Cosmids from the 1A3-1A10 region of the complete miniset were individually subcloned by using the vector M13 mp18. Sequences of each cosmid were assembled from about 400 DNA fragments generated from the ends of these phage subclones and merged into one 189-kb contig. About 160 ORFs identified by the CodonUse program were subjected to similarity searches. The biological functions of 80 ORFs could be assigned reliably by using the WIT and Magpie genome investigation tools. Eighty percent of these recognizable ORFs were organized in functional clusters, which simplified assignment decisions and increased the strength of the predictions. A set of 26 genes for cobalamin biosynthesis, genes for polyhydroxyalkanoic acid metabolism, DNA replication and recombination, and DNA gyrase were among those identified. Most of the ORFs lacking significant similarity with reference databases also were grouped. There are two large clusters of these ORFs, one located between 45 and 67 kb of the map, and the other between 150 and 183 kb. Nine of the loosely identified ORFs (of 15) of the first of these clusters match ORFs from phages or transposons. The other cluster also has four ORFs of possible phage origin.

Institute of Molecular Genetics Academy of Sciences of the Czech Republic Flemingova 2 CZ 16637 Prague 6 Czech Republic

Zobrazit více v PubMed

Donohue T J, Kaplan S. Methods Enzymol. 1991;204:459–485. PubMed

Klug G. Arch Microbiol. 1993;159:397–404. PubMed

Bauer C, Buggy J, Mosley C. Trends Genet. 1993;9:56–60. PubMed

Kranz R G, Foster-Hartnett D. Mol Microbiol. 1990;4:1793–1800. PubMed

Oelze J, Klein G. Arch Microbiol. 1996;165:219–225. PubMed

Willison J C. FEMS Microbiol Rev. 1993;10:1–38. PubMed

Johnson J A, Wong W K, Beatty J T. J Bacteriol. 1986;167:604–610. PubMed PMC

Kranz R G, Pace V M, Caldicott I M. J Bacteriol. 1990;172:53–62. PubMed PMC

Ponnampalam S N, Buggy J J, Bauer C E. J Bacteriol. 1995;177:2990–2997. PubMed PMC

Hubner P, Masepohl B, Klipp W, Bickle T A. Mol Microbiol. 1993;10:123–132. PubMed

Fonstein M, Haselkorn R. Proc Natl Acad Sci USA. 1993;90:2522–2526. PubMed PMC

Fonstein M, Koshy E G, Nikolskaya T, Mourachov P, Haselkorn R. EMBO J. 1995;14:1827–1841. PubMed PMC

Fonstein M, Nikolskaya T, Haselkorn R. J Bacteriol. 1995;177:2368–2372. PubMed PMC

Gaasterland T, Sensen C W S. Biochimie. 1996;78:302–310. PubMed

Fleischmann R D, Adams M D, White O, Clayton R A, Kirkness E F, et al. Science. 1995;269:496–512. PubMed

Chee M, Yang R, Hubbell E, Berno A, Huang X C, Stern D, Winkler J, Lockhart D J, Morris M S, Fodor S P. Science. 1996;274:610–614. PubMed

Yershov G, Barsky V, Belgovskiy A, Kirillov E, Kreindlin E, Ivanov I, Parinov S, Guschin D, Drobishev A, Dubiley S, Mirzabekov A. Proc Natl Acad Sci USA. 1996;93:4913–4918. PubMed PMC

Oliver G S. Nature (London) 1996;379:597–600. PubMed

Kaneko T, Sato S, Kotani H, Tanaka A, Asamizu E, et al. DNA Res. 1996;3:109–136. PubMed

Vlcek C, Paces V. Gene. 1995;165:137–138. PubMed

Messing J, Vieira J. Gene. 1982;19:269–276. PubMed

Blattner F R, Burland V, Plunkett G, Sofia H J, Daniels D L. Nucleic Acids Res. 1993;21:5408–5417. PubMed PMC

Borodovsky M, McIninch J D, Koonin E V, Rudd K E, Medigue C, Danchin A. Nucleic Acids Res. 1995;23:3554–3562. PubMed PMC

Roth J R, Lawrence J G, Bobik T A. Annu Rev Microbiol. 1996;50:137–181. PubMed

Battersby A R. Science. 1994;264:1551–1557. PubMed

Riley M. Microbiol Rev. 1993;57:862–952. PubMed PMC

Zheng S, Haselkorn R. Mol Microbiol. 1996;20:1001–1011. PubMed

Yen H C, Hu N T, Marrs B L. J Mol Biol. 1979;131:157–168. PubMed

Kumar V, Fonstein M, Haselkorn R. Nature (London) 1996;381:653–654. PubMed

Zobrazit více v PubMed

GENBANK
AF010496