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Analysis of Spounaviruses as a Case Study for the Overdue Reclassification of Tailed Phages.

Barylski J, Enault F, Dutilh BE, Schuller MBP, Edwards RA, Gillis A, Klumpp J, Knezevic P, Krupovic M, Kuhn JH, Lavigne R, Oksanen HM, Sullivan MB, Jang HB, Simmonds P, Aiewsakun P, Wittmann J, Tolstoy I, Brister JR, Kropinski AM, Adriaenssens EM.

Syst Biol. 2019 May 25. pii: syz036. doi: 10.1093/sysbio/syz036. [Epub ahead of print]


Evaluation of the genomic diversity of viruses infecting bacteria, archaea and eukaryotes using a common bioinformatic platform: steps towards a unified taxonomy.

Aiewsakun P, Adriaenssens EM, Lavigne R, Kropinski AM, Simmonds P.

J Gen Virol. 2018 Sep;99(9):1331-1343. doi: 10.1099/jgv.0.001110. Epub 2018 Jul 17.


Classifying the Unclassified: A Phage Classification Method.

Chibani CM, Farr A, Klama S, Dietrich S, Liesegang H.

Viruses. 2019 Feb 24;11(2). pii: E195. doi: 10.3390/v11020195.


Enterococcal Bacteriophages and Genome Defense.

Duerkop BA, Palmer KL, Horsburgh MJ.

In: Gilmore MS, Clewell DB, Ike Y, Shankar N, editors. Enterococci: From Commensals to Leading Causes of Drug Resistant Infection [Internet]. Boston: Massachusetts Eye and Ear Infirmary; 2014-.
2014 Feb 11.


Classification of Myoviridae bacteriophages using protein sequence similarity.

Lavigne R, Darius P, Summer EJ, Seto D, Mahadevan P, Nilsson AS, Ackermann HW, Kropinski AM.

BMC Microbiol. 2009 Oct 26;9:224. doi: 10.1186/1471-2180-9-224.


Phage morphology recapitulates phylogeny: the comparative genomics of a new group of myoviruses.

Comeau AM, Tremblay D, Moineau S, Rattei T, Kushkina AI, Tovkach FI, Krisch HM, Ackermann HW.

PLoS One. 2012;7(7):e40102. doi: 10.1371/journal.pone.0040102. Epub 2012 Jul 6.


Integration of genomic and proteomic analyses in the classification of the Siphoviridae family.

Adriaenssens EM, Edwards R, Nash JHE, Mahadevan P, Seto D, Ackermann HW, Lavigne R, Kropinski AM.

Virology. 2015 Mar;477:144-154. doi: 10.1016/j.virol.2014.10.016. Epub 2014 Nov 14.


Tailed bacteriophages: the order caudovirales.

Ackermann HW.

Adv Virus Res. 1998;51:135-201. Review.


Three-dimensional structures of bacteriophage neck subunits are shared in Podoviridae, Siphoviridae and Myoviridae.

Iwasaki T, Yamashita E, Nakagawa A, Enomoto A, Tomihara M, Takeda S.

Genes Cells. 2018 Jul;23(7):528-536. doi: 10.1111/gtc.12594. Epub 2018 May 16.


The SPO1-related bacteriophages.

Klumpp J, Lavigne R, Loessner MJ, Ackermann HW.

Arch Virol. 2010 Oct;155(10):1547-61. doi: 10.1007/s00705-010-0783-0. Epub 2010 Aug 17. Review.


Virus classification - where do you draw the line?

Simmonds P, Aiewsakun P.

Arch Virol. 2018 Aug;163(8):2037-2046. doi: 10.1007/s00705-018-3938-z. Epub 2018 Jul 24. Review.


A structured annotation frame for the transposable phages: a new proposed family "Saltoviridae" within the Caudovirales.

Hulo C, Masson P, Le Mercier P, Toussaint A.

Virology. 2015 Mar;477:155-163. doi: 10.1016/j.virol.2014.10.009. Epub 2014 Dec 12.


Molecular Analysis of Arthrobacter Myovirus vB_ArtM-ArV1: We Blame It on the Tail.

Kaliniene L, Šimoliūnas E, Truncaitė L, Zajančkauskaitė A, Nainys J, Kaupinis A, Valius M, Meškys R.

J Virol. 2017 Mar 29;91(8). pii: e00023-17. doi: 10.1128/JVI.00023-17. Print 2017 Apr 15.


The dilemma of phage taxonomy illustrated by comparative genomics of Sfi21-like Siphoviridae in lactic acid bacteria.

Proux C, van Sinderen D, Suarez J, Garcia P, Ladero V, Fitzgerald GF, Desiere F, Brüssow H.

J Bacteriol. 2002 Nov;184(21):6026-36.


Novel virulent and broad-host-range Erwinia amylovora bacteriophages reveal a high degree of mosaicism and a relationship to Enterobacteriaceae phages.

Born Y, Fieseler L, Marazzi J, Lurz R, Duffy B, Loessner MJ.

Appl Environ Microbiol. 2011 Sep;77(17):5945-54. doi: 10.1128/AEM.03022-10. Epub 2011 Jul 15.


Automated classification of tailed bacteriophages according to their neck organization.

Lopes A, Tavares P, Petit MA, Guérois R, Zinn-Justin S.

BMC Genomics. 2014 Nov 27;15:1027. doi: 10.1186/1471-2164-15-1027.


Genome Organization of Escherichia Phage YD-2008.s: A New Entry to Siphoviridae Family.

Sellvam D, Lau NS, Arip YM.

Trop Life Sci Res. 2018 Mar;29(1):37-50. doi: 10.21315/tlsr2018.29.1.3. Epub 2018 Mar 2.


Optimizing protocols for extraction of bacteriophages prior to metagenomic analyses of phage communities in the human gut.

Castro-Mejía JL, Muhammed MK, Kot W, Neve H, Franz CM, Hansen LH, Vogensen FK, Nielsen DS.

Microbiome. 2015 Nov 17;3:64. doi: 10.1186/s40168-015-0131-4.

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