ISAfe1, an ISL3 family insertion sequence from Acidithiobacillus ferrooxidans ATCC 19859

D. S. Holmes, H. L. Zhao, G. Levican, J. Ratouchniak, V. Bonnefoy, P. Varela, E. Jedlicki

Resultado de la investigación: Article

16 Citas (Scopus)

Resumen

A 1.3-kb insertion sequence, termed ISAfe1 (U66426), from Acidithiobacillus ferrooxidans ATCC 19859 is described. ISAfe1 exhibits the features of a typical bacterial insertion sequence. It has 26-bp, imperfectly matched, terminal inverted repeats and an open reading frame (ORF) that potentially encodes a transposase (TPase) of 404 amino acids (AAB07489) with significant similarity to members of the ISL3 family of insertion sequences. A potential ribosome-binding site and potential -10 and -35 promoter sites for the TPase ORF were identified, and a +1 transcriptional start site was detected experimentally. A potential outwardly directed -35 site was identified in the right inverted repeat of ISAfe1. A second ORF (ORF B), of unknown function, was found on the complementary strand with significant similarity to ORF 2 of ISAe1 from Ralstonia eutropha. Southern blot analyses demonstrated that ISAfe1-like elements can be found in multiple copies in a variety of A. ferrooxidans strains and that they exhibit transposition. A codon adaptation index (CAI) analysis of the TPase of ISAfe1 indicates that is has a CAI of 0.726 and can be considered well adapted to its host, suggesting that ISAfe1 might be an ancient resident of A. ferrooxidans. Analysis of six of its target sites of insertion in the genome of A. ferrooxidans ATCC 19859 indicates a preference for 8-bp pseudopalindromic sequences, one of which resembles the termini of its inverted repeats. Evidence is presented here that is consistent with the possibility that ISAfe1 can promote both plasmid cointegrate formation and resolution in E. coli.

Idioma originalEnglish
Páginas (desde-hasta)4323-4329
Número de páginas7
PublicaciónJournal of Bacteriology
Volumen183
N.º14
DOI
EstadoPublished - 2001

Huella dactilar

Acidithiobacillus
Insertional Mutagenesis
Open Reading Frames
Transposases
Codon
Cupriavidus necator
Terminal Repeat Sequences
Southern Blotting
Ribosomes
Plasmids
Binding Sites
Genome
Escherichia coli
Amino Acids

ASJC Scopus subject areas

  • Applied Microbiology and Biotechnology
  • Immunology
  • Microbiology
  • Molecular Biology

Citar esto

Holmes, D. S., Zhao, H. L., Levican, G., Ratouchniak, J., Bonnefoy, V., Varela, P., & Jedlicki, E. (2001). ISAfe1, an ISL3 family insertion sequence from Acidithiobacillus ferrooxidans ATCC 19859. Journal of Bacteriology, 183(14), 4323-4329. https://doi.org/10.1128/JB.183.14.4323-4329.2001
Holmes, D. S. ; Zhao, H. L. ; Levican, G. ; Ratouchniak, J. ; Bonnefoy, V. ; Varela, P. ; Jedlicki, E. / ISAfe1, an ISL3 family insertion sequence from Acidithiobacillus ferrooxidans ATCC 19859. En: Journal of Bacteriology. 2001 ; Vol. 183, N.º 14. pp. 4323-4329.
@article{fa8c038bfe464e21b0c552511adda389,
title = "ISAfe1, an ISL3 family insertion sequence from Acidithiobacillus ferrooxidans ATCC 19859",
abstract = "A 1.3-kb insertion sequence, termed ISAfe1 (U66426), from Acidithiobacillus ferrooxidans ATCC 19859 is described. ISAfe1 exhibits the features of a typical bacterial insertion sequence. It has 26-bp, imperfectly matched, terminal inverted repeats and an open reading frame (ORF) that potentially encodes a transposase (TPase) of 404 amino acids (AAB07489) with significant similarity to members of the ISL3 family of insertion sequences. A potential ribosome-binding site and potential -10 and -35 promoter sites for the TPase ORF were identified, and a +1 transcriptional start site was detected experimentally. A potential outwardly directed -35 site was identified in the right inverted repeat of ISAfe1. A second ORF (ORF B), of unknown function, was found on the complementary strand with significant similarity to ORF 2 of ISAe1 from Ralstonia eutropha. Southern blot analyses demonstrated that ISAfe1-like elements can be found in multiple copies in a variety of A. ferrooxidans strains and that they exhibit transposition. A codon adaptation index (CAI) analysis of the TPase of ISAfe1 indicates that is has a CAI of 0.726 and can be considered well adapted to its host, suggesting that ISAfe1 might be an ancient resident of A. ferrooxidans. Analysis of six of its target sites of insertion in the genome of A. ferrooxidans ATCC 19859 indicates a preference for 8-bp pseudopalindromic sequences, one of which resembles the termini of its inverted repeats. Evidence is presented here that is consistent with the possibility that ISAfe1 can promote both plasmid cointegrate formation and resolution in E. coli.",
author = "Holmes, {D. S.} and Zhao, {H. L.} and G. Levican and J. Ratouchniak and V. Bonnefoy and P. Varela and E. Jedlicki",
year = "2001",
doi = "10.1128/JB.183.14.4323-4329.2001",
language = "English",
volume = "183",
pages = "4323--4329",
journal = "Journal of Bacteriology",
issn = "0021-9193",
publisher = "American Society for Microbiology",
number = "14",

}

Holmes, DS, Zhao, HL, Levican, G, Ratouchniak, J, Bonnefoy, V, Varela, P & Jedlicki, E 2001, 'ISAfe1, an ISL3 family insertion sequence from Acidithiobacillus ferrooxidans ATCC 19859', Journal of Bacteriology, vol. 183, n.º 14, pp. 4323-4329. https://doi.org/10.1128/JB.183.14.4323-4329.2001

ISAfe1, an ISL3 family insertion sequence from Acidithiobacillus ferrooxidans ATCC 19859. / Holmes, D. S.; Zhao, H. L.; Levican, G.; Ratouchniak, J.; Bonnefoy, V.; Varela, P.; Jedlicki, E.

En: Journal of Bacteriology, Vol. 183, N.º 14, 2001, p. 4323-4329.

Resultado de la investigación: Article

TY - JOUR

T1 - ISAfe1, an ISL3 family insertion sequence from Acidithiobacillus ferrooxidans ATCC 19859

AU - Holmes, D. S.

AU - Zhao, H. L.

AU - Levican, G.

AU - Ratouchniak, J.

AU - Bonnefoy, V.

AU - Varela, P.

AU - Jedlicki, E.

PY - 2001

Y1 - 2001

N2 - A 1.3-kb insertion sequence, termed ISAfe1 (U66426), from Acidithiobacillus ferrooxidans ATCC 19859 is described. ISAfe1 exhibits the features of a typical bacterial insertion sequence. It has 26-bp, imperfectly matched, terminal inverted repeats and an open reading frame (ORF) that potentially encodes a transposase (TPase) of 404 amino acids (AAB07489) with significant similarity to members of the ISL3 family of insertion sequences. A potential ribosome-binding site and potential -10 and -35 promoter sites for the TPase ORF were identified, and a +1 transcriptional start site was detected experimentally. A potential outwardly directed -35 site was identified in the right inverted repeat of ISAfe1. A second ORF (ORF B), of unknown function, was found on the complementary strand with significant similarity to ORF 2 of ISAe1 from Ralstonia eutropha. Southern blot analyses demonstrated that ISAfe1-like elements can be found in multiple copies in a variety of A. ferrooxidans strains and that they exhibit transposition. A codon adaptation index (CAI) analysis of the TPase of ISAfe1 indicates that is has a CAI of 0.726 and can be considered well adapted to its host, suggesting that ISAfe1 might be an ancient resident of A. ferrooxidans. Analysis of six of its target sites of insertion in the genome of A. ferrooxidans ATCC 19859 indicates a preference for 8-bp pseudopalindromic sequences, one of which resembles the termini of its inverted repeats. Evidence is presented here that is consistent with the possibility that ISAfe1 can promote both plasmid cointegrate formation and resolution in E. coli.

AB - A 1.3-kb insertion sequence, termed ISAfe1 (U66426), from Acidithiobacillus ferrooxidans ATCC 19859 is described. ISAfe1 exhibits the features of a typical bacterial insertion sequence. It has 26-bp, imperfectly matched, terminal inverted repeats and an open reading frame (ORF) that potentially encodes a transposase (TPase) of 404 amino acids (AAB07489) with significant similarity to members of the ISL3 family of insertion sequences. A potential ribosome-binding site and potential -10 and -35 promoter sites for the TPase ORF were identified, and a +1 transcriptional start site was detected experimentally. A potential outwardly directed -35 site was identified in the right inverted repeat of ISAfe1. A second ORF (ORF B), of unknown function, was found on the complementary strand with significant similarity to ORF 2 of ISAe1 from Ralstonia eutropha. Southern blot analyses demonstrated that ISAfe1-like elements can be found in multiple copies in a variety of A. ferrooxidans strains and that they exhibit transposition. A codon adaptation index (CAI) analysis of the TPase of ISAfe1 indicates that is has a CAI of 0.726 and can be considered well adapted to its host, suggesting that ISAfe1 might be an ancient resident of A. ferrooxidans. Analysis of six of its target sites of insertion in the genome of A. ferrooxidans ATCC 19859 indicates a preference for 8-bp pseudopalindromic sequences, one of which resembles the termini of its inverted repeats. Evidence is presented here that is consistent with the possibility that ISAfe1 can promote both plasmid cointegrate formation and resolution in E. coli.

UR - http://www.scopus.com/inward/record.url?scp=0034967262&partnerID=8YFLogxK

U2 - 10.1128/JB.183.14.4323-4329.2001

DO - 10.1128/JB.183.14.4323-4329.2001

M3 - Article

C2 - 11418574

AN - SCOPUS:0034967262

VL - 183

SP - 4323

EP - 4329

JO - Journal of Bacteriology

JF - Journal of Bacteriology

SN - 0021-9193

IS - 14

ER -