhienne C, Yeoh YKit, Kasinadhuni NRup Pinaki, Lonhienne TGA, Robinson N, Hugenholtz P, Ragan MA, Schmidt S.  2015.  Nitrogen fertilizer dose alters fungal communities in sugarcane soil and rhizosphere.. Scientific reports. 5:8678.
2014
Angly FE, Dennis PG, Skarshewski A, Vanwonterghem I, Hugenholtz P, Tyson GW.  2014.  CopyRighter: a rapid tool for improving the accuracy of microbial community profiles through lineage-specific gene copy number correction.. Microbiome. 2:11.
Vanwonterghem I, Jensen PD, Dennis PG, Hugenholtz P, Rabaey K, Tyson GW.  2014.  Deterministic processes guide long-term synchronised population dynamics in replicate anaerobic digesters.. The ISME journal.
Mondav R, Woodcroft B.J., Kim E-H, McCalley CK, Hodgkins SB, Crill PM, Chanton J, Hurst GB, Verberkmoes NC, Saleska SR et al..  2014.  Discovery of a novel methanogen prevalent in thawing permafrost.. Nature communications. 5:3212.
Clingenpeel S, Schwientek P, Hugenholtz P, Woyke T.  2014.  Effects of sample treatments on genome recovery via single-cell genomics. The ISME Journal. 8(12):2546-2549.
Soo RM, Skennerton CT, Sekiguchi Y, Imelfort M, Paech SJ, Dennis PG, Steen JA, Parks DH, Tyson GW, Hugenholtz P.  2014.  An Expanded Genomic Representation of the Phylum Cyanobacteria.. Genome biology and evolution.
Göker M, Lu M, Fiebig A, Nolan M, Lapidus A, Tice H, Del Rio TGlavina, Cheng J-F, Han C, Tapia R et al..  2014.  Genome sequence of the mud-dwelling archaeon Methanoplanus limicola type strain (DSM 2279T), reclassification of Methanoplanus petrolearius as Methanolacinia petrolearia and emended descriptions of the genera Methanoplanus and Methanolacinia. Standards in Genomic Sciences. 9(3):1076-1088.
Göker M, Spring S, Scheuner C, Anderson I, Zeytun A, Nolan M, Lucas S, Tice H, Del Rio TGlavina, Cheng J-F et al..  2014.  Genome sequence of the Thermotoga thermarum type strain (LA3T) from an African solfataric spring. Standards in Genomic Sciences. 9(3):1105-1117.
Kyrpides NC, Hugenholtz P, Eisen JA, Woyke T, Göker M, Parker CT, Amann R, Beck BJ, Chain PSG, Chun J et al..  2014.  Genomic Encyclopedia of Bacteria and Archaea: Sequencing a Myriad of Type Strains. PLoS Biology. 12(8):e1001920.
Imelfort M, Parks DH, Woodcroft B.J., Dennis P, Hugenholtz P, Tyson GW.  2014.  GroopM: an automated tool for the recovery of population genomes from related metagenomes.. PeerJ. 2:e603.
Paungfoo-Lonhienne C, Lonhienne TGA, Yeoh YKit, Webb RI, Lakshmanan P, Chan CXin, Lim P-E, Ragan MA, Schmidt S, Hugenholtz P.  2014.  A new species of Burkholderia isolated from sugarcane roots promotes plant growth.. Microbial biotechnology. 7:142-54.
Willner D, Low S, Steen JA, George N, Nimmo GR, Schembri MA, Hugenholtz P.  2014.  Single clinical isolates from acute uncomplicated urinary tract infections are representative of dominant in situ populations.. mBio. 5
Parks DH, Tyson GW, Hugenholtz P, Beiko RG.  2014.  STAMP: statistical analysis of taxonomic and functional profiles.. Bioinformatics (Oxford, England).
Deng L, J. Ignacio-Espinoza C, Gregory AC, Poulos BT, Weitz JS, Hugenholtz P, Sullivan MB.  2014.  Viral tagging reveals discrete populations in Synechococcus viral genome sequence space. Nature. 513(7517):242-245.
Lonhienne T, Mason MG, Ragan MA, Hugenholtz P, Schmidt S, Paungfoo-Lonhienne C.  2014.  Yeast as a Biofertilizer Alters Plant Growth and Morphology. Crop Science. 54(2):785.

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