Genome update: Purine strand bias in 280 bacterial genomes

Microbiology

Volumn 152, Issue 3, 2006, Pages 579-583

  Champ, P Christoph ^a   Binnewies, Tim T ^a   Nielsen, Natasja ^a   Zinman, Guy ^a   Kiil, Kristoffer ^a   Wu, Heng ^a   Bohlin, Jon ^a   Ussery, David W ^a  

^a TECHNICAL UNIVERSITY OF DENMARK   (Denmark)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL DNA; BACTERIAL PROTEIN; CYSTEINE; GUANINE; PURINE; PYRIMIDINE; RIBOSOME RNA; TRANSFER RNA; VIRULENCE FACTOR;

ACTINOBACTERIA; AMINO ACID SEQUENCE; ARTICLE; BACTERIAL GENETICS; BACTERIAL GENOME; BACTERIAL STRAIN; BACTERIAL VIRULENCE; CHLAMYDIA TRACHOMATIS; CHLAMYDIASIS; CODON USAGE; CROHN DISEASE; DNA REPLICATION; DNA STRUCTURE; GAMMAPROTEOBACTERIA; GC RICH SEQUENCE; GENETIC VARIABILITY; HUMAN; INTESTINE INFECTION; LIVESTOCK; MYCOBACTERIUM AVIUM; MYCOBACTERIUM TUBERCULOSIS; NONHUMAN; NUCLEOTIDE SEQUENCE; PARATUBERCULOSIS; PLANT DISEASE; PRIORITY JOURNAL; PROTEOBACTERIA; PSEUDOMONAS SYRINGAE; SEQUENCE HOMOLOGY; STAPHYLOCOCCUS AUREUS; STAPHYLOCOCCUS SAPROPHYTICUS; STRAIN DIFFERENCE; STREPTOCOCCUS AGALACTIAE; TAXONOMY; URINARY TRACT INFECTION; XANTHOMONAS CAMPESTRIS;

BASE SEQUENCE; BIAS (EPIDEMIOLOGY); GENOME, BACTERIAL; GENOMICS; GRAM-NEGATIVE BACTERIA; GRAM-POSITIVE BACTERIA; HUMANS; PURINES; PYRIMIDINES;

ACTINOBACTERIA; BACTERIA (MICROORGANISMS); CHLAMYDIA TRACHOMATIS; GAMMAPROTEOBACTERIA; MYCOBACTERIUM AVIUM; MYCOBACTERIUM TUBERCULOSIS; PROTEOBACTERIA; PSEUDOMONAS SYRINGAE; STAPHYLOCOCCUS AUREUS; STAPHYLOCOCCUS SAPROPHYTICUS; STREPTOCOCCUS AGALACTIAE; XANTHOMONAS CAMPESTRIS;

EID: 33645109092     PISSN: 13500872     EISSN: None     Source Type: Journal    
DOI: 10.1099/mic.0.28637-0     Document Type: Article

References (11)

1. Carlson, J. H., Porcella, S. F., McClarty, G. & Caldwell, H. D. (2005). Comparative genomic analysis of Chlamydia trachomatis oculotropic and genitotropic strains. Infect Immun 73, 6407-6418.
2. Giovannoni, S. J., Tripp, H. J., Givan, S. & 11 other authors (2005). Genome streamlining in a cosmopolitan oceanic bacterium. Science 309, 1242-1245.
3. Joardar, V., Lindeberg, M., Jackson, R. W. & 29 other authors (2005). Whole-genome sequence analysis of Pseudomonas syringae pv. phaseolicola 1448A reveals divergence among pathovars in genes involved in virulence and transposition. J Bacteriol 187, 6488-6498.
4. Kuroda, M., Yamashita, A., Hirakawa, H. & 10 other authors (2005). Whole genome sequence of Staphylococcus saprophyticus reveals the pathogenesis of uncomplicated urinary tract infection. Proc Natl Acad Sci U S A 102, 13272-13277.
5. Li, L., Bannantine, J. P., Zhang, Q., Amonsin, A., May, B. J., Alt, D., Banerji, N., Kanjilal, S. & Kapur, V. (2005). The complete genome sequence of Mycobacterium avium subspecies paratuberculosis. Proc Natl Acad Sci U S A 102, 12344-12349.
6. Médigue, C., Krin, E., Pascal, G. & 21 other authors (2005). Coping with cold: the genome of the versatile marine Antarctica bacterium Pseudoalteromonas haloplanktis TAC125. Genome Res 15, 1325-1335.
7. Raghavana, S., Hariharanb, R. & Brahmachari, S. K. (2000). Polypurine polypyrimidine sequences in complete bacterial genomes: preference for polypurines in protein-coding regions. Gene 242, 275-283.
8. Tettelin, H., Masignani, V., Cieslewicz, M. J. & 43 other authors (2005). Genome analysis of multiple pathogenic isolates of Streptococcus agalactiae: implications for the microbial 'pan-genome'. Proc Natl Acad Sci U S A 102, 13950-13955.
9. Thieme, F., Koebnik, R., Bekel, T. & 26 other authors (2005). Insights into genome plasticity and pathogenicity of the plant pathogenic bacterium Xanthomonas campestrz S pv. vesicatoria revealed by the complete genome sequence. J Bacteriol 187, 7254-7266.
10. Ussery, D., Soumpasis, D. M., Brunak, S., Staerfeldt, H. H., Worning, P. & Krogh, A. (2002). Bias of purine stretches in sequenced chromosomes. Comput Chem 26, 531-541.
11. Worning, P., Jensen, L. J., Hallin, P. F., Stærfeldt, H.-H. & Ussery, D. W. (2005). Origin of replication in circular prokaryotic chromosomes. Environ Microbiol (in press). doi:10.1111/j.1462-2920.2005.00917.x