Abstract
The vast bacteriophage population harbors an immense reservoir of genetic information. Almost 2000 phage genomes have been sequenced from phages infecting hosts in the phylum Actinobacteria, and analysis of these genomes reveals substantial diversity, pervasive mosaicism, and novel mechanisms for phage replication and lysogeny. Here, we describe the isolation and genomic characterization of 46 phages from environmental samples at various geographic locations in the U.S. infecting a single Arthrobacter sp. strain. These phages include representatives of all three virion morphologies, and Jasmine is the first sequenced podovirus of an actinobacterial host. The phages also span considerable sequence diversity, and can be grouped into 10 clusters according to their nucleotide diversity, and two singletons each with no close relatives. However, the clusters/singletons appear to be genomically well separated from each other, and relatively few genes are shared between clusters. Genome size varies from among the smallest of siphoviral phages (15,319 bp) to over 70 kbp, and G+C contents range from 45–68%, compared to 63.4% for the host genome. Although temperate phages are common among other actinobacterial hosts, these Arthrobacter phages are primarily lytic, and only the singleton Galaxy is likely temperate.
| Original language | English (US) |
|---|---|
| Article number | e0180517 |
| Journal | PloS one |
| Volume | 12 |
| Issue number | 7 |
| DOIs | |
| State | Published - Jul 2017 |
ASJC Scopus subject areas
- Biochemistry, Genetics and Molecular Biology(all)
- Agricultural and Biological Sciences(all)
- General
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Tales of diversity : Genomic and morphological characteristics of forty-six Arthrobacter phages. / Klyczek, Karen K.; Bonilla, J. Alfred; Jacobs-Sera, Deborah; Adair, Tamarah L.; Afram, Patricia; Allen, Katherine G.; Archambault, Megan L.; Aziz, Rahat M.; Bagnasco, Filippa G.; Ball, Sarah L.; Barrett, Natalie A.; Benjamin, Robert C.; Blasi, Christopher J.; Borst, Katherine; Braun, Mary A.; Broomell, Haley; Brown, Conner B.; Brynell, Zachary S.; Bue, Ashley B.; Burke, Sydney O.; Casazza, William; Cautela, Julia A.; Chen, Kevin; Chimalakonda, Nitish S.; Chudoff, Dylan; Connor, Jade A.; Cross, Trevor S.; Curtis, Kyra N.; Dahlke, Jessica A.; Deaton, Bethany M.; Degroote, Sarah J.; Denigris, Danielle M.; Deruff, Katherine C.; Dolan, Milan; Dunbar, David; Egan, Marisa S.; Evans, Daniel R.; Fahnestock, Abby K.; Farooq, Amal; Finn, Garrett; Fratus, Christopher R.; Gaffney, Bobby L.; Garlena, Rebecca A.; Garrigan, Kelly E.; Gibbon, Bryan C.; Goedde, Michael A.; Guerrero Bustamante, Carlos A.; Harrison, Melinda; Hartwell, Megan C.; Heckman, Emily L.; Huang, Jennifer; Hughes, Lee E.; Hyduchak, Kathryn M.; Jacob, Aswathi E.; Kaku, Machika; Karstens, Allen W.; Kenna, Margaret A.; Khetarpal, Susheel; King, Rodney A.; Kobokovich, Amanda L.; Kolev, Hannah; Konde, Sai A.; Kriese, Elizabeth; Lamey, Morgan E.; Lantz, Carter N.; Lapin, Jonathan S.; Lawson, Temiloluwa O.; Lee, In Young; Lee, Scott M.; Lee-Soety, Julia Y.; Lehmann, Emily M.; London, Shawn C.; Lopez, A. Javier; Lynch, Kelly C.; Mageeney, Catherine M.; Martynyuk, Tetyana; Mathew, Kevin J.; Mavrich, Travis N.; McDaniel, Christopher M.; McDonald, Hannah; McManus, C. Joel; Medrano, Jessica E.; Mele, Francis E.; Menninger, Jennifer E.; Miller, Sierra N.; Minick, Josephine E.; Nabua, Courtney T.; Napoli, Caroline K.; Nkangabwa, Martha; Oates, Elizabeth A.; Ott, Cassandra T.; Pellerino, Sarah K.; Pinamont, William J.; Pirnie, Ross T.; Pizzorno, Marie C.; Plautz, Emilee J.; Pope, Welkin H.; Pruett, Katelyn M.; Rickstrew, Gabbi; Rimple, Patrick A.; Rinehart, Claire A.; Robinson, Kayla M.; Rose, Victoria A.; Russell, Daniel A.; Schick, Amelia M.; Schlossman, Julia; Schneider, Victoria M.; Sells, Chloe A.; Sieker, Jeremy W.; Silva, Morgan P.; Silvi, Marissa M.; Simon, Stephanie E.; Staples, Amanda K.; Steed, Isabelle L.; Stowe, Emily L.; Stueven, Noah A.; Swartz, Porter T.; Sweet, Emma A.; Sweetman, Abigail T.; Tender, Corrina; Terry, Katrina; Thomas, Chrystal; Thomas, Daniel S.; Thompson, Allison R.; Vanderveen, Lorianna; Varma, Rohan; Vaught, Hannah L.; Vo, Quynh D.; Vonberg, Zachary T.; Ware, Vassie C.; Warrad, Yasmene M.; Wathen, Kaitlyn E.; Weinstein, Jonathan L.; Wyper, Jacqueline F.; Yankauskas, Jakob R.; Zhang, Christine; Hatfull, Graham F.
In: PloS one, Vol. 12, No. 7, e0180517, 07.2017.Research output: Contribution to journal › Article › peer-review
}
TY - JOUR
T1 - Tales of diversity
T2 - Genomic and morphological characteristics of forty-six Arthrobacter phages
AU - Klyczek, Karen K.
AU - Bonilla, J. Alfred
AU - Jacobs-Sera, Deborah
AU - Adair, Tamarah L.
AU - Afram, Patricia
AU - Allen, Katherine G.
AU - Archambault, Megan L.
AU - Aziz, Rahat M.
AU - Bagnasco, Filippa G.
AU - Ball, Sarah L.
AU - Barrett, Natalie A.
AU - Benjamin, Robert C.
AU - Blasi, Christopher J.
AU - Borst, Katherine
AU - Braun, Mary A.
AU - Broomell, Haley
AU - Brown, Conner B.
AU - Brynell, Zachary S.
AU - Bue, Ashley B.
AU - Burke, Sydney O.
AU - Casazza, William
AU - Cautela, Julia A.
AU - Chen, Kevin
AU - Chimalakonda, Nitish S.
AU - Chudoff, Dylan
AU - Connor, Jade A.
AU - Cross, Trevor S.
AU - Curtis, Kyra N.
AU - Dahlke, Jessica A.
AU - Deaton, Bethany M.
AU - Degroote, Sarah J.
AU - Denigris, Danielle M.
AU - Deruff, Katherine C.
AU - Dolan, Milan
AU - Dunbar, David
AU - Egan, Marisa S.
AU - Evans, Daniel R.
AU - Fahnestock, Abby K.
AU - Farooq, Amal
AU - Finn, Garrett
AU - Fratus, Christopher R.
AU - Gaffney, Bobby L.
AU - Garlena, Rebecca A.
AU - Garrigan, Kelly E.
AU - Gibbon, Bryan C.
AU - Goedde, Michael A.
AU - Guerrero Bustamante, Carlos A.
AU - Harrison, Melinda
AU - Hartwell, Megan C.
AU - Heckman, Emily L.
AU - Huang, Jennifer
AU - Hughes, Lee E.
AU - Hyduchak, Kathryn M.
AU - Jacob, Aswathi E.
AU - Kaku, Machika
AU - Karstens, Allen W.
AU - Kenna, Margaret A.
AU - Khetarpal, Susheel
AU - King, Rodney A.
AU - Kobokovich, Amanda L.
AU - Kolev, Hannah
AU - Konde, Sai A.
AU - Kriese, Elizabeth
AU - Lamey, Morgan E.
AU - Lantz, Carter N.
AU - Lapin, Jonathan S.
AU - Lawson, Temiloluwa O.
AU - Lee, In Young
AU - Lee, Scott M.
AU - Lee-Soety, Julia Y.
AU - Lehmann, Emily M.
AU - London, Shawn C.
AU - Lopez, A. Javier
AU - Lynch, Kelly C.
AU - Mageeney, Catherine M.
AU - Martynyuk, Tetyana
AU - Mathew, Kevin J.
AU - Mavrich, Travis N.
AU - McDaniel, Christopher M.
AU - McDonald, Hannah
AU - McManus, C. Joel
AU - Medrano, Jessica E.
AU - Mele, Francis E.
AU - Menninger, Jennifer E.
AU - Miller, Sierra N.
AU - Minick, Josephine E.
AU - Nabua, Courtney T.
AU - Napoli, Caroline K.
AU - Nkangabwa, Martha
AU - Oates, Elizabeth A.
AU - Ott, Cassandra T.
AU - Pellerino, Sarah K.
AU - Pinamont, William J.
AU - Pirnie, Ross T.
AU - Pizzorno, Marie C.
AU - Plautz, Emilee J.
AU - Pope, Welkin H.
AU - Pruett, Katelyn M.
AU - Rickstrew, Gabbi
AU - Rimple, Patrick A.
AU - Rinehart, Claire A.
AU - Robinson, Kayla M.
AU - Rose, Victoria A.
AU - Russell, Daniel A.
AU - Schick, Amelia M.
AU - Schlossman, Julia
AU - Schneider, Victoria M.
AU - Sells, Chloe A.
AU - Sieker, Jeremy W.
AU - Silva, Morgan P.
AU - Silvi, Marissa M.
AU - Simon, Stephanie E.
AU - Staples, Amanda K.
AU - Steed, Isabelle L.
AU - Stowe, Emily L.
AU - Stueven, Noah A.
AU - Swartz, Porter T.
AU - Sweet, Emma A.
AU - Sweetman, Abigail T.
AU - Tender, Corrina
AU - Terry, Katrina
AU - Thomas, Chrystal
AU - Thomas, Daniel S.
AU - Thompson, Allison R.
AU - Vanderveen, Lorianna
AU - Varma, Rohan
AU - Vaught, Hannah L.
AU - Vo, Quynh D.
AU - Vonberg, Zachary T.
AU - Ware, Vassie C.
AU - Warrad, Yasmene M.
AU - Wathen, Kaitlyn E.
AU - Weinstein, Jonathan L.
AU - Wyper, Jacqueline F.
AU - Yankauskas, Jakob R.
AU - Zhang, Christine
AU - Hatfull, Graham F.
N1 - Funding Information: This work was supported by National Institutes of Health GM116884 to GFH, Howard Hughes Medical Institute 54308198 to GFH, National Science Foundation 1247842 to TNM, and National Institutes of Health P20GM103436 to RAK and CAR.
PY - 2017/7
Y1 - 2017/7
N2 - The vast bacteriophage population harbors an immense reservoir of genetic information. Almost 2000 phage genomes have been sequenced from phages infecting hosts in the phylum Actinobacteria, and analysis of these genomes reveals substantial diversity, pervasive mosaicism, and novel mechanisms for phage replication and lysogeny. Here, we describe the isolation and genomic characterization of 46 phages from environmental samples at various geographic locations in the U.S. infecting a single Arthrobacter sp. strain. These phages include representatives of all three virion morphologies, and Jasmine is the first sequenced podovirus of an actinobacterial host. The phages also span considerable sequence diversity, and can be grouped into 10 clusters according to their nucleotide diversity, and two singletons each with no close relatives. However, the clusters/singletons appear to be genomically well separated from each other, and relatively few genes are shared between clusters. Genome size varies from among the smallest of siphoviral phages (15,319 bp) to over 70 kbp, and G+C contents range from 45–68%, compared to 63.4% for the host genome. Although temperate phages are common among other actinobacterial hosts, these Arthrobacter phages are primarily lytic, and only the singleton Galaxy is likely temperate.
AB - The vast bacteriophage population harbors an immense reservoir of genetic information. Almost 2000 phage genomes have been sequenced from phages infecting hosts in the phylum Actinobacteria, and analysis of these genomes reveals substantial diversity, pervasive mosaicism, and novel mechanisms for phage replication and lysogeny. Here, we describe the isolation and genomic characterization of 46 phages from environmental samples at various geographic locations in the U.S. infecting a single Arthrobacter sp. strain. These phages include representatives of all three virion morphologies, and Jasmine is the first sequenced podovirus of an actinobacterial host. The phages also span considerable sequence diversity, and can be grouped into 10 clusters according to their nucleotide diversity, and two singletons each with no close relatives. However, the clusters/singletons appear to be genomically well separated from each other, and relatively few genes are shared between clusters. Genome size varies from among the smallest of siphoviral phages (15,319 bp) to over 70 kbp, and G+C contents range from 45–68%, compared to 63.4% for the host genome. Although temperate phages are common among other actinobacterial hosts, these Arthrobacter phages are primarily lytic, and only the singleton Galaxy is likely temperate.
UR - http://www.scopus.com/inward/record.url?scp=85024472959&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=85024472959&partnerID=8YFLogxK
U2 - 10.1371/journal.pone.0180517
DO - 10.1371/journal.pone.0180517
M3 - Article
C2 - 28715480
AN - SCOPUS:85024472959
VL - 12
JO - PLoS One
JF - PLoS One
SN - 1932-6203
IS - 7
M1 - e0180517
ER -