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Items: 1 to 20 of 116

1.

Wrinkles in the rare biosphere: pyrosequencing errors can lead to artificial inflation of diversity estimates.

Kunin V, Engelbrektson A, Ochman H, Hugenholtz P.

Environ Microbiol. 2010 Jan;12(1):118-23. doi: 10.1111/j.1462-2920.2009.02051.x. Epub 2009 Aug 27.

PMID:
19725865
2.

Microbial diversity in the sputum of a cystic fibrosis patient studied with 16S rDNA pyrosequencing.

Armougom F, Bittar F, Stremler N, Rolain JM, Robert C, Dubus JC, Sarles J, Raoult D, La Scola B.

Eur J Clin Microbiol Infect Dis. 2009 Sep;28(9):1151-4. doi: 10.1007/s10096-009-0749-x. Epub 2009 May 16.

PMID:
19449045
3.

Phylogenetic characterization of a biogas plant microbial community integrating clone library 16S-rDNA sequences and metagenome sequence data obtained by 454-pyrosequencing.

Kröber M, Bekel T, Diaz NN, Goesmann A, Jaenicke S, Krause L, Miller D, Runte KJ, Viehöver P, Pühler A, Schlüter A.

J Biotechnol. 2009 Jun 1;142(1):38-49. doi: 10.1016/j.jbiotec.2009.02.010. Epub 2009 Feb 27.

PMID:
19480946
4.

Ironing out the wrinkles in the rare biosphere through improved OTU clustering.

Huse SM, Welch DM, Morrison HG, Sogin ML.

Environ Microbiol. 2010 Jul;12(7):1889-98. doi: 10.1111/j.1462-2920.2010.02193.x. Epub 2010 Mar 11.

5.

Scratching the surface of the rare biosphere with ribosomal sequence tag primers.

Neufeld JD, Li J, Mohn WW.

FEMS Microbiol Lett. 2008 Jun;283(2):146-53. doi: 10.1111/j.1574-6968.2008.01124.x. Epub 2008 Apr 21.

6.

The rational exploration of microbial diversity.

Quince C, Curtis TP, Sloan WT.

ISME J. 2008 Oct;2(10):997-1006. doi: 10.1038/ismej.2008.69. Epub 2008 Jul 24.

PMID:
18650928
7.

Bacterial diversity in aquatic and other environments: what 16S rDNA libraries can tell us.

Kemp PF, Aller JY.

FEMS Microbiol Ecol. 2004 Feb 1;47(2):161-77. doi: 10.1016/S0168-6496(03)00257-5.

8.
9.

Efficient frequency-based de novo short-read clustering for error trimming in next-generation sequencing.

Qu W, Hashimoto S, Morishita S.

Genome Res. 2009 Jul;19(7):1309-15. doi: 10.1101/gr.089151.108. Epub 2009 May 13.

10.

Experimental factors affecting PCR-based estimates of microbial species richness and evenness.

Engelbrektson A, Kunin V, Wrighton KC, Zvenigorodsky N, Chen F, Ochman H, Hugenholtz P.

ISME J. 2010 May;4(5):642-7. doi: 10.1038/ismej.2009.153. Epub 2010 Jan 21.

PMID:
20090784
11.

Depicting more accurate pictures of protistan community complexity using pyrosequencing of hypervariable SSU rRNA gene regions.

Behnke A, Engel M, Christen R, Nebel M, Klein RR, Stoeck T.

Environ Microbiol. 2011 Feb;13(2):340-9. doi: 10.1111/j.1462-2920.2010.02332.x. Epub 2010 Sep 8.

PMID:
21281421
12.

Rapid phylogenetic dissection of prokaryotic community structure in tidal flat using pyrosequencing.

Kim BS, Kim BK, Lee JH, Kim M, Lim YW, Chun J.

J Microbiol. 2008 Aug;46(4):357-63. doi: 10.1007/s12275-008-0071-9. Epub 2008 Aug 31.

PMID:
18758724
13.

Amplification by PCR artificially reduces the proportion of the rare biosphere in microbial communities.

Gonzalez JM, Portillo MC, Belda-Ferre P, Mira A.

PLoS One. 2012;7(1):e29973. doi: 10.1371/journal.pone.0029973. Epub 2012 Jan 11.

14.

Bacterial diversity in the rhizosphere of Proteaceae species.

Stafford WH, Baker GC, Brown SA, Burton SG, Cowan DA.

Environ Microbiol. 2005 Nov;7(11):1755-68.

PMID:
16232290
15.

Endophytic bacterial diversity in rice (Oryza sativa L.) roots estimated by 16S rDNA sequence analysis.

Sun L, Qiu F, Zhang X, Dai X, Dong X, Song W.

Microb Ecol. 2008 Apr;55(3):415-24. Epub 2007 Aug 10.

PMID:
17690836
16.

Biased diversity metrics revealed by bacterial 16S pyrotags derived from different primer sets.

Cai L, Ye L, Tong AH, Lok S, Zhang T.

PLoS One. 2013;8(1):e53649. doi: 10.1371/journal.pone.0053649. Epub 2013 Jan 14.

17.
18.

Investigation of archaeal and bacterial diversity in fermented seafood using barcoded pyrosequencing.

Roh SW, Kim KH, Nam YD, Chang HW, Park EJ, Bae JW.

ISME J. 2010 Jan;4(1):1-16. doi: 10.1038/ismej.2009.83. Epub 2009 Jul 9.

PMID:
19587773
19.

Bacterial tag-encoded FLX amplicon pyrosequencing (bTEFAP) for microbiome studies: bacterial diversity in the ileum of newly weaned Salmonella-infected pigs.

Dowd SE, Sun Y, Wolcott RD, Domingo A, Carroll JA.

Foodborne Pathog Dis. 2008 Aug;5(4):459-72. doi: 10.1089/fpd.2008.0107.

PMID:
18713063
20.

Use of the 16S--23S ribosomal genes spacer region in studies of prokaryotic diversity.

García-Martínez J, Acinas SG, Antón AI, Rodríguez-Valera F.

J Microbiol Methods. 1999 May;36(1-2):55-64.

PMID:
10353800

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