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2013
Albertsen M, Hugenholtz P, Skarshewski A, Nielsen KL, Tyson GW, Nielsen PH. Genome sequences of rare, uncultured bacteria obtained by differential coverage binning of multiple metagenomes. Nat Biotechnol. 2013;31(6):533-8. Abstract
Dennis PG, Harnisch F, Yeoh YK, Tyson GW, Rabaey K. Dynamics of cathode-associated microbial communities and metabolite profiles in a glycerol-fed bioelectrochemical system. Appl Environ Microbiol. 2013. Abstract
Bragg LM, Stone G, Butler MK, Hugenholtz P, Tyson GW. Shining a Light on Dark Sequencing: Characterising Errors in Ion Torrent PGM Data. PLoS Comput Biol. 2013;9(4):e1003031. Abstract
Dennis PG, Seymour J, Kumbun K, Tyson GW. Diverse populations of lake water bacteria exhibit chemotaxis towards inorganic nutrients. ISME J. 2013. Abstract
Skennerton CT, Imelfort M, Tyson GW. Crass: identification and reconstruction of CRISPR from unassembled metagenomic data. Nucleic Acids Res. 2013. Abstract
Willner D, Hugenholtz P. From deep sequencing to viral tagging: Recent advances in viral metagenomics. Bioessays. 2013. Abstract
Dennis PG, Guo K, Imelfort M, Jensen P, Tyson GW, Rabaey K. Spatial uniformity of microbial diversity in a continuous bioelectrochemical system. Bioresour Technol. 2013;129:599-605. Abstract
Willner DL, Hugenholtz P, Yerkovich ST, Tan ME, Daly JN, Lachner N, et al. Re-Establishment of Recipient-Associated Microbiota in the Lung Allograft is Linked to Reduced Risk of Bronchiolitis Obliterans Syndrome. Am J Respir Crit Care Med. 2013. Abstract
Bourne DG, Dennis PG, Uthicke S, Soo RM, Tyson GW, Webster N. Coral reef invertebrate microbiomes correlate with the presence of photosymbionts. ISME J. 2013. Abstract
2012
Carvalhais LC, Dennis PG, Tyson GW, Schenk PM. Application of metatranscriptomics to soil environments. J Microbiol Methods. 2012;91(2):246-51. Abstract
Cayford BI, Dennis PG, Keller J, Tyson GW, Bond PL. High-Throughput Amplicon Sequencing Reveals Distinct Communities within a Corroding Concrete Sewer System. Appl Environ Microbiol. 2012;78(19):7160-2. Abstract
Angly FE, Willner D, Rohwer F, Hugenholtz P, Tyson GW. Grinder: a versatile amplicon and shotgun sequence simulator. Nucleic acids research. 2012. Abstract
Bragg L, Stone G, Imelfort M, Hugenholtz P, Tyson GW. Fast, accurate error-correction of amplicon pyrosequences using Acacia. Nat Methods. 2012;9(5):425-6.
Willner D, Daly JN, Whiley D, Grimwood K, Wainwright CE, Hugenholtz P. Comparison of DNA extraction methods for microbial community profiling with an application to pediatric bronchoalveolar lavage samples. PLoS ONE. 2012;7(4):e34605. Abstract
2011
Lee HC, Lai K, Lorenc MT, Imelfort M, Duran C, Edwards D. Bioinformatics tools and databases for analysis of next-generation sequence data. Briefings in functional genomics. 2011. Abstract
Willner D, Haynes MR, Furlan M, Hanson N, Kirby B, Lim YW, et al. Case studies of the spatial heterogeneity of DNA viruses in the cystic fibrosis lung. American journal of respiratory cell and molecular biology. 2011. Abstract
Willner D, Haynes MR, Furlan M, Schmieder R, Lim YW, Rainey PB, et al. Spatial distribution of microbial communities in the cystic fibrosis lung. The ISME journal. 2011. Abstract
Yilmaz P, Kottmann R, Field D, Knight R, Cole JR, Amaral-Zettler L, et al. Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications. Nature biotechnology. 2011;29(5):415-20. Abstract
Reddy AP, Allgaier M, Singer SW, Hazen TC, Simmons BA, Hugenholtz P, et al. Bioenergy feedstock-specific enrichment of microbial populations during high-solids thermophilic deconstruction. Biotechnology and bioengineering. 2011. Abstract
Angly F, Tyson G. [Are divergent viral communities controlling individual gut microbiota?]. Medecine sciences : M/S. 2011;27(3):229-31.
Treangen TJ, Sommer DD, Angly FE, Koren S, Pop M. Next Generation Sequence Assembly with AMOS. Curr Protoc Bioinformatics. 2011;Chapter 11:Unit11.8. Abstract
Skennerton CT, Angly FE, Breitbart M, Bragg L, He S, McMahon KD, et al. Phage Encoded H-NS: A Potential Achilles Heel in the Bacterial Defence System. PLoS ONE. 2011;6(5):e20095. Abstract
Burnum KE, Callister SJ, Nicora CD, Purvine SO, Hugenholtz P, Warnecke F, et al. Proteome insights into the symbiotic relationship between a captive colony of Nasutitermes corniger and its hindgut microbiome. ISME J. 2011;5(1):161-4. Abstract
2012
Carvalhais LC, Dennis PG, Tyson GW, Shenk P. Rhizosphere metatranscriptomics: challenges and opportunities. In: de Bruijn FJ, editor. Molecular Microbial Ecology of the Rhizosphere. New Jersey: Wiley-Blackwell; 2012.
Carvalhais LC, Dennis PG, Tyson GW, Shenk P. Applying metatranscriptomics to soil environments. Journal of Microbiological Methods. 2012;91:246-51.