The Plasmidome: a Driving Force of Rumen Microbial Evolution from Birth to Adulthood

Información del proyecto

RuMicroPlas

Identificador del acuerdo de subvención: 640384

DOI

10.3030/640384

Proyecto cerrado

Fecha de la firma de la CE 27 Agosto 2015

Fecha de inicio 1 Enero 2016

Fecha de finalización 31 Diciembre 2021

Financiado con arreglo a

• EXCELLENT SCIENCE - European Research Council (ERC)

Coste total

€ 1 499 000,00

Aportación de la UE

€ 1 499 000,00

Coordinado por

BEN-GURION UNIVERSITY OF THE NEGEV
Israel

CORDIS proporciona enlaces a los documentos públicos y las publicaciones de los proyectos de los programas marco HORIZONTE.

Los enlaces a los documentos y las publicaciones de los proyectos del Séptimo Programa Marco, así como los enlaces a algunos tipos de resultados específicos, como conjuntos de datos y «software», se obtienen dinámicamente de OpenAIRE .

Publicaciones

Peer reviewed articles (32)

Unravelling plasmidome distribution and interaction with its hosting microbiome

Autores: Brown Kav, Aya; Rozov, Roye; Bogumil, David; Sørensen, Søren Johannes; Hansen, Lars Hestbjerg; Benhar, Itai; Halperin, Eran; Shamir, Ron; Mizrahi, Itzhak
Publicado en: Environmental Microbiology, Edición 14, 2020, ISSN 1462-2912
Editor: Blackwell Publishing Inc.
DOI: 10.1111/1462-2920.14813

Compositional and functional dynamics of the bovine rumen methanogenic community across different developmental stages.

Autores: Nir Friedman; Elie Jami; Itzhak Mizrahi
Publicado en: Environmental Microbiology, Edición 1, 2017, ISSN 0000-0000
Editor: SFAM
DOI: 10.1111/1462-2920.13846

Modeling the temporal dynamics of the gut microbial community in adults and infants.

Autores: Shenhav, Liat; Furman, Ori; Briscoe, Leah; Thompson, Mike; Silverman, Justin D.; Mizrahi, Itzhak; Halperin, Eran
Publicado en: PLoS Computational Biology, Edición 20, 2019, ISSN 0000-0000
Editor: Plos
DOI: 10.1371/journal.pcbi.1006960

A heritable subset of the core rumen microbiome dictates dairy cow productivity and emissions

Autores: Wallace, R. John; Sasson, Goor; Garnsworthy, Philip C.; Tapio, Ilma; Gregson, Emma; Bani, Paolo; Huhtanen, Pekka; Bayat, Ali R.; Strozzi, Francesco; Biscarini, Filippo; Snelling, Timothy J.; Saunders, Neil; Potterton, Sarah L.; Craigon, James; Minuti, Andrea; Trevisi, Erminio; Callegari, Maria L.; Cappelli, Fiorenzo Piccioli; Cabezas-Garcia, Edward H.; Vilkki, Johanna; Pinares-Patino, Cesar; Flieg
Publicado en: Sciences Advances, Edición 9, 2019, ISSN 2375-2548
Editor: American Association for the Advancement of Science
DOI: 10.1126/sciadv.aav8391

Short- and long-term low-salinity acclimation effects on the branchial and intestinal gene expression in the European seabass (Dicentrarchus labrax).

Autores: Kokou, Fotini; Con, Pazit; Barki, Assaf; Nitzan, Tali; Slosman, Tatiana; Mizrahi, Itzhak; Cnaani, Avner
Publicado en: Comparative Biochemistry and Physiology Part A: Molecular & Integrative Physiology, Edición 8, 2019, ISSN 1095-6433
Editor: Elsevier BV
DOI: 10.1016/j.cbpa.2019.01.018

Broad phylogeny and functionality of cellulosomal components in the bovine rumen microbiome.

Autores: Lizi Bensoussan; Sarah Moraïs; Bareket Dassa; Nir Friedman; Bernard Henrissat; Vincent Lombard; Edward A. Bayer; Itzhak Mizrahi
Publicado en: Environmental Microbiology, Edición 2, 2017, ISSN 0000-0000
Editor: Wiley
DOI: 10.1111/1462-2920.13561

Segregational drift and the interplay between plasmid copy number and evolvability

Autores: Judith Ilhan; Anneke Kupczok; Christian Woehle; Tanita Wein; Nils F Huelter; Philip Rosenstiel; Giddy Landan; Itzhak Mizrahi; Tal Dagan
Publicado en: Molecular Biology and Evolution, Edición 21, 2018, ISSN 1537-1719
Editor: Oxford Academic
DOI: 10.1093/molbev/msy225

Emergence of plasmid stability under non-selective conditions maintains antibiotic resistance.

Autores: Wein, Tanita; Hülter, Nils F.; Mizrahi, Itzhak; Dagan, Tal
Publicado en: Nature Communications, Edición 1, 2019, ISSN 2041-1723
Editor: Nature Publishing Group
DOI: 10.1038/s41467-019-10600-7

SCAPP: an algorithm for improved plasmid assembly in metagenomes

Autores: Pellow, D., Zorea, A., Probst, M. et al.
Publicado en: Microbiome, 2021, ISSN 2049-2618
Editor: Springer Nature
DOI: 10.1186/s40168-021-01068-z

Rapid adaptation for fibre degradation by changes in plasmid stoichiometry within Lactobacillus plantarum at the synthetic community level

Autores: Yonit Ben-David; Sarah Moraïs; Sarah Moraïs; Edward A. Bayer; Itzhak Mizrahi
Publicado en: Microbial Biotechnology, Edición 1, 2020, ISSN 1751-7915
Editor: Wiley
DOI: 10.1111/1751-7915.13584

The rumen microbiome: balancing food security and environmental impacts

Autores: Itzhak Mizrahi 1 , R John Wallace 2 , Sarah Moraïs 3
Publicado en: Nature reviews microbiology, 2021, ISSN 1740-1526
Editor: Nature Publishing Group
DOI: 10.1038/s41579-021-00543-6

Generating lineage-resolved, complete metagenome-assembled genomes from complex microbial communities

Autores: Derek M. Bickhart, Mikhail Kolmogorov, Elizabeth Tseng, Daniel M. Portik, Anton Korobeynikov, Ivan Tolstoganov, Gherman Uritskiy, Ivan Liachko, Shawn T. Sullivan, Sung Bong Shin, Alvah Zorea, Victòria Pascal Andreu, Kevin Panke-Buisse, Marnix H. Medema, Itzhak Mizrahi, Pavel A. Pevzner & Timothy P. L. Smith
Publicado en: Nature Biotechnology, 2021, ISSN 1087-0156
Editor: Nature Publishing Group
DOI: 10.1038/s41587-021-01130-z

PlasClass improves plasmid sequence classification

Autores: David Pellow; Itzik Mizrahi; Ron Shamir
Publicado en: PLoS Computational Biology, Vol 16, Iss 4, p e1007781 (2020), Edición 4, 2020, ISSN 1553-7358
Editor: Public Library of Science (PLoS)
DOI: 10.1101/783571

Heritable Bovine Rumen Bacteria Are Phylogenetically Related and Correlated with the Cow’s Capacity To Harvest Energy from Its Feed

Autores: Goor Sasson, Sheerli Kruger Ben-Shabat, Eyal Seroussi, Adi Doron-Faigenboim, Naama Shterzer, Shamay Yaacoby, Margret E. Berg Miller, Bryan A. White, Eran Halperin, Itzhak Mizrahi
Publicado en: mBio, Edición 8/4, 2017, ISSN 2150-7511
Editor: American Society for Microbiology
DOI: 10.1128/mBio.00703-17

Insights Into Culturomics of the Rumen Microbiome

Autores: Tamar Zehavi, Maraike Probst, Itzhak Mizrahi
Publicado en: Frontiers in Microbiology, Edición 9, 2018, ISSN 1664-302X
Editor: Frontiers Media
DOI: 10.3389/fmicb.2018.01999

Review: The compositional variation of the rumen microbiome and its effect on host performance and methane emission

Autores: I. Mizrahi, E. Jami
Publicado en: animal, 2018, Página(s) 1-13, ISSN 1751-7311
Editor: Cambridge University Press
DOI: 10.1017/S1751731118001957

Recycler: an algorithm for detecting plasmids from de novo assembly graphs

Autores: Roye Rozov, Aya Brown Kav, David Bogumil, Naama Shterzer, Eran Halperin, Itzhak Mizrahi, Ron Shamir
Publicado en: Bioinformatics, 2016, Página(s) btw651, ISSN 1367-4803
Editor: Oxford University Press
DOI: 10.1093/bioinformatics/btw651

Specific microbiome-dependent mechanisms underlie the energy harvest efficiency of ruminants

Autores: Sheerli Kruger Ben Shabat, Goor Sasson, Adi Doron-Faigenboim, Thomer Durman, Shamay Yaacoby, Margret E Berg Miller, Bryan A White, Naama Shterzer, Itzhak Mizrahi
Publicado en: The ISME Journal, Edición 10/12, 2016, Página(s) 2958-2972, ISSN 1751-7362
Editor: Nature Publishing Group
DOI: 10.1038/ismej.2016.62

Assembly of Synthetic Functional Cellulosomal Structures onto the Cell Surface of Lactobacillus plantarum , a Potent Member of the Gut Microbiome

Autores: Johanna Stern, Sarah Moraïs, Yonit Ben-David, Rachel Salama, Melina Shamshoum, Raphael Lamed, Yuval Shoham, Edward A. Bayer, Itzhak Mizrahi
Publicado en: Applied and Environmental Microbiology, Edición 84/8, 2018, ISSN 0099-2240
Editor: American Society for Microbiology
DOI: 10.1128/AEM.00282-18

Microbiome niche modification drives diurnal rumen community assembly, overpowering individual variability and diet effects

Autores: Yoav Shaani, Tamar Zehavi, Stav Eyal, Joshuah Miron, Itzhak Mizrahi
Publicado en: The ISME Journal, Edición 12/10, 2018, Página(s) 2446-2457, ISSN 1751-7362
Editor: Nature Publishing Group
DOI: 10.1038/s41396-018-0203-0

Addressing Global Ruminant Agricultural Challenges Through Understanding the Rumen Microbiome: Past, Present, and Future

Autores: Sharon A. Huws, Christopher J. Creevey, Linda B. Oyama, Itzhak Mizrahi, Stuart E. Denman, Milka Popova, Rafael Muñoz-Tamayo, Evelyne Forano, Sinead M. Waters, Matthias Hess, Ilma Tapio, Hauke Smidt, Sophie J. Krizsan, David R. Yáñez-Ruiz, Alejandro Belanche, Leluo Guan, Robert J. Gruninger, Tim A. McAllister, C. Jamie Newbold, Rainer Roehe, Richard J. Dewhurst, Tim J. Snelling, Mick Watson, Gar
Publicado en: Frontiers in Microbiology, Edición 9, 2018, ISSN 1664-302X
Editor: Frontiers Media
DOI: 10.3389/fmicb.2018.02161

Compositional and functional dynamics of the bovine rumen methanogenic community across different developmental stages

Autores: Nir Friedman, Elie Jami, Itzhak Mizrahi
Publicado en: Environmental Microbiology, Edición 19/8, 2017, Página(s) 3365-3373, ISSN 1462-2912
Editor: Blackwell Publishing Inc.
DOI: 10.1111/1462-2920.13846

Diet-induced changes of redox potential underlie compositional shifts in the rumen archaeal community

Autores: Nir Friedman, Eran Shriker, Ben Gold, Thomer Durman, Raphy Zarecki, Eytan Ruppin, Itzhak Mizrahi
Publicado en: Environmental Microbiology, Edición 19/1, 2017, Página(s) 174-184, ISSN 1462-2912
Editor: Blackwell Publishing Inc.
DOI: 10.1111/1462-2920.13551

Host genetic selection for cold tolerance shapes microbiome composition and modulates its response to temperature

Autores: Fotini Kokou, Goor Sasson, Tali Nitzan, Adi Doron-Faigenboim, Sheenan Harpaz, Avner Cnaani, Itzhak Mizrahi
Publicado en: eLife, Edición 7, 2018, ISSN 2050-084X
Editor: eLife Sciences Publications
DOI: 10.7554/eLife.36398

The Road Not Taken: The Rumen Microbiome, Functional Groups, and Community States

Autores: Sarah Moraïs, Itzhak Mizrahi
Publicado en: Trends in Microbiology, 2019, ISSN 0966-842X
Editor: Elsevier BV
DOI: 10.1016/j.tim.2018.12.011

Man-made microbial resistances in built environments

Autores: Mahnert, Alexander; Moissl-Eichinger, Christine; Zojer, Markus; Bogumil, David; Mizrahi, Itzhak; Rattei, Thomas; Martinez, José Luis; Berg, Gabriele
Publicado en: Nature Communications, Edición 15, 2019, ISSN 2041-1723
Editor: Nature Publishing Group
DOI: 10.1038/s41467-019-08864-0

Review: The compositional variation of the rumen microbiome and its effect on host performance and methane emission.

Autores: Itzhak Mizrahi; Elie Jami
Publicado en: animal, Edición 7, 2018, ISSN 1751-7311
Editor: Cambridge University Press
DOI: 10.1017/s1751731118001957

Assembly of Synthetic Functional Cellulosomal Structures onto the Cell Surface of Lactobacillus plantarum, a Potent Member of the Gut Microbiome.

Autores: Stern, Johanna; Moraïs, Sarah; Ben-David, Yonit; Salama, Rachel; Shamshoum, Melina; Lamed, Raphael; Shoham, Yuval; Bayer, Edward A.; Mizrahi, Itzhak
Publicado en: AEM, Edición 8, 2018, ISSN 0000-0000
Editor: American Society for microbiology
DOI: 10.1128/aem.00282-18

Islands in the stream: from individual to communal fiber degradation in the rumen ecosystem.

Autores: Moraïs, Sarah; Mizrahi, Itzhak
Publicado en: FEMS Microbiology Reviews, Edición 3, 2019, ISSN 0168-6445
Editor: Blackwell
DOI: 10.1093/femsre/fuz007

Algorithmic Learning for Auto-deconvolution of GC-MS Data to Enable Molecular Networking within GNPS

Autores: Aksenov, Alexander A.; Laponogov, Ivan; Zhang, Zheng; Doran, Sophie LF; Belluomo, Ilaria; Veselkov, Dennis; Bittremieux, Wout; Nothias, Louis Felix; Nothias-Esposito, Mélissa; Maloney, Katherine N.; Misra, Biswapriya B.; Melnik, Alexey V.; Jones II, Kenneth L.; Dorrestein, Kathleen; Panitchpakdi, Morgan; Ernst, Madeleine; van der Hooft, Justin J.J.; Gonzalez, Mabel; Carazzone, Chiara; Amézquita,
Publicado en: Nature Biotechnology, Edición 16, 2021, ISSN 1087-0156
Editor: Nature Publishing Group
DOI: 10.1101/2020.01.13.905091

Context-dependent dynamics lead to the assembly of functionally distinct microbial communities.

Autores: Leonora S. Bittleston; Leonora S. Bittleston; Matti Gralka; Gabriel E. Leventhal; Itzhak Mizrahi; Otto X. Cordero
Publicado en: Nature Communications, Edición 6, 2020, ISSN 2041-1723
Editor: Nature Publishing Group
DOI: 10.1038/s41467-020-15169-0

Disentangling the individual forces that shape the rumen microbiome

Autores: Itzhak Mizrahi; Elie Jami
Publicado en: EMBO, Edición 5, 2021, ISSN 1469-221X
Editor: Nature Publishing Group
DOI: 10.15252/embr.202052269