Explaining Microbial Population Genomics through Phage Predation
Rodriguez-Valera, Francisco, Martin-Cuadrado, Ana-Belen, Rodriguez-Brito, Beltran, Pašić, Lejla, Thingstad, T. Frede, Rohwer, Forest, Mira, Alex·2009·Nature Reviews Microbiology
Cited by (666)
Items 601–666 of 666
- BACTERIOPHAGE AND VIRAL ECOLOGY IN THE “OMICS AGE”Jessica Chopyk, Daniel J. Nasko, Eric G. Sakowski · 2021 · Wiley eBooks
- Review on Novel Bacterial Antigen Identification Methods for the Development of Candidate VaccineHalo Yohans · 2021 · Journal of Vaccines & Vaccination
- Impact of antibiotic perturbation on intestinal viral communities in miceJacqueline Moltzau Anderson, Tim Lachnit, Simone Lipinski, Maren Falk‐Paulsen, Philip C Rosenstiel · 2021 · bioRxiv (Cold Spring Harbor Laboratory)
- Faculty Opinions recommendation of Bacteriophage genes that inactivate the CRISPR/Cas bacterial immune system.Graham F. Hatfull, Welkin H. Pope · 2013 · Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature
- The Architecture of Microbial GenomesGregory J. Dick · 2018
- Peer Review #1 of "Mimicking prophage induction in the body: induction in the lab with pH gradients (v0.1)"2020 · PeerJ
- Faculty Opinions recommendation of Marine viruses discovered via metagenomics shed light on viral strategies throughout the oceans.Graham F. Hatfull, Welkin H. Pope · 2017 · Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature
- Composition and Diversity of Human Oral MicrobiomePreethi Balan, Chaminda Jayampath Seneviratne · 2017 · Routledge eBooks
- 土壌細菌叢の化学的撹乱に対するロバスト性Hiromi Kato, Masataka TSUDA · 2017 · KAGAKU TO SEIBUTSU
- Faculty Opinions recommendation of Bacteriophage transfer during faecal microbiota transplantation in Clostridium difficile infection is associated with treatment outcome.Henry C. Lin, Derek M. Lin · 2019 · Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature
- Peer Review #2 of "VirSorter: mining viral signal from microbial genomic data (v0.1)"2015 · PeerJ
- Complex relationships inside the microbial communities of natural whey starters used for Parmigiano Reggiano cheese production revealed by culture-dependent and 16S rRNA metabarcoding portraitLaura Solà, Emanuele Quadu, Elena Bortolazzo, Loris Bertoldi, Cinzia Lucia Randazzo, Valentina Pizzamiglio, Lisa Solieri · 2022 · Research Square
- Combination of statistical methods for easy analysis and classification of virus–host environmental dynamics in the saltern of Sfax, TunisiaInes Boujelben, Jos F. van Pelt, Sami Maâlej · 2022 · Euro-Mediterranean Journal for Environmental Integration
- Scientific culture and ancestral beliefs in sub-saharan Africa: The case of the murderous disasters of Lakes Monoun and Nyos in CameroonPaul Alain Nana, Moïse Nola, Didier Debroas, Télesphore Sime‐Ngando · 2023 · Scientific African
- A host recognition module shared among distant Alteromonas bacteriophage families features tail fibers with transient chaperone “caps”Rafael Gonzalez-Serrano, Riccardo Rosselli, Juan J. Roda‐Garcia, Ana-Belén Martín-Cuadrado, Francisco Rodríguez‐Valera, Matthew Dunne · 2023 · bioRxiv (Cold Spring Harbor Laboratory)
- Novel lytic and lysogenic cyanophages predicted to infect Microcoleus associated with anatoxin-producing benthic matsCecilio Valadez‐Cano, Adrián Reyes‐Prieto, Janice E. Lawrence · 2023 · bioRxiv (Cold Spring Harbor Laboratory)
- Geographic population structure and distinct population dynamics of globally abundant freshwater bacteriaMatthias Hoetzinger, Martin W. Hahn, Linnéa Y Andersson, N. Buckley, Chelsea Ramsin, Moritz Buck, Julia K. Nuy, Sarahi L. Garcia, Fernando Puente‐Sánchez, Stefan Bertilsson · 2023 · bioRxiv (Cold Spring Harbor Laboratory)
- Novel innate immune systems in pristine Antarctic soilsMarc W. Van Goethem, Oliver K. I. Bezuidt, Rian Pierneef, Surendra Vikram, DAVID W. HOPKINS, Thomas J. Aspray, Grant Hall, Stephan M Woodborne, Ian D. Hogg, Trent R. Northen et al. · 2024 · Research Square
- Biological Evolutionary Lineages in Marine Habitats of the PhanerozoicMarkus Knoflacher · 2024 · Springer eBooks
- The Microbiota-Gut-Brain Axis: Tryptophan Metabolism and Potential Therapeutic StrategiesMiriam A. Mora-Navarro, José Miguel Mora-Martínez, Anayeli de J. Patiño-Laguna, Carla P. Barragán-Álvarez, Michelle E. Gonzalez-Mora, Citlalli Elizabeth Mora-Navarro · 2024 · IntechOpen eBooks
- Virus and Its Impacts on Food FermentationDóris Sobral Marques Souza, Lucas ZANCHETTA, Mariana Alves Elois, Giulia Von Tönnemann Pilati, Rafael Dorighello Cadamuro, Beatriz Pereira Savi, Amanda Kelly Ferreira Sousa, Marcel Afonso Provenzi, Marília Miotto, Juliano De Dea Lindner et al. · 2024 · Springer eBooks
- Prokaryote Diversity and Flux PartitioningTron Frede Thingstad · 2025
- Ecophysiology and global dispersal of the freshwater SAR11-IIIb cladeMichaela M. Salcher, Clafy Fernandes, Markus Haber, Paul Layoun, Maria‐Cecilia Chiriac, Paul‐Adrian Bulzu, Rohit Ghai, Vojtěch Kasalický, Tanja Shabarova, Hans‐Peter Grossart et al. · 2025 · Research Square
- CRISPR herd immunity against a transducing phage underlies adaptive homologous recombination in resting bacteriaPavel Payne, Pavel Plevka, Jonathan P. Bollback, Călin C. Guet · 2025 · bioRxiv (Cold Spring Harbor Laboratory)
- Pedal effect: aerobic and facultative anaerobic Enterobacter hormaechei maintain the homeostasis of the house fly gut microbiota under different oxygen conditionsKexin Zhang, Shumin Wang, Ying Li, Xinrui Zhang, Yansong Yin, Xinxin Kong, Wenjuan Liu, Dawei Yao, Ruiling Zhang, Zhong Zhang · 2025 · Parasites & Vectors
- Additional file 3 of Impact of phages on soil bacterial communities and nitrogen availability under different assembly scenariosBraga, Lucas P. P., Aymé Spor, Witold Kot, Breuil, Marie-Christine, Lars Hestbjerg Hansen, Setubal, João C., Laurent Philippot · 2020 · Figshare
- Additional file 4 of CrisprVi: a software for visualizing and analyzing CRISPR sequences of prokaryotesSun, Lei, Wang, Jinbiao, Yan, Fu, Wang, Gongming, Li, Yun, Huang, Jinlin · 2022 · Figshare
- Additional file 1 of Serratia marcescens in the intestine of housefly larvae inhibits host growth by interfering with gut microbiotaLi, Ying, Wang, Shumin, Zhang, Kexin, Yansong Yin, Zhang, Xinyu, Zhang, Qian, Kong, Xinxin, Tang, Luyao, Zhang, Ruiling, Zhang, Zhong · 2024 · Figshare
- Additional file 2 of Characterizing the gut phageome and phage-borne antimicrobial resistance genes in pigsHu, Jun, Chen, Jianwei, Nie, Yangfan, Zhou, Changhao, Hou, Qiliang, Xianghua Yan · 2024 · Figshare
- Additional file 3 of CrisprVi: a software for visualizing and analyzing CRISPR sequences of prokaryotesSun, Lei, Wang, Jinbiao, Yan, Fu, Wang, Gongming, Li, Yun, Huang, Jinlin · 2022 · Figshare
- Additional file 2 of CrisprVi: a software for visualizing and analyzing CRISPR sequences of prokaryotesSun, Lei, Wang, Jinbiao, Yan, Fu, Wang, Gongming, Li, Yun, Huang, Jinlin · 2022 · Figshare
- Additional file 4 of Serratia marcescens in the intestine of housefly larvae inhibits host growth by interfering with gut microbiotaLi, Ying, Wang, Shumin, Zhang, Kexin, Yansong Yin, Zhang, Xinyu, Zhang, Qian, Kong, Xinxin, Tang, Luyao, Zhang, Ruiling, Zhang, Zhong · 2024 · Figshare
- Additional file 1 of CrisprVi: a software for visualizing and analyzing CRISPR sequences of prokaryotesSun, Lei, Wang, Jinbiao, Yan, Fu, Wang, Gongming, Li, Yun, Huang, Jinlin · 2022 · Figshare
- Additional file 1 of Characterizing the gut phageome and phage-borne antimicrobial resistance genes in pigsHu, Jun, Chen, Jianwei, Nie, Yangfan, Zhou, Changhao, Hou, Qiliang, Xianghua Yan · 2024 · Figshare
- Additional file 3 of Serratia marcescens in the intestine of housefly larvae inhibits host growth by interfering with gut microbiotaLi, Ying, Wang, Shumin, Zhang, Kexin, Yansong Yin, Zhang, Xinyu, Zhang, Qian, Kong, Xinxin, Tang, Luyao, Zhang, Ruiling, Zhang, Zhong · 2024 · Figshare
- Additional file 1 of Mapping the early life gut microbiome in neonates with critical congenital heart disease: multiomics insights and implications for host metabolic and immunological healthHuang, Yuan, Lu, Wenlong, Zeng, Min, Hu, Xiaoyue, Su, Zhanhao, Liu, Yiwei, Liu, Zeye, Jianhui Yuan, Li, Li, Zhang, Xiaoling et al. · 2023 · Figshare
- Additional file 6 of Serratia marcescens in the intestine of housefly larvae inhibits host growth by interfering with gut microbiotaLi, Ying, Shumin Wang, Zhang, Kexin, Yansong Yin, Zhang, Xinyu, Zhang, Qian, Kong, Xinxin, Tang, Luyao, Zhang, Ruiling, Zhang, Zhong · 2024 · Figshare
- Additional file 4 of Characterizing the gut phageome and phage-borne antimicrobial resistance genes in pigsHu, Jun, Chen, Jianwei, Nie, Yangfan, Zhou, Changhao, Hou, Qiliang, Xianghua Yan · 2024 · Figshare
- Additional file 3 of Characterizing the gut phageome and phage-borne antimicrobial resistance genes in pigsHu, Jun, Chen, Jianwei, Nie, Yangfan, Zhou, Changhao, Hou, Qiliang, Xianghua Yan · 2024 · Figshare
- Additional file 7 of Serratia marcescens in the intestine of housefly larvae inhibits host growth by interfering with gut microbiotaLi, Ying, Wang, Shumin, Zhang, Kexin, Yansong Yin, Zhang, Xinyu, Zhang, Qian, Kong, Xinxin, Tang, Luyao, Zhang, Ruiling, Zhang, Zhong · 2024 · Figshare
- Additional file 5 of Serratia marcescens in the intestine of housefly larvae inhibits host growth by interfering with gut microbiotaLi, Ying, Wang, Shumin, Zhang, Kexin, Yansong Yin, Zhang, Xinyu, Zhang, Qian, Kong, Xinxin, Tang, Luyao, Zhang, Ruiling, Zhang, Zhong · 2024 · Figshare
- Additional file 2 of Serratia marcescens in the intestine of housefly larvae inhibits host growth by interfering with gut microbiotaLi, Ying, Wang, Shumin, Zhang, Kexin, Yansong Yin, Zhang, Xinyu, Zhang, Qian, Kong, Xinxin, Tang, Luyao, Zhang, Ruiling, Zhang, Zhong · 2024 · Figshare
- Conceptual Framework Describing Causes Indicators Novel Insights and Multistage Therapeutic Protocol of Gut Microbiota DysbiosisSami Rashid Mohammed Shibah · 2026 · SSRN Electronic Journal
- An N4-like Caulobacter phage requires host smooth lipopolysaccharide biosynthesis for infectionMaeve McLaughlin, Katheren Barger, Charlotte Barron, Makena Fisher, Larissa Kohn, Priscilla Mac-Kittah, Aretha Fiebig, Sean Crosson · 2026 · Journal of Bacteriology
- Functional Shifts in the Gut DNA Virome in a Long‐Distance Migratory Shorebird During the Pre‐Migratory FatteningJosefina Gutiérrez, Jonathan Vergara‐Amado, Consuelo Martorell, Juan G. Navedo, Michelle Wille, Sergio Guajardo‐Leiva, Eduardo Castro‐Nallar, Claudio Verdugo · 2026 · Molecular Ecology
- Evolutionary ecology of social bacterial populations under antibiotic and bacteriophage pressureMarie Vasse · 2015
- Pseudolysogeny and sequential mutations build multiresistance to virulent bacteriophages in Pseudomonas aeruginosaLibera Latino · 2016
- Méthodes d'analyse et variations du microbiote digestifGrégory Dubourg · 2016 · theses.fr (ABES)
- Exploration des interactions virus-hôte et leur importance pour l'adaptation microbienne à travers du CRISPRsLaura Sanguino Casado · 2015
- Adaptation à la niche écologique chez deux représentants majeurs du phytoplancton marin, Synechococcus et Prochlorococcus : des gènes à l'écosystèmeHugo Doré · 2017
- Adaptation de Stenotrophomonas maltophilia aux amibes libres du sol et rôle des pompes à effluxElodie Denet · 2017
- Ecology, evolution and virulence of environmental vibriosAdèle James · 2018
- Caractérisation de l'holobionte des isopodes par des approches omiques : exemple du processus de dégradation de la lignocelluloseMarius Bredon · 2019
- Phage Frontiers: Genomic and Functional Profiling of Novel Virulent Agents Targeting Foodborne EnterobacteriaceaeRamy Abdelreheim Qabel, Miao Xu, Chunwen Li, Chuhan Zhang, Chuanzhi Zhang, Yong Huang, Guangming Xiong, Edmund Maser, Liquan Guo · 2026 · Biology
- Les bactériophages : un facteur biotique à prendre en compte pour comprendre les successions microbiennes en surface du fromage et mieux maîtriser l'affinageThomas Paillet · 2023 · theses.fr (ABES)
- Développement et assemblage de ferments autochtones d'intérêt technologique en mobilisant la diversité microbienne localeAnna Grizon · 2024 · theses.fr (ABES)
- The human gut virome is a non-redundant and clinically informative component of the microbiomeYiyan Yang, Dan Huang, Joshua R. Korzenik, Scott T. Weiss, Yang‐Yu Liu, Zheng Sun · 2026 · bioRxiv (Cold Spring Harbor Laboratory)
- Population dynamics of Pelagibacterales clonal lineages: ecological-consortia and frequency modulationAna-Belén Martín-Cuadrado, Jose Manuel Haro-Moreno, Francisco Rodríguez‐Valera · 2026 · bioRxiv (Cold Spring Harbor Laboratory)
- The Zoetrope effect in phage evolutionFrancisco Rodríguez‐Valera, Ana-Belén Martín-Cuadrado · 2026 · Frontiers in Microbiology
- Impact of Climate Change on Cyanobacteria–Cyanophage Interactions and Their Role in Cyanobacterial Blooms in Freshwater LakesSimone Raposo Cotta, Armando Cavalcante Franco Dias, Jonathan P. Zehr, Thierry Alexandre Pellegrinetti, Marli Fátima Fiore · 2026 · Global Change Biology
- A human microbiota-associated mouse model of early-life malnutrition reveals persistent microbiome immaturity and limited response to fecal viral transplantationMichael Shamash, Laura Carolina Camelo Valera, Corinne F. Maurice · 2026 · bioRxiv (Cold Spring Harbor Laboratory)
- Divergent microbial preludes to necrotising enterocolitis defined by gut phages and bacterial resistomesKailun Zhang, Mark G. Gorelik, Janice E. Sullivan, Paula G. Radmacher, MARILYN B. ESCOBEDO, Barbara B. Warner, Phillip I. Tarr, Gautam Dantas · 2026 · Gut
- Bacteriophage-bacteria coevolution: from molecular arms races to ecological and applied perspectivesJunjie Shang, Linghui Li, Chengqian Dong, Yunlin Wei · 2026 · Archives of Microbiology
- Genomically and ecologically cohesive subspecies as biologically meaningful units in the global ocean microbiomeLucas Paoli, Taylor Priest, Adrián Davín, Melanie L. Stäubli, Dominic Eriksson, Hans‐Joachim Ruscheweyh, Martin F. Polz, Shinichi Sunagawa · 2026 · bioRxiv (Cold Spring Harbor Laboratory)
- Ecological dynamics of gut bacteriophages in food animal production systems: Mechanisms of microbiome modulation and implications for livestock health and productionZhang Zhen, Liu Shuhua, Ma Baihe, Chen Xin, Meiliang Guo, Liang Fanxin, Li Lianrui · 2026 · Bacteriophage
- Data from: The cost of phage resistance in a plant pathogenic bacterium is context-dependentSean Meaden, Konrad Paszkiewicz, Britt Louise Koskella · 2015 · Data Archiving and Networked Services (DANS)