P
Pedro M. Coutinho
Researcher at Aix-Marseille University
Publications - 141
Citations - 46970
Pedro M. Coutinho is an academic researcher from Aix-Marseille University. The author has contributed to research in topics: Genome & Glycoside hydrolase. The author has an hindex of 73, co-authored 141 publications receiving 41612 citations. Previous affiliations of Pedro M. Coutinho include Centre national de la recherche scientifique & Institut national de la recherche agronomique.
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Journal ArticleDOI
The Carbohydrate-Active EnZymes database (CAZy): an expert resource for Glycogenomics
Brandi L. Cantarel,Pedro M. Coutinho,Corinne Rancurel,Thomas Bernard,Vincent Lombard,Bernard Henrissat +5 more
TL;DR: The Carbohydrate-Active Enzyme (CAZy) database is a knowledge-based resource specialized in the enzymes that build and breakdown complex carbohydrates and glycoconjugates and has been used to improve the quality of functional predictions of a number genome projects by providing expert annotation.
Journal ArticleDOI
The carbohydrate-active enzymes database (CAZy) in 2013
TL;DR: The changes that have occurred in CAZy during the past 5 years are outlined and a novel effort to display the resolution and the carbohydrate ligands in crystallographic complexes of CAZymes is presented.
Journal ArticleDOI
The genome of black cottonwood, Populus trichocarpa (Torr. & Gray)
Gerald A. Tuskan,Gerald A. Tuskan,Stephen P. DiFazio,Stephen P. DiFazio,Stefan Jansson,Joerg Bohlmann,Igor V. Grigoriev,Uffe Hellsten,Nicholas H. Putnam,Steven G. Ralph,Stephane Rombauts,Asaf Salamov,Jacquie Schein,Lieven Sterck,Andrea Aerts,Rishikeshi Bhalerao,Rishikesh P. Bhalerao,Damien Blaudez,Wout Boerjan,Annick Brun,Amy M. Brunner,Victor Busov,Malcolm M. Campbell,John E. Carlson,Michel Chalot,Jarrod Chapman,G.-L. Chen,Dawn Cooper,Pedro M. Coutinho,Jérémy Couturier,Sarah F. Covert,Quentin C. B. Cronk,R. Cunningham,John M. Davis,Sven Degroeve,Annabelle Déjardin,Claude W. dePamphilis,John C. Detter,Bill Dirks,Inna Dubchak,Inna Dubchak,Sébastien Duplessis,Jürgen Ehlting,Brian E. Ellis,Karla C Gendler,David Goodstein,Michael Gribskov,Jane Grimwood,Andrew Groover,Lee E. Gunter,Björn Hamberger,Berthold Heinze,Yrjö Helariutta,Yrjö Helariutta,Yrjö Helariutta,Bernard Henrissat,D. Holligan,Robert A. Holt,Wenyu Huang,N. Islam-Faridi,Steven J.M. Jones,M. Jones-Rhoades,Richard A. Jorgensen,Chandrashekhar P. Joshi,Jaakko Kangasjärvi,Jan Karlsson,Colin T. Kelleher,Robert Kirkpatrick,Matias Kirst,Annegret Kohler,Udaya C. Kalluri,Frank W. Larimer,Jim Leebens-Mack,Jean-Charles Leplé,Philip F. LoCascio,Y. Lou,Susan Lucas,Francis Martin,Barbara Montanini,Carolyn A. Napoli,David R. Nelson,C D Nelson,Kaisa Nieminen,Ove Nilsson,V. Pereda,Gary F. Peter,Ryan N. Philippe,Gilles Pilate,Alexander Poliakov,J. Razumovskaya,Paul G. Richardson,Cécile Rinaldi,Kermit Ritland,Pierre Rouzé,D. Ryaboy,Jeremy Schmutz,J. Schrader,Bo Segerman,H. Shin,Asim Siddiqui,Fredrik Sterky,Astrid Terry,Chung-Jui Tsai,Edward C. Uberbacher,Per Unneberg,Jorma Vahala,Kerr Wall,Susan R. Wessler,Guojun Yang,T. Yin,Carl J. Douglas,Marco A. Marra,Göran Sandberg,Y. Van de Peer,Daniel S. Rokhsar,Daniel S. Rokhsar +115 more
TL;DR: The draft genome of the black cottonwood tree, Populus trichocarpa, has been reported in this paper, with more than 45,000 putative protein-coding genes identified.
Journal ArticleDOI
The paleozoic origin of enzymatic lignin decomposition reconstructed from 31 fungal genomes
Dimitrios Floudas,Manfred Binder,Robert Riley,Kerrie Barry,Robert A. Blanchette,Bernard Henrissat,Ángel T. Martínez,Robert Otillar,Joseph W. Spatafora,Jagjit S. Yadav,Andrea Aerts,Isabelle Benoit,Alexander Boyd,Alexis Carlson,Alex Copeland,Pedro M. Coutinho,Ronald P. de Vries,Patricia Ferreira,Keisha Findley,Brian Foster,Jill Gaskell,Dylan Glotzer,Paweł Górecki,Joseph Heitman,Cedar N. Hesse,Chiaki Hori,Kiyohiko Igarashi,Joel A. Jurgens,Nathan M Kallen,Phil Kersten,Annegret Kohler,Ursula Kües,T. K. Arun Kumar,Alan Kuo,Kurt LaButti,Luis F. Larrondo,Erika Lindquist,Albee Y. Ling,Vincent Lombard,Susan Lucas,Taina Lundell,Rachael Martin,David J. McLaughlin,Ingo Morgenstern,Emanuelle Morin,Claude Murat,László Nagy,Matthew J Nolan,Robin A. Ohm,Aleksandrina Patyshakuliyeva,Antonis Rokas,Francisco J. Ruiz-Dueñas,Grzegorz Sabat,Asaf Salamov,Masahiro Samejima,Jeremy Schmutz,Jason C. Slot,Franz J. St John,Jan Stenlid,Hui Sun,Sheng Sun,Khajamohiddin Syed,Adrian Tsang,Ad Wiebenga,Darcy Young,Antonio G. Pisabarro,Daniel C. Eastwood,Francis Martin,Dan Cullen,Igor V. Grigoriev,David S. Hibbett +70 more
TL;DR: Comparative analyses of 31 fungal genomes suggest that lignin-degrading peroxidases expanded in the lineage leading to the ancestor of the Agaricomycetes, which is reconstructed as a white rot species, and then contracted in parallel lineages leading to brown rot and mycorrhizal species.
Journal ArticleDOI
Comparative genomics reveals mobile pathogenicity chromosomes in Fusarium
Li-Jun Ma,H. Charlotte van der Does,Katherine A. Borkovich,Jeffrey J. Coleman,Marie Josée Daboussi,Antonio Di Pietro,Marie Dufresne,Michael Freitag,Manfred Grabherr,Bernard Henrissat,Petra M. Houterman,Seogchan Kang,Won-Bo Shim,Charles P. Woloshuk,Xiaohui Xie,Jin-Rong Xu,John F. Antoniw,Scott E. Baker,B. H. Bluhm,Andrew Breakspear,Daren W. Brown,Robert A. E. Butchko,Sinéad B. Chapman,Richard M.R. Coulson,Pedro M. Coutinho,Etienne Danchin,Etienne Danchin,Andrew C. Diener,Liane R. Gale,Donald M. Gardiner,Stephen A. Goff,Kim E. Hammond-Kosack,Karen Hilburn,Aurélie Hua-Van,Wilfried Jonkers,Kemal Kazan,Chinnappa D. Kodira,Michael Koehrsen,Lokesh Kumar,Yong-Hwan Lee,Liande Li,Liande Li,John M. Manners,Diego Miranda-Saavedra,Mala Mukherjee,Gyungsoon Park,Jongsun Park,Sook Young Park,Sook Young Park,Robert H. Proctor,Aviv Regev,M. Carmen Ruiz-Roldán,Divya Sain,Sharadha Sakthikumar,Sean M. Sykes,David C. Schwartz,B. Gillian Turgeon,Ilan Wapinski,Olen C. Yoder,Sarah Young,Qiandong Zeng,Shiguo Zhou,James E. Galagan,Christina A. Cuomo,H. Corby Kistler,Martijn Rep +65 more
TL;DR: Comparison of genomes of three phenotypically diverse Fusarium species revealed lineage-specific genomic regions in F. oxysporum that include four entire chromosomes and account for more than one-quarter of the genome, putting the evolution of fungal pathogenicity into a new perspective.