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Items: 1 to 50 of 85

1.

DNA metabarcoding-Need for robust experimental designs to draw sound ecological conclusions.

Zinger L, Bonin A, Alsos IG, Bálint M, Bik H, Boyer F, Chariton AA, Creer S, Coissac E, Deagle BE, De Barba M, Dickie IA, Dumbrell AJ, Ficetola GF, Fierer N, Fumagalli L, Gilbert MTP, Jarman S, Jumpponen A, Kauserud H, Orlando L, Pansu J, Pawlowski J, Tedersoo L, Thomsen PF, Willerslev E, Taberlet P.

Mol Ecol. 2019 Apr;28(8):1857-1862. doi: 10.1111/mec.15060. Epub 2019 Apr 29. No abstract available.

2.

Body size determines soil community assembly in a tropical forest.

Zinger L, Taberlet P, Schimann H, Bonin A, Boyer F, De Barba M, Gaucher P, Gielly L, Giguet-Covex C, Iribar A, Réjou-Méchain M, Rayé G, Rioux D, Schilling V, Tymen B, Viers J, Zouiten C, Thuiller W, Coissac E, Chave J.

Mol Ecol. 2019 Feb;28(3):528-543. doi: 10.1111/mec.14919. Epub 2018 Nov 22.

PMID:
30375061
3.

Mapping the imprint of biotic interactions on β-diversity.

Ohlmann M, Mazel F, Chalmandrier L, Bec S, Coissac E, Gielly L, Pansu J, Schilling V, Taberlet P, Zinger L, Chave J, Thuiller W.

Ecol Lett. 2018 Nov;21(11):1660-1669. doi: 10.1111/ele.13143. Epub 2018 Aug 28.

PMID:
30152092
4.

Diet shifts by adult flightless dung beetles Circellium bacchus, revealed using DNA metabarcoding, reflect complex life histories.

Kerley GIH, Landman M, Ficetola GF, Boyer F, Bonin A, Rioux D, Taberlet P, Coissac E.

Oecologia. 2018 Sep;188(1):107-115. doi: 10.1007/s00442-018-4203-6. Epub 2018 Jun 30.

PMID:
29961180
5.

Convergent genomic signatures of domestication in sheep and goats.

Alberto FJ, Boyer F, Orozco-terWengel P, Streeter I, Servin B, de Villemereuil P, Benjelloun B, Librado P, Biscarini F, Colli L, Barbato M, Zamani W, Alberti A, Engelen S, Stella A, Joost S, Ajmone-Marsan P, Negrini R, Orlando L, Rezaei HR, Naderi S, Clarke L, Flicek P, Wincker P, Coissac E, Kijas J, Tosser-Klopp G, Chikhi A, Bruford MW, Taberlet P, Pompanon F.

Nat Commun. 2018 Mar 6;9(1):813. doi: 10.1038/s41467-018-03206-y.

6.

Comparing three types of dietary samples for prey DNA decay in an insect generalist predator.

Kamenova S, Mayer R, Rubbmark OR, Coissac E, Plantegenest M, Traugott M.

Mol Ecol Resour. 2018 Mar 6. doi: 10.1111/1755-0998.12775. [Epub ahead of print]

PMID:
29509995
7.

Ancient environmental DNA reveals shifts in dominant mutualisms during the late Quaternary.

Zobel M, Davison J, Edwards ME, Brochmann C, Coissac E, Taberlet P, Willerslev E, Moora M.

Nat Commun. 2018 Jan 10;9(1):139. doi: 10.1038/s41467-017-02421-3.

8.

Evaluating the impact of domestication and captivity on the horse gut microbiome.

Metcalf JL, Song SJ, Morton JT, Weiss S, Seguin-Orlando A, Joly F, Feh C, Taberlet P, Coissac E, Amir A, Willerslev E, Knight R, McKenzie V, Orlando L.

Sci Rep. 2017 Nov 14;7(1):15497. doi: 10.1038/s41598-017-15375-9.

9.

The evolutionary fate of the chloroplast and nuclear rps16 genes as revealed through the sequencing and comparative analyses of four novel legume chloroplast genomes from Lupinus.

Keller J, Rousseau-Gueutin M, Martin GE, Morice J, Boutte J, Coissac E, Ourari M, Aïnouche M, Salmon A, Cabello-Hurtado F, Aïnouche A.

DNA Res. 2017 Aug 1;24(4):343-358. doi: 10.1093/dnares/dsx006.

10.

Spatio-temporal monitoring of deep-sea communities using metabarcoding of sediment DNA and RNA.

Guardiola M, Wangensteen OS, Taberlet P, Coissac E, Uriz MJ, Turon X.

PeerJ. 2016 Dec 21;4:e2807. doi: 10.7717/peerj.2807. eCollection 2016.

11.

Mitochondrial Phylogenomics Resolves the Global Spread of Higher Termites, Ecosystem Engineers of the Tropics.

Bourguignon T, Lo N, Šobotník J, Ho SY, Iqbal N, Coissac E, Lee M, Jendryka MM, Sillam-Dussès D, Krížková B, Roisin Y, Evans TA.

Mol Biol Evol. 2017 Mar 1;34(3):589-597. doi: 10.1093/molbev/msw253.

PMID:
28025274
12.

Inferring neutral biodiversity parameters using environmental DNA data sets.

Sommeria-Klein G, Zinger L, Taberlet P, Coissac E, Chave J.

Sci Rep. 2016 Oct 20;6:35644. doi: 10.1038/srep35644.

13.

Understanding the evolution of holoparasitic plants: the complete plastid genome of the holoparasite Cytinus hypocistis (Cytinaceae).

Roquet C, Coissac É, Cruaud C, Boleda M, Boyer F, Alberti A, Gielly L, Taberlet P, Thuiller W, Van Es J, Lavergne S.

Ann Bot. 2016 Jul 21. pii: mcw135. [Epub ahead of print]

14.

Unraveling the biogeographical history of Chrysobalanaceae from plastid genomes.

Bardon L, Sothers C, Prance GT, Malé PJ, Xi Z, Davis CC, Murienne J, García-Villacorta R, Coissac E, Lavergne S, Chave J.

Am J Bot. 2016 Jun;103(6):1089-102. doi: 10.3732/ajb.1500463. Epub 2016 Jun 21.

15.

Testing the potential of a ribosomal 16S marker for DNA metabarcoding of insects.

Elbrecht V, Taberlet P, Dejean T, Valentini A, Usseglio-Polatera P, Beisel JN, Coissac E, Boyer F, Leese F.

PeerJ. 2016 Apr 19;4:e1966. doi: 10.7717/peerj.1966. eCollection 2016.

16.

Correction: Deep-Sea, Deep-Sequencing: Metabarcoding Extracellular DNA from Sediments of Marine Canyons.

Guardiola M, Uriz MJ, Taberlet P, Coissac E, Wangensteen OS, Turon X.

PLoS One. 2016 Apr 13;11(4):e0153836. doi: 10.1371/journal.pone.0153836. eCollection 2016. No abstract available.

17.

How to limit false positives in environmental DNA and metabarcoding?

Ficetola GF, Taberlet P, Coissac E.

Mol Ecol Resour. 2016 May;16(3):604-7. doi: 10.1111/1755-0998.12508.

PMID:
27062589
18.

From barcodes to genomes: extending the concept of DNA barcoding.

Coissac E, Hollingsworth PM, Lavergne S, Taberlet P.

Mol Ecol. 2016 Apr;25(7):1423-8. doi: 10.1111/mec.13549. Epub 2016 Mar 14.

PMID:
26821259
19.

Whole mitochondrial genomes unveil the impact of domestication on goat matrilineal variability.

Colli L, Lancioni H, Cardinali I, Olivieri A, Capodiferro MR, Pellecchia M, Rzepus M, Zamani W, Naderi S, Gandini F, Vahidi SM, Agha S, Randi E, Battaglia V, Sardina MT, Portolano B, Rezaei HR, Lymberakis P, Boyer F, Coissac E, Pompanon F, Taberlet P, Ajmone Marsan P, Achilli A.

BMC Genomics. 2015 Dec 29;16:1115. doi: 10.1186/s12864-015-2342-2.

20.

Next-generation monitoring of aquatic biodiversity using environmental DNA metabarcoding.

Valentini A, Taberlet P, Miaud C, Civade R, Herder J, Thomsen PF, Bellemain E, Besnard A, Coissac E, Boyer F, Gaboriaud C, Jean P, Poulet N, Roset N, Copp GH, Geniez P, Pont D, Argillier C, Baudoin JM, Peroux T, Crivelli AJ, Olivier A, Acqueberge M, Le Brun M, Møller PR, Willerslev E, Dejean T.

Mol Ecol. 2016 Feb;25(4):929-42. doi: 10.1111/mec.13428. Epub 2016 Jan 18.

PMID:
26479867
21.

Deep-Sea, Deep-Sequencing: Metabarcoding Extracellular DNA from Sediments of Marine Canyons.

Guardiola M, Uriz MJ, Taberlet P, Coissac E, Wangensteen OS, Turon X.

PLoS One. 2015 Oct 5;10(10):e0139633. doi: 10.1371/journal.pone.0139633. eCollection 2015. Erratum in: PLoS One. 2016;11(4):e0153836.

22.

Upscaling the niche variation hypothesis from the intra- to the inter-specific level.

Bison M, Ibanez S, Redjadj C, Boyer F, Coissac E, Miquel C, Rioux D, Said S, Maillard D, Taberlet P, Yoccoz NG, Loison A.

Oecologia. 2015 Nov;179(3):835-42. doi: 10.1007/s00442-015-3390-7. Epub 2015 Jul 22.

PMID:
26198049
23.

PCR-free shotgun sequencing of the stone loach mitochondrial genome (Barbatula barbatula).

Murienne J, Jeziorski C, Holota H, Coissac E, Blanchet S, Grenouillet G.

Mitochondrial DNA A DNA Mapp Seq Anal. 2016 Nov;27(6):4211-4212. Epub 2015 May 22.

PMID:
26000945
24.

Complete mitochondrial genome of Lutzomyia (Nyssomyia) umbratilis (Diptera: Psychodidae), the main vector of Leishmania guyanensis.

Kocher A, Gantier JC, Holota H, Jeziorski C, Coissac E, Bañuls AL, Girod R, Gaborit P, Murienne J.

Mitochondrial DNA A DNA Mapp Seq Anal. 2016 Nov;27(6):4219-4221. Epub 2015 May 22.

PMID:
26000939
25.

obitools: a unix-inspired software package for DNA metabarcoding.

Boyer F, Mercier C, Bonin A, Le Bras Y, Taberlet P, Coissac E.

Mol Ecol Resour. 2016 Jan;16(1):176-82. doi: 10.1111/1755-0998.12428. Epub 2015 May 26.

PMID:
25959493
26.

Characterizing neutral genomic diversity and selection signatures in indigenous populations of Moroccan goats (Capra hircus) using WGS data.

Benjelloun B, Alberto FJ, Streeter I, Boyer F, Coissac E, Stucki S, BenBati M, Ibnelbachyr M, Chentouf M, Bechchari A, Leempoel K, Alberti A, Engelen S, Chikhi A, Clarke L, Flicek P, Joost S, Taberlet P, Pompanon F; NextGen Consortium.

Front Genet. 2015 Apr 7;6:107. doi: 10.3389/fgene.2015.00107. eCollection 2015.

27.

DNA metabarcoding diet analysis for species with parapatric vs sympatric distribution: a case study on subterranean rodents.

Lopes CM, De Barba M, Boyer F, Mercier C, da Silva Filho PJ, Heidtmann LM, Galiano D, Kubiak BB, Langone P, Garcias FM, Gielly L, Coissac E, de Freitas TR, Taberlet P.

Heredity (Edinb). 2015 May;114(5):525-36. doi: 10.1038/hdy.2014.109. Epub 2015 Feb 4.

28.

Replication levels, false presences and the estimation of the presence/absence from eDNA metabarcoding data.

Ficetola GF, Pansu J, Bonin A, Coissac E, Giguet-Covex C, De Barba M, Gielly L, Lopes CM, Boyer F, Pompanon F, Rayé G, Taberlet P.

Mol Ecol Resour. 2015 May;15(3):543-56. doi: 10.1111/1755-0998.12338. Epub 2014 Nov 10.

PMID:
25327646
29.

Shotgun assembly of the complete mitochondrial genome of the neotropical cracker butterfly Hamadryas epinome.

Cally S, Lhuillier E, Iribar A, Garzón-Orduña I, Coissac E, Murienne J.

Mitochondrial DNA A DNA Mapp Seq Anal. 2016 May;27(3):1864-6. doi: 10.3109/19401736.2014.971262. Epub 2014 Oct 16.

PMID:
25319307
30.

From museums to genomics: old herbarium specimens shed light on a C3 to C4 transition.

Besnard G, Christin PA, Malé PJ, Lhuillier E, Lauzeral C, Coissac E, Vorontsova MS.

J Exp Bot. 2014 Dec;65(22):6711-21. doi: 10.1093/jxb/eru395. Epub 2014 Sep 25.

PMID:
25258360
31.

Shotgun assembly of the assassin bug Brontostoma colossus mitochondrial genome (Heteroptera, Reduviidae).

Kocher A, Kamilari M, Lhuillier E, Coissac E, Péneau J, Chave J, Murienne J.

Gene. 2014 Nov 15;552(1):184-94. doi: 10.1016/j.gene.2014.09.033. Epub 2014 Sep 18.

PMID:
25240790
32.

DNA metabarcoding and the cytochrome c oxidase subunit I marker: not a perfect match.

Deagle BE, Jarman SN, Coissac E, Pompanon F, Taberlet P.

Biol Lett. 2014 Sep;10(9). pii: 20140562. doi: 10.1098/rsbl.2014.0562.

33.

Genome skimming by shotgun sequencing helps resolve the phylogeny of a pantropical tree family.

Malé PJ, Bardon L, Besnard G, Coissac E, Delsuc F, Engel J, Lhuillier E, Scotti-Saintagne C, Tinaut A, Chave J.

Mol Ecol Resour. 2014 Sep;14(5):966-75. doi: 10.1111/1755-0998.12246. Epub 2014 Apr 2.

PMID:
24606032
34.

Effects of organochlorines on microbial diversity and community structure in Phragmites australis rhizosphere.

San Miguel A, Roy J, Gury J, Monier A, Coissac E, Ravanel P, Geremia RA, Raveton M.

Appl Microbiol Biotechnol. 2014 May;98(9):4257-66. doi: 10.1007/s00253-014-5545-6. Epub 2014 Feb 7.

PMID:
24504457
35.

Fifty thousand years of Arctic vegetation and megafaunal diet.

Willerslev E, Davison J, Moora M, Zobel M, Coissac E, Edwards ME, Lorenzen ED, Vestergård M, Gussarova G, Haile J, Craine J, Gielly L, Boessenkool S, Epp LS, Pearman PB, Cheddadi R, Murray D, Bråthen KA, Yoccoz N, Binney H, Cruaud C, Wincker P, Goslar T, Alsos IG, Bellemain E, Brysting AK, Elven R, Sønstebø JH, Murton J, Sher A, Rasmussen M, Rønn R, Mourier T, Cooper A, Austin J, Möller P, Froese D, Zazula G, Pompanon F, Rioux D, Niderkorn V, Tikhonov A, Savvinov G, Roberts RG, MacPhee RD, Gilbert MT, Kjær KH, Orlando L, Brochmann C, Taberlet P.

Nature. 2014 Feb 6;506(7486):47-51. doi: 10.1038/nature12921.

PMID:
24499916
36.

Long livestock farming history and human landscape shaping revealed by lake sediment DNA.

Giguet-Covex C, Pansu J, Arnaud F, Rey PJ, Griggo C, Gielly L, Domaizon I, Coissac E, David F, Choler P, Poulenard J, Taberlet P.

Nat Commun. 2014;5:3211. doi: 10.1038/ncomms4211.

PMID:
24487920
37.

Investigating the genetics of Bti resistance using mRNA tag sequencing: application on laboratory strains and natural populations of the dengue vector Aedes aegypti.

Paris M, Marcombe S, Coissac E, Corbel V, David JP, Després L.

Evol Appl. 2013 Nov;6(7):1012-27. doi: 10.1111/eva.12082. Epub 2013 Aug 31.

38.

DNA metabarcoding multiplexing and validation of data accuracy for diet assessment: application to omnivorous diet.

De Barba M, Miquel C, Boyer F, Mercier C, Rioux D, Coissac E, Taberlet P.

Mol Ecol Resour. 2014 Mar;14(2):306-23. doi: 10.1111/1755-0998.12188. Epub 2013 Nov 16.

PMID:
24128180
39.

Effect of DNA extraction and sample preservation method on rumen bacterial population.

Fliegerova K, Tapio I, Bonin A, Mrazek J, Callegari ML, Bani P, Bayat A, Vilkki J, Kopečný J, Shingfield KJ, Boyer F, Coissac E, Taberlet P, Wallace RJ.

Anaerobe. 2014 Oct;29:80-4. doi: 10.1016/j.anaerobe.2013.09.015. Epub 2013 Oct 12.

PMID:
24125910
40.

Plant functional traits reveal the relative contribution of habitat and food preferences to the diet of grasshoppers.

Ibanez S, Manneville O, Miquel C, Taberlet P, Valentini A, Aubert S, Coissac E, Colace MP, Duparc Q, Lavorel S, Moretti M.

Oecologia. 2013 Dec;173(4):1459-70. doi: 10.1007/s00442-013-2738-0. Epub 2013 Oct 6.

PMID:
24096738
41.

Phylogenomics and taxonomy of Lecomtelleae (Poaceae), an isolated panicoid lineage from Madagascar.

Besnard G, Christin PA, Malé PJ, Coissac E, Ralimanana H, Vorontsova MS.

Ann Bot. 2013 Oct;112(6):1057-66. doi: 10.1093/aob/mct174. Epub 2013 Aug 28.

42.

Fungal palaeodiversity revealed using high-throughput metabarcoding of ancient DNA from arctic permafrost.

Bellemain E, Davey ML, Kauserud H, Epp LS, Boessenkool S, Coissac E, Geml J, Edwards M, Willerslev E, Gussarova G, Taberlet P, Haile J, Brochmann C.

Environ Microbiol. 2013 Apr;15(4):1176-89. doi: 10.1111/1462-2920.12020. Epub 2012 Nov 22. Erratum in: Environ Microbiol. 2013 Jul;15(7):2146. Haile, James [added].

PMID:
23171292
43.

Two methods to easily obtain nucleotide sequences from AFLP loci of interest.

Paris M, Meyer CL, Blassiau C, Coissac E, Taberlet P, Després L.

Methods Mol Biol. 2012;888:91-108. doi: 10.1007/978-1-61779-870-2_6.

PMID:
22665277
44.

OligoTag: a program for designing sets of tags for next-generation sequencing of multiplexed samples.

Coissac E.

Methods Mol Biol. 2012;888:13-31. doi: 10.1007/978-1-61779-870-2_2.

PMID:
22665273
45.

A comparative study of ancient sedimentary DNA, pollen and macrofossils from permafrost sediments of northern Siberia reveals long-term vegetational stability.

Jørgensen T, Haile J, Möller P, Andreev A, Boessenkool S, Rasmussen M, Kienast F, Coissac E, Taberlet P, Brochmann C, Bigelow NH, Andersen K, Orlando L, Gilbert MT, Willerslev E.

Mol Ecol. 2012 Apr;21(8):1989-2003.

PMID:
22590727
46.

Assessment of the food habits of the Moroccan dorcas gazelle in M'Sabih Talaa, west central Morocco, using the trnL approach.

Ait Baamrane MA, Shehzad W, Ouhammou A, Abbad A, Naimi M, Coissac E, Taberlet P, Znari M.

PLoS One. 2012;7(4):e35643. doi: 10.1371/journal.pone.0035643. Epub 2012 Apr 27.

47.

DNA from soil mirrors plant taxonomic and growth form diversity.

Yoccoz NG, Bråthen KA, Gielly L, Haile J, Edwards ME, Goslar T, Von Stedingk H, Brysting AK, Coissac E, Pompanon F, Sønstebø JH, Miquel C, Valentini A, De Bello F, Chave J, Thuiller W, Wincker P, Cruaud C, Gavory F, Rasmussen M, Gilbert MT, Orlando L, Brochmann C, Willerslev E, Taberlet P.

Mol Ecol. 2012 Aug;21(15):3647-55. doi: 10.1111/j.1365-294X.2012.05545.x. Epub 2012 Apr 16.

PMID:
22507540
48.

Towards next-generation biodiversity assessment using DNA metabarcoding.

Taberlet P, Coissac E, Pompanon F, Brochmann C, Willerslev E.

Mol Ecol. 2012 Apr;21(8):2045-50. doi: 10.1111/j.1365-294X.2012.05470.x.

PMID:
22486824
49.

Bioinformatic challenges for DNA metabarcoding of plants and animals.

Coissac E, Riaz T, Puillandre N.

Mol Ecol. 2012 Apr;21(8):1834-47. doi: 10.1111/j.1365-294X.2012.05550.x. Review.

PMID:
22486822
50.

New environmental metabarcodes for analysing soil DNA: potential for studying past and present ecosystems.

Epp LS, Boessenkool S, Bellemain EP, Haile J, Esposito A, Riaz T, Erséus C, Gusarov VI, Edwards ME, Johnsen A, Stenøien HK, Hassel K, Kauserud H, Yoccoz NG, Bråthen KA, Willerslev E, Taberlet P, Coissac E, Brochmann C.

Mol Ecol. 2012 Apr;21(8):1821-33. doi: 10.1111/j.1365-294X.2012.05537.x.

PMID:
22486821

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