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Items: 1 to 20 of 57

1.

Challenges in microbial ecology: building predictive understanding of community function and dynamics.

Widder S, Allen RJ, Pfeiffer T, Curtis TP, Wiuf C, Sloan WT, Cordero OX, Brown SP, Momeni B, Shou W, Kettle H, Flint HJ, Haas AF, Laroche B, Kreft JU, Rainey PB, Freilich S, Schuster S, Milferstedt K, van der Meer JR, Groszkopf T, Huisman J, Free A, Picioreanu C, Quince C, Klapper I, Labarthe S, Smets BF, Wang H; Isaac Newton Institute Fellows, Soyer OS.

ISME J. 2016 Mar 29. doi: 10.1038/ismej.2016.45. [Epub ahead of print]

PMID:
27022995
2.

Illumina error profiles: resolving fine-scale variation in metagenomic sequencing data.

Schirmer M, D'Amore R, Ijaz UZ, Hall N, Quince C.

BMC Bioinformatics. 2016 Mar 11;17:125. doi: 10.1186/s12859-016-0976-y.

3.

Bioaugmentation Mitigates the Impact of Estrogen on Coliform-Grazing Protozoa in Slow Sand Filters.

Haig SJ, Gauchotte-Lindsay C, Collins G, Quince C.

Environ Sci Technol. 2016 Mar 15;50(6):3101-10. doi: 10.1021/acs.est.5b05027. Epub 2016 Mar 3.

4.

Assessment of the influence of intrinsic environmental and geographical factors on the bacterial ecology of pit latrines.

Torondel B, Ensink JH, Gundogdu O, Ijaz UZ, Parkhill J, Abdelahi F, Nguyen VA, Sudgen S, Gibson W, Walker AW, Quince C.

Microb Biotechnol. 2016 Mar;9(2):209-23. doi: 10.1111/1751-7915.12334. Epub 2016 Feb 15.

5.

PhyloPythiaS+: a self-training method for the rapid reconstruction of low-ranking taxonomic bins from metagenomes.

Gregor I, Dröge J, Schirmer M, Quince C, McHardy AC.

PeerJ. 2016 Feb 8;4:e1603. doi: 10.7717/peerj.1603. eCollection 2016.

6.

A comprehensive benchmarking study of protocols and sequencing platforms for 16S rRNA community profiling.

D'Amore R, Ijaz UZ, Schirmer M, Kenny JG, Gregory R, Darby AC, Shakya M, Podar M, Quince C, Hall N.

BMC Genomics. 2016 Jan 14;17:55. doi: 10.1186/s12864-015-2194-9.

7.

Swarm v2: highly-scalable and high-resolution amplicon clustering.

Mahé F, Rognes T, Quince C, de Vargas C, Dunthorn M.

PeerJ. 2015 Dec 10;3:e1420. doi: 10.7717/peerj.1420. eCollection 2015.

8.

Extensive Modulation of the Fecal Metagenome in Children With Crohn's Disease During Exclusive Enteral Nutrition.

Quince C, Ijaz UZ, Loman N, Eren AM, Saulnier D, Russell J, Haig SJ, Calus ST, Quick J, Barclay A, Bertz M, Blaut M, Hansen R, McGrogan P, Russell RK, Edwards CA, Gerasimidis K.

Am J Gastroenterol. 2015 Dec;110(12):1718-29; quiz 1730. doi: 10.1038/ajg.2015.357. Epub 2015 Nov 3.

9.

Anvi'o: an advanced analysis and visualization platform for 'omics data.

Eren AM, Esen ÖC, Quince C, Vineis JH, Morrison HG, Sogin ML, Delmont TO.

PeerJ. 2015 Oct 8;3:e1319. doi: 10.7717/peerj.1319. eCollection 2015.

10.

The relationship between microbial community evenness and function in slow sand filters.

Haig SJ, Quince C, Davies RL, Dorea CC, Collins G.

MBio. 2015 Oct 13;6(5):e00729-15. doi: 10.1128/mBio.00729-15.

11.

Correction: Response of Archaeal and Bacterial Soil Communities to Changes Associated with Outdoor Cattle Overwintering.

Chroňáková A, Schloter-Hai B, Radl V, Endesfelder D, Quince C, Elhottová D, Šimek M, Schloter M.

PLoS One. 2015 Sep 8;10(9):e0137815. doi: 10.1371/journal.pone.0137815. eCollection 2015. No abstract available.

12.

The skin microbiome in psoriatic arthritis: methodology development and pilot data.

Castelino M, Eyre S, Moat J, Fox G, Martin P, Ijaz U, Quince C, Ho P, Upton M, Barton A.

Lancet. 2015 Feb 26;385 Suppl 1:S27. doi: 10.1016/S0140-6736(15)60342-7.

PMID:
26312849
13.

Response of Archaeal and Bacterial Soil Communities to Changes Associated with Outdoor Cattle Overwintering.

Chroňáková A, Schloter-Hai B, Radl V, Endesfelder D, Quince C, Elhottová D, Šimek M, Schloter M.

PLoS One. 2015 Aug 14;10(8):e0135627. doi: 10.1371/journal.pone.0135627. eCollection 2015. Erratum in: PLoS One. 2015;10(9):e0137815.

14.

Phylogenetic congruence and ecological coherence in terrestrial Thaumarchaeota.

Oton EV, Quince C, Nicol GW, Prosser JI, Gubry-Rangin C.

ISME J. 2016 Jan;10(1):85-96. doi: 10.1038/ismej.2015.101. Epub 2015 Jul 3.

15.

Insight into biases and sequencing errors for amplicon sequencing with the Illumina MiSeq platform.

Schirmer M, Ijaz UZ, D'Amore R, Hall N, Sloan WT, Quince C.

Nucleic Acids Res. 2015 Mar 31;43(6):e37. doi: 10.1093/nar/gku1341. Epub 2015 Jan 13.

16.

Stable-isotope probing and metagenomics reveal predation by protozoa drives E. coli removal in slow sand filters.

Haig SJ, Schirmer M, D'Amore R, Gibbs J, Davies RL, Collins G, Quince C.

ISME J. 2015 Mar 17;9(4):797-808. doi: 10.1038/ismej.2014.175.

17.

Swarm: robust and fast clustering method for amplicon-based studies.

Mahé F, Rognes T, Quince C, de Vargas C, Dunthorn M.

PeerJ. 2014 Sep 25;2:e593. doi: 10.7717/peerj.593. eCollection 2014.

18.

Binning metagenomic contigs by coverage and composition.

Alneberg J, Bjarnason BS, de Bruijn I, Schirmer M, Quick J, Ijaz UZ, Lahti L, Loman NJ, Andersson AF, Quince C.

Nat Methods. 2014 Nov;11(11):1144-6. doi: 10.1038/nmeth.3103. Epub 2014 Sep 14.

PMID:
25218180
19.

Fluvial network organization imprints on microbial co-occurrence networks.

Widder S, Besemer K, Singer GA, Ceola S, Bertuzzo E, Quince C, Sloan WT, Rinaldo A, Battin TJ.

Proc Natl Acad Sci U S A. 2014 Sep 2;111(35):12799-804. doi: 10.1073/pnas.1411723111. Epub 2014 Aug 18.

20.

Replicating the microbial community and water quality performance of full-scale slow sand filters in laboratory-scale filters.

Haig SJ, Quince C, Davies RL, Dorea CC, Collins G.

Water Res. 2014 Sep 15;61:141-51. doi: 10.1016/j.watres.2014.05.008. Epub 2014 May 22.

PMID:
24908577
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