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1. Taxonomy of prokaryotic viruses: 2017 update from the ICTV Bacterial and Archaeal Viruses Subcommittee

Author

Adriaenssens, Evelien M., Wittmann, Johannes, Kuhn, Jens H., Turner, Dann, Sullivan, Matthew B., Dutilh, Bas E., Jang, Ho Bin, van Zyl, Leonardo J., Klumpp, Jochen, Lobocka, Malgorzata, Moreno Switt, Andrea I., Rumnieks, Janis, Edwards, Robert A., Uchiyama, Jumpei, Alfenas-Zerbini, Poliane, Petty, Nicola K., Kropinski, Andrew M., Barylski, Jakub, Gillis, Annika, Clokie, Martha R. C., Prangishvili, David, Lavigne, Rob, Aziz, Ramy Karam, Duffy, Siobain, Krupovic, Mart, Poranen, Minna M., Knezevic, Petar, Enault, Francois, Tong, Yigang, Oksanen, Hanna M., and Rodney Brister, J.

Published
2018
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2. Virus nomenclature below the species level: a standardized nomenclature for filovirus strains and variants rescued from cDNA

Author

Kuhn, Jens H., Bào, Yīmíng, Bavari, Sina, Becker, Stephan, Bradfute, Steven, Brauburger, Kristina, Rodney Brister, J., Bukreyev, Alexander A., Caì, Yíngyún, Chandran, Kartik, Davey, Robert A., Dolnik, Olga, Dye, John M., Enterlein, Sven, Gonzalez, Jean-Paul, Formenty, Pierre, Freiberg, Alexander N., Hensley, Lisa E., Hoenen, Thomas, Honko, Anna N., Ignatyev, Georgy M., Jahrling, Peter B., Johnson, Karl M., Klenk, Hans-Dieter, Kobinger, Gary, Lackemeyer, Matthew G., Leroy, Eric M., Lever, Mark S., Mühlberger, Elke, Netesov, Sergey V., Olinger, Gene G., Palacios, Gustavo, Patterson, Jean L., Paweska, Janusz T., Pitt, Louise, Radoshitzky, Sheli R., Ryabchikova, Elena I., Saphire, Erica Ollmann, Shestopalov, Aleksandr M., Smither, Sophie J., Sullivan, Nancy J., Swanepoel, Robert, Takada, Ayato, Towner, Jonathan S., van der Groen, Guido, Volchkov, Viktor E., Volchkova, Valentina A., Wahl-Jensen, Victoria, Warren, Travis K., Warfield, Kelly L., Weidmann, Manfred, and Nichol, Stuart T.

Published
2014
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3. Taxonomy proposal: To create one (1) new family, Herelleviridae, in the order Caudovirales

Author

Jakub Barylski, François Enault, Dutilh, Bas E., Schuller, Margo B. P., Edwards, Robert A., Annika Gillis, Jochen Klumpp, Petar Knezevic, Mart Krupovic, Kuhn, Jens H., Rob Lavigne, Hanna Oksanen, Sullivan, Matthew B., Ho Bin Jang, Peter Simmonds, Pakorn Aiewsakun, Johannes Wittmann, Igor Tolstoy, Rodney Brister, J., Kropinski, Andrew M., Adriaenssens, Evelien M., Molecular and Integrative Biosciences Research Programme, Molecular Principles of Viruses, and Faculty of Biological and Environmental Sciences

Subjects
1183 Plant biology, microbiology, virology
Published
2018

4. Taxonomy of prokaryotic viruses: 2017 update from the ICTV Bacterial and Archaeal Viruses Subcommittee

Author

Adriaenssens, Evelien M, Wittmann, Johannes, Kuhn, Jens H, Turner, Dann, Sullivan, Matthew B., Dutilh, Bas E, Jang, Ho Bin, van Zyl, Leonardo J, Klumpp, Jochen, Lobocka, Malgorzata, Moreno Switt, Andrea I, Rumnieks, Janis, Edwards, Robert A, Uchiyama, Jumpei, Alfenas-Zerbini, Poliane, Petty, Nicola K, Kropinski, Andrew M, Barylski, Jakub, Gillis, Annika, Clokie, Martha R C, Prangishvili, David, Lavigne, Rob, Aziz, Ramy Karam, Duffy, Siobain, Krupovic, Mart, Poranen, Minna M., Knezevic, Petar, Enault, Francois, Tong, Yigang, Oksanen, Hanna M., Rodney Brister, J, Adriaenssens, Evelien M, Wittmann, Johannes, Kuhn, Jens H, Turner, Dann, Sullivan, Matthew B., Dutilh, Bas E, Jang, Ho Bin, van Zyl, Leonardo J, Klumpp, Jochen, Lobocka, Malgorzata, Moreno Switt, Andrea I, Rumnieks, Janis, Edwards, Robert A, Uchiyama, Jumpei, Alfenas-Zerbini, Poliane, Petty, Nicola K, Kropinski, Andrew M, Barylski, Jakub, Gillis, Annika, Clokie, Martha R C, Prangishvili, David, Lavigne, Rob, Aziz, Ramy Karam, Duffy, Siobain, Krupovic, Mart, Poranen, Minna M., Knezevic, Petar, Enault, Francois, Tong, Yigang, Oksanen, Hanna M., and Rodney Brister, J

Published
2018

5. Taxonomy of prokaryotic viruses: 2017 update from the ICTV Bacterial and Archaeal Viruses Subcommittee.

Author

UCL - SST/ELI/ELIM - Applied Microbiology, Adriaenssens, Evelien M, Wittmann, Johannes, Kuhn, Jens H, Turner, Dann, Sullivan, Matthew B, Dutilh, Bas E, Jang, Ho Bin, van Zyl, Leonardo J, Klumpp, Jochen, Lobocka, Malgorzata, Moreno Switt, Andrea I, Rumnieks, Janis, Edwards, Robert A, Uchiyama, Jumpei, Alfenas-Zerbini, Poliane, Petty, Nicola K, Kropinski, Andrew M, Barylski, Jakub, Gillis, Annika, Clokie, Martha R C, Prangishvili, David, Lavigne, Rob, Aziz, Ramy Karam, Duffy, Siobain, Krupovic, Mart, Poranen, Minna M, Knezevic, Petar, Enault, Francois, Tong, Yigang, Oksanen, Hanna M, Rodney Brister, J, UCL - SST/ELI/ELIM - Applied Microbiology, Adriaenssens, Evelien M, Wittmann, Johannes, Kuhn, Jens H, Turner, Dann, Sullivan, Matthew B, Dutilh, Bas E, Jang, Ho Bin, van Zyl, Leonardo J, Klumpp, Jochen, Lobocka, Malgorzata, Moreno Switt, Andrea I, Rumnieks, Janis, Edwards, Robert A, Uchiyama, Jumpei, Alfenas-Zerbini, Poliane, Petty, Nicola K, Kropinski, Andrew M, Barylski, Jakub, Gillis, Annika, Clokie, Martha R C, Prangishvili, David, Lavigne, Rob, Aziz, Ramy Karam, Duffy, Siobain, Krupovic, Mart, Poranen, Minna M, Knezevic, Petar, Enault, Francois, Tong, Yigang, Oksanen, Hanna M, and Rodney Brister, J

Abstract

The prokaryotic virus community is represented at the International Committee on Taxonomy of Viruses (ICTV) by the Bacterial and Archaeal Viruses Subcommittee. Since our last report [5], the committee composition has changed, and a large number of taxonomic proposals (TaxoProps) were submitted to the ICTV Executive Committee (EC) for approval.

Published
2018

6. Taxonomy of prokaryotic viruses: 2017 update from the ICTV Bacterial and Archaeal Viruses Subcommittee

Author

Sub Bioinformatics, Theoretical Biology and Bioinformatics, Adriaenssens, Evelien M, Wittmann, Johannes, Kuhn, Jens H, Turner, Dann, Sullivan, Matthew B., Dutilh, Bas E, Jang, Ho Bin, van Zyl, Leonardo J, Klumpp, Jochen, Lobocka, Malgorzata, Moreno Switt, Andrea I, Rumnieks, Janis, Edwards, Robert A, Uchiyama, Jumpei, Alfenas-Zerbini, Poliane, Petty, Nicola K, Kropinski, Andrew M, Barylski, Jakub, Gillis, Annika, Clokie, Martha R C, Prangishvili, David, Lavigne, Rob, Aziz, Ramy Karam, Duffy, Siobain, Krupovic, Mart, Poranen, Minna M., Knezevic, Petar, Enault, Francois, Tong, Yigang, Oksanen, Hanna M., Rodney Brister, J, Sub Bioinformatics, Theoretical Biology and Bioinformatics, Adriaenssens, Evelien M, Wittmann, Johannes, Kuhn, Jens H, Turner, Dann, Sullivan, Matthew B., Dutilh, Bas E, Jang, Ho Bin, van Zyl, Leonardo J, Klumpp, Jochen, Lobocka, Malgorzata, Moreno Switt, Andrea I, Rumnieks, Janis, Edwards, Robert A, Uchiyama, Jumpei, Alfenas-Zerbini, Poliane, Petty, Nicola K, Kropinski, Andrew M, Barylski, Jakub, Gillis, Annika, Clokie, Martha R C, Prangishvili, David, Lavigne, Rob, Aziz, Ramy Karam, Duffy, Siobain, Krupovic, Mart, Poranen, Minna M., Knezevic, Petar, Enault, Francois, Tong, Yigang, Oksanen, Hanna M., and Rodney Brister, J

Published
2018

7. Taxonomy of prokaryotic viruses: 2017 update from the ICTV Bacterial and Archaeal Viruses Subcommittee

Author

Adriaenssens, EM, Wittmann, J, Kuhn, JH, Turner, D, Sullivan, MB, Dutilh, BE, Jang, HB, van Zyl, LJ, Klumpp, J, Lobocka, M, Moreno Switt, AI, Rumnieks, J, Edwards, RA, Uchiyama, J, Alfenas-Zerbini, P, Petty, NK, Kropinski, AM, Barylski, J, Gillis, A, Clokie, MRC, Prangishvili, D, Lavigne, R, Aziz, RK, Duffy, S, Krupovic, M, Poranen, MM, Knezevic, P, Enault, F, Tong, Y, Oksanen, HM, Rodney Brister, J, Adriaenssens, EM, Wittmann, J, Kuhn, JH, Turner, D, Sullivan, MB, Dutilh, BE, Jang, HB, van Zyl, LJ, Klumpp, J, Lobocka, M, Moreno Switt, AI, Rumnieks, J, Edwards, RA, Uchiyama, J, Alfenas-Zerbini, P, Petty, NK, Kropinski, AM, Barylski, J, Gillis, A, Clokie, MRC, Prangishvili, D, Lavigne, R, Aziz, RK, Duffy, S, Krupovic, M, Poranen, MM, Knezevic, P, Enault, F, Tong, Y, Oksanen, HM, and Rodney Brister, J

Published
2018

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

Author

Barylski, Jakub, primary, Enault, François, additional, Dutilh, Bas E., additional, Schuller, Margo B.P., additional, Edwards, Robert A., additional, Gillis, Annika, additional, Klumpp, Jochen, additional, Knezevic, Petar, additional, Krupovic, Mart, additional, Kuhn, Jens H., additional, Lavigne, Rob, additional, Oksanen, Hanna M., additional, Sullivan, Matthew B., additional, Wittmann, Johannes, additional, Tolstoy, Igor, additional, Rodney Brister, J., additional, Kropinski, Andrew M., additional, and Adriaenssens, Evelien M., additional

Published
2017
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9. Virus nomenclature below the species level: a standardized nomenclature for filovirus strains and variants rescued from cDNA

Author

Kuhn, Jens H., primary, Bào, Yīmíng, additional, Bavari, Sina, additional, Becker, Stephan, additional, Bradfute, Steven, additional, Brauburger, Kristina, additional, Rodney Brister, J., additional, Bukreyev, Alexander A., additional, Caì, Yíngyún, additional, Chandran, Kartik, additional, Davey, Robert A., additional, Dolnik, Olga, additional, Dye, John M., additional, Enterlein, Sven, additional, Gonzalez, Jean-Paul, additional, Formenty, Pierre, additional, Freiberg, Alexander N., additional, Hensley, Lisa E., additional, Hoenen, Thomas, additional, Honko, Anna N., additional, Ignatyev, Georgy M., additional, Jahrling, Peter B., additional, Johnson, Karl M., additional, Klenk, Hans-Dieter, additional, Kobinger, Gary, additional, Lackemeyer, Matthew G., additional, Leroy, Eric M., additional, Lever, Mark S., additional, Mühlberger, Elke, additional, Netesov, Sergey V., additional, Olinger, Gene G., additional, Palacios, Gustavo, additional, Patterson, Jean L., additional, Paweska, Janusz T., additional, Pitt, Louise, additional, Radoshitzky, Sheli R., additional, Ryabchikova, Elena I., additional, Saphire, Erica Ollmann, additional, Shestopalov, Aleksandr M., additional, Smither, Sophie J., additional, Sullivan, Nancy J., additional, Swanepoel, Robert, additional, Takada, Ayato, additional, Towner, Jonathan S., additional, van der Groen, Guido, additional, Volchkov, Viktor E., additional, Volchkova, Valentina A., additional, Wahl-Jensen, Victoria, additional, Warren, Travis K., additional, Warfield, Kelly L., additional, Weidmann, Manfred, additional, and Nichol, Stuart T., additional

Published
2013
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10. Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation.

Author

O'Leary, Nuala A., Wright, Mathew W., Rodney Brister, J., Ciufo, Stacy, Haddad, Diana, McVeigh, Rich, Rajput, Bhanu, Robbertse, Barbara, Smith-White, Brian, Ako-Adjei, Danso, Astashyn, Alexander, Badretdin, Azat, Bao, Yiming, Blinkova, Olga, Brover, Vyacheslav, Chetvernin, Vyacheslav, Choi, Jinna, Cox, Eric, Ermolaeva, Olga, and Farrell, Catherine M.

Published
2016
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12. Initiation of bacteriophage T4 DNA replication and replication fork dynamics: a review in the Virology Journal series on bacteriophage T4and its relatives.

Author

Kreuzer, Kenneth N. and Rodney Brister, J.

Subjects
*BACTERIOPHAGE T4, *DNA replication, *RNA, *PROTEINS, *VIROLOGY
Abstract

Bacteriophage T4 initiates DNA replication from specialized structures that form in its genome. Immediately after infection, RNA-DNA hybrids (R-loops) occur on (at least some) replication origins, with the annealed RNA serving as a primer for leading-strand synthesis in one direction. As the infection progresses, replication initiation becomes dependent on recombination proteins in a process called recombination-dependent replication (RDR). RDR occurs when the replication machinery is assembled onto D-loop recombination intermediates, and in this case, the invading 3' DNA end is used as a primer for leading strand synthesis. Over the last 15 years, these two modes of T4 DNA replication initiation have been studied in vivo using a variety of approaches, including replication of plasmids with segments of the T4 genome, analysis of replication intermediates by two-dimensional gel electrophoresis, and genomic approaches that measure DNA copy number as the infection progresses. In addition, biochemical approaches have reconstituted replication from origin R-loop structures and have clarified some detailed roles of both replication and recombination proteins in the process of RDR and related pathways. We will also discuss the parallels between T4 DNA replication modes and similar events in cellular and eukaryotic organelle DNA replication, and close with some current questions of interest concerning the mechanisms of replication, recombination and repair in phage T4. [ABSTRACT FROM AUTHOR]

Published
2010
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