• 2025
  Sonani RR, Liu Y, Xiang J, Cvirkaite-Krupovic V, Du S, Chen X, Krupovic M, Egelman EH, Tat-dependent bundling pilus of a halophilic archaeon assembles by a strand donation mechanism and facilitates biofilm formation., Proc Natl Acad Sci U S A 2025 Aug; 122(31): e2514980122.
• 2025
  Dai Y, Gomez-Raya-Vilanova MV, Teulière J, Toucourou M, Corel E, Haraoui LP, Lopez P, Lapointe FJ, Franceschi C, Baudisch A, Bhattacharya D, Cvirkaite-Krupovic V, Krupovic M, Bapteste E, Gene expression and co-expression heterogeneity patterns and biodemography analyses during the cell cycle encourage aging studies in archaea., Geroscience 2025 Jul; (): .
• 2025
  Miguel Gomez-Raya-Vilanova, Jérôme Teulière, Sofia Medvedeva, Yuping Dai, Eduardo Corel, Philippe Lopez, François-Joseph Lapointe, Debashish Bhattacharya, Louis-Patrick Haraoui, Elodie Turc, Marc Monot, Virginija Cvirkaite-Krupovic, Eric Bapteste, Mart Krupovic, Transcriptional landscape of the cell cycle in a model thermoacidophilic archaeon reveals similarities to eukaryotes, Nature Communications, 2025, 16 (1), pp.5697. ⟨10.1038/s41467-025-60613-8⟩.
• 2025
  Xiang J, Sonani RR, Wang Y, Chen Z, Xiong W, Chen J, Li S, An K, Wang Y, Liu Y, Kreutzberger MAB, Krupovic M, Egelman EH, Du S, Chen X, A type IV pili-mediated mutualism between two co-resident temperate archaeal viruses and their host, Cell Rep 2025 Jun; 44(7): 115873.
• 2025
  Diana P Baquero, Guillaume Borrel, Anastasia Gazi, Camille Martin-Gallausiaux, Virginija Cvirkaite-Krupovic, Pierre-Henri Commere, Nika Pende, Stéphane Tachon, Anna Sartori-Rupp, Thibaut Douché, Mariette Matondo, Simonetta Gribaldo, Mart Krupovic, Biogenesis of DNA-carrying extracellular vesicles by the dominant human gut methanogenic archaeon, Nature Communications, 2025, 16 (1), pp.5093. ⟨10.1038/s41467-025-60272-9⟩.
• 2025
  Krupovic M, Wang F, Cvirkaite-Krupovic V, Kuhn JH, Dolja VV, Prangishvili D, Egelman EH, Koonin EV, ICTV Virus Taxonomy Profile: Adnaviria 2025, J Gen Virol 2025 Mar; 106(3):002091.
• 2025
  Reva ON, La Cono V, Marturano L, Crisafi F, Smedile F, Mudaliyar M, Ghosal D, Selivanova EA, Ignatenko ME, Ferrer M, Fernandez-Lopez L, Krupovic M, Yakimov MM, DPANN symbiont of Haloferax volcanii accelerates xylan degradation by the non-host haloarchaeon Halorhabdus sp, iScience 2025 Feb; 28(2): 111749.
• 2025
  Liu J, Lelek M, Yang Y, Salles A, Zimmer C, Shen Y, Krupovic M, A relay race of ESCRT-III paralogs drives cell division in a hyperthermophilic archaeon., mBio 2025 Feb; 16(2): e0099124.
• 2025
  Mutz P, Camargo AP, Sahakyan H, Neri U, Butkovic A, Wolf YI, Krupovic M, Dolja VV, Koonin EV, The protein structurome of Orthornavirae and its dark matter, mBio 2025 Feb; 16(2): e0320024.
• 2025
  Sanchez-Martinez R, Arani A, Krupovic M, Weitz JS, Santos F, Antón J, Episomal virus maintenance enables bacterial population recovery from infection and promotes virus-bacterial coexistence, ISME J 2025 Jan; 19(1): wraf066.
• 2024
  Johnstone BA, Hardy JM, Ha J, Butkovic A, Koszalka P, Accurso C, Venugopal H, de Marco A, Krupovic M, Coulibaly F, The nucleocapsid architecture and structural atlas of the prototype baculovirus define the hallmarks of a new viral realm, Sci Adv 2024 Dec; 10(51): eado2631.
• 2024
  Fields JL, Zhang H, Bellis NF, Petersen HA, Halder SK, Rich-New ST, Krupovic M, Wu H, Wang F, Structural diversity and clustering of bacterial flagellar outer domains, Nat Commun 2024 Nov; 15(1): 9500.
• 2024
  Koonin EV, Fischer MG, Kuhn JH, Krupovic M, The polinton-like supergroup of viruses: evolution, molecular biology, and taxonomy, Microbiol Mol Biol Rev 2024 Sep; 88(3): e0008623.
• 2024
  Diana P Baquero, Sofia Medvedeva, Camille Martin-Gallausiaux, Nika Pende, Anna Sartori-Rupp, Stéphane Tachon, Thierry Pedron, Laurent Debarbieux, Guillaume Borrel, Simonetta Gribaldo, Mart Krupovic, Stable coexistence between an archaeal virus and the dominant methanogen of the human gut, Nature Communications, 2024, 15 (1), pp.7702. ⟨10.1038/s41467-024-51946-x⟩.
• 2024
  Yutin N, Mutz P, Krupovic M, Koonin EV, Mriyaviruses: small relatives of giant viruses, mBio 2024 Jul; 15(7): e0103524.
• 2024
  Junfeng Liu, Gunnar N Eastep, Virginija Cvirkaite-Krupovic, Shane T Rich-New, Mark a B Kreutzberger, Edward H Egelman, Mart Krupovic, Fengbin Wang, Two distinct archaeal type IV pili structures formed by proteins with identical sequence, Nature Communications, 2024, 15 (1), pp.5049. ⟨10.1038/s41467-024-45062-z⟩.
• 2024
  Krupovic M, Kuhn JH, Fischer MG, Koonin EV, Natural history of eukaryotic DNA viruses with double jelly-roll major capsid proteins, Proc Natl Acad Sci U S A 2024 Jun; 121(23): e2405771121.
• 2024
  Reva ON, La Cono V, Crisafi F, Smedile F, Mudaliyar M, Ghosal D, Giuliano L, Krupovic M, Yakimov MM, Interplay of intracellular and trans-cellular DNA methylation in natural archaeal consortia, Environ Microbiol Rep 2024 Apr; 16(2): e13258.
• 2024
  Makarova KS, Tobiasson V, Wolf YI, Lu Z, Liu Y, Zhang S, Krupovic M, Li M, Koonin EV, Diversity, origin, and evolution of the ESCRT systems, mBio 2024 Mar; 15(3): e0033524.
• 2024
  Zhao S, Makarova KS, Zheng W, Zhan L, Wan Q, Liu Y, Gong H, Krupovic M, Lutkenhaus J, Chen X, Koonin EV, Du S, Widespread photosynthesis reaction centre barrel proteins are necessary for haloarchaeal cell division, Nat Microbiol 2024 Mar; 9(3): 712-726.
• 2024
  Blombach F, Sýkora M, Case J, Feng X, Baquero DP, Fouqueau T, Phung DK, Barker D, Krupovic M, She Q, Werner F, Cbp1 and Cren7 form chromatin-like structures that ensure efficient transcription of long CRISPR arrays, Nat Commun 2024 Feb; 15(1): 1620.
• 2024
  Urayama SI, Fukudome A, Hirai M, Okumura T, Nishimura Y, Takaki Y, Kurosawa N, Koonin EV, Krupovic M, Nunoura T, Double-stranded RNA sequencing reveals distinct riboviruses associated with thermoacidophilic bacteria from hot springs in Japan, Nat Microbiol 2024 Feb; 9(2): 514-523.
• 2024
  Baquero DP, Bignon EA, Krupovic M, Pleomorphic viruses establish stable relationship with marine hyperthermophilic archaea, ISME J 2024 Jan; 18(1): wrae008.
• 2024
  Koonin EV, Kuhn JH, Dolja VV, Krupovic M, Megataxonomy and global ecology of the virosphere, ISME J 2024 Jan; 18(1): wrad042.
• 2024
  Zhou Y, Wang Y, Prangishvili D, Krupovic M, Exploring the Archaeal Virosphere by Metagenomics, Methods Mol Biol 2024; 2732:1-22.
• 2024
  Duan C, Liu Y, Liu Y, Liu L, Cai M, Zhang R, Zeng Q, Koonin EV, Krupovic M, Li M, Diversity of Bathyarchaeia viruses in metagenomes and virus-encoded CRISPR system components, ISME Commun 2024 Jan; 4(1): ycad011.
• 2023
  Machado TB, et al., Gene duplication as a major force driving the genome expansion in some giant viruses, J Virol 2023 Dec; 97(12): e0130923.
• 2023
  Jeong DE, Sundrani S, Hall RN, Krupovic M, Koonin EV, Fire AZ, DNA polymerase diversity reveals multiple incursions of polintons during nematode evolution, Mol Biol Evol 2023 Dec; 40(12): msad274.
• 2023
  Medvedeva S, Borrel G, Krupovic M, Gribaldo S, A compendium of viruses from methanogenic archaea reveals their diversity and adaptations to the gut environment., Nat Microbiol 2023 Nov; 8(11): 2170-2182.
• 2023
  Zhou Y, Wang Y, Krupovic M, ICTV Virus Taxonomy Profile: Aoguangviridae 2023, J Gen Virol 2023 Nov; 104(11):001922.
• 2023
  Cantero M, Cvirkaite-Krupovic V, Krupovic M, de Pablo PJ, Mechanical tomography of an archaeal lemon-shaped virus reveals membrane-like fluidity of the capsid and liquid nucleoprotein cargo, Proc Natl Acad Sci U S A 2023 Oct; 120(42): e2307717120.
• 2023
  Esser SP, Rahlff J, Zhao W, Predl M, Plewka J, Sures K, Wimmer F, Lee J, Adam PS, McGonigle J, Turzynski V, Banas I, Schwank K, Krupovic M, Bornemann TLV, Figueroa-Gonzalez PA, Jarett J, Rattei T, Amano Y, Blaby IK, Cheng JF, Brazelton WJ, Beisel CL, Woyke T, Zhang Y, Probst AJ, A predicted CRISPR-mediated symbiosis between uncultivated archaea, Nat Microbiol 2023 Sep; 8(9): 1619-1633.
• 2023
  La Cono V, Messina E, Reva O, Smedile F, La Spada G, Crisafi F, Marturano L, Miguez N, Ferrer M, Selivanova EA, Golyshina OV, Golyshin PN, Rohde M, Krupovic M, Merkel AY, Sorokin DY, Hallsworth JE, Yakimov MM, Nanohaloarchaea as beneficiaries of xylan degradation by haloarchaea, Microb Biotechnol 2023 Sep; 16(9): 1803-1822.
• 2023
  Koonin EV, Krupovic M, New faces of prokaryotic mobile genetic elements: guide RNAs link transposition with host defense mechanisms, Curr Opin Syst Biol 2023 Dec; 36:100473 .
• 2023
  Vik D, Bolduc B, Roux S, Sun CL, Pratama AA, Krupovic M, Sullivan MB, MArVD2: a machine learning enhanced tool to discriminate between archaeal and bacterial viruses in viral datasets, ISME Commun 2023 Aug; 3(1): 87.
• 2023
  Kreutzberger MAB#, Cvirkaite-Krupovic V#, Liu Y, Baquero DP, Liu J, Sonani RR, Calladine CR, Wang F*, Krupovic M*, Egelman EH*, The evolution of archaeal flagellar filaments, Proc Natl Acad Sci U S A 2023 Jul; 120(28): e2304256120.
• 2023
  Adriaenssens EM, Roux S, Brister JR, Karsch-Mizrachi I, Kuhn JH, Varsani A, Yigang T, Reyes A, Lood C, Lefkowitz EJ, Sullivan MB, Edwards RA, Simmonds P, Rubino L, Sabanadzovic S, Krupovic M, Dutilh BE, Guidelines for public database submission of uncultivated virus genome sequences for taxonomic classification, Nat Biotechnol 2023 Jul; 41(7): 898-902.
• 2023
  Baquero DP#, Cvirkaite-Krupovic V#, Hu SS, Fields JL, Liu X, Rensing C, Egelman EH*, Krupovic M*, Wang F*, Extracellular cytochrome nanowires appear to be ubiquitous in prokaryotes, Cell 2023 Jun; 186(13): 2853-2864.e8.
• 2023
  Butkovic A, Dolja VV, Koonin EV, Krupovic M, Plant virus movement proteins originated from jelly-roll capsid proteins., PLoS Biol 2023 Jun; 21(6): e3002157.
• 2023
  Krupovic M, Dolja VV, Koonin EV, The virome of the last eukaryotic common ancestor and eukaryogenesis, Nat Microbiol 2023 Jun; 8(6): 1008-1017.
• 2023
  López-García P, Gutiérrez-Preciado A, Krupovic M, Ciobanu M, Deschamps P, Jardillier L, López-Pérez M, Rodríguez-Valera F, Moreira D, Metagenome-derived virus-microbe ratios across ecosystems, ISME J 2023 Oct; 17(10):1552-1563.
• 2023
  Chen Z, Liu Y, Wang Y, Du X, Deng X, Xiang J, Wang Y, Wang J, Krupovic M, Du S, Chen X, A virus-borne DNA damage signaling pathway controls the lysogeny-induction switch in a group of temperate pleolipoviruses, Nucleic Acids Res 2023 Apr; 51(7): 3270-3287.
• 2023
  Madru C, Martínez-Carranza M, Laurent S, Alberti AC, Chevreuil M, Raynal B, Haouz A, Le Meur RA, Delarue M, Henneke G, Flament D, Krupovic M, Legrand P, Sauguet L, DNA-binding mechanism and evolution of replication protein A., Nat Commun 2023 Apr; 14(1): 2326.
• 2023
  Gaïa M, Meng L, Pelletier E, Forterre P, Vanni C, Fernandez-Guerra A, Jaillon O, Wincker P, Ogata H, Krupovic M, Delmont TO, Mirusviruses link herpesviruses to giant viruses, Nature 2023 Apr; 616(7958): 783-789.
• 2023
  Yang Y, Liu J, Fu X, Zhou F, Zhang S, Zhang X, Huang Q, Krupovic M, She Q, Ni J, Shen Y, A novel RHH family transcription factor aCcr1 and its viral homologs dictate cell cycle progression in archaea, Nucleic Acids Res 2023 Feb; 51(4): 1707-1723.
• 2023
  Beltran LC, Cvirkaite-Krupovic V, Miller J, Wang F, Kreutzberger MAB, Patkowski JB, Costa TRD, Schouten S, Levental I, Conticello VP, Egelman EH, Krupovic M, Archaeal DNA-import apparatus is homologous to bacterial conjugation machinery, Nat Commun 2023 Feb; 14(1): 666.
• 2023
  Lee BD, Neri U, Roux S, Wolf YI, Camargo AP, Krupovic M, , Simmonds P, Kyrpides N, Gophna U, Dolja VV, Koonin EV, Mining metatranscriptomes reveals a vast world of viroid-like circular RNAs, Cell 2023 Feb; 186(3): 646-661.e4.
• 2023
  Zhou Y, Zhou L, Yan S, Chen L, Krupovic M*, Wang Y*, Diverse viruses of marine archaea discovered using metagenomics, Environ Microbiol 2023 Feb; 25(2): 367-382.
• 2023
  Laso-Pérez R*, Wu F*, Crémière A, Speth DR, Magyar JS, Zhao K, Krupovic M*, Orphan VJ*, Evolutionary diversification of methanotrophic ANME-1 archaea and their expansive virome, Nat Microbiol 2023 Feb; 8(2): 231-245.
• 2023
  Simmonds P, et al, Four principles to establish a universal virus taxonomy, PLoS Biol 2023 Feb; 21(2): e3001922.
• 2023
  Koonin EV*, Krupovic M*, Dolja VV, The global virome: How much diversity and how many independent origins?, Environ Microbiol 2023 Jan; 25(1): 40-44.
• 2023
  Butkovic A, Kraberger S, Smeele Z, Martin DP, Schmidlin K, Fontenele RS, Shero MR, Beltran RS, Kirkham AL, Aleamotu'a M, Burns JM, Koonin EV, Varsani A, Krupovic M, Evolution of anelloviruses from a circovirus-like ancestor through gradual augmentation of the jelly-roll capsid protein, Virus Evol 2023; 9(1): vead035.
• 2023
  Reva O, Messina E, La Cono V, Crisafi F, Smedile F, La Spada G, Marturano L, Selivanova EA, Rohde M, Krupovic M, Yakimov MM, Functional diversity of nanohaloarchaea within xylan-degrading consortia, Front Microbiol 2023; 14: 1182464.
• 2022
  Postler TS, et al, Guidance for creating individual and batch latinized binomial virus species names, J Gen Virol 2022 Dec; 103(12):001800.
• 2022
  Koonin EV, Krupovic M, A life LINE for large viruses, eLife 2022 Oct; 11:e83488.
• 2022
  Neri U, Wolf YI, Roux S, Camargo AP, Lee B, Kazlauskas D, Chen IM, Ivanova N, Zeigler Allen L, Paez-Espino D, Bryant DA, Bhaya D, RNA Virus Discovery Consortium, Krupovic M, Dolja VV, Kyrpides NC, Koonin EV, Gophna U, Expansion of the global RNA virome reveals diverse clades of bacteriophages, Cell 2022 Oct; 185(21): 4023-4037.e18.
• 2022
  Julien Guglielmini, Morgan Gaia, Violette Da Cunha, Alexis Criscuolo, Mart Krupovic, Patrick Forterre, Viral origin of eukaryotic type IIA DNA topoisomerases, Virus Evolution 2022;8(2):veac097.
• 2022
  Ngo VQH, Enault F, Midoux C, Mariadassou M, Chapleur O, Mazéas L, Loux V, Bouchez T, Krupovic M, Bize A, Diversity of novel archaeal viruses infecting methanogens discovered through coupling of stable isotope probing and metagenomics, Environ Microbiol 2022 Oct; 24(10): 4853-4868.
• 2022
  Kreutzberger MAB, Sonani RR, Liu J, Chatterjee S, Wang F, Sebastian AL, Biswas P, Ewing C, Zheng W, Poly F, Frankel G, Luisi BF, Calladine CR, Krupovic M, Scharf BE, Egelman EH, Convergent evolution in the supercoiling of prokaryotic flagellar filaments, Cell 2022 Sep; 185(19): 3487-3500.e14.
• 2022
  Yutin N, Rayko M, Antipov D, Mutz P, Wolf YI, Krupovic M, Koonin EV, Varidnaviruses in the human gut: A major expansion of the order Vinavirales, Viruses 2022 Aug; 14(9): 1842.
• 2022
  Koonin EV, Dolja VV, Krupovic M, The logic of virus evolution, Cell Host Microbe 2022; 30(7): 917-929.
• 2022
  Medvedeva S, Sun J, Yutin N, Koonin EV, Nunoura T, Rinke C, Krupovic M, Three families of Asgard archaeal viruses identified in metagenome-assembled genomes, Nat Microbiol 2022 Jul; 7(7): 962-973.
• 2022
  Tamarit D, Caceres EF, Krupovic M, Nijland R, Eme L, Robinson NP, Ettema TJG, A closed Candidatus Odinarchaeum chromosome exposes Asgard archaeal viruses, Nat Microbiol 2022 Jul; 7(7): 948-952.
• 2022
  Wang F, Cvirkaite-Krupovic V, Krupovic M*, Egelman EH*, Archaeal bundling pili of Pyrobaculum calidifontis reveal similarities between archaeal and bacterial biofilms, Proc Natl Acad Sci U S A 2022 Jun; 119(26): e2207037119.
• 2022
  Chang L, Wang F, Connolly K, Meng H, Su Z, Cvirkaite-Krupovic V, Krupovic M, Egelman EH, Si D, DeepTracer-ID: de novo protein identification from cryo-EM maps, Biophys J 2022 Aug; 121(15): 2840-2848.
• 2022
  Wang F#, Cvirkaite-Krupovic V#, Vos M, Beltran LC, Kreutzberger MAB, Winter JM, Su Z, Liu J, Schouten S, Krupovic M*, Egelman EH*, Spindle-shaped archaeal viruses evolved from rod-shaped ancestors to package a larger genome, Cell 2022 Apr; 185(8): 1297-1307.e11.
• 2022
  Guyot V, Rajeswaran R, Chu HC, Karthikeyan C, Laboureau N, Galzi S, Mukwa LFT, Krupovic M, Kumar PL, Iskra-Caruana ML, Pooggin MM, A newly emerging alphasatellite affects banana bunchy top virus replication, transcription, siRNA production and transmission by aphids, PLoS Pathog 2022 Apr; 18(4): e1010448.
• 2022
  Gomez-Raya-Vilanova MV, Leskinen K, Bhattacharjee A, Virta P, Rosenqvist P, Smith JLR, Bayfield OW, Homberger C, Kerrinnes T, Vogel J, Pajunen MI, Skurnik M, , The DNA polymerase of bacteriophage YerA41 replicates its T-modified DNA in a primer-independent manner., Nucleic Acids Res 2022 Mar; (): .
• 2022
  Krupovic M, Makarova KS, Koonin EV, Cellular homologs of the double jelly-roll major capsid proteins clarify the origins of an ancient virus kingdom, Proc Natl Acad Sci U S A 2022 Feb; 119(5):e2120620119.
• 2022
  Liu Y, Krupovic M, Genome chromatinization in giant double-stranded DNA viruses, Trends Biochem Sci 2022 Jan; 47(1): 3-5.
• 2021
  Dutilh BE, Varsani A, Tong Y, Simmonds P, Sabanadzovic S, Rubino L, Roux S, Muñoz AR, Lood C, Lefkowitz EJ, Kuhn JH, Krupovic M, Edwards RA, Brister JR, Adriaenssens EM, Sullivan MB, Perspective on taxonomic classification of uncultivated viruses, Curr Opin Virol 2021 12; 51: 207-215.
• 2021
  Liu Y, Demina TA, Roux S, Aiewsakun P, Kazlauskas D, Simmonds P, Prangishvili D, Oksanen HM, Krupovic M, Diversity, taxonomy, and evolution of archaeal viruses of the class Caudoviricetes, PLoS Biol 2021 Nov; 19(11): e3001442.
• 2021
  Liu J, Cvirkaite-Krupovic V, Commere PH, Yang Y, Zhou F, Forterre P, Shen Y, Krupovic M, Archaeal extracellular vesicles are produced in an ESCRT-dependent manner and promote gene transfer and nutrient cycling in extreme environments, ISME J 2021 10; 15(10): 2892-2905.
• 2021
  Koonin EV, Dolja VV, Krupovic M, Kuhn JH, Viruses defined by the position of the virosphere within the replicator space, Microbiol Mol Biol Rev 2021 Sep; 85(4): e0019320.
• 2021
  Krupovic M, Turner D, Morozova V, Dyall-Smith M, Oksanen HM, Edwards R, Dutilh BE, Lehman SM, Reyes A, Baquero DP, Sullivan MB, Uchiyama J, Nakavuma J, Barylski J, Young MJ, Du S, Alfenas-Zerbini P, Kushkina A, Kropinski AM, Kurtböke I, Brister JR, Lood C, Sarkar BL, Yigang T, Liu Y, Huang L, Wittmann J, Chanishvili N, van Zyl LJ, Rumnieks J, Mochizuki T, Jalasvuori M, Aziz RK, Łobocka M, Stedman KM, Shkoporov AN, Gillis A, Peng X, Enault F, Knezevic P, Lavigne R, Rhee SK, Cvirkaite-Krupovic V, Moraru C, Moreno Switt AI, Poranen MM, Millard A, Prangishvili D, Adriaenssens EM, , Bacterial Viruses Subcommittee and Archaeal Viruses Subcommittee of the ICTV: update of taxonomy changes in 2021, Arch Virol 2021 Aug; (): .
• 2021
  Koonin EV, Krupovic M, Agol VI, The Baltimore classification of viruses 50 years later: How does it stand in the light of virus evolution?, Microbiol Mol Biol Rev 2021 Aug; 85(3):e00053-21.
• 2021
  Baquero DP, Gazi AD, Sachse M, Liu J, Schmitt C, Moya-Nilges M, Schouten S, Prangishvili D, Krupovic M, A filamentous archaeal virus is enveloped inside the cell and released through pyramidal portals, Proc Natl Acad Sci U S A 2021 Aug; 118(32):e2105540118.
• 2021
  Thiroux S, Dupont S, Nesbø CL, Bienvenu N, Krupovic M, L'Haridon S, Marie D, Forterre P, Godfroy A, Geslin C, The first head-tailed virus, MFTV1, infecting hyperthermophilic methanogenic deep-sea archaea, Environ Microbiol 2021 Jul; 23(7): 3614-3626.
• 2021
  Kim JG, Gazi KS, Krupovic M, Rhee SK, ICTV Report Consortium, ICTV Virus Taxonomy Profile: Thaspiviridae 2021, J Gen Virol 2021 Jul; 102(7):00163.
• 2021
  Medvedeva S, Brandt D, Cvirkaite-Krupovic V, Liu Y, Severinov K, Ishino S, Ishino Y, Prangishvili D, Kalinowski J, Krupovic M, New insights into the diversity and evolution of the archaeal mobilome from three complete genomes of Saccharolobus shibatae, Environ Microbiol 2021 Jun; 23(8):4612-4630.
• 2021
  Aevarsson A, Kaczorowska AK, Adalsteinsson BT, Ahlqvist J, Al-Karadaghi S, Altenbuchner J, Arsin H, Átlasson ÚÁ, Brandt D, Cichowicz-Cieślak M, Cornish KAS, Courtin J, Dabrowski S, Dahle H, Djeffane S, Dorawa S, Dusaucy J, Enault F, Fedøy AE, Freitag-Pohl S, Fridjonsson OH, Galiez C, Glomsaker E, Guérin M, Gundesø SE, Gudmundsdóttir EE, Gudmundsson H, Håkansson M, Henke C, Helleux A, Henriksen JR, Hjörleifdóttir S, Hreggvidsson GO, Jasilionis A, Jochheim A, Jónsdóttir I, Jónsdóttir LB, Jurczak-Kurek A, Kaczorowski T, Kalinowski J, Kozlowski LP, Krupovic M, Kwiatkowska-Semrau K, Lanes O, Lange J, Lebrat J, Linares-Pastén J, Liu Y, Lorentsen SA, Lutterman T, Mas T, Merré W, Mirdita M, Morzywołek A, Ndela EO, Karlsson EN, Olgudóttir E, Pedersen C, Perler F, Pétursdóttir SK, Plotka M, Pohl E, Prangishvili D, Ray JL, Reynisson B, Róbertsdóttir T, Sandaa RA, Sczyrba A, Skírnisdóttir S, Söding J, Solstad T, Steen IH, Stefánsson SK, Steinegger M, Overå KS, Striberny B, Svensson A, Szadkowska M, Tarrant EJ, Terzian P, Tourigny M, Bergh TVD, Vanhalst J, Vincent J, Vroling B, Walse B, Wang L, Watzlawick H, Welin M, Werbowy O, Wons E, Zhang R, Going to extremes – a metagenomic journey into the dark matter of life, FEMS Microbiol Lett 2021 Jun; 368(12):fnab067 .
• 2021
  Liu J, Soler N, Gorlas A, Cvirkaite-Krupovic V, Krupovic M, Forterre P, Extracellular membrane vesicles and nanotubes in Archaea, microLife. 2021 Jun; 2:uqab007.
• 2021
  Prangishvili D, Liu Y, Krupovic M, ICTV Report Consortium, ICTV Virus Taxonomy Profile: Portogloboviridae, J Gen Virol 2021 Jun; 102(6):001605.
• 2021
  Krupovic M, Kuhn JH, Wang F, Baquero DP, Dolja VV, Egelman EH, Prangishvili D, Koonin EV, Adnaviria: a new realm for archaeal filamentous viruses with linear A-form double-stranded DNA genomes, J Virol 2021 May; 95(15):e00673-21.
• 2021
  Liu J, Cvirkaite-Krupovic V, Baquero DP, Yang Y, Zhang Q, Shen Y, Krupovic M, Virus-induced cell gigantism and asymmetric cell division in archaea, Proc Natl Acad Sci U S A 2021 Apr; 118(15):e2022578118.
• 2021
  Marabini R, Condezo GN, Krupovic M, Menéndez-Conejero R, Gómez-Blanco J, San Martín C, Near-atomic structure of an atadenovirus reveals a conserved capsid-binding motif and intergenera variations in cementing proteins, Sci Adv 2021 Mar; 7(14):eabe6008.
• 2021
  Koonin EV, Dolja VV, Krupovic M, The healthy human virome: from virus-host symbiosis to disease, Curr Opin Virol 2021 Feb; 47: 86-94.
• 2020
  Krupovic M, Dolja VV, Koonin EV, The LUCA and its complex virome, Nat Rev Microbiol 2020 Nov; 18(11): 661-670.
• 2020
  Kazlauskas D, Krupovic M, Guglielmini J, Forterre P, Venclovas Č, Diversity and evolution of B-family DNA polymerases, Nucleic Acids Res 2020 Oct; 48(18): 10142-10156.
• 2020
  Wolf YI, Silas S, Wang Y, Wu S, Bocek M, Kazlauskas D, Krupovic M, Fire A, Dolja VV, Koonin EV, Doubling of the known set of RNA viruses by metagenomic analysis of an aquatic virome, Nat Microbiol 2020 Oct; 5(10):1262-1270.
• 2020
  Baquero DP, Liu Y, Wang F, Egelman EH, Prangishvili D, Krupovic M, Structure and assembly of archaeal viruses, Adv Virus Res. 2020 Oct; 108:127-164.
• 2020
  Wang F#, Baquero DP#, Beltran LC, Su Z, Osinski T, Zheng W, Prangishvili D, Krupovic M*, Egelman EH*, Structures of filamentous viruses infecting hyperthermophilic archaea explain DNA stabilization in extreme environments, Proc. Natl. Acad. Sci. U.S.A. 2020 Aug; 117(33):19643-19652.
• 2020
  Dolja VV, Krupovic M, Koonin EV, Deep Roots and Splendid Boughs of the Global Plant Virome, Annu Rev Phytopathol 2020 Aug; 58:23-53.
• 2020
  Chen B, Chen Z, Wang Y, Gong H, Sima L, Wang J, Ouyang S, Gan W, Krupovic M, Chen X, Du S, ORF4 of the temperate archaeal virus SNJ1 governs the lysis-lysogeny switch and superinfection immunity, J. Virol. 2020 Jul; 94(16):e00841-20.
• 2020
  Wang F#, Baquero DP#, Su Z, Beltran LC, Prangishvili D, Krupovic M*, Egelman EH*, The structures of two archaeal type IV pili illuminate evolutionary relationships, Nat Commun 2020 Jul; 11(1): 3424.
• 2020
  Baquero DP, Contursi P, Piochi M, Bartolucci S, Liu Y, Cvirkaite-Krupovic V, Prangishvili D, Krupovic M, New virus isolates from Italian hydrothermal environments underscore the biogeographic pattern in archaeal virus communities, ISME J 2020 Jul; 14(7): 1821-1833.
• 2020
  Krupovic M, Yutin N, Koonin E, Evolution of a major virion protein of the giant pandoraviruses from an inactivated bacterial glycoside hydrolase, Virus Evol 2020 Jul; 6(2): veaa059.
• 2020
  Koonin EV, Krupovic M, Ishino S, Ishino Y, The replication machinery of LUCA: common origin of DNA replication and transcription, BMC Biol. 2020 Jun; 18(1): 61.
• 2020
  Leskinen K, Pajunen MI, Vilanova MVG, Kiljunen S, Nelson A, Smith D, Skurnik M, , YerA41, a Yersinia ruckeri Bacteriophage: Determination of a Non-Sequencable DNA Bacteriophage Genome via RNA-Sequencing., Viruses 2020 06; 12(6): .
• 2020
  Gorbalenya AE, Krupovic M, Mushegian A, Kropinski AM, Siddell SG, Varsani A, Adams MJ, Davison AJ, Dutilh BE, Harrach B, Harrison RL, Junglen S, King AMQ, Knowles NJ, Lefkowitz EJ, Nibert ML, Rubino L, Sabanadzovic S, Sanfaçon H, Simmonds P, Walker PJ, Zerbini FM, Kuhn JH, The new scope of virus taxonomy: partitioning the virosphere into 15 hierarchical ranks, Nat Microbiol 2020 May; 5(5): 668-674.
• 2020
  Krupovic M, Varsani A, Kazlauskas D, Breitbart M, Delwart E, Rosario K, Yutin N, Wolf YI, Harrach B, Zerbini FM, Dolja VV, Kuhn JH, Koonin EV, Cressdnaviricota: a virus phylum unifying seven families of Rep-encoding viruses with single-stranded, circular DNA genomes, J. Virol. 2020 Apr; 94(12):e00582-20.
• 2020
  Koonin EV, Dolja VV, Krupovic M, Varsani A, Wolf YI, Yutin N, Zerbini FM, Kuhn JH, Global Organization and Proposed Megataxonomy of the Virus World, Microbiol. Mol. Biol. Rev. 2020 May;84(2):e00061-19.
• 2020
  Koonin EV, Makarova KS, Wolf YI, Krupovic M, Evolutionary entanglement of mobile genetic elements and host defence systems: guns for hire, Nat. Rev. Genet. 2020 Feb;21(2):119-131.
• 2020
  Athukoralage JS, McMahon SA, Zhang C, Grüschow S, Graham S, Krupovic M, Whitaker RJ, Gloster TM, White MF, An anti-CRISPR viral ring nuclease subverts type III CRISPR immunity, Nature 2020 Jan; 577(7791):572-575.
• 2020
  Koonin EV, Krupovic M, Phages build anti-defence barriers, Nat Microbiol 2020 Jan;5(1):8-9.
• 2020
  Wang F, Baquero DP, Su Z, Osinski T, Prangishvili D, Egelman EH, Krupovic M, , Structure of a filamentous virus uncovers familial ties within the archaeal virosphere, Virus Evol 2020 Jan; 6(1): veaa023.
• 2019
  Medvedeva S, Liu Y, Koonin EV, Severinov K, Prangishvili D, Krupovic M, Virus-borne mini-CRISPR arrays are involved in interviral conflicts, Nat Commun 2019 Nov;10(1):5204.
• 2019
  Wang F, Liu Y, Su Z, Osinski T, de Oliveira GAP, Conway JF, Schouten S, Krupovic M, Prangishvili D, Egelman EH, A packing for A-form DNA in an icosahedral virus, Proc. Natl. Acad. Sci. U.S.A. 2019 Nov;116(45):22591-22597.
• 2019
  Guglielmini J, Woo AC, Krupovic M, Forterre P, Gaia M, Diversification of giant and large eukaryotic dsDNA viruses predated the origin of modern eukaryotes, Proc. Natl. Acad. Sci. U.S.A. 2019 Sep;116(39):19585-19592.
• 2019
  Kazlauskas D, Varsani A, Koonin EV, Krupovic M, Multiple origins of prokaryotic and eukaryotic single-stranded DNA viruses from bacterial and archaeal plasmids, Nat Commun 2019 Jul;10(1):3425.
• 2019
  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, Cryptic inoviruses revealed as pervasive in bacteria and archaea across Earth’s biomes, Nat Microbiol 2019 Nov;4(11):1895-1906.
• 2019
  Kim JG, Kim SJ, Cvirkaite-Krupovic V, Yu WJ, Gwak JH, López-Pérez M, Rodriguez-Valera F, Krupovic M, Cho JC, Rhee SK, Spindle-shaped viruses infect marine ammonia-oxidizing thaumarchaea, Proc. Natl. Acad. Sci. U.S.A. 2019 Jul 30;116(31):15645-15650.
• 2019
  Koonin EV, Krupovic M, Origin of programmed cell death from antiviral defense?, Proc. Natl. Acad. Sci. U.S.A. 2019 Aug 13;116(33):16167-16169.
• 2019
  Krupovic M, Dolja VV, Koonin EV, Origin of viruses: primordial replicators recruiting capsids from hosts, Nat. Rev. Microbiol. 2019 May;17(7):449-458.
• 2019
  Béguin P, Chekli Y, Sezonov G, Forterre P, Krupovic M, Sequence motifs recognized by the casposon integrase of Aciduliprofundum boonei, Nucleic Acids Res. 2019 Jul 9;47(12):6386-6395.
• 2019
  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*, An extensively glycosylated archaeal pilus survives extreme conditions, Nat Microbiol 2019 Aug;4(8):1401-1410.
• 2019
  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, Taxonomic assignment of uncultivated prokaryotic virus genomes is enabled by gene-sharing networks, Nat. Biotechnol. 2019 Jun;37(6):632-639.
• 2019
  Mizuno CM, Prajapati B, Lucas-Staat S, Sime-Ngando T, Forterre P, Bamford DH, Prangishvili D, Krupovic M*, Oksanen HM*, Novel haloarchaeal viruses from Lake Retba infecting Haloferax and Halorubrum species, Environ. Microbiol. 2019 Jun;21(6):2129-2147.
• 2019
  Krupovic M, Makarova KS, Wolf YI, Medvedeva S, Prangishvili D, Forterre P, Koonin EV, Integrated mobile genetic elements in Thaumarchaeota, Environ. Microbiol. 2019 Jun;21(6):2056-2078.
• 2019
  Mizuno CM, Guyomar C, Roux S, Lavigne R, Rodriguez-Valera F, Sullivan MB, Gillet R, Forterre P, Krupovic M, Numerous cultivated and uncultivated viruses encode ribosomal proteins, Nat Commun 2019 Feb; 10(1):752.
• 2019
  Kuhn JH, Wolf YI, Krupovic M, Zhang YZ, Maes P, Dolja VV, Koonin EV, Classify viruses – the gain is worth the pain, Nature 2019 Feb;566(7744):318-320.
• 2019
  Liu Y, Brandt D, Ishino S, Ishino Y, Koonin EV, Kalinowski J, Krupovic M*, Prangishvili D*, New archaeal viruses discovered by metagenomic analysis of viral communities in enrichment cultures, Environ. Microbiol. 2019 Jun;21(6):2002-2014.
• 2019
  Roux S, Adriaenssens EM, Dutilh BE, Koonin EV, Kropinski AM, Krupovic M, et al., Minimum Information about an Uncultivated Virus Genome (MIUViG), Nat. Biotechnol. 2019 Jan;37:29-37.
• 2018
  Prangishvili D, Rensen E, Mochizuki T, Krupovic M, ICTV Report Consortium , ICTV Virus Taxonomy Profile: Tristromaviridae, J. Gen. Virol. 2019 Feb;100(2):135-136.
• 2018
  Wolf YI, Kazlauskas D, Iranzo J, Lucía-Sanz A, Kuhn JH, Krupovic M, Dolja VV, Koonin EV, Origins and Evolution of the Global RNA Virome, mBio 2018;9(6):e02329-18.
• 2018
  Liu Y, Osinski T, Wang F, Krupovic M, Schouten S, Kasson P, Prangishvili D, Egelman EH, Structural conservation in a membrane-enveloped filamentous virus infecting a hyperthermophilic acidophile, Nat Commun 2018 Aug; 9(1):3360.
• 2018
  Koonin EV, Krupovic M, The depths of virus exaptation, Curr Opin Virol 2018 08;31:1-8.
• 2018
  Prangishvili D, Krupovic M, ICTV Report Consortium , ICTV Virus Taxonomy Profile: Bicaudaviridae, J. Gen. Virol. 2018 07;99(7):864-865.
• 2018
  Kazlauskas D, Varsani A, Krupovic M, Pervasive Chimerism in the Replication-Associated Proteins of Uncultured Single-Stranded DNA Viruses, Viruses 2018 Apr;10(4):E187.
• 2018
  Yutin N, Bäckström D, Ettema TJG, Krupovic M, Koonin EV, Vast diversity of prokaryotic virus genomes encoding double jelly-roll major capsid proteins uncovered by genomic and metagenomic sequence analysis, Virol. J. 2018 Apr;15(1):67.
• 2018
  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 N, Pappu HR, Pooggin M, Richert-Pöggeler KR, Sabanadzovic S, Sanfaçon H, Schoelz JE, Seal S, Stavolone L, Stoye JP, Teycheney PY, Tristem M, Koonin EV, Kuhn JH, Ortervirales: A new viral order unifying five families of reverse-transcribing viruses, J. Virol. 2018 May 29;92(12): e00515-18.
• 2018
  Kazlauskas D, Sezonov G, Charpin N, Venclovas Č, Forterre P, Krupovic M, Novel families of archaeo-eukaryotic primases associated with mobile genetic elements of Bacteria and Archaea, J. Mol. Biol. 2018 Mar; 430(5):737-750.
• 2018
  Prangishvili D, Krupovic M, ICTV Report Consortium, ICTV Virus Taxonomy Profile: Ampullaviridae, J. Gen. Virol. 2018 Mar;99(3):288-289.
• 2018
  Abby SS, Melcher M, Kerou M, Krupovic M, Stieglmeier M, Rossel C, Pfeifer K, Schleper C, Nitrosocaldus cavascurensis, an ammonia oxidizing, extremely thermophilic archaeon with a highly mobile genome, Front Microbiol 2018;9:28.
• 2018
  Wang J, Liu Y, Liu Y, Du K, Xu S, Wang Y, Krupovic M, Chen X, A novel family of tyrosine integrases encoded by the temperate pleolipovirus SNJ2, Nucleic Acids Res. 2018 Mar;46(5):2521-2536.
• 2018
  Wang Y, Chen B, Cao M, Sima L, Prangishvili D, Chen X, Krupovic M, Rolling-circle replication initiation protein of haloarchaeal sphaerolipovirus SNJ1 is homologous to bacterial transposases of the IS91 family insertion sequences, J. Gen. Virol. 2018 Mar;99:416-421.
• 2018
  Krupovic M, Cvirkaite-Krupovic V, Iranzo J, Prangishvili D, Koonin EV, Viruses of archaea: Structural, functional, environmental and evolutionary genomics, Virus Res. 2018 Jan;244:181-193.
• 2018
  Yutin N, Makarova KS, Gussow AB, Krupovic M, Segall A, Edwards RA, Koonin EV, Discovery of an expansive bacteriophage family that includes the most abundant viruses from the human gut, Nat Microbiol 2018;3(1):38-46.
• 2017
  Krupovic M, Koonin EV, Cellular origin of the viral capsid-like bacterial microcompartments, Biol. Direct 2017 Nov;12(1):25.
• 2017
  Prangishvili D, Bamford DH, Forterre P, Iranzo J, Koonin EV, Krupovic M, The enigmatic archaeal virosphere, Nat. Rev. Microbiol. 2017 Nov;15(12):724-739.
• 2017
  Ptchelkine D, Gillum A, Mochizuki T, Lucas-Staat S, Liu Y, Krupovic M, Phillips SEV, Prangishvili D, Huiskonen JT, Unique architecture of thermophilic archaeal virus APBV1 and its genome packaging, Nat Commun 2017 Nov;8(1):1436.
• 2017
  Redrejo-Rodríguez M, Ordóñez CD, Berjón-Otero M, Moreno-González J, Aparicio-Maldonado C, Forterre P, Salas M, Krupovic M, Primer-Independent DNA Synthesis by a Family B DNA Polymerase from Self-Replicating Mobile Genetic Elements, Cell Rep 2017 Nov;21(6):1574-1587.
• 2017
  Koonin EV, Krupovic M, Polintons, virophages and transpovirons: a tangled web linking viruses, transposons and immunity, Curr Opin Virol 2017 Jun;25:7-15.
• 2017
  Kasson P, DiMaio F, Yu X, Lucas-Staat S, Krupovic M, Schouten S, Prangishvili D, Egelman EH, Model for a novel membrane envelope in a filamentous hyperthermophilic virus, eLife 2017 Jun;6:e26268.
• 2017
  Krupovic M, Béguin P, Koonin EV, Casposons: mobile genetic elements that gave rise to the CRISPR-Cas adaptation machinery, Curr. Opin. Microbiol. 2017 May;38:36-43.
• 2017
  Liu Y, Ishino S, Ishino Y, Pehau-Arnaudet G, Krupovic M*, Prangishvili D*, A novel type of polyhedral viruses infecting hyperthermophilic archaea, J. Virol. 2017 Jun 9;91(13):e00589-17.
• 2017
  Krupovic M, Koonin EV, Homologous capsid proteins testify to the common ancestry of retroviruses, caulimoviruses, pseudoviruses and metaviruses, J. Virol. 2017 May 26;91(12):e00210-17.
• 2017
  Krupovic M, Koonin EV, Multiple origins of viral capsid proteins from cellular ancestors, Proc. Natl. Acad. Sci. U.S.A. 2017 Mar;114(12):E2401-E2410.
• 2017
  Iranzo J, Krupovic M, Koonin EV, A network perspective on the virus world, Commun Integr Biol 2017;10(2):e1296614.
• 2017
  Kazlauskas D, Dayaram A, Kraberger S, Goldstien S, Varsani A, Krupovic M, Evolutionary history of ssDNA bacilladnaviruses features horizontal acquisition of the capsid gene from ssRNA nodaviruses, Virology 2017 Feb;504:114-121.
• 2017
  Varsani A, Krupovic M, Sequence-based taxonomic framework for the classification of uncultured single-stranded DNA viruses of the family Genomoviridae, Virus Evol. 2017 Feb; 3(1):vew037.
• 2017
  Simmonds P, Adams MJ, Benkő M, Breitbart M, Brister JR, Carstens EB, Davison AJ, Delwart E, Gorbalenya AE, Harrach B, Hull R, King AM, Koonin EV, Krupovic M, Kuhn JH, Lefkowitz EJ, Nibert ML, Orton R, Roossinck MJ, Sabanadzovic S, Sullivan MB, Suttle CA, Tesh RB, van der Vlugt RA, Varsani A, Zerbini FM, Consensus statement: Virus taxonomy in the age of metagenomics, Nat. Rev. Microbiol. 2017 Mar;15(3):161-168.
• 2016
  Koonin EV, Krupovic M, Virology: A parasite’s parasite saves host’s neighbours, Nature 2016 Dec;540(7632):204-205.
• 2016
  Danovaro R, Dell'Anno A, Corinaldesi C, Rastelli E, Cavicchioli R, Krupovic M, Noble RT, Nunoura T, Prangishvili D, Virus-mediated archaeal hecatomb in the deep seafloor, Sci Adv 2016 Oct;2(10):e1600492.
• 2016
  Quaiser A, Krupovic M, Dufresne A, Francez AJ, Roux S, Diversity and comparative genomics of chimeric viruses in Sphagnum-dominated peatlands, Virus Evol. 2016; 2(2):vew025..
• 2016
  Iranzo J, Koonin EV, Prangishvili D, Krupovic M, Bipartite network analysis of the archaeal virosphere: evolutionary connections between viruses and capsid-less mobile elements, J. Virol. 2016 Nov;90(24):11043-11055.
• 2016
  Béguin P, Charpin N, Koonin EV, Forterre P, Krupovic M, Casposon integration shows strong target site preference and recapitulates protospacer integration by CRISPR-Cas systems, Nucleic Acids Res. 2016 Dec;44(21):10367-10376.
• 2016
  Quemin ER, Chlanda P, Sachse M, Forterre P, Prangishvili D, Krupovic M, Eukaryotic-Like Virus Budding in Archaea, mBio 2016 Sep;7(5):e01439-16.
• 2016
  Vorontsov EA, Rensen E, Prangishvili D, Krupovic M*, Chamot-Rooke J*, Abundant Lysine Methylation and N-Terminal Acetylation in Sulfolobus islandicus Revealed by Bottom-Up and Top-Down Proteomics, Mol. Cell Proteomics 2016 Nov;15(11):3388-3404.
• 2016
  Prangishvili D, Basta T, Garrett RA, Krupovic M, Viruses of the Archaea, Encyclopedia of Life Sciences (eLS). John Wiley & Sons, Ltd: Chichester. DOI: 10.1002/9780470015902.a0000774.pub3.
• 2016
  Iranzo J, Krupovic M, Koonin EV, The Double-Stranded DNA Virosphere as a Modular Hierarchical Network of Gene Sharing, MBio 2016 Aug;7(4):e00978-16.
• 2016
  Wang Y, Sima L, Lv J, Huang S, Liu Y, Wang J, Krupovic M, Chen X, Identification, Characterization, and Application of the Replicon Region of the Halophilic Temperate Sphaerolipovirus SNJ1, J. Bacteriol. 2016 Jul;198(14):1952-64.
• 2016
  Krupovic M, Yutin N, Koonin EV, Fusion of a superfamily 1 helicase and an inactivated DNA polymerase is a signature of common evolutionary history of Polintons, polinton-like viruses, Tlr1 transposons and transpovirons, Virus Evol. 2016; 2(1):vew019.
• 2016
  Kazlauskas D, Krupovic M, Venclovas Č, The logic of DNA replication in double-stranded DNA viruses: insights from global analysis of viral genomes, Nucleic Acids Res. 2016 Jun;44(10):4551-64.
• 2016
  Rensen EI, Mochizuki T, Quemin E, Schouten S, Krupovic M*, Prangishvili D*, A virus of hyperthermophilic archaea with a unique architecture among DNA viruses, Proc. Natl. Acad. Sci. U.S.A. 2016 Mar;113(9):2478-83.
• 2016
  Krupovic M, Koonin EV, Self-synthesizing transposons: unexpected key players in the evolution of viruses and defense systems, Curr. Opin. Microbiol. 2016 Jan;31:25-33.
• 2016
  Krupovic M, Shmakov S, Makarova KS, Forterre P, Koonin EV, Recent mobility of casposons, self-synthesizing transposons at the origin of the CRISPR-Cas immunity, Genome Biol Evol 2016 Jan;8(2):375-386.
• 2015
  Yutin N, Shevchenko S, Kapitonov V, Krupovic M, Koonin EV, A novel group of diverse Polinton-like viruses discovered by metagenome analysis, BMC Biol. 2015;13:95.
• 2015
  Krupovic M, Cvirkaite-Krupovic V, Prangishvili D, Koonin EV, Evolution of an archaeal virus nucleocapsid protein from the CRISPR-associated Cas4 nuclease, Biol. Direct 2015;10:65.
• 2015
  Quemin ER, Pietilä MK, Oksanen HM, Forterre P, Rijpstra WI, Schouten S, Bamford DH, Prangishvili D, Krupovic M, Sulfolobus Spindle-Shaped Virus 1 Contains Glycosylated Capsid Proteins, a Cellular Chromatin Protein, and Host-Derived Lipids, J. Virol. 2015 Nov;89(22):11681-91.
• 2015
  Rensen E, Krupovic M, Prangishvili D, Mysterious hexagonal pyramids on the surface of Pyrobaculum cells, Biochimie 2015 Nov;118:365-367.
• 2015
  DiMaio F, Yu X, Rensen E, Krupovic M, Prangishvili D, Egelman EH, Virology. A virus that infects a hyperthermophile encapsidates A-form DNA, Science 2015 May;348(6237):914-7.
• 2015
  Krupovic M, Zhi N, Li J, Hu G, Koonin EV, Wong S, Shevchenko S, Zhao K, Young NS, Multiple layers of chimerism in a single-stranded DNA virus discovered by deep sequencing, Genome Biol Evol 2015 Apr;7(4):993-1001.
• 2015
  Soler N, Krupovic M, Marguet E, Forterre P, Membrane vesicles in natural environments: a major challenge in viral ecology, ISME J 2015 Apr;9(4):793-6.
• 2015
  Koonin EV, Dolja VV, Krupovic M, Origins and evolution of viruses of eukaryotes: The ultimate modularity, Virology 2015 May;479-480:2-25.
• 2015
  Koonin EV, Krupovic M, Evolution of adaptive immunity from transposable elements combined with innate immune systems, Nat. Rev. Genet. 2015 Mar;16(3):184-92.
• 2015
  Krupovic M, Forterre P, Single-stranded DNA viruses employ a variety of mechanisms for integration into host genomes, Ann. N. Y. Acad. Sci. 2015 Apr;1341:41-53.
• 2015
  Krupovic M, Koonin EV, Polintons: a hotbed of eukaryotic virus, transposon and plasmid evolution, Nat. Rev. Microbiol. 2015 Feb;13(2):105-15.
• 2014
  Forterre P, Krupovic M, Raymann K, Soler N, Plasmids from Euryarchaeota, Microbiol Spectr 2014 Dec;2(6).
• 2014
  Forterre P, Krupovic M, Prangishvili D, Cellular domains and viral lineages, Trends Microbiol. 2014 Oct;22(10):554-8.
• 2014
  Makarova KS, Wolf YI, Forterre P, Prangishvili D, Krupovic M, Koonin EV, Dark matter in archaeal genomes: a rich source of novel mobile elements, defense systems and secretory complexes, Extremophiles 2014 Sep;18(5):877-93.
• 2014
  Quemin ER, Prangishvili D, Krupovic M, Hard out there: understanding archaeal virus biology, Future Virol 9(8):703-706.
• 2014
  Makarova KS, Krupovic M, Koonin EV, Evolution of replicative DNA polymerases in archaea and their contributions to the eukaryotic replication machinery, Front Microbiol 2014;5:354.
• 2014
  Gadelle D, Krupovic M, Raymann K, Mayer C, Forterre P, DNA topoisomerase VIII: a novel subfamily of type IIB topoisomerases encoded by free or integrated plasmids in Archaea and Bacteria, Nucleic Acids Res. 2014 Jul;42(13):8578-91.
• 2014
  Krupovic M, Koonin EV, Evolution of eukaryotic single-stranded DNA viruses of the Bidnaviridae family from genes of four other groups of widely different viruses, Sci Rep 2014;4:5347.
• 2014
  Krupovic M, Makarova KS, Forterre P, Prangishvili D, Koonin EV, Casposons: a new superfamily of self-synthesizing DNA transposons at the origin of prokaryotic CRISPR-Cas immunity, BMC Biol. 2014;12:36.
• 2014
  Gardner AF, Bell SD, White MF, Prangishvili D, Krupovic M, Protein-protein interactions leading to recruitment of the host DNA sliding clamp by the hyperthermophilic Sulfolobus islandicus rod-shaped virus 2, J. Virol. 2014 Jun;88(12):7105-8.
• 2014
  Gaudin M, Krupovic M, Marguet E, Gauliard E, Cvirkaite-Krupovic V, Le Cam E, Oberto J, Forterre P, Extracellular membrane vesicles harbouring viral genomes, Environ Microbiol. 2014 Apr;16(4):1167-75.
• 2014
  Gill S, Krupovic M, Desnoues N, Béguin P, Sezonov G, Forterre P, A highly divergent archaeo-eukaryotic primase from the Thermococcus nautilus plasmid, pTN2, Nucleic Acids Res. 2014 Apr;42(6):3707-19.
• 2013
  Krupovic M, Quemin ER, Bamford DH, Forterre P, Prangishvili D, Unification of the globally distributed spindle-shaped viruses of the Archaea, J. Virol. 2014 Feb;88(4):2354-8.
• 2013
  Roux S, Krupovic M, Debroas D, Forterre P, Enault F, Assessment of viral community functional potential from viral metagenomes may be hampered by contamination with cellular sequences, Open Biol 2013 Dec;3(12):130160.
• 2013
  Quemin ER, Lucas S, Daum B, Quax TE, Kühlbrandt W, Forterre P, Albers SV, Prangishvili D, Krupovic M, First insights into the entry process of hyperthermophilic archaeal viruses, J. Virol. 2013 Dec;87(24):13379-85.
• 2013
  Krupovic M, Networks of evolutionary interactions underlying the polyphyletic origin of ssDNA viruses, Curr Opin Virol 2013 Oct;3(5):578-86.
• 2013
  Jaubert C, Danioux C, Oberto J, Cortez D, Bize A, Krupovic M, She Q, Forterre P, Prangishvili D, Sezonov G, Genomics and genetics of Sulfolobus islandicus LAL14/1, a model hyperthermophilic archaeon, Open Biol 2013 Apr;3(4):130010.
• 2013
  Gorlas A, Krupovic M, Forterre P, Geslin C, Living side by side with a virus: characterization of two novel plasmids from Thermococcus prieurii, a host for the spindle-shaped virus TPV1, Appl. Environ. Microbiol. 2013 Jun;79(12):3822-8.
• 2013
  Prangishvili D, Koonin EV, Krupovic M, Genomics and biology of Rudiviruses, a model for the study of virus-host interactions in Archaea, Biochem. Soc. Trans. 2013 Feb;41(1):443-50.
• 2013
  Krupovic M, Gonnet M, Hania WB, Forterre P, Erauso G, Insights into dynamics of mobile genetic elements in hyperthermophilic environments from five new Thermococcus plasmids, PLoS ONE 2013;8(1):e49044.
• 2013
  Roux S, Enault F, Bronner G, Vaulot D, Forterre P, Krupovic M, Chimeric viruses blur the borders between the major groups of eukaryotic single-stranded DNA viruses, Nat Commun 2013;4:2700.
• 2012
  Forterre P, Soler N, Krupovic M, Marguet E, Ackermann HW, Fake virus particles generated by fluorescence microscopy, Trends Microbiol. 2013 Jan;21(1):1-5.
• 2012
  Krupovic M, Recombination between RNA viruses and plasmids might have played a central role in the origin and evolution of small DNA viruses, Bioessays 2012 Oct;34(10):867-70.
• 2012
  Mochizuki T, Krupovic M, Pehau-Arnaudet G, Sako Y, Forterre P, Prangishvili D, Archaeal virus with exceptional virion architecture and the largest single-stranded DNA genome, Proc. Natl. Acad. Sci. U.S.A. 2012 Aug;109(33):13386-91.
• 2012
  Krupovic M, Peixeiro N, Bettstetter M, Rachel R, Prangishvili D, Archaeal tetrathionate hydrolase goes viral: secretion of a sulfur metabolism enzyme in the form of virus-like particles, Appl. Environ. Microbiol. 2012 Aug;78(15):5463-5.
• 2012
  Krupovic M, White MF, Forterre P, Prangishvili D, Postcards from the edge: structural genomics of archaeal viruses, Adv. Virus Res. 2012;82:33-62.
• 2011
  Krupovic M, Prangishvili D, Hendrix RW, Bamford DH, Genomics of bacterial and archaeal viruses: dynamics within the prokaryotic virosphere, Microbiol. Mol. Biol. Rev. 2011 Dec;75(4):610-35.