Short, interspersed repetitive DNA sequences in prokaryotic genomes

Lupski, James R.; Weinstock, George M.

doi:10.1128/jb.174.14.4525-4529.1992

Cited by 309 publications

(204 citation statements)

References 70 publications

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“…This sequence contains flanking 19 bp inverted repeats and is present in at least 20 copies in the gonococcal genome (Correia e t al., 1988). This repeat has subsequently been given numerous names such as NR and Ng-rep (Bhat et al, 1991;Lupski & Weinstock, 1992). For consistency in the naming of repeats, we suggest that this repeat be named RS5.…”

Section: A -T Stop a -T Tga Ac T T 'Gttgcamentioning

confidence: 99%

Organization of carbamoyl-phosphate synthase genes in Neisseria gonorrhoeae includes a large, variable intergenic sequence which is also present in other Neisseria species

Lawson

Billowes

Dillon³

1995

Microbiology

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The carbamoyl-phosphate synthase (CPS) enzyme in prokaryotes is a heterodimer, encoded by genes commonly called carA and carB. In most prokaryotes examined, these genes are separated by up to 24 bp and are COI transcribed. In Pseudomonas aeruginosa, carA and carB are also co-transcribed, but are separated by 682 bp. We have determined the complete DNA sequence of the carA and carB genes of Neisreria gonowhoeae strain CH811. carA (1125 bp) and carB (3237 bp) are similar in size and sequence t o other prokaryotic CPS genes, however they are separated by an intervening sequence of 3290 bp which has no similarity to the intervening sequence between other CPS genes; furthermore, putative transcription terminators are found downstream of both carA and am. Several neisserial repetitive sequences were identified within the 9 kb sequenced, as well as novel 120 and 150 bp repeats (designated RS6 and RS7, respectively) which were found within the intervening sequence between carA and carB. To determine whether the intervening sequence observed in N. gonorrhoeae CH811 was not unusual, the sequence between carA and CarB was amplified by PCR from 30 isolates of N. gonorrhoeae. The intervening sequence was found to vary in size, from approximately 2.2 to 3.7 kb, although the carA and carB genes themselves did not vary in size in isolates with functional CPS enzyme. A similar large, variably sized intervening sequence was also found between the carA and carB genes of 12 isolates of N. meningitidis and 18 commensal Neisseria isolates comprising nine species. This unexpected organization of the CPS genes in N. gonorrhoeae is therefore widespread throughout the genus Neisseria.

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Section: A -T Stop a -T Tga Ac T T 'Gttgcamentioning

confidence: 99%

Organization of carbamoyl-phosphate synthase genes in Neisseria gonorrhoeae includes a large, variable intergenic sequence which is also present in other Neisseria species

Lawson

Billowes

Dillon³

1995

Microbiology

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“…PCR with these primers generate genomic fingerprints of sufficient complexity for similarity studies within different strains of a species. ERIC and REP sequences were originally identified in the genome of Escherichia coli and Salmonella typhimurium (Lupski & Weinstock, 1992) while the BOX repetitive DNA element was first found in the genome of Streptococcus pneumoniae (Martin et al, 1992).…”

Section: Ericmentioning

confidence: 99%

Rapid identification of Staphylococcus epidermidis.

Wieser¹,

Busse²

2000

International Journal of Systematic and Evolutionary Microbiology

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During the collection of airborne bacteria in a museum in England some bacterial strains were isolated which due to their fatty acid profiles were clearly identified as members of the genus Staphylococcus. As fatty acid compositions of coagulase-negative staphylococci are very similar, differing only in quantities but not in qualities, further identification at the species level without a fatty acid database was not achieved. Investigation of the isolates using the Staph ID 32 API system resulted in an identification of the isolates as

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“…A 40-ng quantity of genomic DNA or distilled water was added to the reaction tubes as a negative control. The primers were sequences corresponding to REP, a subunit of the REP element (Lupski and Weinstock al., 1992): (REP1R-I [5'-IIIICGICGICATCIGGC-3'] and REP2-I [5'-ICGICTTATCIGGCCTAC-3']). The PCR conditions were as previously described (de Bruijn, 1992).…”

Section: Rep-pcrmentioning

confidence: 99%

Pseudomonas syringae: Pathogen of sweet cherry in Serbia

et al. 2012

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SUMMARYCharacteristics of pathogenic Pseudomonas bacterial strains isolated from cherry in Serbia are presented in the article. Two types of symptoms were observed on cherry trees at few localities with intensive production in Serbia (Belgrade, Čačak, Topola, Šabac, Novi Sad). The first symptom is bud necrosis and the second bacterial canker of cherry branch.Gram negative, fluorescent, oxidative bacterial strains were isolated from the margin of necrotic tissue. All investigated strains were levan and HR positive, while negative results were recorded for oxidase, pectinase and arginin dihydrolase tests (LOPAT+---+).Based on pathogenicity tests and differential GATT tests, investigated strains were divided in two distinct groups: the first group consisted of strains isolated from necrotic cherry branch which caused necrosis on artificially inoculated cherry, pear and lemon fruits, syringae leaves and bean pods, were gelatin and aesculin positive, and tyrosinase and tartrate negative (typical characteristics of P.s. pv. syringae). Contrary, second group strains were isolated from necrotic cherry buds, showed negative results in mentioned pathogenicity tests, gelatin and aesculin tests were negative, while tyrosinase and tartrate were positive (typical characteristics of P.s. pv. morsprunorum).REP PCR analyses showed that strains isolated from necrotic cherry buds belong to P. s pv. morsprunorum compared to referent strain. In contrast, isolates obtained from necrotic cherry branches had unique fingerprint profiles but different from all reference strains.According to the obtained results it was concluded that both pathovars of P. syringae (syringae and morsprunorum) cause necrosis of cherry trees in Serbia.

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Short, interspersed repetitive DNA sequences in prokaryotic genomes

Cited by 309 publications

References 70 publications

Organization of carbamoyl-phosphate synthase genes in Neisseria gonorrhoeae includes a large, variable intergenic sequence which is also present in other Neisseria species

Organization of carbamoyl-phosphate synthase genes in Neisseria gonorrhoeae includes a large, variable intergenic sequence which is also present in other Neisseria species

Rapid identification of Staphylococcus epidermidis.

Pseudomonas syringae: Pathogen of sweet cherry in Serbia

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