J
Jens Roat Kultima
Researcher at Uppsala University
Publications - 25
Citations - 10382
Jens Roat Kultima is an academic researcher from Uppsala University. The author has contributed to research in topics: Metagenomics & Microbiome. The author has an hindex of 19, co-authored 25 publications receiving 8002 citations. Previous affiliations of Jens Roat Kultima include Harvard University & European Bioinformatics Institute.
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Journal ArticleDOI
Structure and function of the global ocean microbiome
Shinichi Sunagawa,Luis Pedro Coelho,Samuel Chaffron,Jens Roat Kultima,Karine Labadie,Guillem Salazar,Bardya Djahanschiri,Georg Zeller,Daniel R. Mende,Adriana Alberti,Francisco M. Cornejo-Castillo,Paul I. Costea,Corinne Cruaud,Francesco d'Ovidio,Stefan Engelen,Isabel Ferrera,Josep M. Gasol,Lionel Guidi,Falk Hildebrand,Florian Kokoszka,Cyrille Lepoivre,Gipsi Lima-Mendez,Julie Poulain,Bonnie T. Poulos,Marta Royo-Llonch,Hugo Sarmento,Sara Vieira-Silva,Céline Dimier,Marc Picheral,Sarah Searson,Stefanie Kandels-Lewis,Tara Oceans Coordinators,Chris Bowler,Colomban de Vargas,Gabriel Gorsky,Nigel Grimsley,Pascal Hingamp,Daniele Iudicone,Olivier Jaillon,Fabrice Not,Hiroyuki Ogata,Stephane Pesant,Sabrina Speich,Lars Stemmann,Matthew B. Sullivan,Jean Weissenbach,Patrick Wincker,Eric Karsenti,Jeroen Raes,Silvia G. Acinas,Peer Bork +50 more
TL;DR: This work identifies ocean microbial core functionality and reveals that >73% of its abundance is shared with the human gut microbiome despite the physicochemical differences between these two ecosystems.
Journal ArticleDOI
An integrated catalog of reference genes in the human gut microbiome
Junhua Li,Huijue Jia,Xianghang Cai,Huanzi Zhong,Qiang Feng,Shinichi Sunagawa,Manimozhiyan Arumugam,Jens Roat Kultima,Edi Prifti,Trine Nielsen,Agnieszka S. Juncker,Chaysavanh Manichanh,Bing Chen,Wenwei Zhang,Florence Levenez,Juan Wang,Xun Xu,Liang Xiao,Suisha Liang,Dongya Zhang,Zhaoxi Zhang,Weineng Chen,Hailong Zhao,Jumana Y. Al-Aama,Sherif Edris,Huanming Yang,Jian Wang,Torben Hansen,Henrik Nielsen,Søren Brunak,Karsten Kristiansen,Francisco Guarner,Oluf Pedersen,Joël Doré,S. Dusko Ehrlich,Peer Bork,Jun Wang +36 more
TL;DR: The integrated gene catalog (IGC) is established comprising 9,879,896 genes, which includes close-to-complete sets of genes for most gut microbes, which are also of considerably higher quality than in previous catalogs.
Journal ArticleDOI
Disentangling type 2 diabetes and metformin treatment signatures in the human gut microbiota
Kristoffer Forslund,Falk Hildebrand,Falk Hildebrand,Trine Nielsen,Gwen Falony,Gwen Falony,Shinichi Sunagawa,Edi Prifti,Sara Vieira-Silva,Sara Vieira-Silva,Valborg Gudmundsdottir,Helle Krogh Pedersen,Manimozhiyan Arumugam,Karsten Kristiansen,Anita Y. Voigt,Anita Y. Voigt,Henrik Vestergaard,Rajna Hercog,Paul I. Costea,Jens Roat Kultima,Junhua Li,Torben Jørgensen,Torben Jørgensen,Florence Levenez,Joël Doré,H. Bjørn Nielsen,Søren Brunak,Søren Brunak,Jeroen Raes,Jeroen Raes,Jeroen Raes,Torben Hansen,Torben Hansen,Jun Wang,S. Dusko Ehrlich,S. Dusko Ehrlich,Peer Bork,Oluf Pedersen +37 more
TL;DR: A unified signature of gut microbiome shifts in T2D with a depletion of butyrate-producing taxa is reported, highlighting the need to disentangle gut microbiota signatures of specific human diseases from those of medication.
Journal ArticleDOI
Identification and assembly of genomes and genetic elements in complex metagenomic samples without using reference genomes
H. Bjørn Nielsen,Mathieu Almeida,Agnieszka S. Juncker,Simon Rasmussen,Junhua Li,Shinichi Sunagawa,Damian R. Plichta,Laurent Gautier,Anders Gorm Pedersen,Eric Pelletier,Ida Bonde,Trine Nielsen,Chaysavanh Manichanh,Manimozhiyan Arumugam,Jean-Michel Batto,Marcelo B Quintanilha dos Santos,Nikolaj Blom,Natalia Borruel,Kristoffer Sølvsten Burgdorf,Fouad Boumezbeur,Francesc Casellas,Joël Doré,Piotr Dworzynski,Francisco Guarner,Torben Hansen,Falk Hildebrand,Rolf Sommer Kaas,Sean Kennedy,Karsten Kristiansen,Jens Roat Kultima,Pierre Leonard,Florence Levenez,Ole Lund,Bouziane Moumen,Denis Le Paslier,Nicolas Pons,Oluf Pedersen,Edi Prifti,Junjie Qin,Jeroen Raes,Søren J. Sørensen,Julien Tap,Sebastian Tims,David W. Ussery,Takuji Yamada,Pierre Renault,Thomas Sicheritz-Pontén,Peer Bork,Jun Wang,Søren Brunak,S. Dusko Ehrlich +50 more
TL;DR: This work presents a method, based on binning co-abundant genes across a series of metagenomic samples, that enables comprehensive discovery of new microbial organisms, viruses and co-inherited genetic entities and aids assembly of microbial genomes without the need for reference sequences.
Journal ArticleDOI
Potential of fecal microbiota for early‐stage detection of colorectal cancer
Georg Zeller,Julien Tap,Anita Y. Voigt,Shinichi Sunagawa,Jens Roat Kultima,Paul I. Costea,Aurelien Amiot,Jürgen Böhm,Francesco Brunetti,Nina Habermann,Rajna Hercog,Moritz Koch,Alain Luciani,Daniel R. Mende,Martin Schneider,Petra Schrotz-King,Christophe Tournigand,Jeanne Tran Van Nhieu,Takuji Yamada,Jürgen Zimmermann,Vladimir Benes,Matthias Kloor,Matthias Kloor,Matthias Kloor,Cornelia M. Ulrich,Cornelia M. Ulrich,Magnus von Knebel Doeberitz,Magnus von Knebel Doeberitz,Magnus von Knebel Doeberitz,Iradj Sobhani,Peer Bork,Peer Bork +31 more
TL;DR: CRC‐associated changes in the fecal microbiome at least partially reflected microbial community composition at the tumor itself, indicating that observed gene pool differences may reveal tumor‐related host–microbe interactions.