Manipulation of viral protein production using the PCNA of halovirus фCh1 via alternative start codon usage
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Acharya, 2021, Evolution and origin of sliding clamp in bacteria, archaea and eukarya, PLoS ONE, 16, e0241093, 10.1371/journal.pone.0241093
Babski, 2016, Genome-wide identification of transcriptional start sites in the haloarchaeon Haloferax volcanii based on differential RNA-Seq (dRNA-Seq), BMC Genomics, 17, 1, 10.1186/s12864-016-2920-y
Baranyi, 2000, The archaeal halophilic virus-encoded Dam-like methyltransferase M.ϕCh1-I methylates adenine residues and complements dam mutants in the low salt environme39nt of Escherichia coli, Mol. Microbiol., 35, 1168, 10.1046/j.1365-2958.2000.01786.x
Celeste, 1985, Improved M13 phage cloning vectors and host strains: nucleotide sequence of the M13mpl8 and pUC19 vector, Gene, 33, 103, 10.1016/0378-1119(85)90120-9
Dionne, 2003, A heterotrimeric PCNA in the hyperthermophilic archaeon Sulfolobus solfataricus, Mol. Cell, 11, 275, 10.1016/S1097-2765(02)00824-9
Dyall-Smith, M., 2009. The halohandbook: protocols for halobacterial genetics, version 7.2. Available from: <https://haloarchaea.com/halohandbook/>.
Gibson, 2009, Enzymatic assembly of DNA molecules up to several hundred kilobases, Nat. Methods, 6, 343, 10.1038/nmeth.1318
Gropp, 1992, The immunity-conferring plasmid pφHL from the Halobacterium salinarium phage φH: nucleotide sequence and transcription, Virology, 190, 45, 10.1016/0042-6822(92)91191-V
Harlow, 1988, 579
Holmes, 2000, Sequence and expression of a halobacterial b-galactosidase gene, Mol. Microbiol., 36, 114, 10.1046/j.1365-2958.2000.01832.x
Holmes, 1991, Construction and use of halobacterial shuttle vectors and further studies on Haloferax DNA gyrase, J. Bacteriol., 173, 3807, 10.1128/jb.173.12.3807-3813.1991
Iro, 2007, The lysogenic region of virus фCh1: identification of a repressor-operator system and determination of its activity in halophilic Archaea, Extremophiles, 11, 383, 10.1007/s00792-006-0040-3
Kazlauskas, 2016, The logic of DNA replication in double-stranded DNA viruses: insights from global analysis of viral genomes, Nucleic Acids Res., 44, 4551, 10.1093/nar/gkw322
Klein, 2000, The structural protein E of the archaeal virus фCh1: evidence for processing in Natrialba magadii during virus maturation, Virology, 276, 376, 10.1006/viro.2000.0565
Klein, 2002, Natrialba magadii virus фCh1: first complete nucleotide sequence and functional organization of a virus infecting a haloalkaliphilic archaeon, Mol. Microbiol., 45, 851, 10.1046/j.1365-2958.2002.03064.x
Klein, 2012, Haloarchaeal myovirus ϕCh1 harbours a phase variation system for the production of protein variants with distinct cell surface adhesion specificities, Mol. Microbiol., 83, 137, 10.1111/j.1365-2958.2011.07921.x
Ladner, 2011, Crystal structures of two active proliferating cell nuclear antigens (PCNAs) encoded by Thermococcus kodakaraensis, Proc. Natl. Acad. Sci., 108, 2711, 10.1073/pnas.1019179108
Lynch, E.A., Langille, M.G., Darling, A., Wilbanks, E.G., Haltiner, C., Shao, K.S., Starr, M.O., Teiling, C., Harkins, T.T., Edwards, R.A. and Eisen, J.A., 2012. Sequencing of seven haloarchaeal genomes reveals patterns of genomic flux. doi: 10.1371/journal.pone.0041389
Maga, 2003, Proliferating cell nuclear antigen (PCNA): a dancer with many partners, J. Cell Sci., 116, 3051, 10.1242/jcs.00653
Mayrhofer-Iro, 2013, Utilization of virus фCh1 elements to establish a shuttle vector system for halo(alkali)philic archaea via transformation of Natrialba magadii, Appl. Environ. Microbiol., 79, 2741, 10.1128/AEM.03287-12
Mizuno, 2019, Novel haloarchaeal viruses from Lake Retba infecting Haloferax and Halorubrum species, Environ. Microbiol., 21, 2129, 10.1111/1462-2920.14604
Moldovan, 2007, PCNA, the maestro of the replication fork, Cell, 129, 665, 10.1016/j.cell.2007.05.003
Pan, 2011, The archaeal PCNA proteins, Biochem. Soc. Trans., 39, 20, 10.1042/BST0390020
Rössler, 2004, Inversion within the haloalkaliphilic virus ϕCh1 results in differential expression of structural proteins, Mol. Microbiol., 52, 413, 10.1111/j.1365-2958.2003.03983.x
Selb, 2017, The viral gene ORF79 encodes a repressor regulating induction of the lytic life cycle in the haloalkaliphilic virus ϕCh1, J. Virol., 91, e00206, 10.1128/JVI.00206-17
Stoimenov, 2009, PCNA on the crossroad of cancer, Biochem. Soc. Trans., 37, 605, 10.1042/BST0370605
Tindall, 1984, Natronobacterium gen nov. and Natronococcus gen. nov. two genera of haloalkaliphilic archaebacteria, Syst. Appl. Microbiol., 5, 41, 10.1016/S0723-2020(84)80050-8
Winter, 2009, The crystal structure of Haloferax volcanii proliferating cell nuclear antigen reveals unique surface charge characteristics due to halophilic adaptation, BMC Struct. Biol., 9, 1, 10.1186/1472-6807-9-55
Witte, 1997, Characterization of Natronobacterium magadii phage фCh1, a unique archaeal phage containing DNA and RNA, Mol. Microbiol., 23, 603, 10.1046/j.1365-2958.1997.d01-1879.x
Zhou, 2004, Construction of a novel shuttle vector based on an RCR-plasmid from a haloalkaliphilic archaeon and transformation into other haloarchaea, Biotechnol. Lett., 26, 1107, 10.1023/B:BILE.0000035493.21986.20
