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Items: 1 to 20 of 96

1.

Correction for Gaby et al., "Diazotroph Community Characterization via a High-Throughput nifH Amplicon Sequencing and Analysis Pipeline".

Gaby JC, Rishishwar L, Valderrama-Aguirre LC, Green SJ, Valderrama-Aguirre A, Jordan IK, Kostka JE.

Appl Environ Microbiol. 2019 May 16;85(11). pii: e00713-19. doi: 10.1128/AEM.00713-19. Print 2019 Jun 1. No abstract available.

2.

Diazotroph Community Characterization via a High-Throughput nifH Amplicon Sequencing and Analysis Pipeline.

Gaby JC, Rishishwar L, Valderrama-Aguirre LC, Green SJ, Valderrama-Aguirre A, Jordan IK, Kostka JE.

Appl Environ Microbiol. 2018 Jan 31;84(4). pii: e01512-17. doi: 10.1128/AEM.01512-17. Print 2018 Feb 15. Erratum in: Appl Environ Microbiol. 2019 May 16;85(11):.

3.

Evaluation of Primers Targeting the Diazotroph Functional Gene and Development of NifMAP - A Bioinformatics Pipeline for Analyzing nifH Amplicon Data.

Angel R, Nepel M, Panhölzl C, Schmidt H, Herbold CW, Eichorst SA, Woebken D.

Front Microbiol. 2018 Apr 30;9:703. doi: 10.3389/fmicb.2018.00703. eCollection 2018.

4.

Impact of copper on the diazotroph abundance and community composition during swine manure composting.

Yin Y, Gu J, Wang X, Zhang K, Hu T, Ma J, Wang Q.

Bioresour Technol. 2018 May;255:257-265. doi: 10.1016/j.biortech.2018.01.120. Epub 2018 Jan 31.

PMID:
29428780
5.

Amplicon pyrosequencing reveals spatial and temporal consistency in diazotroph assemblages of the Acropora millepora microbiome.

Lema KA, Willis BL, Bourne DG.

Environ Microbiol. 2014 Oct;16(10):3345-59. doi: 10.1111/1462-2920.12366. Epub 2014 Jan 28.

PMID:
24373029
6.

Diversity and Activity of Diazotrophs in Great Barrier Reef Surface Waters.

Messer LF, Brown MV, Furnas MJ, Carney RL, McKinnon AD, Seymour JR.

Front Microbiol. 2017 Jun 7;8:967. doi: 10.3389/fmicb.2017.00967. eCollection 2017.

7.

Clustering of circular consensus sequences: accurate error correction and assembly of single molecule real-time reads from multiplexed amplicon libraries.

Francis F, Dumas MD, Davis SB, Wisser RJ.

BMC Bioinformatics. 2018 Aug 20;19(1):302. doi: 10.1186/s12859-018-2293-0.

8.

Spatial-temporal variability in diazotroph assemblages in Chesapeake Bay using an oligonucleotide nifH microarray.

Moisander PH, Morrison AE, Ward BB, Jenkins BD, Zehr JP.

Environ Microbiol. 2007 Jul;9(7):1823-35.

PMID:
17564615
9.

Rapid annotation of nifH gene sequences using classification and regression trees facilitates environmental functional gene analysis.

Frank IE, Turk-Kubo KA, Zehr JP.

Environ Microbiol Rep. 2016 Oct;8(5):905-916. doi: 10.1111/1758-2229.12455. Epub 2016 Sep 14.

10.

Diazotroph Diversity and Nitrogen Fixation in Summer Active Perennial Grasses in a Mediterranean Region Agricultural Soil.

Gupta VVSR, Zhang B, Penton CR, Yu J, Tiedje JM.

Front Mol Biosci. 2019 Nov 5;6:115. doi: 10.3389/fmolb.2019.00115. eCollection 2019.

11.

From reads to operational taxonomic units: an ensemble processing pipeline for MiSeq amplicon sequencing data.

Mysara M, Njima M, Leys N, Raes J, Monsieurs P.

Gigascience. 2017 Feb 1;6(2):1-10. doi: 10.1093/gigascience/giw017.

12.

NifH-Harboring Bacterial Community Composition across an Alaskan Permafrost Thaw Gradient.

Penton CR, Yang C, Wu L, Wang Q, Zhang J, Liu F, Qin Y, Deng Y, Hemme CL, Zheng T, Schuur EA, Tiedje J, Zhou J.

Front Microbiol. 2016 Nov 24;7:1894. eCollection 2016.

13.

Temporal changes in the diazotrophic bacterial communities associated with Caribbean sponges Ircinia stroblina and Mycale laxissima.

Zhang F, Vicente J, Hill RT.

Front Microbiol. 2014 Oct 28;5:561. doi: 10.3389/fmicb.2014.00561. eCollection 2014.

14.

The Quantification of Representative Sequences pipeline for amplicon sequencing: case study on within-population ITS1 sequence variation in a microparasite infecting Daphnia.

González-Tortuero E, Rusek J, Petrusek A, Gießler S, Lyras D, Grath S, Castro-Monzón F, Wolinska J.

Mol Ecol Resour. 2015 Nov;15(6):1385-95. doi: 10.1111/1755-0998.12396. Epub 2015 Mar 5.

PMID:
25728529
15.

Autotrophic and symbiotic diazotrophs dominate nitrogen-fixing communities in Tibetan grassland soils.

Che R, Deng Y, Wang F, Wang W, Xu Z, Hao Y, Xue K, Zhang B, Tang L, Zhou H, Cui X.

Sci Total Environ. 2018 Oct 15;639:997-1006. doi: 10.1016/j.scitotenv.2018.05.238. Epub 2018 May 26.

PMID:
29929338
16.

Is plant evolutionary history impacting recruitment of diazotrophs and nifH expression in the rhizosphere?

Bouffaud ML, Renoud S, Moënne-Loccoz Y, Muller D.

Sci Rep. 2016 Feb 23;6:21690. doi: 10.1038/srep21690.

17.

Diversity, distribution, and expression of diazotroph nifH genes in oxygen-deficient waters of the Arabian Sea.

Jayakumar A, Al-Rshaidat MM, Ward BB, Mulholland MR.

FEMS Microbiol Ecol. 2012 Dec;82(3):597-606. doi: 10.1111/j.1574-6941.2012.01430.x. Epub 2012 Jul 9.

18.

Analysis of amplicon-based NGS data from neurological disease gene panels: a new method for allele drop-out management.

Zucca S, Villaraggia M, Gagliardi S, Grieco GS, Valente M, Cereda C, Magni P.

BMC Bioinformatics. 2016 Nov 8;17(Suppl 12):339. doi: 10.1186/s12859-016-1189-0.

19.

Analysing 454 amplicon resequencing experiments using the modular and database oriented Variant Identification Pipeline.

De Schrijver JM, De Leeneer K, Lefever S, Sabbe N, Pattyn F, Van Nieuwerburgh F, Coucke P, Deforce D, Vandesompele J, Bekaert S, Hellemans J, Van Criekinge W.

BMC Bioinformatics. 2010 May 20;11:269. doi: 10.1186/1471-2105-11-269.

20.

Diversity and Structure of Diazotrophic Communities in Mangrove Rhizosphere, Revealed by High-Throughput Sequencing.

Zhang Y, Yang Q, Ling J, Van Nostrand JD, Shi Z, Zhou J, Dong J.

Front Microbiol. 2017 Oct 18;8:2032. doi: 10.3389/fmicb.2017.02032. eCollection 2017.

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