Literature DB >> 28067906

Prophage-mediated defence against viral attack and viral counter-defence.

Rebekah M Dedrick1, Deborah Jacobs-Sera1, Carlos A Guerrero Bustamante1, Rebecca A Garlena1, Travis N Mavrich1, Welkin H Pope1, Juan C Cervantes Reyes1, Daniel A Russell1, Tamarah Adair2, Richard Alvey3, J Alfred Bonilla4, Jerald S Bricker5, Bryony R Brown1, Deanna Byrnes6, Steven G Cresawn7, William B Davis8, Leon A Dickson9, Nicholas P Edgington10, Ann M Findley11, Urszula Golebiewska12, Julianne H Grose13, Cory F Hayes1, Lee E Hughes14, Keith W Hutchison15, Sharon Isern16, Allison A Johnson17, Margaret A Kenna18, Karen K Klyczek4, Catherine M Mageeney18, Scott F Michael16, Sally D Molloy15, Matthew T Montgomery1, James Neitzel19, Shallee T Page20, Marie C Pizzorno21, Marianne K Poxleitner22, Claire A Rinehart23, Courtney J Robinson9, Michael R Rubin24, Joseph N Teyim18, Edwin Vazquez24, Vassie C Ware18, Jacqueline Washington25, Graham F Hatfull1.   

Abstract

Temperate phages are common, and prophages are abundant residents of sequenced bacterial genomes. Mycobacteriophages are viruses that infect mycobacterial hosts including Mycobacterium tuberculosis and Mycobacterium smegmatis, encompass substantial genetic diversity and are commonly temperate. Characterization of ten Cluster N temperate mycobacteriophages revealed at least five distinct prophage-expressed viral defence systems that interfere with the infection of lytic and temperate phages that are either closely related (homotypic defence) or unrelated (heterotypic defence) to the prophage. Target specificity is unpredictable, ranging from a single target phage to one-third of those tested. The defence systems include a single-subunit restriction system, a heterotypic exclusion system and a predicted (p)ppGpp synthetase, which blocks lytic phage growth, promotes bacterial survival and enables efficient lysogeny. The predicted (p)ppGpp synthetase coded by the Phrann prophage defends against phage Tweety infection, but Tweety codes for a tetrapeptide repeat protein, gp54, which acts as a highly effective counter-defence system. Prophage-mediated viral defence offers an efficient mechanism for bacterial success in host-virus dynamics, and counter-defence promotes phage co-evolution.

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Year:  2017        PMID: 28067906      PMCID: PMC5508108          DOI: 10.1038/nmicrobiol.2016.251

Source DB:  PubMed          Journal:  Nat Microbiol        ISSN: 2058-5276            Impact factor:   17.745


  53 in total

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Authors:  W ARBER; D DUSSOIX
Journal:  J Mol Biol       Date:  1962-07       Impact factor: 5.469

Review 2.  The viriosphere, diversity, and genetic exchange within phage communities.

Authors:  Emma Hambly; Curtis A Suttle
Journal:  Curr Opin Microbiol       Date:  2005-08       Impact factor: 7.934

Review 3.  Marine viruses--major players in the global ecosystem.

Authors:  Curtis A Suttle
Journal:  Nat Rev Microbiol       Date:  2007-10       Impact factor: 60.633

Review 4.  (p)ppGpp: still magical?

Authors:  Katarzyna Potrykus; Michael Cashel
Journal:  Annu Rev Microbiol       Date:  2008       Impact factor: 15.500

5.  BREX is a novel phage resistance system widespread in microbial genomes.

Authors:  Tamara Goldfarb; Hila Sberro; Eyal Weinstock; Ofir Cohen; Shany Doron; Yoav Charpak-Amikam; Shaked Afik; Gal Ofir; Rotem Sorek
Journal:  EMBO J       Date:  2014-12-01       Impact factor: 11.598

6.  Fast gapped-read alignment with Bowtie 2.

Authors:  Ben Langmead; Steven L Salzberg
Journal:  Nat Methods       Date:  2012-03-04       Impact factor: 28.547

7.  Lytic to temperate switching of viral communities.

Authors:  B Knowles; C B Silveira; B A Bailey; K Barott; V A Cantu; A G Cobián-Güemes; F H Coutinho; E A Dinsdale; B Felts; K A Furby; E E George; K T Green; G B Gregoracci; A F Haas; J M Haggerty; E R Hester; N Hisakawa; L W Kelly; Y W Lim; M Little; A Luque; T McDole-Somera; K McNair; L S de Oliveira; S D Quistad; N L Robinett; E Sala; P Salamon; S E Sanchez; S Sandin; G G Z Silva; J Smith; C Sullivan; C Thompson; M J A Vermeij; M Youle; C Young; B Zgliczynski; R Brainard; R A Edwards; J Nulton; F Thompson; F Rohwer
Journal:  Nature       Date:  2016-03-16       Impact factor: 49.962

8.  Phamerator: a bioinformatic tool for comparative bacteriophage genomics.

Authors:  Steven G Cresawn; Matt Bogel; Nathan Day; Deborah Jacobs-Sera; Roger W Hendrix; Graham F Hatfull
Journal:  BMC Bioinformatics       Date:  2011-10-12       Impact factor: 3.169

9.  The Phyre2 web portal for protein modeling, prediction and analysis.

Authors:  Lawrence A Kelley; Stefans Mezulis; Christopher M Yates; Mark N Wass; Michael J E Sternberg
Journal:  Nat Protoc       Date:  2015-05-07       Impact factor: 13.491

10.  Complete genome sequences of 63 mycobacteriophages.

Authors:  Graham F Hatfull
Journal:  Genome Announc       Date:  2013-11-27
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  79 in total

1.  Mycobacteriophage ZoeJ: A broad host-range close relative of mycobacteriophage TM4.

Authors:  Rebekah M Dedrick; Carlos A Guerrero Bustamante; Rebecca A Garlena; R Seth Pinches; Kathleen Cornely; Graham F Hatfull
Journal:  Tuberculosis (Edinb)       Date:  2019-01-16       Impact factor: 3.131

2.  Prophage Hunter: an integrative hunting tool for active prophages.

Authors:  Wenchen Song; Hai-Xi Sun; Carolyn Zhang; Li Cheng; Ye Peng; Ziqing Deng; Dan Wang; Yun Wang; Ming Hu; Wenen Liu; Huanming Yang; Yue Shen; Junhua Li; Lingchong You; Minfeng Xiao
Journal:  Nucleic Acids Res       Date:  2019-07-02       Impact factor: 16.971

Review 3.  Small Alarmone Synthetases as novel bacterial RNA-binding proteins.

Authors:  Vasili Hauryliuk; Gemma C Atkinson
Journal:  RNA Biol       Date:  2017-10-03       Impact factor: 4.652

4.  Knowles &Rohwer reply.

Authors:  Ben Knowles; Forest Rohwer
Journal:  Nature       Date:  2017-09-20       Impact factor: 49.962

Review 5.  The Discovery, Mechanisms, and Evolutionary Impact of Anti-CRISPRs.

Authors:  Adair L Borges; Alan R Davidson; Joseph Bondy-Denomy
Journal:  Annu Rev Virol       Date:  2017-07-27       Impact factor: 10.431

6.  Bacteriophages of the Urinary Microbiome.

Authors:  Taylor Miller-Ensminger; Andrea Garretto; Jonathon Brenner; Krystal Thomas-White; Adriano Zambom; Alan J Wolfe; Catherine Putonti
Journal:  J Bacteriol       Date:  2018-03-12       Impact factor: 3.490

7.  Honey bees harbor a diverse gut virome engaging in nested strain-level interactions with the microbiota.

Authors:  Germán Bonilla-Rosso; Théodora Steiner; Fabienne Wichmann; Evan Bexkens; Philipp Engel
Journal:  Proc Natl Acad Sci U S A       Date:  2020-03-16       Impact factor: 11.205

8.  High-throughput mapping of the phage resistance landscape in E. coli.

Authors:  Vivek K Mutalik; Benjamin A Adler; Harneet S Rishi; Denish Piya; Crystal Zhong; Britt Koskella; Elizabeth M Kutter; Richard Calendar; Pavel S Novichkov; Morgan N Price; Adam M Deutschbauer; Adam P Arkin
Journal:  PLoS Biol       Date:  2020-10-13       Impact factor: 8.029

Review 9.  Ecology, Structure, and Evolution of Shigella Phages.

Authors:  Sundharraman Subramanian; Kristin N Parent; Sarah M Doore
Journal:  Annu Rev Virol       Date:  2020-05-11       Impact factor: 10.431

10.  Mycobacteriophage Fruitloop gp52 inactivates Wag31 (DivIVA) to prevent heterotypic superinfection.

Authors:  Ching-Chung Ko; Graham F Hatfull
Journal:  Mol Microbiol       Date:  2018-04-03       Impact factor: 3.501

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