Retron reverse transcriptase rrtT is ubiquitous in strains of Salmonella enterica serovar Typhimurium

FEMS Microbiology Letters

Volumn 223, Issue 2, 2003, Pages 281-286

  Matiasovicova, Jitka ^a   Faldynova, Marcela ^a   Pravcova, Martina ^a   Karpiskova, Renata ^b   Kolackova, Ivana ^b   Damborsky, Jiri ^c   Rychlik, Ivan ^a  

^a VETERINARY RESEARCH INSTITUTE   (Czech Republic)

^b NATIONAL INSTITUTE OF PUBLIC HEALTH   (Czech Republic)

^c MASARYK UNIVERSITY   (Czech Republic)

Author keywords

msDNA; Retron reverse transcriptase; Salmonella enterica serovar Typhimurium

Indexed keywords

ENZYME; MULTICOPY SINGLE STRANDED DEOXYRIBONUCLEOTIDE; RETRON REVERSE TRANSCRIPTASE; SINGLE STRANDED DNA; UNCLASSIFIED DRUG;

AMINO ACID SEQUENCE; ARTICLE; BACTERIAL GENE; COMPUTER ANALYSIS; DNA SEQUENCE; EXPERIMENTAL TEST; GENE IDENTIFICATION; GENETIC STRAIN; NONHUMAN; POLYMERASE CHAIN REACTION; PREDICTION; PRIORITY JOURNAL; SALMONELLA ENTERICA; SALMONELLA TYPHIMURIUM; SEROTYPE;

BACTERIA (MICROORGANISMS); ENTERITIDIS; MYXOCOCCUS; SALMONELLA ENTERICA; SALMONELLA ENTERICA SUBSP. ENTERICA SEROVAR TYPHIMURIUM; TYPHIMURIUM;

EID: 0037757533     PISSN: 03781097     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0378-1097(03)00398-7     Document Type: Article

References (34)

1. Altschul S.F., Madden T.L., Schaffer A.A., Zhang J., Zhang Z., Miller W., Lipman D.J. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25:1997;3389-3402.
2. Boyd D., Peters G.A., Cloeckaert A., Boumedine K.S., Chaslus-Dancla E., Imberechts H., Mulvey M.R. Complete nucleotide sequence of a 43-kilobase genomic island associated with the multidrug resistance region of Salmonella enterica serovar Typhimurium DT104 and its identification in phage type DT120 and serovar Agona. J. Bacteriol. 183:2001;5725-5732.
3. Boyd D.A., Peters G.A., Ng L., Mulvey M.R. Partial characterization of a genomic island associated with the multidrug resistance region of Salmonella enterica Typhimurium DT104. FEMS Microbiol. Lett. 189:2000;285-291.
4. da Silva A.C., Ferro J.A., Reinach F.C., Farah C.S., Furlan L.R., Quaggio R.B., Monteiro-Vitorello C.B., Van Sluys M.A., Almeida N.F., Alves L.M., do Amaral A.M., Bertolini M.C., Camargo L.E., Camarotte G., Cannavan F., Cardozo J., Chambergo F., Ciapina L.P., Cicarelli R.M., Coutinho L.L., Cursino-Santos J.R., El Dorry H., Faria J.B., Ferreira A.J., Ferreira R.C., Ferro M.I., Formighieri E.F., Franco M.C., Greggio C.C., Gruber A., Katsuyama A.M., Kishi L.T., Leite R.P., Lemos E.G., Lemos M.V., Locali E.C., Machado M.A., Madeira A.M., Martinez-Rossi N.M., Martins E.C., Meidanis J., Menck C.F., Miyaki C.Y., Moon D.H., Moreira L.M., Novo M.T., Okura V.K., Oliveira M.C., Oliveira V.R., Pereira H.A., Rossi A., Sena J.A., Silva C., de Souza R.F., Spinola L.A., Takita M.A., Tamura R.E., Teixeira E.C., Tezza R.I., Trindade dos S.M., Truffi D., Tsai S.M., White F.F., Setubal J.C., Kitajima J.P. Comparison of the genomes of two Xanthomonas pathogens with differing host specificities. Nature. 417:2002;459-463.
5. Dhundale A., Lampson B., Furuichi T., Inouye M., Inouye S. Structure of msDNA from Myxococcus xanthus: evidence for a long, self-annealing RNA precursor for the covalently linked, branched RNA. Cell. 51:1987;1105-1112.
6. Dhundale A.R., Furuichi T., Inouye S., Inouye M. Distribution of multicopy single-stranded DNA among myxobacteria and related species. J. Bacteriol. 164:1985;914-917.
7. Galagan J.E., Nusbaum C., Roy A., Endrizzi M.G., Macdonald P., FitzHugh W., Calvo S., Engels R., Smirnov S., Atnoor D., Brown A., Allen N., Naylor J., Stange-Thomann N., DeArellano K., Johnson R., Linton L., McEwan P., McKernan K., Talamas J., Tirrell A., Ye W., Zimmer A., Barber R.D., Cann I., Graham D.E., Grahame D.A., Guss A.M., Hedderich R., Ingram-Smith C., Kuettner H.C., Krzycki J.A., Leigh J.A., Li W., Liu J., Mukhopadhyay B., Reeve J.N., Smith K., Springer T.A., Umayam L.A., White O., White R.H., Conway D.M., Ferry J.G., Jarrell K.F., Jing H., Macario A.J., Paulsen I., Pritchett M., Sowers K.R., Swanson R.V., Zinder S.H., Lander E., Metcalf W.W., Birren B. The genome of M. acetivorans reveals extensive metabolic and physiological diversity. Genome Res. 12:2002;532-542.
8. Herzer P.J., Inouye S., Inouye M., Whittam T.S. Phylogenetic distribution of branched RNA-linked multicopy single-stranded DNA among natural isolates of Escherichia coli. J. Bacteriol. 172:1990;6175-6181.
9. Hsu M.Y., Xu C., Inouye M., Inouye S. Similarity between the Myxococcus xanthus and Stigmatella aurantiaca reverse transcriptase genes associated with multicopy, single-stranded DNA. J. Bacteriol. 174:1992;2384-2387.
10. Inouye S., Herzer P.J., Inouye M. Two independent retrons with highly diverse reverse transcriptases in Myxococcus xanthus. Proc. Natl. Acad. Sci. USA. 87:1990;942-945.
11. Inouye S., Hsu M.Y., Eagle S., Inouye M. Reverse transcriptase associated with the biosynthesis of the branched RNA-linked msDNA in Myxococcus xanthus. Cell. 56:1989;709-717.
12. Inouye S., Inouye M. The retron: a bacterial retroelement required for the synthesis of msDNA. Curr. Opin. Genet. Dev. 3:1993;713-718.
13. Inouye S., Inouye M. Structure, function, and evolution of bacterial reverse transcriptase. Virus Genes. 11:1995;81-94.
14. Jeanmougin F., Thompson J.D., Gouy M., Higgins D.G., Gibson T.J. Multiple sequence alignment with Clustal X. Trends Biochem. Sci. 23:1998;403-405.
15. Jones D.T. Protein secondary structure prediction based on position-specific scoring matrices. J. Mol. Biol. 292:1999;195-202.
16. Kapatral V., Anderson I., Ivanova N., Reznik G., Los T., Lykidis A., Bhattacharyya A., Bartman A., Gardner W., Grechkin G., Zhu L., Vasieva O., Chu L., Kogan Y., Chaga O., Goltsman E., Bernal A., Larsen N., D'Souza M., Walunas T., Pusch G., Haselkorn R., Fonstein M., Kyrpides N., Overbeek R. Genome sequence and analysis of the oral bacterium Fusobacterium nucleatum strain ATCC 25586. J. Bacteriol. 184:2002;2005-2018.
17. Kuroda M., Ohta T., Uchiyama I., Baba T., Yuzawa H., Kobayashi I., Cui L., Oguchi A., Aoki K., Nagai Y., Lian J., Ito T., Kanamori M., Matsumaru H., Maruyama A., Murakami H., Hosoyama A., Mizutani-Ui Y., Takahashi N.K., Sawano T., Inoue R., Kaito C., Sekimizu K., Hirakawa H., Kuhara S., Goto S., Yabuzaki J., Kanehisa M., Yamashita A., Oshima K., Furuya K., Yoshino C., Shiba T., Hattori M., Ogasawara N., Hayashi H., Hiramatsu K. Whole genome sequencing of meticillin-resistant Staphylococcus aureus. Lancet. 357:2001;1225-1240.
18. Lampson B., Inouye M., Inouye S. The msDNAs of bacteria. Prog. Nucleic Acid Res. Mol. Biol. 67:2001;65-91.
19. Lampson B.C., Inouye M., Inouye S. Survey of multicopy single-stranded DNAs and reverse transcriptase genes among natural isolates of Myxococcus xanthus. J. Bacteriol. 173:1991;5363-5370.
20. Lampson B.C., Inouye S., Inouye M. msDNA of bacteria. Prog. Nucleic Acid Res. Mol. Biol. 40:1991;1-24.
21. Lampson B.C., Sun J., Hsu M.Y., Vallejo-Ramirez J., Inouye S., Inouye M. Reverse transcriptase in a clinical strain of Escherichia coli: production of branched RNA-linked msDNA. Science. 243:1989;1033-1038.
22. Lim D. Structure of two retrons of Escherichia coli and their common chromosomal insertion site. Mol. Microbiol. 5:1991;1863-1872.
23. Lim D. Structure and biosynthesis of unbranched multicopy single-stranded DNA by reverse transcriptase in a clinical Escherichia coli isolate. Mol. Microbiol. 6:1992;3531-3542.
24. Lim D., Maas W.K. Reverse transcriptase-dependent synthesis of a covalently linked, branched DNA-RNA compound in E. coli B. Cell. 56:1989;891-904.
25. Lima T.M., Lim D. A novel retron that produces RNA-less msDNA in Escherichia coli using reverse transcriptase. Plasmid. 38:1997;25-33.
26. Maas W.K., Wang C., Lima T., Hach A., Lim D. Multicopy single-stranded DNA of Escherichia coli enhances mutation and recombination frequencies by titrating MutS protein. Mol. Microbiol. 19:1996;505-509.
27. Mao J.R., Shimada M., Inouye S., Inouye M. Gene regulation by antisense DNA produced in vivo. J. Biol. Chem. 270:1995;19684-19687.
28. McClelland M., Sanderson K.E., Spieth J., Clifton S.W., Latreille P., Courtney L., Porwollik S., Ali J., Dante M., Du F., Hou S., Layman D., Leonard S., Nguyen C., Scott K., Holmes A., Grewal N., Mulvaney E., Ryan E., Sun H., Florea L., Miller W., Stoneking T., Nhan M., Waterston R., Wilson R.K. Complete genome sequence of Salmonella enterica serovar Typhimurium LT2. Nature. 413:2001;852-856.
29. Recchia G.D., Hall R.M. Origins of the mobile gene cassettes found in integrons. Trends Microbiol. 5:1997;389-394.
30. Rice S.A., Bieber J., Chun J.Y., Stacey G., Lampson B.C. Diversity of retron elements in a population of rhizobia and other gram-negative bacteria. J. Bacteriol. 175:1993;4250-4254.
31. Rice S.A., Lampson B.C. Phylogenetic comparison of retron elements among the myxobacteria: evidence for vertical inheritance. J. Bacteriol. 177:1995;37-45.
32. Rychlik I., Sebkova A., Gregorova D., Karpiskova R. Low-molecular-weight plasmid of Salmonella enterica serovar Enteritidis codes for retron reverse transcriptase and influences phage resistance. J. Bacteriol. 183:2001;2852-2858.
33. Saitou N., Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4:1987;406-425.
34. Shimamoto T., Kobayashi M., Tsuchiya T., Shinoda S., Kawakami H., Inouye S., Inouye M. A retroelement in Vibrio cholerae. Mol. Microbiol. 34:1999;631-632.