Most organisms on the planet have viruses that infect them. Viral infection may lead to cell death, or to a symbiotic relationship where the genomes of both virus and host replicate together. In the symbiotic state, both virus and cell potentially experience increased fitness as a result of the other. The viruses that infect bacteria, called bacteriophages (or phages), well exemplify the symbiotic relationships that can develop between viruses and their host. In this review, we will discuss the many ways that prophages, which are phage genomes integrated into the genomes of their hosts, influence bacterial behavior and virulence.
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Tomas Alarcón-Schumacher, Adit Naor, Uri Gophna, Susanne Erdmann Proceedings of the National Academy of Sciences.2022;[Epub] CrossRef
Anti-CRISPR proteins as a therapeutic agent against drug-resistant bacteria Pallavi Vyas, Harish Microbiological Research.2022; 257: 126963. CrossRef
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Mutualistic interplay between bacteriophages and bacteria in the human gut Andrey N. Shkoporov, Christopher J. Turkington, Colin Hill Nature Reviews Microbiology.2022; 20(12): 737. CrossRef
Competition Between Phage-Resistance Mechanisms Determines the Outcome of Bacterial Co-Existence Olaya Rendueles, Jorge A.M. de Sousa, Eduardo P.C. Rocha SSRN Electronic Journal .2022;[Epub] CrossRef
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Genomic Analysis Unveils the Pervasiveness and Diversity of Prophages Infecting Erwinia Species Tulio Morgan, Rafael Reis de Rezende, Thamylles Thuany Mayrink Lima, Flávia de Oliveira Souza, Poliane Alfenas-Zerbini Pathogens.2022; 12(1): 44. CrossRef
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Fitness benefits to bacteria of carrying prophages and prophage‐encoded antibiotic‐resistance genes peak in different environments Carolin C. Wendling, Dominik Refardt, Alex R. Hall Evolution.2021; 75(2): 515. CrossRef
Towards the Characterization and Engineering of Bacteriophages in the Gut Microbiome Bryan B. Hsu mSystems.2021;[Epub] CrossRef
Bacteriophages as drivers of bacterial virulence and their potential for biotechnological exploitation Kaat Schroven, Abram Aertsen, Rob Lavigne FEMS Microbiology Reviews.2021;[Epub] CrossRef
Temperate Bacteriophages—The Powerful Indirect Modulators of Eukaryotic Cells and Immune Functions Martyna Cieślik, Natalia Bagińska, Ewa Jończyk-Matysiak, Alicja Węgrzyn, Grzegorz Węgrzyn, Andrzej Górski Viruses.2021; 13(6): 1013. CrossRef
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Revisiting the rules of life for viruses of microorganisms Adrienne M. S. Correa, Cristina Howard-Varona, Samantha R. Coy, Alison Buchan, Matthew B. Sullivan, Joshua S. Weitz Nature Reviews Microbiology.2021; 19(8): 501. CrossRef
The landscape of lysogeny across microbial community density, diversity and energetics Cynthia B. Silveira, Antoni Luque, Forest Rohwer Environmental Microbiology.2021; 23(8): 4098. CrossRef
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Stable Neutralization of a Virulence Factor in Bacteria Using Temperate Phage in the Mammalian Gut Bryan B. Hsu, Jeffrey C. Way, Pamela A. Silver, Jack A. Gilbert mSystems.2020;[Epub] CrossRef
RETRACTED ARTICLE: Cryptic prophages in a blaNDM-1-bearing plasmid increase bacterial survival against high NaCl concentration, high and low temperatures, and oxidative and immunological stressors So Yeon Kim, Kwan Soo Ko Journal of Microbiology.2020; 58(6): 483. CrossRef
The Russian Doll Model: How Bacteria Shape Successful and Sustainable Inter-Kingdom Relationships Enrica Pessione Frontiers in Microbiology.2020;[Epub] CrossRef
In situ reprogramming of gut bacteria by oral delivery Bryan B. Hsu, Isaac N. Plant, Lorena Lyon, Frances M. Anastassacos, Jeffrey C. Way, Pamela A. Silver Nature Communications.2020;[Epub] CrossRef
Genetically similar temperate phages form coalitions with their shared host that lead to niche-specific fitness effects Jonelle T R Basso, Nana Y D Ankrah, Matthew J Tuttle, Alex S Grossman, Ruth-Anne Sandaa, Alison Buchan The ISME Journal.2020; 14(7): 1688. CrossRef
The enemy from within: a prophage of Roseburia intestinalis systematically turns lytic in the mouse gut, driving bacterial adaptation by CRISPR spacer acquisition Jeffrey K Cornuault, Elisabeth Moncaut, Valentin Loux, Aurélie Mathieu, Harry Sokol, Marie-Agnès Petit, Marianne De Paepe The ISME Journal.2020; 14(3): 771. CrossRef
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Quantifying the forces that maintain prophages in bacterial genomes Amjad Khan, Lindi M. Wahl Theoretical Population Biology.2020; 133: 168. CrossRef
Anti-CRISPRs: Protein Inhibitors of CRISPR-Cas Systems Alan R. Davidson, Wang-Ting Lu, Sabrina Y. Stanley, Jingrui Wang, Marios Mejdani, Chantel N. Trost, Brian T. Hicks, Jooyoung Lee, Erik J. Sontheimer Annual Review of Biochemistry.2020; 89(1): 309. CrossRef
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The Principles, Mechanisms, and Benefits of Unconventional Agents in the Treatment of Biofilm Infection Jasminka Talapko, Ivana Škrlec Pharmaceuticals.2020; 13(10): 299. CrossRef
Looking for the hidden: Characterization of lysogenic phages in potential pathogenic Vibrio species from the North Sea Ale Garin-Fernandez, Antje Wichels Marine Genomics.2020; 51: 100725. CrossRef
Phage integration alters the respiratory strategy of its host Jeffrey N Carey, Erin L Mettert, Daniel R Fishman-Engel, Manuela Roggiani, Patricia J Kiley, Mark Goulian eLife.2019;[Epub] CrossRef
Mining, analyzing, and integrating viral signals from metagenomic data Tingting Zheng, Jun Li, Yueqiong Ni, Kang Kang, Maria-Anna Misiakou, Lejla Imamovic, Billy K. C. Chow, Anne A. Rode, Peter Bytzer, Morten Sommer, Gianni Panagiotou Microbiome.2019;[Epub] CrossRef
Mobilome and Resistome Reconstruction from Genomes Belonging to Members of the Bifidobacterium Genus Walter Mancino, Gabriele Andrea Lugli, Douwe van Sinderen, Marco Ventura, Francesca Turroni Microorganisms.2019; 7(12): 638. CrossRef
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Prophages enhance resistance to antibiotic stress in a blaNDM-1-carrying bacterial host: authors’ reply So Yeon Kim, Kwan Soo Ko International Journal of Antimicrobial Agents.2019; 54(2): 267. CrossRef
The prevalence and impact of lysogeny among oral isolates ofEnterococcus faecalis Roy H. Stevens, Hongming Zhang, Christine Sedgley, Adam Bergman, Anil Reddy Manda Journal of Oral Microbiology.2019; 11(1): 1643207. CrossRef
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Impact of Xenogeneic Silencing on Phage–Host Interactions Eugen Pfeifer, Max Hünnefeld, Ovidiu Popa, Julia Frunzke Journal of Molecular Biology.2019; 431(23): 4670. CrossRef
Biotransformation of 2,4-dinitrotoluene by the beneficial association of engineered Pseudomonas putida with Arabidopsis thaliana Özlem Akkaya, Ebru Arslan 3 Biotech.2019;[Epub] CrossRef
Prophages in Lactobacillus reuteri Are Associated with Fitness Trade-Offs but Can Increase Competitiveness in the Gut Ecosystem Jee-Hwan Oh, Xiaoxi B. Lin, Shenwei Zhang, Stephanie L. Tollenaar, Mustafa Özçam, Case Dunphy, Jens Walter, Jan-Peter van Pijkeren, Maia Kivisaar Applied and Environmental Microbiology.2019;[Epub] CrossRef
Big Impact of the Tiny: Bacteriophage–Bacteria Interactions in Biofilms Mads Frederik Hansen, Sine Lo Svenningsen, Henriette Lyng Røder, Mathias Middelboe, Mette Burmølle Trends in Microbiology.2019; 27(9): 739. CrossRef
Cryptic-Prophage-Encoded Small Protein DicB Protects
Escherichia coli
from Phage Infection by Inhibiting Inner Membrane Receptor Proteins
Preethi T. Ragunathan, Carin K. Vanderpool, George O'Toole Journal of Bacteriology.2019;[Epub] CrossRef
Bacteriophages benefit from generalized transduction Alfred Fillol-Salom, Ahlam Alsaadi, Jorge A. Moura de Sousa, Li Zhong, Kevin R. Foster, Eduardo P. C. Rocha, José R. Penadés, Hanne Ingmer, Jakob Haaber, Michael Otto PLOS Pathogens.2019; 15(7): e1007888. CrossRef
Optimality of the spontaneous prophage induction rate Michael G. Cortes, Jonathan Krog, Gábor Balázsi Journal of Theoretical Biology.2019; 483: 110005. CrossRef
Characterization of a Highly Virulent Edwardsiella anguillarum Strain Isolated From Greek Aquaculture, and a Spontaneously Induced Prophage Therein Pantelis Katharios, Panos G. Kalatzis, Constantina Kokkari, Michail Pavlidis, Qiyao Wang Frontiers in Microbiology.2019;[Epub] CrossRef
The dual lifestyle of genome‐integrating virophages in protists Mónica Berjón‐Otero, Anna Koslová, Matthias G. Fischer Annals of the New York Academy of Sciences.2019; 1447(1): 97. CrossRef
A Viral Ecogenomics Framework To Uncover the Secrets of Nature’s “Microbe Whisperers” Simon Roux mSystems.2019;[Epub] CrossRef
RETRACTED: Effects of prophage regions in a plasmid carrying a carbapenemase gene on survival against antibiotic stress So Yeon KIM, Kwan Soo KO International Journal of Antimicrobial Agents.2019; 53(1): 89. CrossRef
May the Phage be With You? Prophage-Like Elements in the Genomes of Soft Rot Pectobacteriaceae: Pectobacterium spp. and Dickeya spp. Robert Czajkowski Frontiers in Microbiology.2019;[Epub] CrossRef
Evolution of Immune Systems From Viruses and Transposable Elements Felix Broecker, Karin Moelling Frontiers in Microbiology.2019;[Epub] CrossRef
Can a Symbiont (Also) Be Food? Kim L. Hoang, Levi T. Morran, Nicole M. Gerardo Frontiers in Microbiology.2019;[Epub] CrossRef
Bacteriophage Interactions with Marine Pathogenic Vibrios: Implications for Phage Therapy Panos Kalatzis, Daniel Castillo, Pantelis Katharios, Mathias Middelboe Antibiotics.2018; 7(1): 15. CrossRef
Cupriavidus metallidurans Strains with Different Mobilomes and from Distinct Environments Have Comparable Phenomes Rob Van Houdt, Ann Provoost, Ado Van Assche, Natalie Leys, Bart Lievens, Kristel Mijnendonckx, Pieter Monsieurs Genes.2018; 9(10): 507. CrossRef
Food Spoilage-Associated Leuconostoc, Lactococcus, and Lactobacillus Species Display Different Survival Strategies in Response to Competition Margarita Andreevskaya, Elina Jääskeläinen, Per Johansson, Anne Ylinen, Lars Paulin, Johanna Björkroth, Petri Auvinen, Harold L. Drake Applied and Environmental Microbiology.2018;[Epub] CrossRef
Close Encounters of Three Kinds: Bacteriophages, Commensal Bacteria, and Host Immunity Eric C. Keen, Gautam Dantas Trends in Microbiology.2018; 26(11): 943. CrossRef
Pathogenomics of Virulence Traits of Plesiomonas shigelloides That Were Deemed Inconclusive by Traditional Experimental Approaches Temitope C. Ekundayo, Anthony I. Okoh Frontiers in Microbiology.2018;[Epub] CrossRef
Metagenomic Analysis of Bacteria, Fungi, Bacteriophages, and Helminths in the Gut of Giant Pandas Shengzhi Yang, Xin Gao, Jianghong Meng, Anyun Zhang, Yingmin Zhou, Mei Long, Bei Li, Wenwen Deng, Lei Jin, Siyue Zhao, Daifu Wu, Yongguo He, Caiwu Li, Shuliang Liu, Yan Huang, Hemin Zhang, Likou Zou Frontiers in Microbiology.2018;[Epub] CrossRef
Spontaneously induced prophages are abundant in a naturally evolved bacterial starter culture and deliver competitive advantage to the host Svetlana Alexeeva, Jesús Adrián Guerra Martínez, Maciej Spus, Eddy J. Smid BMC Microbiology.2018;[Epub] CrossRef
Characterization of redundant tRNAIles with CAU and UAU anticodons in Lactobacillus plantarum Chie Tomikawa, Sylvie Auxilien, Vincent Guérineau, Yuya Yoshioka, Kiyo Miyoshi, Hiroyuki Hori, Dominique Fourmy, Kazuyuki Takai, Satoko Yoshizawa The Journal of Biochemistry.2018; 163(3): 233. CrossRef
Habitat Alterations by Viruses: Strategies by Tupanviruses and Others Hiroyuki Ogata Microbes and Environments.2018; 33(2): 117. CrossRef
Phages infecting Faecalibacterium prausnitzii belong to novel viral genera that help to decipher intestinal viromes Jeffrey K. Cornuault, Marie-Agnès Petit, Mahendra Mariadassou, Leandro Benevides, Elisabeth Moncaut, Philippe Langella, Harry Sokol, Marianne De Paepe Microbiome.2018;[Epub] CrossRef
Whole-Genome Sequence of the Novel Temperate
Enterobacter
Bacteriophage Tyrion, Isolated from the Gut of the Formosan Subterranean Termite
Chinmay Vijay Tikhe, Chris R. Gissendanner, Claudia Husseneder Genome Announcements.2018;[Epub] CrossRef
Metavirome Sequencing of the Termite Gut Reveals the Presence of an Unexplored Bacteriophage Community Chinmay V. Tikhe, Claudia Husseneder Frontiers in Microbiology.2018;[Epub] CrossRef
The Discovery, Mechanisms, and Evolutionary Impact of Anti-CRISPRs Adair L. Borges, Alan R. Davidson, Joseph Bondy-Denomy Annual Review of Virology.2017; 4(1): 37. CrossRef
Genome-Wide Abolishment of Mobile Genetic Elements Using Genome Shuffling and CRISPR/Cas-Assisted MAGE Allows the Efficient Stabilization of a Bacterial Chassis Kinga Umenhoffer, Gábor Draskovits, Ákos Nyerges, Ildikó Karcagi, Balázs Bogos, Edit Tímár, Bálint Csörgő, Róbert Herczeg, István Nagy, Tamás Fehér, Csaba Pál, György Pósfai ACS Synthetic Biology.2017; 6(8): 1471. CrossRef
Embracing the enemy: the diversification of microbial gene repertoires by phage-mediated horizontal gene transfer Marie Touchon, Jorge A Moura de Sousa, Eduardo PC Rocha Current Opinion in Microbiology.2017; 38: 66. CrossRef
Assessing Species Diversity Using Metavirome Data: Methods and Challenges Damayanthi Herath, Duleepa Jayasundara, David Ackland, Isaam Saeed, Sen-Lin Tang, Saman Halgamuge Computational and Structural Biotechnology Journal.2017; 15: 447. CrossRef
Microbial processes driving coral reef organic carbon flow Cynthia B. Silveira, Giselle S. Cavalcanti, Juline M. Walter, Arthur W. Silva-Lima, Elizabeth A. Dinsdale, David G. Bourne, Cristiane C. Thompson, Fabiano L. Thompson FEMS Microbiology Reviews.2017; 41(4): 575. CrossRef
Prophages of the genus Bifidobacterium as modulating agents of the infant gut microbiota Gabriele Andrea Lugli, Christian Milani, Francesca Turroni, Denise Tremblay, Chiara Ferrario, Leonardo Mancabelli, Sabrina Duranti, Doyle V. Ward, Maria Cristina Ossiprandi, Sylvain Moineau, Douwe van Sinderen, Marco Ventura Environmental Microbiology.2016; 18(7): 2196. CrossRef
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