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Items: 38

1.

A Metagenomic Meta-analysis Reveals Functional Signatures of Health and Disease in the Human Gut Microbiome.

Armour CR, Nayfach S, Pollard KS, Sharpton TJ.

mSystems. 2019 May 14;4(4). pii: e00332-18. doi: 10.1128/mSystems.00332-18.

2.

A Metagenomic Meta-analysis Reveals Functional Signatures of Health and Disease in the Human Gut Microbiome.

Armour CR, Nayfach S, Pollard KS, Sharpton TJ.

mSystems. 2019 May 14;4(4). pii: e00332-18. doi: 10.1128/mSystems.00332-18. eCollection 2019 Jul-Aug.

3.

Combined Genomic, Transcriptomic, Proteomic, and Physiological Characterization of the Growth of Pecoramyces sp. F1 in Monoculture and Co-culture With a Syntrophic Methanogen.

Li Y, Li Y, Jin W, Sharpton TJ, Mackie RI, Cann I, Cheng Y, Zhu W.

Front Microbiol. 2019 Mar 6;10:435. doi: 10.3389/fmicb.2019.00435. eCollection 2019.

4.

A longitudinal assessment of host-microbe-parasite interactions resolves the zebrafish gut microbiome's link to Pseudocapillaria tomentosa infection and pathology.

Gaulke CA, Martins ML, Watral VG, Humphreys IR, Spagnoli ST, Kent ML, Sharpton TJ.

Microbiome. 2019 Jan 24;7(1):10. doi: 10.1186/s40168-019-0622-9.

5.

The gut microbiome correlates with conspecific aggression in a small population of rescued dogs (Canis familiaris).

Kirchoff NS, Udell MAR, Sharpton TJ.

PeerJ. 2019 Jan 9;7:e6103. doi: 10.7717/peerj.6103. eCollection 2019.

6.

Marginal Zinc Deficiency and Environmentally Relevant Concentrations of Arsenic Elicit Combined Effects on the Gut Microbiome.

Gaulke CA, Rolshoven J, Wong CP, Hudson LG, Ho E, Sharpton TJ.

mSphere. 2018 Dec 5;3(6). pii: e00521-18. doi: 10.1128/mSphere.00521-18.

7.

Pseudocapillaria tomentosa in laboratory zebrafish Danio rerio: patterns of infection and dose response.

Kent ML, Gaulke CA, Watral V, Sharpton TJ.

Dis Aquat Organ. 2018 Nov 6;131(2):121-131. doi: 10.3354/dao03286.

8.

The influence of ethnicity and geography on human gut microbiome composition.

Gaulke CA, Sharpton TJ.

Nat Med. 2018 Oct;24(10):1495-1496. doi: 10.1038/s41591-018-0210-8. No abstract available.

PMID:
30275567
9.

Ecophylogenetics Clarifies the Evolutionary Association between Mammals and Their Gut Microbiota.

Gaulke CA, Arnold HK, Humphreys IR, Kembel SW, O'Dwyer JP, Sharpton TJ.

MBio. 2018 Sep 11;9(5). pii: e01348-18. doi: 10.1128/mBio.01348-18.

10.

Effects of Sub-Chronic MPTP Exposure on Behavioral and Cognitive Performance and the Microbiome of Wild-Type and mGlu8 Knockout Female and Male Mice.

Torres ERS, Akinyeke T, Stagaman K, Duvoisin RM, Meshul CK, Sharpton TJ, Raber J.

Front Behav Neurosci. 2018 Jul 18;12:140. doi: 10.3389/fnbeh.2018.00140. eCollection 2018.

11.

Role of the Gut Microbiome in Vertebrate Evolution.

Sharpton TJ.

mSystems. 2018 Mar 20;3(2). pii: e00174-17. doi: 10.1128/mSystems.00174-17. eCollection 2018 Mar-Apr.

12.

Allelic Variation in a Single Genomic Region Alters the Microbiome of the Snail Biomphalaria glabrata.

Allan ERO, Tennessen JA, Sharpton TJ, Blouin MS.

J Hered. 2018 Jun 27;109(5):604-609. doi: 10.1093/jhered/esy014.

13.

Progressive Colonization of Bacteria and Degradation of Rice Straw in the Rumen by Illumina Sequencing.

Cheng Y, Wang Y, Li Y, Zhang Y, Liu T, Wang Y, Sharpton TJ, Zhu W.

Front Microbiol. 2017 Nov 6;8:2165. doi: 10.3389/fmicb.2017.02165. eCollection 2017.

14.

Transmission of a common intestinal neoplasm in zebrafish by cohabitation.

Burns AR, Watral V, Sichel S, Spagnoli S, Banse AV, Mittge E, Sharpton TJ, Guillemin K, Kent ML.

J Fish Dis. 2018 Apr;41(4):569-579. doi: 10.1111/jfd.12743. Epub 2017 Oct 11.

15.

Draft Genome Sequence of Pseudomonas sp. Strain DrBHI1 (Phylum Proteobacteria).

Wilson AK, Watral VG, Kent ML, Sharpton TJ, Gaulke CA.

Genome Announc. 2017 Sep 28;5(39). pii: e01090-17. doi: 10.1128/genomeA.01090-17.

16.

Metacoder: An R package for visualization and manipulation of community taxonomic diversity data.

Foster ZS, Sharpton TJ, Gr├╝nwald NJ.

PLoS Comput Biol. 2017 Feb 21;13(2):e1005404. doi: 10.1371/journal.pcbi.1005404. eCollection 2017 Feb.

17.

Increasing dietary nitrate has no effect on cancellous bone loss or fecal microbiome in ovariectomized rats.

Conley MN, Roberts C, Sharpton TJ, Iwaniec UT, Hord NG.

Mol Nutr Food Res. 2017 May;61(5). doi: 10.1002/mnfr.201600372. Epub 2017 Mar 30.

18.

Triclosan Exposure Is Associated with Rapid Restructuring of the Microbiome in Adult Zebrafish.

Gaulke CA, Barton CL, Proffitt S, Tanguay RL, Sharpton TJ.

PLoS One. 2016 May 18;11(5):e0154632. doi: 10.1371/journal.pone.0154632. eCollection 2016.

19.

Aging and serum MCP-1 are associated with gut microbiome composition in a murine model.

Conley MN, Wong CP, Duyck KM, Hord N, Ho E, Sharpton TJ.

PeerJ. 2016 Mar 31;4:e1854. doi: 10.7717/peerj.1854. eCollection 2016.

20.

Effects of Subclinical Mycobacterium chelonae Infections on Fecundity and Embryo Survival in Zebrafish.

Kent ML, Watral VG, Kirchoff NS, Spagnoli ST, Sharpton TJ.

Zebrafish. 2016 Jul;13 Suppl 1:S88-95. doi: 10.1089/zeb.2015.1204. Epub 2016 Mar 31.

21.

Automated and Accurate Estimation of Gene Family Abundance from Shotgun Metagenomes.

Nayfach S, Bradley PH, Wyman SK, Laurent TJ, Williams A, Eisen JA, Pollard KS, Sharpton TJ.

PLoS Comput Biol. 2015 Nov 13;11(11):e1004573. doi: 10.1371/journal.pcbi.1004573. eCollection 2015 Nov.

22.

Modeling the Context-Dependent Associations between the Gut Microbiome, Its Environment, and Host Health.

Sharpton TJ, Gaulke CA.

MBio. 2015 Sep 8;6(5):e01367-15. doi: 10.1128/mBio.01367-15.

23.

Backbones of evolutionary history test biodiversity theory for microbes.

O'Dwyer JP, Kembel SW, Sharpton TJ.

Proc Natl Acad Sci U S A. 2015 Jul 7;112(27):8356-61. doi: 10.1073/pnas.1419341112. Epub 2015 Jun 23. Erratum in: Proc Natl Acad Sci U S A. 2015 Nov 24;112(47):E6589.

24.

Metagenome sequence of Elaphomyces granulatus from sporocarp tissue reveals Ascomycota ectomycorrhizal fingerprints of genome expansion and a Proteobacteria-rich microbiome.

Quandt CA, Kohler A, Hesse CN, Sharpton TJ, Martin F, Spatafora JW.

Environ Microbiol. 2015 Aug;17(8):2952-68. doi: 10.1111/1462-2920.12840. Epub 2015 Apr 22.

25.

Profile hidden Markov models for the detection of viruses within metagenomic sequence data.

Skewes-Cox P, Sharpton TJ, Pollard KS, DeRisi JL.

PLoS One. 2014 Aug 20;9(8):e105067. doi: 10.1371/journal.pone.0105067. eCollection 2014.

26.

An introduction to the analysis of shotgun metagenomic data.

Sharpton TJ.

Front Plant Sci. 2014 Jun 16;5:209. doi: 10.3389/fpls.2014.00209. eCollection 2014. Review.

27.

Post-mortem sporulation of Ceratomyxa shasta (Myxozoa) after death in adult Chinook salmon.

Kent ML, Soderlund K, Thomann E, Schreck CB, Sharpton TJ.

J Parasitol. 2014 Oct;100(5):679-83. doi: 10.1645/13-490.1. Epub 2014 Apr 11.

PMID:
24725089
28.

Exome capture from saliva produces high quality genomic and metagenomic data.

Kidd JM, Sharpton TJ, Bobo D, Norman PJ, Martin AR, Carpenter ML, Sikora M, Gignoux CR, Nemat-Gorgani N, Adams A, Guadalupe M, Guo X, Feng Q, Li Y, Liu X, Parham P, Hoal EG, Feldman MW, Pollard KS, Wall JD, Bustamante CD, Henn BM.

BMC Genomics. 2014 Apr 4;15:262. doi: 10.1186/1471-2164-15-262.

29.

A taxonomic signature of obesity in the microbiome? Getting to the guts of the matter.

Finucane MM, Sharpton TJ, Laurent TJ, Pollard KS.

PLoS One. 2014 Jan 8;9(1):e84689. doi: 10.1371/journal.pone.0084689. eCollection 2014.

30.

Global marine bacterial diversity peaks at high latitudes in winter.

Ladau J, Sharpton TJ, Finucane MM, Jospin G, Kembel SW, O'Dwyer J, Koeppel AF, Green JL, Pollard KS.

ISME J. 2013 Sep;7(9):1669-77. doi: 10.1038/ismej.2013.37. Epub 2013 Mar 21. Erratum in: ISME J.2013 Sep;7(9)1876.

31.

Sifting through genomes with iterative-sequence clustering produces a large, phylogenetically diverse protein-family resource.

Sharpton TJ, Jospin G, Wu D, Langille MG, Pollard KS, Eisen JA.

BMC Bioinformatics. 2012 Oct 13;13:264. doi: 10.1186/1471-2105-13-264.

32.

Comparative transcriptomics of the saprobic and parasitic growth phases in Coccidioides spp.

Whiston E, Zhang Wise H, Sharpton TJ, Jui G, Cole GT, Taylor JW.

PLoS One. 2012;7(7):e41034. doi: 10.1371/journal.pone.0041034. Epub 2012 Jul 20.

33.

Novel bacterial taxa in the human microbiome.

Wylie KM, Truty RM, Sharpton TJ, Mihindukulasuriya KA, Zhou Y, Gao H, Sodergren E, Weinstock GM, Pollard KS.

PLoS One. 2012;7(6):e35294. doi: 10.1371/journal.pone.0035294. Epub 2012 Jun 13.

34.

PhylOTU: a high-throughput procedure quantifies microbial community diversity and resolves novel taxa from metagenomic data.

Sharpton TJ, Riesenfeld SJ, Kembel SW, Ladau J, O'Dwyer JP, Green JL, Eisen JA, Pollard KS.

PLoS Comput Biol. 2011 Jan 20;7(1):e1001061. doi: 10.1371/journal.pcbi.1001061.

35.

Population genomic sequencing of Coccidioides fungi reveals recent hybridization and transposon control.

Neafsey DE, Barker BM, Sharpton TJ, Stajich JE, Park DJ, Whiston E, Hung CY, McMahan C, White J, Sykes S, Heiman D, Young S, Zeng Q, Abouelleil A, Aftuck L, Bessette D, Brown A, FitzGerald M, Lui A, Macdonald JP, Priest M, Orbach MJ, Galgiani JN, Kirkland TN, Cole GT, Birren BW, Henn MR, Taylor JW, Rounsley SD.

Genome Res. 2010 Jul;20(7):938-46. doi: 10.1101/gr.103911.109. Epub 2010 Jun 1.

36.

Comparative genomic analyses of the human fungal pathogens Coccidioides and their relatives.

Sharpton TJ, Stajich JE, Rounsley SD, Gardner MJ, Wortman JR, Jordar VS, Maiti R, Kodira CD, Neafsey DE, Zeng Q, Hung CY, McMahan C, Muszewska A, Grynberg M, Mandel MA, Kellner EM, Barker BM, Galgiani JN, Orbach MJ, Kirkland TN, Cole GT, Henn MR, Birren BW, Taylor JW.

Genome Res. 2009 Oct;19(10):1722-31. doi: 10.1101/gr.087551.108. Epub 2009 Aug 28.

37.

Mechanisms of intron gain and loss in Cryptococcus.

Sharpton TJ, Neafsey DE, Galagan JE, Taylor JW.

Genome Biol. 2008 Jan 30;9(1):R24. doi: 10.1186/gb-2008-9-1-r24.

38.

Leveraging the knowledge of our peers: online communities hold the promise to enhance scientific research.

Sharpton TJ, Jhaveri AA.

PLoS Biol. 2006 Jun;4(6):e199. Epub 2006 Jun 13. No abstract available.

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