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Items: 1 to 50 of 160

1.

Correction to: Binomial nomenclature for virus species: a consultation.

Siddell SG, Walker PJ, Lefkowitz EJ, Mushegian AR, Dutilh BE, Harrach B, Harrison RL, Junglen S, Knowles NJ, Kropinski AM, Krupovic M, Kuhn JH, Nibert ML, Rubino L, Sabanadzovic S, Simmonds P, Varsani A, Zerbini FM, Davison AJ.

Arch Virol. 2020 Feb 17. doi: 10.1007/s00705-020-04555-0. [Epub ahead of print]

PMID:
32065315
2.

Author Correction: Cryptic inoviruses revealed as pervasive in bacteria and archaea across Earth's biomes.

Roux S, Krupovic M, Daly RA, Borges AL, Nayfach S, Schulz F, Sharrar A, Matheus Carnevali PB, Cheng JF, Ivanova NN, Bondy-Denomy J, Wrighton KC, Woyke T, Visel A, Kyrpides NC, Eloe-Fadrosh EA.

Nat Microbiol. 2020 Feb 11. doi: 10.1038/s41564-020-0681-5. [Epub ahead of print]

PMID:
32047285
3.

Reply to Ku and Sun: Ancestors of modern giant and large eukaryotic dsDNA viruses infected proto-eukaryotes.

Guglielmini J, Woo AC, Krupovic M, Forterre P, Gaia M.

Proc Natl Acad Sci U S A. 2020 Feb 11;117(6):2749-2750. doi: 10.1073/pnas.1920855117. Epub 2020 Jan 28. No abstract available.

PMID:
31992645
4.

ICTV Virus Taxonomy Profile: Spiraviridae.

Prangishvili D, Mochizuki T, Krupovic M, Ictv Report Consortium.

J Gen Virol. 2020 Jan 21. doi: 10.1099/jgv.0.001385. [Epub ahead of print]

PMID:
31961791
5.

An anti-CRISPR viral ring nuclease subverts type III CRISPR immunity.

Athukoralage JS, McMahon SA, Zhang C, Grüschow S, Graham S, Krupovic M, Whitaker RJ, Gloster TM, White MF.

Nature. 2020 Jan;577(7791):572-575. doi: 10.1038/s41586-019-1909-5. Epub 2020 Jan 15.

PMID:
31942067
6.

Phages build anti-defence barriers.

Koonin EV, Krupovic M.

Nat Microbiol. 2020 Jan;5(1):8-9. doi: 10.1038/s41564-019-0635-y. No abstract available.

PMID:
31857728
7.

Binomial nomenclature for virus species: a consultation.

Siddell SG, Walker PJ, Lefkowitz EJ, Mushegian AR, Dutilh BE, Harrach B, Harrison RL, Junglen S, Knowles NJ, Kropinski AM, Krupovic M, Kuhn JH, Nibert ML, Rubino L, Sabanadzovic S, Simmonds P, Varsani A, Zerbini FM, Davison AJ.

Arch Virol. 2020 Feb;165(2):519-525. doi: 10.1007/s00705-019-04477-6. Erratum in: Arch Virol. 2020 Feb 17;:.

PMID:
31797129
8.

Virus-borne mini-CRISPR arrays are involved in interviral conflicts.

Medvedeva S, Liu Y, Koonin EV, Severinov K, Prangishvili D, Krupovic M.

Nat Commun. 2019 Nov 15;10(1):5204. doi: 10.1038/s41467-019-13205-2.

9.

A packing for A-form DNA in an icosahedral virus.

Wang F, Liu Y, Su Z, Osinski T, de Oliveira GAP, Conway JF, Schouten S, Krupovic M, Prangishvili D, Egelman EH.

Proc Natl Acad Sci U S A. 2019 Nov 5;116(45):22591-22597. doi: 10.1073/pnas.1908242116. Epub 2019 Oct 21.

PMID:
31636205
10.

Evolutionary entanglement of mobile genetic elements and host defence systems: guns for hire.

Koonin EV, Makarova KS, Wolf YI, Krupovic M.

Nat Rev Genet. 2020 Feb;21(2):119-131. doi: 10.1038/s41576-019-0172-9. Epub 2019 Oct 14. Review.

PMID:
31611667
11.

Diversification of giant and large eukaryotic dsDNA viruses predated the origin of modern eukaryotes.

Guglielmini J, Woo AC, Krupovic M, Forterre P, Gaia M.

Proc Natl Acad Sci U S A. 2019 Sep 24;116(39):19585-19592. doi: 10.1073/pnas.1912006116. Epub 2019 Sep 10.

PMID:
31506349
12.

Multiple origins of prokaryotic and eukaryotic single-stranded DNA viruses from bacterial and archaeal plasmids.

Kazlauskas D, Varsani A, Koonin EV, Krupovic M.

Nat Commun. 2019 Jul 31;10(1):3425. doi: 10.1038/s41467-019-11433-0.

13.

Cryptic inoviruses revealed as pervasive in bacteria and archaea across Earth's biomes.

Roux S, Krupovic M, Daly RA, Borges AL, Nayfach S, Schulz F, Sharrar A, Matheus Carnevali PB, Cheng JF, Ivanova NN, Bondy-Denomy J, Wrighton KC, Woyke T, Visel A, Kyrpides NC, Eloe-Fadrosh EA.

Nat Microbiol. 2019 Nov;4(11):1895-1906. doi: 10.1038/s41564-019-0510-x. Epub 2019 Jul 22. Erratum in: Nat Microbiol. 2020 Feb 11;:.

14.

Spindle-shaped viruses infect marine ammonia-oxidizing thaumarchaea.

Kim JG, Kim SJ, Cvirkaite-Krupovic V, Yu WJ, Gwak JH, López-Pérez M, Rodriguez-Valera F, Krupovic M, Cho JC, Rhee SK.

Proc Natl Acad Sci U S A. 2019 Jul 30;116(31):15645-15650. doi: 10.1073/pnas.1905682116. Epub 2019 Jul 16.

15.

Origin of programmed cell death from antiviral defense?

Koonin EV, Krupovic M.

Proc Natl Acad Sci U S A. 2019 Aug 13;116(33):16167-16169. doi: 10.1073/pnas.1910303116. Epub 2019 Jul 9. No abstract available.

16.

ICTV Virus Taxonomy Profile: Clavaviridae.

Prangishvili D, Mochizuki T, Liu Y, Krupovic M, Ictv Report Consortium.

J Gen Virol. 2019 Sep;100(9):1267-1268. doi: 10.1099/jgv.0.001295.

PMID:
31271351
17.

Changes to virus taxonomy and the International Code of Virus Classification and Nomenclature ratified by the International Committee on Taxonomy of Viruses (2019).

Walker PJ, Siddell SG, Lefkowitz EJ, Mushegian AR, Dempsey DM, Dutilh BE, Harrach B, Harrison RL, Hendrickson RC, Junglen S, Knowles NJ, Kropinski AM, Krupovic M, Kuhn JH, Nibert M, Rubino L, Sabanadzovic S, Simmonds P, Varsani A, Zerbini FM, Davison AJ.

Arch Virol. 2019 Sep;164(9):2417-2429. doi: 10.1007/s00705-019-04306-w.

PMID:
31187277
18.

Origin of viruses: primordial replicators recruiting capsids from hosts.

Krupovic M, Dolja VV, Koonin EV.

Nat Rev Microbiol. 2019 Jul;17(7):449-458. doi: 10.1038/s41579-019-0205-6. Review.

PMID:
31142823
19.

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

Barylski J, Enault F, Dutilh BE, Schuller MB, 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. 2020 Jan 1;69(1):110-123. doi: 10.1093/sysbio/syz036.

PMID:
31127947
20.

Sequence motifs recognized by the casposon integrase of Aciduliprofundum boonei.

Béguin P, Chekli Y, Sezonov G, Forterre P, Krupovic M.

Nucleic Acids Res. 2019 Jul 9;47(12):6386-6395. doi: 10.1093/nar/gkz447.

21.

An extensively glycosylated archaeal pilus survives extreme conditions.

Wang F, Cvirkaite-Krupovic V, Kreutzberger MAB, Su Z, de Oliveira GAP, Osinski T, Sherman N, DiMaio F, Wall JS, Prangishvili D, Krupovic M, Egelman EH.

Nat Microbiol. 2019 Aug;4(8):1401-1410. doi: 10.1038/s41564-019-0458-x. Epub 2019 May 20.

22.

Taxonomic assignment of uncultivated prokaryotic virus genomes is enabled by gene-sharing networks.

Bin Jang H, Bolduc B, Zablocki O, Kuhn JH, Roux S, Adriaenssens EM, Brister JR, Kropinski AM, Krupovic M, Lavigne R, Turner D, Sullivan MB.

Nat Biotechnol. 2019 Jun;37(6):632-639. doi: 10.1038/s41587-019-0100-8. Epub 2019 May 6.

23.

Reply to Holmes and Duchêne, "Can Sequence Phylogenies Safely Infer the Origin of the Global Virome?": Deep Phylogenetic Analysis of RNA Viruses Is Highly Challenging but Not Meaningless.

Wolf YI, Kazlauskas D, Iranzo J, Lucía-Sanz A, Kuhn JH, Krupovic M, Dolja VV, Koonin EV.

mBio. 2019 Apr 16;10(2). pii: e00542-19. doi: 10.1128/mBio.00542-19. No abstract available.

24.

Novel haloarchaeal viruses from Lake Retba infecting Haloferax and Halorubrum species.

Mizuno CM, Prajapati B, Lucas-Staat S, Sime-Ngando T, Forterre P, Bamford DH, Prangishvili D, Krupovic M, Oksanen HM.

Environ Microbiol. 2019 Jun;21(6):2129-2147. doi: 10.1111/1462-2920.14604. Epub 2019 Apr 14.

PMID:
30920125
25.

Classify viruses - the gain is worth the pain.

Kuhn JH, Wolf YI, Krupovic M, Zhang YZ, Maes P, Dolja VV, Koonin EV.

Nature. 2019 Feb;566(7744):318-320. doi: 10.1038/d41586-019-00599-8. No abstract available.

PMID:
30787460
26.

Integrated mobile genetic elements in Thaumarchaeota.

Krupovic M, Makarova KS, Wolf YI, Medvedeva S, Prangishvili D, Forterre P, Koonin EV.

Environ Microbiol. 2019 Jun;21(6):2056-2078. doi: 10.1111/1462-2920.14564. Epub 2019 Mar 18.

27.

Numerous cultivated and uncultivated viruses encode ribosomal proteins.

Mizuno CM, Guyomar C, Roux S, Lavigne R, Rodriguez-Valera F, Sullivan MB, Gillet R, Forterre P, Krupovic M.

Nat Commun. 2019 Feb 14;10(1):752. doi: 10.1038/s41467-019-08672-6.

28.

Additional changes to taxonomy ratified in a special vote by the International Committee on Taxonomy of Viruses (October 2018).

Siddell SG, Walker PJ, Lefkowitz EJ, Mushegian AR, Adams MJ, Dutilh BE, Gorbalenya AE, Harrach B, Harrison RL, Junglen S, Knowles NJ, Kropinski AM, Krupovic M, Kuhn JH, Nibert M, Rubino L, Sabanadzovic S, Sanfaçon H, Simmonds P, Varsani A, Zerbini FM, Davison AJ.

Arch Virol. 2019 Mar;164(3):943-946. doi: 10.1007/s00705-018-04136-2.

PMID:
30663020
29.

Strengthening the Interaction of the Virology Community with the International Committee on Taxonomy of Viruses (ICTV) by Linking Virus Names and Their Abbreviations to Virus Species.

Calisher CH, Briese T, Brister JR, Charrel RN, Dürrwald R, Ebihara H, Fulhorst CF, Gāo GF, Groschup MH, Haddow AD, Hyndman TH, Junglen S, Klempa B, Klingström J, Kropinski AM, Krupovic M, LaBeaud AD, Maes P, Nowotny N, Nunes MRT, Payne SL, Radoshitzky SR, Rubbenstroth D, Sabanadzovic S, Sasaya T, Stenglein MD, Varsani A, Wahl V, Weaver SC, Zerbini FM, Vasilakis N, Kuhn JH.

Syst Biol. 2019 Sep 1;68(5):828-839. doi: 10.1093/sysbio/syy087.

PMID:
30597118
30.

Minimum Information about an Uncultivated Virus Genome (MIUViG).

Roux S, Adriaenssens EM, Dutilh BE, Koonin EV, Kropinski AM, Krupovic M, Kuhn JH, Lavigne R, Brister JR, Varsani A, Amid C, Aziz RK, Bordenstein SR, Bork P, Breitbart M, Cochrane GR, Daly RA, Desnues C, Duhaime MB, Emerson JB, Enault F, Fuhrman JA, Hingamp P, Hugenholtz P, Hurwitz BL, Ivanova NN, Labonté JM, Lee KB, Malmstrom RR, Martinez-Garcia M, Mizrachi IK, Ogata H, Páez-Espino D, Petit MA, Putonti C, Rattei T, Reyes A, Rodriguez-Valera F, Rosario K, Schriml L, Schulz F, Steward GF, Sullivan MB, Sunagawa S, Suttle CA, Temperton B, Tringe SG, Thurber RV, Webster NS, Whiteson KL, Wilhelm SW, Wommack KE, Woyke T, Wrighton KC, Yilmaz P, Yoshida T, Young MJ, Yutin N, Allen LZ, Kyrpides NC, Eloe-Fadrosh EA.

Nat Biotechnol. 2019 Jan;37(1):29-37. doi: 10.1038/nbt.4306. Epub 2018 Dec 17.

31.

ICTV Virus Taxonomy Profile: Tristromaviridae.

Prangishvili D, Rensen E, Mochizuki T, Krupovic M, Ictv Report Consortium.

J Gen Virol. 2019 Feb;100(2):135-136. doi: 10.1099/jgv.0.001190. Epub 2018 Dec 12.

PMID:
30540248
32.

Origins and Evolution of the Global RNA Virome.

Wolf YI, Kazlauskas D, Iranzo J, Lucía-Sanz A, Kuhn JH, Krupovic M, Dolja VV, Koonin EV.

mBio. 2018 Nov 27;9(6). pii: e02329-18. doi: 10.1128/mBio.02329-18.

33.

New archaeal viruses discovered by metagenomic analysis of viral communities in enrichment cultures.

Liu Y, Brandt D, Ishino S, Ishino Y, Koonin EV, Kalinowski J, Krupovic M, Prangishvili D.

Environ Microbiol. 2019 Jun;21(6):2002-2014. doi: 10.1111/1462-2920.14479. Epub 2019 Jan 8.

PMID:
30451355
34.

Centennial celebration of the bacteriophage research.

Debarbieux L, Forterre P, Krupovic M, Kutateladze M, Prangishvili D.

Res Microbiol. 2018 Nov;169(9):479-480. doi: 10.1016/j.resmic.2018.10.001. Epub 2018 Nov 2. No abstract available.

PMID:
30391303
35.

Structural conservation in a membrane-enveloped filamentous virus infecting a hyperthermophilic acidophile.

Liu Y, Osinski T, Wang F, Krupovic M, Schouten S, Kasson P, Prangishvili D, Egelman EH.

Nat Commun. 2018 Aug 22;9(1):3360. doi: 10.1038/s41467-018-05684-6.

36.

ICTV Virus Taxonomy Profile: Globuloviridae.

Prangishvili D, Krupovic M, Ictv Report Consortium.

J Gen Virol. 2018 Oct;99(10):1357-1358. doi: 10.1099/jgv.0.001123. Epub 2018 Aug 9.

PMID:
30091697
37.

The depths of virus exaptation.

Koonin EV, Krupovic M.

Curr Opin Virol. 2018 Aug;31:1-8. doi: 10.1016/j.coviro.2018.07.011. Epub 2018 Jul 30. Review.

PMID:
30071360
38.

Correction to: Smacoviridae: a new family of animal-associated single-stranded DNA viruses.

Varsani A, Krupovic M.

Arch Virol. 2018 Nov;163(11):3213-3214. doi: 10.1007/s00705-018-3960-1.

PMID:
30054745
39.

ICTV Virus Taxonomy Profile: Bicaudaviridae.

Prangishvili D, Krupovic M, Ictv Report Consortium.

J Gen Virol. 2018 Jul;99(7):864-865. doi: 10.1099/jgv.0.001106. Epub 2018 Jun 7.

PMID:
29877786
40.

Changes to taxonomy and the International Code of Virus Classification and Nomenclature ratified by the International Committee on Taxonomy of Viruses (2018).

King AMQ, Lefkowitz EJ, Mushegian AR, Adams MJ, Dutilh BE, Gorbalenya AE, Harrach B, Harrison RL, Junglen S, Knowles NJ, Kropinski AM, Krupovic M, Kuhn JH, Nibert ML, Rubino L, Sabanadzovic S, Sanfaçon H, Siddell SG, Simmonds P, Varsani A, Zerbini FM, Davison AJ.

Arch Virol. 2018 Sep;163(9):2601-2631. doi: 10.1007/s00705-018-3847-1. Epub 2018 May 12.

PMID:
29754305
41.

Taxonomy of the family Arenaviridae and the order Bunyavirales: update 2018.

Maes P, Alkhovsky SV, Bào Y, Beer M, Birkhead M, Briese T, Buchmeier MJ, Calisher CH, Charrel RN, Choi IR, Clegg CS, de la Torre JC, Delwart E, DeRisi JL, Di Bello PL, Di Serio F, Digiaro M, Dolja VV, Drosten C, Druciarek TZ, Du J, Ebihara H, Elbeaino T, Gergerich RC, Gillis AN, Gonzalez JJ, Haenni AL, Hepojoki J, Hetzel U, Hồ T, Hóng N, Jain RK, Jansen van Vuren P, Jin Q, Jonson MG, Junglen S, Keller KE, Kemp A, Kipar A, Kondov NO, Koonin EV, Kormelink R, Korzyukov Y, Krupovic M, Lambert AJ, Laney AG, LeBreton M, Lukashevich IS, Marklewitz M, Markotter W, Martelli GP, Martin RR, Mielke-Ehret N, Mühlbach HP, Navarro B, Ng TFF, Nunes MRT, Palacios G, Pawęska JT, Peters CJ, Plyusnin A, Radoshitzky SR, Romanowski V, Salmenperä P, Salvato MS, Sanfaçon H, Sasaya T, Schmaljohn C, Schneider BS, Shirako Y, Siddell S, Sironen TA, Stenglein MD, Storm N, Sudini H, Tesh RB, Tzanetakis IE, Uppala M, Vapalahti O, Vasilakis N, Walker PJ, Wáng G, Wáng L, Wáng Y, Wèi T, Wiley MR, Wolf YI, Wolfe ND, Wú Z, Xú W, Yang L, Yāng Z, Yeh SD, Zhāng YZ, Zhèng Y, Zhou X, Zhū C, Zirkel F, Kuhn JH.

Arch Virol. 2018 Aug;163(8):2295-2310. doi: 10.1007/s00705-018-3843-5. Epub 2018 Apr 21.

PMID:
29680923
42.

Pervasive Chimerism in the Replication-Associated Proteins of Uncultured Single-Stranded DNA Viruses.

Kazlauskas D, Varsani A, Krupovic M.

Viruses. 2018 Apr 10;10(4). pii: E187. doi: 10.3390/v10040187.

43.

Taxonomy of the order Mononegavirales: update 2018.

Amarasinghe GK, Aréchiga Ceballos NG, Banyard AC, Basler CF, Bavari S, Bennett AJ, Blasdell KR, Briese T, Bukreyev A, Caì Y, Calisher CH, Campos Lawson C, Chandran K, Chapman CA, Chiu CY, Choi KS, Collins PL, Dietzgen RG, Dolja VV, Dolnik O, Domier LL, Dürrwald R, Dye JM, Easton AJ, Ebihara H, Echevarría JE, Fooks AR, Formenty PBH, Fouchier RAM, Freuling CM, Ghedin E, Goldberg TL, Hewson R, Horie M, Hyndman TH, Jiāng D, Kityo R, Kobinger GP, Kondō H, Koonin EV, Krupovic M, Kurath G, Lamb RA, Lee B, Leroy EM, Maes P, Maisner A, Marston DA, Mor SK, Müller T, Mühlberger E, Ramírez VMN, Netesov SV, Ng TFF, Nowotny N, Palacios G, Patterson JL, Pawęska JT, Payne SL, Prieto K, Rima BK, Rota P, Rubbenstroth D, Schwemmle M, Siddell S, Smither SJ, Song Q, Song T, Stenglein MD, Stone DM, Takada A, Tesh RB, Thomazelli LM, Tomonaga K, Tordo N, Towner JS, Vasilakis N, Vázquez-Morón S, Verdugo C, Volchkov VE, Wahl V, Walker PJ, Wang D, Wang LF, Wellehan JFX, Wiley MR, Whitfield AE, Wolf YI, Yè G, Zhāng YZ, Kuhn JH.

Arch Virol. 2018 Aug;163(8):2283-2294. doi: 10.1007/s00705-018-3814-x. Epub 2018 Apr 11.

44.

Vast diversity of prokaryotic virus genomes encoding double jelly-roll major capsid proteins uncovered by genomic and metagenomic sequence analysis.

Yutin N, Bäckström D, Ettema TJG, Krupovic M, Koonin EV.

Virol J. 2018 Apr 10;15(1):67. doi: 10.1186/s12985-018-0974-y.

45.

Ortervirales: New Virus Order Unifying Five Families of Reverse-Transcribing Viruses.

Krupovic M, Blomberg J, Coffin JM, Dasgupta I, Fan H, Geering AD, Gifford R, Harrach B, Hull R, Johnson W, Kreuze JF, Lindemann D, Llorens C, Lockhart B, Mayer J, Muller E, Olszewski NE, Pappu HR, Pooggin MM, Richert-Pöggeler KR, Sabanadzovic S, Sanfaçon H, Schoelz JE, Seal S, Stavolone L, Stoye JP, Teycheney PY, Tristem M, Koonin EV, Kuhn JH.

J Virol. 2018 May 29;92(12). pii: e00515-18. doi: 10.1128/JVI.00515-18. Print 2018 Jun 15. No abstract available.

46.

ICTV Virus Taxonomy Profile: Plasmaviridae.

Krupovic M, Ictv Report Consortium.

J Gen Virol. 2018 May;99(5):617-618. doi: 10.1099/jgv.0.001060. Epub 2018 Apr 3.

PMID:
29611799
47.

Smacoviridae: a new family of animal-associated single-stranded DNA viruses.

Varsani A, Krupovic M.

Arch Virol. 2018 Jul;163(7):2005-2015. doi: 10.1007/s00705-018-3820-z. Epub 2018 Mar 23. Erratum in: Arch Virol. 2018 Nov;163(11):3213-3214.

PMID:
29572596
48.

ICTV Virus Taxonomy Profile: Guttaviridae.

Prangishvili D, Mochizuki T, Krupovic M, Ictv Report Consortium.

J Gen Virol. 2018 Mar;99(3):290-291. doi: 10.1099/jgv.0.001027. Epub 2018 Feb 8.

49.

ICTV Virus Taxonomy Profile: Ampullaviridae.

Prangishvili D, Krupovic M, Ictv Report Consortium.

J Gen Virol. 2018 Mar;99(3):288-289. doi: 10.1099/jgv.0.001023. Epub 2018 Feb 8.

50.

Rolling-circle replication initiation protein of haloarchaeal sphaerolipovirus SNJ1 is homologous to bacterial transposases of the IS91 family insertion sequences.

Wang Y, Chen B, Cao M, Sima L, Prangishvili D, Chen X, Krupovic M.

J Gen Virol. 2018 Mar;99(3):416-421. doi: 10.1099/jgv.0.001009.

PMID:
29458508

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