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Results: 1 to 20 of 44

1.

The Marine Microbial Eukaryote Transcriptome Sequencing Project (MMETSP): illuminating the functional diversity of eukaryotic life in the oceans through transcriptome sequencing.

Keeling PJ, Burki F, Wilcox HM, Allam B, Allen EE, Amaral-Zettler LA, Armbrust EV, Archibald JM, Bharti AK, Bell CJ, Beszteri B, Bidle KD, Cameron CT, Campbell L, Caron DA, Cattolico RA, Collier JL, Coyne K, Davy SK, Deschamps P, Dyhrman ST, Edvardsen B, Gates RD, Gobler CJ, Greenwood SJ, Guida SM, Jacobi JL, Jakobsen KS, James ER, Jenkins B, John U, Johnson MD, Juhl AR, Kamp A, Katz LA, Kiene R, Kudryavtsev A, Leander BS, Lin S, Lovejoy C, Lynn D, Marchetti A, McManus G, Nedelcu AM, Menden-Deuer S, Miceli C, Mock T, Montresor M, Moran MA, Murray S, Nadathur G, Nagai S, Ngam PB, Palenik B, Pawlowski J, Petroni G, Piganeau G, Posewitz MC, Rengefors K, Romano G, Rumpho ME, Rynearson T, Schilling KB, Schroeder DC, Simpson AG, Slamovits CH, Smith DR, Smith GJ, Smith SR, Sosik HM, Stief P, Theriot E, Twary SN, Umale PE, Vaulot D, Wawrik B, Wheeler GL, Wilson WH, Xu Y, Zingone A, Worden AZ.

PLoS Biol. 2014 Jun 24;12(6):e1001889. doi: 10.1371/journal.pbio.1001889. eCollection 2014 Jun. No abstract available.

PMID:
24959919
[PubMed - in process]
Free PMC Article
2.

Investigating Microbial Eukaryotic Diversity from a Global Census: Insights from a Comparison of Pyrotag and Full-Length Sequences of 18S rRNA Genes.

Lie AA, Liu Z, Hu SK, Jones AC, Kim DY, Countway PD, Amaral-Zettler LA, Cary SC, Sherr EB, Sherr BF, Gast RJ, Caron DA.

Appl Environ Microbiol. 2014 Jul 15;80(14):4363-73. doi: 10.1128/AEM.00057-14. Epub 2014 May 9.

PMID:
24814788
[PubMed - in process]
3.

The founding charter of the Genomic Observatories Network.

Davies N, Field D, Amaral-Zettler L, Clark MS, Deck J, Drummond A, Faith DP, Geller J, Gilbert J, Glöckner FO, Hirsch PR, Leong JA, Meyer C, Obst M, Planes S, Scholin C, Vogler AP, Gates RD, Toonen R, Berteaux-Lecellier V, Barbier M, Barker K, Bertilsson S, Bicak M, Bietz MJ, Bobe J, Bodrossy L, Borja A, Coddington J, Fuhrman J, Gerdts G, Gillespie R, Goodwin K, Hanson PC, Hero JM, Hoekman D, Jansson J, Jeanthon C, Kao R, Klindworth A, Knight R, Kottmann R, Koo MS, Kotoulas G, Lowe AJ, Marteinsson VT, Meyer F, Morrison N, Myrold DD, Pafilis E, Parker S, Parnell JJ, Polymenakou PN, Ratnasingham S, Roderick GK, Rodriguez-Ezpeleta N, Schonrogge K, Simon N, Valette-Silver NJ, Springer YP, Stone GN, Stones-Havas S, Sansone SA, Thibault KM, Wecker P, Wichels A, Wooley JC, Yahara T, Zingone A; GOs-COS.

Gigascience. 2014 Mar 7;3(1):2. doi: 10.1186/2047-217X-3-2.

PMID:
24606731
[PubMed]
Free PMC Article
4.

Comparison of bacterial communities in sands and water at beaches with bacterial water quality violations.

Halliday E, McLellan SL, Amaral-Zettler LA, Sogin ML, Gast RJ.

PLoS One. 2014 Mar 5;9(3):e90815. doi: 10.1371/journal.pone.0090815. eCollection 2014.

PMID:
24599478
[PubMed - in process]
Free PMC Article
5.

A method for selectively enriching microbial DNA from contaminating vertebrate host DNA.

Feehery GR, Yigit E, Oyola SO, Langhorst BW, Schmidt VT, Stewart FJ, Dimalanta ET, Amaral-Zettler LA, Davis T, Quail MA, Pradhan S.

PLoS One. 2013 Oct 28;8(10):e76096. doi: 10.1371/journal.pone.0076096. eCollection 2013.

PMID:
24204593
[PubMed - in process]
Free PMC Article
6.

Modular community structure suggests metabolic plasticity during the transition to polar night in ice-covered Antarctic lakes.

Vick-Majors TJ, Priscu JC, Amaral-Zettler LA.

ISME J. 2014 Apr;8(4):778-89. doi: 10.1038/ismej.2013.190. Epub 2013 Oct 24.

PMID:
24152712
[PubMed - indexed for MEDLINE]
7.

Life in the "plastisphere": microbial communities on plastic marine debris.

Zettler ER, Mincer TJ, Amaral-Zettler LA.

Environ Sci Technol. 2013 Jul 2;47(13):7137-46. doi: 10.1021/es401288x. Epub 2013 Jun 19.

PMID:
23745679
[PubMed - indexed for MEDLINE]
8.

A decadal view of biodiversity informatics: challenges and priorities.

Hardisty A, Roberts D; Biodiversity Informatics Community, Addink W, Aelterman B, Agosti D, Amaral-Zettler L, Ariño AH, Arvanitidis C, Backeljau T, Bailly N, Belbin L, Berendsohn W, Bertrand N, Caithness N, Campbell D, Cochrane G, Conruyt N, Culham A, Damgaard C, Davies N, Fady B, Faulwetter S, Feest A, Field D, Garnier E, Geser G, Gilbert J, Grosche, Grosser D, Hardisty A, Herbinet B, Hobern D, Jones A, de Jong Y, King D, Knapp S, Koivula H, Los W, Meyer C, Morris RA, Morrison N, Morse D, Obst M, Pafilis E, Page LM, Page R, Pape T, Parr C, Paton A, Patterson D, Paymal E, Penev L, Pollet M, Pyle R, von Raab-Straube E, Robert V, Roberts D, Robertson T, Rovellotti O, Saarenmaa H, Schalk P, Schaminee J, Schofield P, Sier A, Sierra S, Smith V, van Spronsen E, Thornton-Wood S, van Tienderen P, van Tol J, Tuama ÉÓ, Uetz P, Vaas L, Vignes Lebbe R, Vision T, Vu D, De Wever A, White R, Willis K, Young F.

BMC Ecol. 2013 Apr 15;13:16. doi: 10.1186/1472-6785-13-16. Review.

PMID:
23587026
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

RCN4GSC Workshop Report: Managing Data at the Interface of Biodiversity and (Meta)Genomics, March 2011.

Robbins RJ, Amaral-Zettler L, Bik H, Blum S, Edwards J, Field D, Garrity G, Gilbert JA, Kottmann R, Krishtalka L, Lapp H, Lawrence C, Morrison N, Tuama EÓ, Parr C, San Gil I, Schindel D, Schriml L, Vieglas D, Wooley J.

Stand Genomic Sci. 2012 Oct 10;7(1):159-65. doi: 10.4056/sigs.3156511. Epub 2012 Jul 28.

PMID:
23451294
[PubMed]
Free PMC Article
10.

Eukaryotic diversity at pH extremes.

Amaral-Zettler LA.

Front Microbiol. 2013 Jan 17;3:441. doi: 10.3389/fmicb.2012.00441. eCollection 2012.

PMID:
23335919
[PubMed]
Free PMC Article
11.

Marine bacteria exhibit a bipolar distribution.

Sul WJ, Oliver TA, Ducklow HW, Amaral-Zettler LA, Sogin ML.

Proc Natl Acad Sci U S A. 2013 Feb 5;110(6):2342-7. doi: 10.1073/pnas.1212424110. Epub 2013 Jan 16.

PMID:
23324742
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Comparative molecular microbial ecology of the spring haptophyte bloom in a greenland arctic oligosaline lake.

Theroux S, Huang Y, Amaral-Zettler L.

Front Microbiol. 2012 Dec 17;3:415. doi: 10.3389/fmicb.2012.00415. eCollection 2012.

PMID:
23251134
[PubMed]
Free PMC Article
13.

Microbial diversity and potential pathogens in ornamental fish aquarium water.

Smith KF, Schmidt V, Rosen GE, Amaral-Zettler L.

PLoS One. 2012;7(9):e39971. doi: 10.1371/journal.pone.0039971. Epub 2012 Sep 6.

PMID:
22970112
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Microbial diversity in arctic freshwaters is structured by inoculation of microbes from soils.

Crump BC, Amaral-Zettler LA, Kling GW.

ISME J. 2012 Sep;6(9):1629-39. doi: 10.1038/ismej.2012.9. Epub 2012 Mar 1.

PMID:
22378536
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Toward interoperable bioscience data.

Sansone SA, Rocca-Serra P, Field D, Maguire E, Taylor C, Hofmann O, Fang H, Neumann S, Tong W, Amaral-Zettler L, Begley K, Booth T, Bougueleret L, Burns G, Chapman B, Clark T, Coleman LA, Copeland J, Das S, de Daruvar A, de Matos P, Dix I, Edmunds S, Evelo CT, Forster MJ, Gaudet P, Gilbert J, Goble C, Griffin JL, Jacob D, Kleinjans J, Harland L, Haug K, Hermjakob H, Ho Sui SJ, Laederach A, Liang S, Marshall S, McGrath A, Merrill E, Reilly D, Roux M, Shamu CE, Shang CA, Steinbeck C, Trefethen A, Williams-Jones B, Wolstencroft K, Xenarios I, Hide W.

Nat Genet. 2012 Jan 27;44(2):121-6. doi: 10.1038/ng.1054.

PMID:
22281772
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

A call for an international network of genomic observatories (GOs).

Davies N, Meyer C, Gilbert JA, Amaral-Zettler L, Deck J, Bicak M, Rocca-Serra P, Assunta-Sansone S, Willis K, Field D.

Gigascience. 2012 Jul 12;1(1):5. doi: 10.1186/2047-217X-1-5.

PMID:
23587188
[PubMed]
Free PMC Article
17.

Global patterns of bacterial beta-diversity in seafloor and seawater ecosystems.

Zinger L, Amaral-Zettler LA, Fuhrman JA, Horner-Devine MC, Huse SM, Welch DB, Martiny JB, Sogin M, Boetius A, Ramette A.

PLoS One. 2011;6(9):e24570. doi: 10.1371/journal.pone.0024570. Epub 2011 Sep 8.

PMID:
21931760
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

An all-taxon microbial inventory of the Moorea coral reef ecosystem.

McCliment EA, Nelson CE, Carlson CA, Alldredge AL, Witting J, Amaral-Zettler LA.

ISME J. 2012 Feb;6(2):309-19. doi: 10.1038/ismej.2011.108. Epub 2011 Sep 8.

PMID:
21900967
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

The Genomic Standards Consortium.

Field D, Amaral-Zettler L, Cochrane G, Cole JR, Dawyndt P, Garrity GM, Gilbert J, Glöckner FO, Hirschman L, Karsch-Mizrachi I, Klenk HP, Knight R, Kottmann R, Kyrpides N, Meyer F, San Gil I, Sansone SA, Schriml LM, Sterk P, Tatusova T, Ussery DW, White O, Wooley J.

PLoS Biol. 2011 Jun;9(6):e1001088. doi: 10.1371/journal.pbio.1001088. Epub 2011 Jun 21.

PMID:
21713030
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications.

Yilmaz P, Kottmann R, Field D, Knight R, Cole JR, Amaral-Zettler L, Gilbert JA, Karsch-Mizrachi I, Johnston A, Cochrane G, Vaughan R, Hunter C, Park J, Morrison N, Rocca-Serra P, Sterk P, Arumugam M, Bailey M, Baumgartner L, Birren BW, Blaser MJ, Bonazzi V, Booth T, Bork P, Bushman FD, Buttigieg PL, Chain PS, Charlson E, Costello EK, Huot-Creasy H, Dawyndt P, DeSantis T, Fierer N, Fuhrman JA, Gallery RE, Gevers D, Gibbs RA, San Gil I, Gonzalez A, Gordon JI, Guralnick R, Hankeln W, Highlander S, Hugenholtz P, Jansson J, Kau AL, Kelley ST, Kennedy J, Knights D, Koren O, Kuczynski J, Kyrpides N, Larsen R, Lauber CL, Legg T, Ley RE, Lozupone CA, Ludwig W, Lyons D, Maguire E, Methé BA, Meyer F, Muegge B, Nakielny S, Nelson KE, Nemergut D, Neufeld JD, Newbold LK, Oliver AE, Pace NR, Palanisamy G, Peplies J, Petrosino J, Proctor L, Pruesse E, Quast C, Raes J, Ratnasingham S, Ravel J, Relman DA, Assunta-Sansone S, Schloss PD, Schriml L, Sinha R, Smith MI, Sodergren E, Spo A, Stombaugh J, Tiedje JM, Ward DV, Weinstock GM, Wendel D, White O, Whiteley A, Wilke A, Wortman JR, Yatsunenko T, Glöckner FO.

Nat Biotechnol. 2011 May;29(5):415-20. doi: 10.1038/nbt.1823.

PMID:
21552244
[PubMed - indexed for MEDLINE]
Free PMC Article

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