Comparative studies of the Acinetobacter genus and the species identification method based on the recA sequences

Krawczyk, Beata; Lewandowski, Krzysztof; Kur, Józef

doi:10.1006/mcpr.2001.0388

Cited by 70 publications

(60 citation statements)

References 44 publications

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“…Annealing temperatures and additional PCR amplification cycles may influence PCR specificity (Krawczyk et al, 2002). In the present study, the most appropriate conditions for our primer pairs were an annealing temperature of 65°C and 25 cycles of PCR amplification.…”

Section: Resultsmentioning

confidence: 91%

“…On the other hand, all DNA sequences were submitted to GenBank (accession number: KX987658-KX987837), and this accumulated sequence data could be applied to design specific primers for direct identification of particular microbials (Krawczyk et al, 2002). The speciesspecific primer has been established for B. subtilis based on Endo-beta 1,4-glucanase gene and ytcP (encoding a hypothetical protein similar to a ABC-type transporter) gene (Ashe et al, 2014;Kwon et al, 2009).…”

Section: Resultsmentioning

confidence: 99%

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Use of novel specific primers targeted to pheS and tuf gene for species and subspecies identification and differentiation of the Bacillus subtilis subsp. subtilis, Bacillus amyloliquefaciens and Bacillus licheniformis

Huang¹,

Huang²,

Chang³

et al. 2017

Afr. J. Microbiol. Res.

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To clearly delimit the members of the Bacillus subtilis group (BSG), is difficult using common phenotypic and genotypic methods. This study described the use of pheS and tuf gene as targets for interspecies discrimination within the BSG, and also to develop specific PCR and SNP primers for species and subspecies identification and differentiation. The average sequence similarity values of the pheS and tuf gene among type strains were 85.1 and 94.7%, respectively, and all members of the BSG could be clearly distinguished based on phylogenetic analyses of pheS gene sequence. In addition, the specific primers were designed according to pheS and tuf gene sequence. The primers were shown to specifically identify B. subtilis subsp. subtilis, B. amyloliquefaciens and Bacillus licheniformis, and clearly differentiate the subspecies of B. amyloliquefaciens using specific-PCR, combined with two-plex minisequencing method. In conclusion, we have successfully established a comparative sequence analysis and rapid molecular diagnosis techniques for determination of interspecies within the BSG.

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Section: Resultsmentioning

confidence: 91%

Section: Resultsmentioning

confidence: 99%

Use of novel specific primers targeted to pheS and tuf gene for species and subspecies identification and differentiation of the Bacillus subtilis subsp. subtilis, Bacillus amyloliquefaciens and Bacillus licheniformis

Huang¹,

Huang²,

Chang³

et al. 2017

Afr. J. Microbiol. Res.

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“…However, there have been some drawbacks with this differentiation method, particularly in the case of species that have similar sequences. 16S sRNA sequencing is not satisfactorily polymorphic to all Acinetobacter species because of its extremely slow rate of base substitution [12]. On the other hand, the RNA polymerase β-subunit (rpoB) gene sequences seem to possess better discriminatory powers and reliability than does 16S rRNA gene sequencing in these specific cases [23].…”

Section: S Rrna Sequencingmentioning

confidence: 99%

“…The discriminatory powers of Tsp5091 were found to be very satisfactory, generating an individual profile for 23 genomic species. Furthermore, PFGE is also used as an auxiliary method, which adds to the cost of this method [12,35]. However, there are unresolved issues in terms of reproducibility and inter-laboratory sharing of results.…”

Section: Amplification and Restriction Fragment Length Polymorphism Amentioning

confidence: 99%

“…A different and largely adopted 19 biochemical test pattern developed by Bouvet and Grimont [11] identified 12 different Acinetobacter species. Further studies revealed its inability to discriminate all genomic species identified by DNA-DNA hybridization [11,12]. Unfortunately, the differentiation of genetically closely related species in an ACB complex is not possible using this method.…”

Section: Introductionmentioning

confidence: 99%

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Genotyping methods for monitoring the epidemic evolution of A. baumannii strains

Ahmed

Alp

2015

J Infect Dev Ctries

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Acinetobacter baumannii is clustered with other phenotypically similar species into what has commonly become known as the ACB complex: A. calcoaceticus, A. pittii and, A. nosocomialis. The ecology and pathology of most of these species are not well understood, mainly because current specific phenotypic techniques have, to date, been insufficient. This has inhibited both the precise identification of, as well as the ability to discriminate between, these clinically important and closely related Acinetobacter strains. However, new genotypic methods have greatly enhanced our capacity to identify the ACB complex. This has resulted in the implementation of more rational infection control programs. Several genotypic identification methods are explored in this study, including non-polymerase chain reaction (PCR)-based and PCR-based methods. These methods include ribotyping, pulsed-field gel electrophoresis, 16S rRNA identification, multilocus sequence typing, single locus sequence typing, restriction fragment length polymorphism analysis, restriction analysis of 16S-23S rRNA intergenic spacer sequences, rapid amplification of polymorphic DNA, and repetitive extragenic palindromic PCR; however, there is no current single ideal genotyping method. Each one has its own advantages and disadvantages. With this in mind we reviewed current and new genotyping methods used to characterize the Acinetobacter species.

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Discrimination of the Lactobacillus acidophilus group using sequencing, species‐specific PCR and SNaPshot mini‐sequencing technology based on the recA gene

et al. 2012

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Comparative studies of the Acinetobacter genus and the species identification method based on the recA sequences

Cited by 70 publications

References 44 publications

Use of novel specific primers targeted to pheS and tuf gene for species and subspecies identification and differentiation of the Bacillus subtilis subsp. subtilis, Bacillus amyloliquefaciens and Bacillus licheniformis

Use of novel specific primers targeted to pheS and tuf gene for species and subspecies identification and differentiation of the Bacillus subtilis subsp. subtilis, Bacillus amyloliquefaciens and Bacillus licheniformis

Genotyping methods for monitoring the epidemic evolution of A. baumannii strains

Discrimination of the Lactobacillus acidophilus group using sequencing, species‐specific PCR and SNaPshot mini‐sequencing technology based on the recA gene

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