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Madhavan T.PVipin, Steen J.A, Hugenholtz P., Sakellaris H..  2014.  Genome Sequence of Enterotoxigenic Escherichia coli Strain B2C. Genome Announcements. 2(2):e00247-14-e00247-14.
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.
Cao MDuc, Tasker E, Willadsen K, Imelfort M, Vishwanathan S, Sureshkumar S, Balasubramanian S, Bodén M.  2014.  Inferring short tandem repeat variation from paired-end short reads.. Nucleic acids research. 42:e16.
Vanwonterghem I, Jensen PD, Ho DP, Batstone DJ, Tyson GW.  2014.  Linking microbial community structure, interactions and function in anaerobic digesters using new molecular techniques.. Current opinion in biotechnology. 27C:55-64.
Bragg L, Tyson GW.  2014.  Metagenomics using next-generation sequencing.. Methods in molecular biology (Clifton, N.J.). 1096:183-201.
McCalley CK, Woodcroft B.J., Hodgkins SB, Wehr RA, Kim E-H, Mondav R, Crill PM, Chanton JP, Rich VI, Tyson GW et al..  2014.  Methane dynamics regulated by microbial community response to permafrost thaw.. Nature. 514:478-81.
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.
Carvalhais LC, Dennis PG, Badri DV, Tyson GW, Vivanco JM, Schenk PM.  2013.  Activation of the Jasmonic Acid Plant Defence Pathway Alters the Composition of Rhizosphere Bacterial Communities. PLoS ONE. 8(2):e56457.
Haroon MF, Hu S, Shi Y, Imelfort M, Keller J, Hugenholtz P, Yuan Z, Tyson GW.  2013.  Anaerobic oxidation of methane coupled to nitrate reduction in a novel archaeal lineage.. Nature.
Haroon MF, Hu S, Shi Y, Imelfort M, Keller J, Hugenholtz P, Yuan Z, Tyson GW.  2013.  Anaerobic oxidation of methane coupled to nitrate reduction in a novel archaeal lineage. Nature. 500(7464):567-570.
Flowers JJ, He S, Malfatti S, Del Rio TGlavina, Tringe SG, Hugenholtz P, McMahon KD.  2013.  Comparative genomics of two ‘Candidatus Accumulibacter’ clades performing biological phosphorus removal. The ISME Journal. 7(12):2301-2314.
Stackebrandt E, Zeytun A, Lapidus A, Nolan M, Lucas S, Hammon N, Deshpande S, Cheng J-F, Tapia R, Goodwin LA et al..  2013.  Complete genome sequence of Coriobacterium glomerans type strain (PW2T) from the midgut of Pyrrhocoris apterus L. (red soldier bug). Standards in Genomic Sciences. 8(1):15-25.
Liolos K, Abt B, Scheuner C, Teshima H, Held B, Lapidus A, Nolan M, Lucas S, Deshpande S, Cheng J-F et al..  2013.  Complete genome sequence of the halophilic bacterium Spirochaeta africana type strain (Z-7692T) from the alkaline Lake Magadi in the East African Rift. Standards in Genomic Sciences. 8(2):165-176.
Mavromatis K, Stackebrandt E, Held B, Lapidus A, Nolan M, Lucas S, Hammon N, Deshpande S, Cheng J-F, Tapia R et al..  2013.  Complete genome sequence of the moderate thermophile Anaerobaculum mobile type strain (NGAT). Standards in Genomic Sciences. 8(1):47-57.
Deng L., Gregory A., Yilmaz S., Poulos B.T, Hugenholtz P., Sullivan M.B.  2013.  Contrasting Life Strategies of Viruses that Infect Photo- and Heterotrophic Bacteria, as Revealed by Viral Tagging. mBio. 3(6):e00373-12-e00373-12.
Bourne DG, Dennis PG, Uthicke S, Soo RM, Tyson GW, Webster N.  2013.  Coral reef invertebrate microbiomes correlate with the presence of photosymbionts. The ISME Journal. 7(7):1452-1458.
Skennerton CT, Imelfort M, Tyson GW.  2013.  Crass: identification and reconstruction of CRISPR from unassembled metagenomic data.. Nucleic acids research.
Braff WA, Willner D, Hugenholtz P, Rabaey K, Buie CR.  2013.  Dielectrophoresis-based discrimination of bacteria at the strain level based on their surface properties.. PloS one. 8:e76751.



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