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Targeted recovery of novel phylogenetic diversity from next-generation sequence data.

Lynch MD, Bartram AK, Neufeld JD. Lynch MD, et al. ISME J. 2012 Nov;6(11):2067-77. doi: 10.1038/ismej.2012.50. Epub 2012 Jul 12. ISME J. 2012. PMID: 22791239 Free PMC article.

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Diversity of basidiomycetes in michigan agricultural soils.

Lynch MD, Thorn RG. Lynch MD, et al. Appl Environ Microbiol. 2006 Nov;72(11):7050-6. doi: 10.1128/AEM.00826-06. Epub 2006 Sep 1. Appl Environ Microbiol. 2006. PMID: 16950900 Free PMC article.

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Generation of multimillion-sequence 16S rRNA gene libraries from complex microbial communities by assembling paired-end illumina reads.

Bartram AK, Lynch MD, Stearns JC, Moreno-Hagelsieb G, Neufeld JD. Bartram AK, et al. Among authors: lynch md. Appl Environ Microbiol. 2011 Jun;77(11):3846-52. doi: 10.1128/AEM.02772-10. Epub 2011 Apr 1. Appl Environ Microbiol. 2011. PMID: 21460107 Free PMC article.

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Prevalence of anaerobic ammonium-oxidizing bacteria in contaminated groundwater.

Moore TA, Xing Y, Lazenby B, Lynch MD, Schiff S, Robertson WD, Timlin R, Lanza S, Ryan MC, Aravena R, Fortin D, Clark ID, Neufeld JD. Moore TA, et al. Among authors: lynch md. Environ Sci Technol. 2011 Sep 1;45(17):7217-25. doi: 10.1021/es201243t. Epub 2011 Aug 11. Environ Sci Technol. 2011. PMID: 21786759

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Bacterial biogeography of the human digestive tract.

Stearns JC, Lynch MD, Senadheera DB, Tenenbaum HC, Goldberg MB, Cvitkovitch DG, Croitoru K, Moreno-Hagelsieb G, Neufeld JD. Stearns JC, et al. Among authors: lynch md. Sci Rep. 2011;1:170. doi: 10.1038/srep00170. Epub 2011 Nov 25. Sci Rep. 2011. PMID: 22355685 Free PMC article.

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AXIOME: automated exploration of microbial diversity.

Lynch MDj, Masella AP, Hall MW, Bartram AK, Neufeld JD. Lynch MDj, et al. Gigascience. 2013 Mar 13;2(1):3. doi: 10.1186/2047-217X-2-3. Gigascience. 2013. PMID: 23587322 Free PMC article.

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Exploring links between pH and bacterial community composition in soils from the Craibstone Experimental Farm.

Bartram AK, Jiang X, Lynch MD, Masella AP, Nicol GW, Dushoff J, Neufeld JD. Bartram AK, et al. Among authors: lynch md. FEMS Microbiol Ecol. 2014 Feb;87(2):403-15. doi: 10.1111/1574-6941.12231. Epub 2013 Oct 25. FEMS Microbiol Ecol. 2014. PMID: 24117982

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Norwegian deep-water coral reefs: cultivation and molecular analysis of planktonic microbial communities.

Jensen S, Lynch MD, Ray JL, Neufeld JD, Hovland M. Jensen S, et al. Among authors: lynch md. Environ Microbiol. 2015 Oct;17(10):3597-609. doi: 10.1111/1462-2920.12531. Epub 2014 Jul 7. Environ Microbiol. 2015. PMID: 24911121

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Evaluating bias of illumina-based bacterial 16S rRNA gene profiles.

Kennedy K, Hall MW, Lynch MD, Moreno-Hagelsieb G, Neufeld JD. Kennedy K, et al. Among authors: lynch md. Appl Environ Microbiol. 2014 Sep;80(18):5717-22. doi: 10.1128/AEM.01451-14. Epub 2014 Jul 7. Appl Environ Microbiol. 2014. PMID: 25002428 Free PMC article.

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Aquatic metagenomes implicate Thaumarchaeota in global cobalamin production.

Doxey AC, Kurtz DA, Lynch MD, Sauder LA, Neufeld JD. Doxey AC, et al. Among authors: lynch md. ISME J. 2015 Feb;9(2):461-71. doi: 10.1038/ismej.2014.142. Epub 2014 Aug 15. ISME J. 2015. PMID: 25126756 Free PMC article.

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