Sequence, assembly and analysis of px01 and px02

R. Okinaka, K. Cloud, O. Hampton, A. Hoffmaster, K. Hill, Paul S Keim, T. Koehler, G. Lamke, S. Kumano, D. Manter, Y. Martinez, D. Ricke, R. Svensson, P. Jackson

Research output: Contribution to journalArticle

130 Citations (Scopus)

Abstract

Bacillus anthracis plasmids pX01 and pX02, harboured by the Sterne and Pasteur strains, respectively, have been sequenced by random 'shotgun' cloning and high throughout sequence analysis. These sequences have been assembled (Sequencher) to generate a circulate pX01 plasmid containing 181 656 bp and a single linear (gapped) pX02 contig containing at least 93.479 bp. Initial annotation suggests that the two plasmids combined contain at least 200 potential open reading frames (ORFs) with < 40% having significant similarity to sequences registered in open databases. Collectively, only 118 566 bp of the pX01 DNA (65%) represent predicted coding regions. This value is similar to published gene densities for other plasmids and is indicative of the larger intergenic spaces in plasmids vs those found in the chromosomes of the parental microbes (85-93% gene density). A 70 kbp region including the toxin genes (cya, lef and pag) is distinct from the remainder of the pX01 sequence: (1) it has a lower gene density (58 vs 70%) than the remaining 111 kbp; (2) it contains all but one of the co-regulated transcriptional fusions identified by transposon mutagenesis (Hoffmaster and Koehler 1997) and (3) it contains a significantly higher proportion of positive BLAST scores (62 vs 20%) for putative ORFs. These data suggest different origins for the two regions of pX01.

Original languageEnglish (US)
Pages (from-to)261-262
Number of pages2
JournalJournal of Applied Microbiology
Volume87
Issue number2
DOIs
StatePublished - 1999

Fingerprint

Sequence Analysis
plasmids
Plasmids
Open Reading Frames
Genes
open reading frames
genes
Bacillus anthracis
Firearms
mutagenesis
Mutagenesis
transposons
Organism Cloning
molecular cloning
toxins
sequence analysis
Chromosomes
Databases
chromosomes
microorganisms

ASJC Scopus subject areas

  • Agricultural and Biological Sciences(all)
  • Applied Microbiology and Biotechnology
  • Biotechnology
  • Microbiology

Cite this

Okinaka, R., Cloud, K., Hampton, O., Hoffmaster, A., Hill, K., Keim, P. S., ... Jackson, P. (1999). Sequence, assembly and analysis of px01 and px02. Journal of Applied Microbiology, 87(2), 261-262. https://doi.org/10.1046/j.1365-2672.1999.00883.x

Sequence, assembly and analysis of px01 and px02. / Okinaka, R.; Cloud, K.; Hampton, O.; Hoffmaster, A.; Hill, K.; Keim, Paul S; Koehler, T.; Lamke, G.; Kumano, S.; Manter, D.; Martinez, Y.; Ricke, D.; Svensson, R.; Jackson, P.

In: Journal of Applied Microbiology, Vol. 87, No. 2, 1999, p. 261-262.

Research output: Contribution to journalArticle

Okinaka, R, Cloud, K, Hampton, O, Hoffmaster, A, Hill, K, Keim, PS, Koehler, T, Lamke, G, Kumano, S, Manter, D, Martinez, Y, Ricke, D, Svensson, R & Jackson, P 1999, 'Sequence, assembly and analysis of px01 and px02', Journal of Applied Microbiology, vol. 87, no. 2, pp. 261-262. https://doi.org/10.1046/j.1365-2672.1999.00883.x
Okinaka, R. ; Cloud, K. ; Hampton, O. ; Hoffmaster, A. ; Hill, K. ; Keim, Paul S ; Koehler, T. ; Lamke, G. ; Kumano, S. ; Manter, D. ; Martinez, Y. ; Ricke, D. ; Svensson, R. ; Jackson, P. / Sequence, assembly and analysis of px01 and px02. In: Journal of Applied Microbiology. 1999 ; Vol. 87, No. 2. pp. 261-262.
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