Format
Sort by
Items per page

Send to

Choose Destination

Links from PubMed

Items: 1 to 20 of 154

1.

Metagenomic 16S rDNA Illumina tags are a powerful alternative to amplicon sequencing to explore diversity and structure of microbial communities.

Logares R, Sunagawa S, Salazar G, Cornejo-Castillo FM, Ferrera I, Sarmento H, Hingamp P, Ogata H, de Vargas C, Lima-Mendez G, Raes J, Poulain J, Jaillon O, Wincker P, Kandels-Lewis S, Karsenti E, Bork P, Acinas SG.

Environ Microbiol. 2014 Sep;16(9):2659-71. doi: 10.1111/1462-2920.12250. Epub 2013 Sep 18.

PMID:
24102695
2.

Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies.

Klindworth A, Pruesse E, Schweer T, Peplies J, Quast C, Horn M, Glöckner FO.

Nucleic Acids Res. 2013 Jan 7;41(1):e1. doi: 10.1093/nar/gks808. Epub 2012 Aug 28.

3.

Quantitative Assessment of Shotgun Metagenomics and 16S rDNA Amplicon Sequencing in the Study of Human Gut Microbiome.

Laudadio I, Fulci V, Palone F, Stronati L, Cucchiara S, Carissimi C.

OMICS. 2018 Apr;22(4):248-254. doi: 10.1089/omi.2018.0013.

PMID:
29652573
4.

Deciphering intra-species bacterial diversity of meat and seafood spoilage microbiota using gyrB amplicon sequencing: A comparative analysis with 16S rDNA V3-V4 amplicon sequencing.

Poirier S, Rué O, Peguilhan R, Coeuret G, Zagorec M, Champomier-Vergès MC, Loux V, Chaillou S.

PLoS One. 2018 Sep 25;13(9):e0204629. doi: 10.1371/journal.pone.0204629. eCollection 2018.

5.

Strengths and limitations of 16S rRNA gene amplicon sequencing in revealing temporal microbial community dynamics.

Poretsky R, Rodriguez-R LM, Luo C, Tsementzi D, Konstantinidis KT.

PLoS One. 2014 Apr 8;9(4):e93827. doi: 10.1371/journal.pone.0093827. eCollection 2014.

6.

The taxonomic and functional diversity of microbes at a temperate coastal site: a 'multi-omic' study of seasonal and diel temporal variation.

Gilbert JA, Field D, Swift P, Thomas S, Cummings D, Temperton B, Weynberg K, Huse S, Hughes M, Joint I, Somerfield PJ, Mühling M.

PLoS One. 2010 Nov 29;5(11):e15545. doi: 10.1371/journal.pone.0015545.

7.

Hybridization capture reveals microbial diversity missed using current profiling methods.

Gasc C, Peyret P.

Microbiome. 2018 Mar 27;6(1):61. doi: 10.1186/s40168-018-0442-3.

8.

A novel ultra high-throughput 16S rRNA gene amplicon sequencing library preparation method for the Illumina HiSeq platform.

de Muinck EJ, Trosvik P, Gilfillan GD, Hov JR, Sundaram AYM.

Microbiome. 2017 Jul 6;5(1):68. doi: 10.1186/s40168-017-0279-1.

9.

Design and experimental application of a novel non-degenerate universal primer set that amplifies prokaryotic 16S rRNA genes with a low possibility to amplify eukaryotic rRNA genes.

Mori H, Maruyama F, Kato H, Toyoda A, Dozono A, Ohtsubo Y, Nagata Y, Fujiyama A, Tsuda M, Kurokawa K.

DNA Res. 2014;21(2):217-27. doi: 10.1093/dnares/dst052. Epub 2013 Nov 25.

10.

Microbial 16S rRNA Ion Tag and community metagenome sequencing using the Ion Torrent (PGM) Platform.

Whiteley AS, Jenkins S, Waite I, Kresoje N, Payne H, Mullan B, Allcock R, O'Donnell A.

J Microbiol Methods. 2012 Oct;91(1):80-8. doi: 10.1016/j.mimet.2012.07.008. Epub 2012 Jul 29.

PMID:
22849830
11.

Profiling of the metabolically active community from a production-scale biogas plant by means of high-throughput metatranscriptome sequencing.

Zakrzewski M, Goesmann A, Jaenicke S, Jünemann S, Eikmeyer F, Szczepanowski R, Al-Soud WA, Sørensen S, Pühler A, Schlüter A.

J Biotechnol. 2012 Apr 30;158(4):248-58. doi: 10.1016/j.jbiotec.2012.01.020. Epub 2012 Feb 8.

PMID:
22342600
12.

Metagenomics uncovers gaps in amplicon-based detection of microbial diversity.

Eloe-Fadrosh EA, Ivanova NN, Woyke T, Kyrpides NC.

Nat Microbiol. 2016 Feb 1;1:15032. doi: 10.1038/nmicrobiol.2015.32.

PMID:
27572438
13.

MinION™ nanopore sequencing of environmental metagenomes: a synthetic approach.

Brown BL, Watson M, Minot SS, Rivera MC, Franklin RB.

Gigascience. 2017 Mar 1;6(3):1-10. doi: 10.1093/gigascience/gix007.

14.

Groundtruthing next-gen sequencing for microbial ecology-biases and errors in community structure estimates from PCR amplicon pyrosequencing.

Lee CK, Herbold CW, Polson SW, Wommack KE, Williamson SJ, McDonald IR, Cary SC.

PLoS One. 2012;7(9):e44224. doi: 10.1371/journal.pone.0044224. Epub 2012 Sep 6.

15.

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
16.

RiboTagger: fast and unbiased 16S/18S profiling using whole community shotgun metagenomic or metatranscriptome surveys.

Xie C, Goi CL, Huson DH, Little PF, Williams RB.

BMC Bioinformatics. 2016 Dec 22;17(Suppl 19):508. doi: 10.1186/s12859-016-1378-x.

17.

PCR biases distort bacterial and archaeal community structure in pyrosequencing datasets.

Pinto AJ, Raskin L.

PLoS One. 2012;7(8):e43093. doi: 10.1371/journal.pone.0043093. Epub 2012 Aug 15.

18.

Development of a prokaryotic universal primer for simultaneous analysis of Bacteria and Archaea using next-generation sequencing.

Takahashi S, Tomita J, Nishioka K, Hisada T, Nishijima M.

PLoS One. 2014 Aug 21;9(8):e105592. doi: 10.1371/journal.pone.0105592. eCollection 2014.

19.

Microbial diversity of a full-scale UASB reactor applied to poultry slaughterhouse wastewater treatment: integration of 16S rRNA gene amplicon and shotgun metagenomic sequencing.

Delforno TP, Lacerda Júnior GV, Noronha MF, Sakamoto IK, Varesche MBA, Oliveira VM.

Microbiologyopen. 2017 Jun;6(3). doi: 10.1002/mbo3.443. Epub 2017 Feb 23.

20.

Measuring metagenome diversity and similarity with Hill numbers.

Ma ZS, Li L.

Mol Ecol Resour. 2018 Nov;18(6):1339-1355. doi: 10.1111/1755-0998.12923. Epub 2018 Jul 27.

PMID:
29985552

Supplemental Content

Support Center