Whole genome comparison of a large collection of mycobacteriophages reveals a continuum of phage genetic diversity

  title={Whole genome comparison of a large collection of mycobacteriophages reveals a continuum of phage genetic diversity},
  author={Welkin H Pope and Charles A. Bowman and Daniel A. Russell and Deborah Jacobs-Sera and David J. Asai and Steven G. Cresawn and William Robert Jacobs and Roger W. Hendrix and Jeffrey G. Lawrence and Graham F. Hatfull and Patrick Abbazia and Kristia Abernathy and Andrew Abesamis and Syed Amaan Abidi and Mamon Abrahim and Colton Abrams and Alecia Achimovich and Brandon Ackerman and Jonuelle Acosta and Luis A Actis and Tamarah L. Adair and Jaime Adame and Sandra D. Adams and Jefferson Adams and Kenyeda B Adams and Rashidat F Adekunle and Christianah Ademuwagun and Eric J Adjei-Danquah and Nancy L. Adkins and Sheetal Agarwal and Riddhima Agarwal and Geovar Agbayani and Robert Agee and Sahil Kumar Aggarwal and Temitayo Agoro and Carmen Aguirre and Rachael Ahler and Salman Azeem Ahmad and Ali Ahmed and Michelle von Ahn and Stephen Aiken and Kara Aittama and Bisma Ahmed Ajaz and Alexandra Akins and Bukola Akintayo and Felix Akojie and Zein Al-Atrache and Ola-Oluwakiti Alabi and Olamide Alakija and Nitheesha Alapati and Christian Alba and Patrick Albertolle and Pedro Alejandro Ajsivinac and Cindy R. Alexander and Lisa Mustone Alexander and Rush Alexander and Stephen B Aley and Andrea Alfonso and Rebecca F. Alford and Sarah Ali and Raul Alicea-Cabrera and Malak Alkanani and Dwa'a Alkhalaf and Brandon J Allen and Elizabeth A Allen and Venkata Ramaraju Alluri and Fernanda L Alonzo and Erika Alvarado and Dymaries Alvarado-Vega and Amanda Alvelo-Aviles and M. Alvisi and Kimberly Amick and Kimber M Amweg and Kirk R. Anders and Alexander G. Anderson and Alison Anderson and Kelly Anderson and Michael Anderson and Joseph Anderson and Kathryn M. Anderson and Patrick Anderson and Sonya L Anderson and Joshua Andle and Nicole A. Anguiano and Nicolas Antis and Abigail Antoine and Tessa Anton and Ashley Anway and Callie Anyan and Juan Apiz-Saab and Javier Apodaca and Robert F. Appleyard and Saba I. Aqel and Marianne Arakelyan and Jobi Arceneaux and J Richard Archer and Kathleen Archer and Nelish S Ardeshna and Luke T Arduino and Manuel Ares and Lissenya B. Argueta and Taylor Arhar and Jessica Arighi and Abigail J S Armstrong and Najealicka Armstrong and Chanarion Arnold and Eric P Arnold and Kristin Arnold and Rachel Aron and Nikita Arora and Catlin Arrington and Lynda Asadourian and Kathyrn Asalone and Anthony Ascolillo and Jessica Ashcraft and Brandon D Ashley and Carmela Asinas and Christopher C Asuzu and Aliza Auces and Robin Audette and Matthew Aultman and Quenten Austin and Nicanor Pier Giorgio Austriaco and Michelle Averkiou and Taara Avery and Izma Aviles and Anamaris Aviles-Rivera and Lauren Awdziejczyk and Froogh Aziz and R. Marshall Aziz and Grace Babbs and N. Jithendra Babu and Stevie Bach and M. Bachman and Tasha D Baer and Joanna Bagienska and Dadde Bah and Hana Baig and Andrew Bailey and Ryan Bailey and Paul Baker and Mitchell F. Balish and Sarah Ball and Ellee Banaszak and Sophie Bandurski and Debarko Banerji and Laura Banken and Brittany Banks and William J Banning and Ch{\'e}n Bao and W. Bradley Barbazuk and Nastassia R Barber and Joshua R Barber and Jessica M. Barber and Rafi Bari and Lucia P. Barker and Alexis Barna and Emily Barner and Ryan P Barnes and Brooke H Barnhart and Stephanie N Barr and Alessandra L. Barrera and Anne Barron and William D. Barshop and Nicole Bartels and Kristi Bartholomay and Azhar S Bashir and Kimberly Bastille and Steven Bateh and Tyler Bates and Neha Batra and Megan Batty and Rebecca Baudin and Victor Bauer and Cynthia Bauerle and Ian M. Bayles and Aaron Beach and Gwendolyn M Beacham and Lorenzo Bean and Shannon M. Beaty and Torri Beaudoin and Darius D Becker-Krail and Madison Beckman and Christina Beckwith and Blake Beehler and Bethany G Beekly and Alissa Behl and Katherine L. Belfield and Campbell Belisle Haley and Abbey Bell and Bianca Bell and Devyn Bell and Mecca Bell and Trevene Bell and Adriano Bellotti and Ryan Benczik and Robert Curliss Benjamin and Pilgrim Benjamin and Elizabeth Benner and Rebecca Benoit and Nicholas Bense and Brandon M Bensel and Gabrielle Benson and Hannah Bergh and Rebecca E Berk and Charlotte Berkes and Janella Bermudez and Joshua T. Bernal and Daniel Bernal and Thomas J Bernardo and Anthony Bernicchi and Molly Berning and Jose Efrain Berrios-Lopez and Luis Berrios-Pagan and Johanna Berrios-Ruiz and Hannah Berry and Kara Beseler and Aaron A. Best and Reba R Best and Nicolette Bestul and Victoria Betancourt and Andres Betancourt-Torres and Rudolf Beutner and Yachana Bhakta and Nazia Bhatti and Sonam B Bhimbra and Swapan Bhuiyan and Tiffany Bibeau and Mary Anthonette Binongcal and Monica Binsol and Miles Black and William Blaine and Cole Blair and Peter S. Blair and Aaron R Blake and Samantha Blake and Bradley Blankenship and Michelle Blemker and K. Elaine Blevins and Lawrence Blumer and Katherine Boas and Jon Lucas Boatwright and Brittany H Bodnar and Molly Bogolin and Alan J Bohn and Anthony Bohner and Amy Bohner and Cayla Boisseranc and Dave Bollivar and Logan Bond and J. Alfred Bonilla and James Bonner and Daniel Bonnette and Ashley Boone and Kyle Boone and Amanda Boozalis and Jaclyn Ann Boozalis and Elyse Borchik and Brooke Borgert and Kim M. Borges and Denisse Borja and Julia Boroday and Dajana Borova and Mary Borque and Valerie Bostrom and Mara Bottomley and James Bowen and Ian N Boys and Kevin Bradley and Kosi Bradley and Jace C Bradshaw and Judd Bragg and Kaitlyn Brahm and Veronica E Brandley and Andrew Brannan and Clinton Branton and Clayton Branton and Caitlyn Brook Brashears and Sara N. Bratsch and Edward L Braun and Mary Ann Braun and Gabriel Brautman and Donald P. Breakwell and Mackenzie Bredereck and Lisa Brehove and Caroline A Breitenberger and Jason J Breithaupt and Joseph Bretzmann and Levi Brewer and Jerald S. Bricker and Valerie C Briell and Alicia K. Brighton and K. Brink and Lauren N. Broadway and John W Brooker and Mia Broughton and Abigail Brown and Ariel Beth Brown and Bryony R. Brown and Emma Brown and Gerald L. Brown and Heather Brown and Janaye Brown and Melissa Brown and Hilary A Brownstead and Claire Brownstone and Regina Bruce and Amy Bruckbauer and Laura Brumbaugh and Sarah Brusko and Anthony Brusnahan and Christian Brutofsky and W. Bryan and Hanna Bryant and Sarah K. Bryant and Ryann M. Brzoska and Harman Bual and Blake Buchanan and Ciara Buechner and Daniel J Buhalo and Taylor Buhr and Duy Xuan Bui and Mary Jo Bulfin and Sarah N. Bunker and Mary Burak and Sarah Burdette and Elizabeth H Burger and Aaron Burghgraef and Kyle Burghgraef and Kevin Burke and Victoria Burkhead and Tate Burkholder and Andrew Burlingame and Sandra H. Burnett and Angela R. Burr and Derek Burton and Tiffany Burton and Mathew Bushey and Kristina Busser and Nicholas Bussian and Maude Bute and Kristen A Butela and Mandy Butler and Dominique Bynum-Cooper and Meghan Byrne and Deanna Byrnes and Cristina Cabrera-Mino and Carla Caceres-Velazquez and Jacqueline Caelwarts and Grace Cain and Mario Caldararo and Darcie J Caldwell and Tomika S Caldwell and Czarina Calicdan and Christopher M Caliva and Caitlin J Callaghan and Brennan Calley and William Eamon Callison and Lee Calvert and Javier Camacho and Amanda Campbell and Warren Campbell and Ian Winsten Campbell and Joshua L Campbell and Laura J Campbell and Ross Campbell and Julie Anne Canter and Nico Carbone and Erick Cardona-Portalatin and Andrew Cardwell and Lydia Carlin and Emily Carlisi and Kristen Carlisle and Alexander Carlson and Courtney Carlstrom and Elizabeth P. Carpenter and James Carpino and Katherine Carr and Sophia Carroll and Connor Carry and Susan Carson and Jennifer Carter and Leah Carter and Lucas Carter and Morgan Carter and Steven M Caruso and Sarah Carzo and Danielle Cascione and Tarrin Casey and Marliz Casiano-Real and Tyler Caskin and Colleen Cassidy and James Cassoday and Paulina Castillo and Byron Castillo Silva and Anna Casto-Markosky and Erinleigh Caughron and Heather Caulkins and Mitchel D Cavallarin and William Cavedon and Elymae Cedeno Garcia and Francisco De la Cerda and Nicco Cerda and Logan Cerkovnik and Jasiel Cervantes and Juan Manuel Cervantes and James Cescon and Priya Chakrabarti and Sanjeev Chalissery and Molly Chamberlin and Codee Champney and Dong Woo Chang and Jee Yoon Chang and Michelle Chang and Ana Chaparro and Joshua Chappell and Reed Charlop and Anna R. Chase and Wrik Chatterjee and Kevin Chavez and Vivian Ch{\'a}vez and Alexandra Chen and Annie Chen and Xiaozhu Chen and Yue Ting Chen and Xi Chen and Jason Chia-Sheng Cheng and Alison A Chesky and Lashanda Cheston and Mahathee Meenakshi Chetlapalli and Darren Chew and Behroz Khushrav Chhor and Caitlyn M Chilinski and Pawan Chitta and Ariel W Cho and L. Chockalingam and Jeremy Chou and Tiffany W. Chow and Jordan Church and Richard Churchill and Bryce M. Churilla and Eric Ciardiello and Bryan Ciccarello and Varun Cidambi and Amy Cimo and Cassie Clark and Matthew Clark and Zachary E. Clark and Kari L. Clase and Barbara J. Ang Clement and Dylan Clevenger and Tiffany A Clinton and Benjamin J Cody and Rainna E. Coelho and Sarah Coffee and Gayle Coggins and Kali Coghlan and K. Cohen and Lianne B. Cohen and Joanna Katherine Claire Coker and Tiffany Colburn and Allison M. Cole and Kris Cole and Arlixer Coleman and Maggie Colicchio and Eric Collin and Carol M Collins and J. Matthew Collins and Justin Collins and Theresa Collins and Kimberly Colombini and Jennifer M. Colquhoun and Jessica E Colunga and Kevin Colvin and Ronald Comeaux and Brian Conahan and D. Lindsie Cone and Erik Cone and Robert Connolly and Ashley Connors and Sandra Connors and Paul Consiglio and Kathrina Consing and Daniel Conti and Troy Coody and Stephanie Cook and J. Anthony Cookson and Charles Coomer and Crystal Cooper and Jacob Cooper and Cianna E Corbacio and Gabriel Cordero-Bernard and Sarah Corley and Kathleen A. Cornely and Eduardo Correa and Earl Cosby and Michael Costello and Catherine Cota and Idalid Cotto-Berr{\'i}os},
The bacteriophage population is large, dynamic, ancient, and genetically diverse. Limited genomic information shows that phage genomes are mosaic, and the genetic architecture of phage populations remains ill-defined. To understand the population structure of phages infecting a single host strain, we isolated, sequenced, and compared 627 phages of Mycobacterium smegmatis. Their genetic diversity is considerable, and there are 28 distinct genomic types (clusters) with related nucleotide… CONTINUE READING
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Comparative genomics of cluster O mycobacteriophages

  • SE, VC Ware, +6 authors GF. Hatfull
  • PLOS ONE 10:e0118725. doi: 10.1371/journal.pone…
  • 2015

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