Publications

2022

2022
Gut microbiome of the largest living rodent harbors unprecedented enzymatic systems to degrade plant polysaccharides

Lucelia Cabral, Gabriela Persinoti, Douglas Paixão, Marcele Martins, Mariana Morais, Mariana Chinaglia, Mariane Domingues, Mauricio Sforca, Renan Pirolla, Wesley Generoso, Clelton Santos, Lucas Maciel, Nicolas Terrapon, Vincent Lombard, Bernard Henrissat, Mario Murakami

Nature Communications 13:629 (2022)10.1038/s41467-022-28310-y

2022
Functional exploration of the glycoside hydrolase family GH113

Marie Couturier, Mélanie Touvrey-Loiodice, Nicolas Terrapon, Elodie Drula, Laurine Buon, Christine Chirat, Bernard Henrissat, William Helbert

PLoS ONE 17:e0267509 (2022)10.1371/journal.pone.0267509

2022
Mechanistic insights into consumption of the food additive xanthan gum by the human gut microbiota

Matthew Ostrowski, Sabina Leanti La Rosa, Benoit Kunath, Andrew Robertson, Gabriel Pereira, Live Hagen, Neha Varghese, Ling Qiu, Tianming Yao, Gabrielle Flint, James Li, Sean Mcdonald, Duna Buttner, Nicholas Pudlo, Matthew Schnizlein, Vincent Young, Harry Brumer, Thomas Schmidt, Nicolas Terrapon, Vincent Lombard, Bernard Henrissat, Bruce Hamaker, Emiley Eloe-Fadrosh, Ashootosh Tripathi, Phillip Pope, Eric Martens

Nature Microbiology 7:556-569 (2022)10.1038/s41564-022-01093-0

2022
Assembly and synthesis of the extracellular matrix in brown algae

Lisa Mazéas, Rina Yonamine, Tristan Barbeyron, Bernard Henrissat, Elodie Drula, Nicolas Terrapon, Chikako Nagasato, Cécile Hervé

Seminars in Cell and Developmental Biology (2022)10.1016/j.semcdb.2022.03.005

2022
Phenotypic and Genomic Diversification in Complex Carbohydrate-Degrading Human Gut Bacteria

Nicholas Pudlo, Karthik Urs, Ryan Crawford, Ali Pirani, Todd Atherly, Roberto Jimenez, Nicolas Terrapon, Bernard Henrissat, Daniel Peterson, Cherie Ziemer, Evan Snitkin, Eric Martens

mSystems 7:e0094721 (2022)10.1128/msystems.00947-21

2022
The carbohydrate-active enzyme database: functions and literature

Elodie Drula, Marie-Line Garron, Suzan Dogan, Vincent Lombard, Bernard Henrissat, Nicolas Terrapon

Nucleic Acids Research 50:D571-D577 (2022)10.1093/nar/gkab1045

2021

2021
Polysaccharide utilization loci-driven enzyme discovery reveals BD-FAE: a bifunctional feruloyl and acetyl xylan esterase active on complex natural xylans

Lisanne Hameleers, Leena Penttinen, Martina Ikonen, Léa Jaillot, Régis Fauré, Nicolas Terrapon, Peter J Deuss, Nina Hakulinen, Emma R Master, Edita Jurak

Biotechnology for Biofuels 14 (2021)10.1186/s13068-021-01976-0

2021
Genome Features of Asaia sp. W12 Isolated from the Mosquito Anopheles stephensi Reveal Symbiotic Traits

Shicheng Chen, Ting Yu, Nicolas Terrapon, Bernard Henrissat, Edward D Walker

Genes 12:752 (2021)10.3390/genes12050752

2021
Strain-level functional variation in the human gut microbiota based on bacterial binding to artificial food particles

Michael Patnode, Janaki Guruge, Juan Castillo, Garret Couture, Vincent Lombard, Nicolas Terrapon, Bernard Henrissat, Carlito Lebrilla, Jeffrey Gordon

Cell Host & Microbe 29:664-673.e5 (2021)10.1016/j.chom.2021.01.007

2021
Bioinformatic Analysis of Lytic Polysaccharide Monooxygenases Reveals the Pan-Families Occurrence of Intrinsically Disordered C-Terminal Extensions

Ketty C Tamburrini, Nicolas Terrapon, Vincent Lombard, Bastien Bissaro, Sonia Longhi, Jean-Guy Berrin

Biomolecules 11:1632 (2021)10.3390/biom11111632

2020

2020
Microbiota-directed fibre activates both targeted and secondary metabolic shifts in the distal gut

Leszek Michalak, John Christian Gaby, Leidy Lagos, Sabina Leanti La Rosa, Torgeir Hvidsten, Catherine Tétard-Jones, William G T Willats, Nicolas Terrapon, Vincent Lombard, Bernard Henrissat, Johannes Dröge, Magnus Øverlie Arntzen, Live Heldal Hagen, Margareth Øverland, Phillip Pope, Bjørge Westereng

Nature Communications 11 (2020)10.1038/s41467-020-19585-0

2020
Metabolism of multiple glycosaminoglycans by Bacteroides thetaiotaomicron is orchestrated by a versatile core genetic locus

Didier Ndeh, Arnaud Baslé, Henrik Strahl, Urszula Mcclurgg, Bernard Henrissat, Nicolas Terrapon, Alan Cartmell

Nature Communications 11 (2020)10.1038/s41467-020-14509-4

2020
Isolation and Characterization of Extracellular Vesicles Secreted In Vitro by Porcine Microbiota

Leidy Lagos, Sabina Leanti La Rosa, Magnus Ø. Arntzen, Ragnhild Ånestad, Nicolas Terrapon, John Christian Gaby, Bjørge Westereng

Microorganisms 8:983 (2020)10.3390/microorganisms8070983

2020
Analysis of the diversity of the glycoside hydrolase family 130 in mammal gut microbiomes reveals a novel mannoside-phosphorylase function

Ao Li, Elisabeth Laville, Laurence Tarquis, Vincent Lombard, David Ropartz, Nicolas Terrapon, Bernard Henrissat, David Guieysse, Jeremy Esque, Julien Durand, Diego Morgavi, Gabrielle Potocki-Veronese

Microbial Genomics 6:1-14 (2020)10.1099/mgen.0.000404

2020
A catalog of microbial genes from the bovine rumen unveils a specialized and diverse biomass-degrading environment

Junhua Li, Huanzi Zhong, Yuliaxis Y. Ramayo-Caldas, Nicolas Terrapon, Vincent Lombard, Gabrielle Potocki-Veronese, Jordi Estellé, Milka Popova, Ziyi Yang, Hui Zhang, Fang Li, Shanmei Tang, Fangming Yang, Weineng Chen, Bing Chen, Jiyang Li, Jing Guo, Cécile Martin, Emmanuelle Maguin, Xun Xu, Huanming Yang, Jian Wang, Lise Madsen, Karsten Kristiansen, Bernard Henrissat, Stanislav S. Ehrlich, Diego Morgavi

GigaScience 9:1-15 (2020)10.1093/gigascience/giaa057

2020
Investigating host-microbiome interactions by droplet based microfluidics

Alexandra S Tauzin, Mariana Rangel Pereira, Liisa D van Vliet, Pierre-Yves Colin, Elisabeth Laville, Jeremy Esque, Sandrine Laguerre, Bernard Henrissat, Nicolas Terrapon, Vincent Lombard, Marion Leclerc, Joël Doré, Florian Hollfelder, Gabrielle Potocki-Veronese

Microbiome 8 (2020)10.1186/s40168-020-00911-z

2020
Harvesting of Prebiotic Fructooligosaccharides by Nonbeneficial Human Gut Bacteria

Zhi Wang, Alexandra S. Tauzin, Elisabeth Laville, Pietro Tedesco, Fabien Letisse, Nicolas Terrapon, Pascale Lepercq, Myriam Mercade, Gabrielle Potocki-Veronese

mSphere 5:26 p. (2020)10.1128/mSphere.00771-19

2019

2019
Subfamily delineation of the evolutionarily diverse Glycoside Hydrolase Family 16 (GH16) provides a roadmap for functional glycogenomics

Alexander Holm Viborg, Nicolas Terrapon, Vincent Lombard, Gurvan Michel, Mirjam Czjzek, Bernard Henrissat, Harry Brumer

Journal of Biological Chemistry (2019)10.1074/jbc.RA119.010619

2019
Comparative genomic analyses reveal diverse virulence factors and antimicrobial resistance mechanisms in clinical Elizabethkingia meningoseptica strains

Jochen Blom, Nicolas Terrapon, Shicheng Chen, Marty Soehnlen, Jochen Blom Id, Bernard Henrissat, Edward D Walker

PLoS ONE 14:e0222648 (2019)10.1371/journal.pone.0222648

2019
Interspecies Competition Impacts Targeted Manipulation of Human Gut Bacteria by Fiber-Derived Glycans

Michael Patnode, Zachary Beller, Nathan Han, Jiye Cheng, Samantha Peters, Nicolas Terrapon, Bernard Henrissat, Sophie Le Gall, Luc Saulnier, David Hayashi, Alexandra Meynier, Sophie Vinoy, Richard J Giannone, Robert L Hettich, Jeffrey I Gordon

Cell 179:59-73.e13 (2019)10.1016/j.cell.2019.08.011

2019
Bacteroidetes use thousands of enzyme combinations to break down glycans

Pascal Lapébie, Vincent Lombard, Elodie Drula, Nicolas Terrapon, Bernard Henrissat

Nature Communications 10:1 (2019)10.1038/s41467-019-10068-5

2019
Discovery of novel carbohydrate-active enzymes through the rational exploration of the protein sequences space

William Helbert, Laurent Poulet, Sophie Drouillard, Sophie Mathieu, Mélanie Loiodice, Marie Couturier, Vincent Lombard, Nicolas Terrapon, Jeremy Turchetto, Vincent Vincentelli, Bernard Henrissat

Proceedings of the National Academy of Sciences of the United States of America 116:6063-6068 (2019)10.1073/pnas.1815791116

2019
A subfamily roadmap for functional glycogenomics of the evolutionarily diverse Glycoside Hydrolase Family 16 (GH16)

Alexander Holm Viborg, Nicolas Terrapon, Vincent Lombard, Gurvan Michel, Mirjam Czjzek, Bernard Henrissat, Harry Brumer

Journal of Biological Chemistry 294:15973-15986 (2019)10.1074/jbc.RA119.010619

2018

2018
A surface endogalactanase in Bacteroides thetaiotaomicron confers keystone status for arabinogalactan degradation

Alan Cartmell, Li Muñoz-Muñoz, Jonathon Briggs, Didier Ndeh, Elisabeth Lowe, Arnaud Basle, Nicolas Terrapon, Katherine Stott, Tiaan Heunis, Joe Gray, Li Yu, Paul P. Dupree, Pearl Fernandes, Sayali Shah, Spencer Williams, Aurore Labourel, Matthias Trost, Bernard Henrissat, Harry Gilbert, Jose Munoz-Munoz

Nature Microbiology 3:1314-1326 (2018)10.1038/s41564-018-0258-8

2018
Cultivation and sequencing of rumen microbiome members from the Hungate1000 Collection

Rekha Seshadri, Sinead Leahy, Graeme Attwood, Koon Hoong Teh, Suzanne Lambie, Adrian Cookson, Emiley Eloe-Fadrosh, Georgios Pavlopoulos, Michalis Hadjithomas, Neha Varghese, David Páez-Espino, Rechelle Perry, Gemma Henderson, Christopher J. Creevey, Nicolas Terrapon, Pascal Lapébie, Elodie Drula, Vincent Lombard, Edward M. Rubin, Nikos Kyrpides, Bernard Henrissat, Tanja Woyke, Natalia Ivanova, William Kelly, Nikola Palevich, Peter Janssen, Ron Ronimus, Samantha Noel, Priya Soni, Kerri Reilly, Todd Atherly, Cherie Ziemer, Andre-Denis Wright, Suzanne Ishaq, Michael Cotta, Stephanie Thompson, Katie Crosley, Nest Mckain, R John Wallace, Harry Flint, Jennifer Martin, Robert Forster, Robert Gruninger, Tim Mcallister, Rosalind Gilbert, Diane Ouwerkerk, Athol Klieve, Rafat Al Jassim, Stuart Denman, Chris Mcsweeney, Carly Rosewarne, Satoshi Koike, Yasuo Kobayashi, Makoto Mitsumori, Takumi Shinkai, Silvio Cravero, María Cerón Cucchi, Chris Creevey

Nature Biotechnology 36:359-367 (2018)10.1038/nbt.4110

2018
Dietary pectic glycans are degraded by coordinated enzyme pathways in human colonic Bacteroides

Ana R Luis, Jonathon Briggs, Xiaoyang Zhang, Benjamin Farnell, Didier Ndeh, Aurore Labourel, Arnaud Basle, Alan Cartmell, Nicolas Terrapon, Katherine Stott, Elisabeth Lowe, Richard Mclean, Kaitlyn Shearer, Julia Schuckel, Immacolata Venditto, Marie-Christine Ralet, Bernard Henrissat, Eric Martens, Steven Mosimann, D Wade Abbott, Harry Gilbert, D. Wade Abbott

Nature Microbiology 3:210-219 (2018)10.1038/s41564-017-0079-1

2018
PULDB: the expanded database of Polysaccharide Utilization Loci

Nicolas Terrapon, Vincent Lombard, Elodie Drula, Pascal Lapébie, Saad Al-Masaudi, Harry Gilbert, Bernard Henrissat

Nucleic Acids Research 46:D677-D683 (2018)10.1093/nar/gkx1022

2017

2017
Ninety-nine de novo assembled genomes from the moose (Alces alces) rumen microbiome provide new insights into microbial plant biomass degradation

Olov Svartström, Johannes Alneberg, Nicolas Terrapon, Vincent Lombard, Ino de Bruijn, Jonas Malmsten, Ann-Marie Dalin, Emilie El Muller, Pranjul Shah, Paul Wilmes, Bernard Henrissat, Henrik Aspeborg, Anders Andersson

ISME Journal 11:2538-2551 (2017)10.1038/ismej.2017.108

2017
A fibrolytic potential in the human ileum mucosal microbiota revealed by functional metagenomic

Orlane Patrascu, Fabienne Beguet-Crespel, Ludovica Marinelli, Emmanuelle Le Chatelier, Anne-Laure Abraham, Marion Leclerc, Christophe C. Klopp, Nicolas Terrapon, Bernard Henrissat, Hervé Blottiere, Joël Dore, Christel Maillet

Scientific Reports 7:np (2017)10.1038/srep40248

2017
A bioinformatics analysis of 3400 lytic polysaccharide oxidases from family AA9

Nicolas Lenfant, Matthieu Hainaut, Nicolas Terrapon, Elodie Drula, Vincent Lombard, Bernard Henrissat

Carbohydrate Research 448:166-174 (2017)10.1016/j.carres.2017.04.012

2017
An evolutionarily distinct family of polysaccharide lyases removes rhamnose capping of complex arabinogalactan proteins

Jose Munoz-Munoz, Alan Cartmell, Nicolas Terrapon, Arnaud Basle, Bernard Henrissat, Harry J. Gilbert

Journal of Biological Chemistry 292:13271-13283 (2017)10.1074/jbc.M117.794578

2017
Complex pectin metabolism by gut bacteria reveals novel catalytic functions

Didier Ndeh, Artur Rogowski, Alan Cartmell, Ana S. Luis, Arnaud Basle, Joseph Gray, Immacolata Venditto, Jonathon Briggs, Xiaoyang Zhang, Aurore Labourel, Nicolas Terrapon, Fanny Buffetto, Sergey Nepogodiev, Yao Xiao, Robert A. Field, Yanping Zhu, Malcolm A. O'Neill, Breeanna R. Urbanowicz, William S. York, Gideon J. Davies, D. Wade Abbott, Marie-Christine Ralet-Renard, Eric C. Martens, Bernard Henrissat, Harry J. Gilbert

Nature 544:65-+ (2017)10.1038/nature21725

2017
Comparative Metagenomics of Cellulose- and Poplar Hydrolysate-Degrading Microcosms from Gut Microflora of the Canadian Beaver (Castor canadensis) and North American Moose (Alces americanus) after Long-Term Enrichment

Mabel Wong, Weijun Wang, Marie Couturier, Fakhria Razeq, Vincent Lombard, Pascal Lapébie, Elizabeth Edwards, Nicolas Terrapon, Bernard Henrissat, Emma Master

Frontiers in Microbiology 8:2504 (2017)10.3389/fmicb.2017.02504

2017
How members of the human gut microbiota overcome the sulfation problem posed by glycosaminoglycans

Alan Cartmell, Elisabeth Lowe, Arnaud Basle, Susan Firbank, Didier Ndeh, Heath Murray, Nicolas Terrapon, Vincent Lombard, Bernard Henrissat, Jeremy E Turnbull, Mirjam Czjzek, Harry Gilbert, David Bolam

Proceedings of the National Academy of Sciences of the United States of America 114:7037-7042 (2017)10.1073/pnas.1704367114

2016

2016
A Dietary Fiber-Deprived Gut Microbiota Degrades the Colonic Mucus Barrier and Enhances Pathogen Susceptibility

Mahesh S. Desai, Anna M. Seekatz, Nicole M. Koropatkin, Nobuhiko Kamada, Christina A. Hickey, Mathis Wolter, Nicholas A. Pudlo, Sho Kitamoto, Nicolas Terrapon, Arnaud Muller, Vincent B. Young, Bernard Henrissat, Paul Wilmes, Thaddeus S. Stappenbeck, Gabriel Nunez, Eric C. Martens

Cell 167:1339+ (2016)10.1016/j.cell.2016.10.043

2016
Unraveling the pectinolytic function of Bacteroides xylanisolvens using a RNA-seq approach and mutagenesis

Jordane Despres, Evelyne Forano, Pascale Lepercq, Sophie Comtet-Marre, Gregory Jubelin, Carl J. Yeoman, Margret E. Berg Miller, Christopher J. Fields, Nicolas Terrapon, Carine Le Bourvellec, Catherine M. G. C. Renard, Bernard Henrissat, Bryan A. White, Pascale Mosoni

BMC Genomics 27 (2016)10.1186/s12864-016-2758-3

2016
Xylan degradation by the human gut Bacteroides xylanisolvens XB1A(T) involves two distinct gene clusters that are linked at the transcriptional level

Jordane Despres, Evelyne Forano, Pascale Lepercq, Sophie Comtet-Marre, Gregory Jubelin, Christophe Chambon, Carl J. Yeoman, Margaret E. Berg Miller, Christopher J. Fields, Eric Martens, Nicolas Terrapon, Bernard Henrissat, Bryan A. White, Pascale Mosoni

BMC Genomics 17 (2016)10.1186/s12864-016-2680-8

2016
Unraveling the pectinolytic function of Bacteroides xylanisolvens using a RNA-seq approach and mutagenesis

Jordane Despres, Evelyne Forano, Pascale Lepercq, Sophie Comtet-Marre, Gregory Jubelin, Carl J. Yeoman, Margret E. Berg Miller, Christopher J. Fields, Nicolas Terrapon, Carine Le Bourvellec, Catherine M. G. C. Renard, Bernard Henrissat, Bryan A. White, Pascale Mosoni

BMC Genomics 17:147 (2016)10.1186/s12864-016-2472-1

2015

2015
Genetic determinants of in vivo fitness and diet responsiveness in multiple human gut Bacteroides

Meng Wu, Nathan P. Mcnulty, Dmitry A. Rodionov, Matvei S. Khoroshkin, Nicholas W. Griffin, Jiye Cheng, Phil Latreille, Randall A. Kerstetter, Nicolas Terrapon, Bernard Henrissat, Andrei L. Osterman, Jeffrey I. Gordon

Science 350 (2015)10.1126/science.aac5992

2015
Glycan complexity dictates microbial resource allocation in the large intestine

Artur Rogowski, Jonathon A. Briggs, Jennifer C. Mortimer, Theodora Tryfona, Nicolas Terrapon, Elisabeth C. Lowe, Arnaud Basle, Carl Morland, Alison M. Day, Hongjun Zheng, Theresa E. Rogers, Paul Thompson, Alastair R. Hawkins, Madhav P. Yadav, Bernard Henrissat, Eric C. Martens, Paul Dupree, Harry J. Gilbert, David N. Bolam

Nature Communications 6 (2015)10.1038/ncomms8481

2015
Automatic prediction of polysaccharide utilization loci in Bacteroidetes species

Nicolas Terrapon, Vincent Lombard, Harry J. Gilbert, Bernard Henrissat

Bioinformatics 31:647-655 (2015)10.1093/bioinformatics/btu716

2014

2014
Identification of divergent protein domains by combining HMM-HMM comparisons and co-occurrence detection

Amel Ghouila, Isabelle Florent, Fatma Zahra Guerfali, Nicolas Terrapon, Dhafer Laouini, Sadok Ben Yahia, Olivier Gascuel, Laurent Brehelin

PLoS ONE 9:e95275 (2014)10.1371/journal.pone.0095275

2012

2012
Fitting hidden Markov models of protein domains to a target species: application to Plasmodium falciparum.

Nicolas Terrapon, Olivier Gascuel, Eric Marechal, Laurent Brehelin

BMC Bioinformatics 13:67 (2012)10.1186/1471-2105-13-67

2011

2011
EuPathDomains: The Divergent Domain Database for Eukaryotic Pathogens

Amel Ghouila, Nicolas Terrapon, Olivier Gascuel, Fatma Guerfali, Dhafer Laouini, Eric Marechal, Laurent Brehelin

Infection, Genetics and Evolution 11:698-707 (2011)10.1016/j.meegid.2010.09.008

2009

2009
Detection of new protein domains using co-occurrence: application to Plasmodium falciparum

Nicolas Terrapon, Olivier Gascuel, Eric Maréchal, Laurent Brehelin

Bioinformatics 25:3077-83 (2009)10.1093/bioinformatics/btp560