Whole genome fingerprinting and genotyping of multiple drug resistant (MDR) isolates of Pseudomonas aeruginosa from endophthalmitis patients in India

Ahmed, Niyaz; Bal, Abhijit M.; Khan, Aleem Ahmed; Alam, Mahfooz; Kagal, Anju; Arjunwadkar, Vidya; Rajput, A. H.; Majeed, Ahmed A.; Rahman, Syed Asad; Banerjee, Sharmistha; Joshi, Suvarna; Bharadwaj, Renu

doi:10.1016/s1567-1348(02)00030-8

Cited by 12 publications

(14 citation statements)

References 14 publications

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“…Heat-killed cells of isolates from three Australian sea lions, one Australian fur seal and six South American fur seals were digested by using EcoRI/MseI and analysed by FAFLP, using methods described previously (Ahmed et al, 2002(Ahmed et al, , 2003. Analyses were based on the differential amplification of 131 genomic loci.…”

Section: Methodsmentioning

confidence: 99%

Tuberculosis in seals caused by a novel member of the Mycobacterium tuberculosis complex: Mycobacterium pinnipedii sp. nov.

Cousins

Bastida

Cataldi

et al. 2003

International Journal of Systematic and Evolutionary Microbiology

277

182

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A comparison of Mycobacterium tuberculosis complex isolates from seals (pinnipeds) in Australia, Argentina, Uruguay, Great Britain and New Zealand was undertaken to determine their relationships to each other and their taxonomic position within the complex. Isolates from 30 cases of tuberculosis in six species of pinniped and seven related isolates were compared to representative and standard strains of the M. tuberculosis complex. The seal isolates could be distinguished from other members of the M. tuberculosis complex, including the recently defined 'Mycobacterium canettii ' and 'Mycobacterium caprae', on the basis of host preference and phenotypic and genetic tests. Pinnipeds appear to be the natural host for this 'seal bacillus', although the organism is also pathogenic in guinea pigs, rabbits, humans, Brazilian tapir (Tapirus terrestris) and, possibly, cattle. Infection caused by the seal bacillus is predominantly associated with granulomatous lesions in the peripheral lymph nodes, lungs, pleura, spleen and peritoneum. Cases of disseminated disease have been found. As with other members of the M. tuberculosis complex, aerosols are the most likely route of transmission. The name Mycobacterium pinnipedii sp. nov. is proposed for this novel member of the M. tuberculosis complex (the type strain is 6482 T =ATCC BAA-688 T =NCTC 13288 T ).Abbreviations: BCG, Bacille Calmette-Gué rin; FAFLP, fluorescent amplified fragment length polymorphism; PZA, pyrazinamide; SS, seal spoligotype; TCH, thiophen-2-carboxylic acid hydrazide.

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Section: Methodsmentioning

confidence: 99%

Tuberculosis in seals caused by a novel member of the Mycobacterium tuberculosis complex: Mycobacterium pinnipedii sp. nov.

Cousins

Bastida

Cataldi

et al. 2003

International Journal of Systematic and Evolutionary Microbiology

277

182

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“…Fluorescent amplified fragment length polymorphism (FAFLP) is a genotyping technique that has been successfully used to investigate outbreaks of infection by Pseudomonas aeruginosa (Ahmed et al, 2002), Streptococcus pyogenes (Desai et al, 1998), Staphylococcus aureus (Grady et al, 2000), Neisseria meningitidis (Goulding et al, 2000), Vibrio cholerae (Thompson et al, 2003) and Mycobacterium tuberculosis (Ahmed et al, 2003). FAFLP analysis generates specific profiles for each strain under examination.…”

Section: Introductionmentioning

confidence: 99%

Microevolution between paired antral and paired antrum and corpus Helicobacter pylori isolates recovered from individual patients

Carroll

Ahmed

Beesley

et al. 2004

Journal of Medical Microbiology

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Sequence variations located at the signal sequence and mid-region within the vacA gene, the 39-end of the cagA gene, the indel motifs at the 39-end of the cag pathogenicity island and the regions upstream of the vacA and ribA genes were determined by PCR in 19 paired antral or antrum and corpus Helicobacter pylori isolates obtained at the same endoscopic session, and three antral pairs taken sequentially. Random amplification of polymorphic DNA (RAPD)-PCR and fluorescent amplified fragment length polymorphism (FAFLP)-PCR fingerprinting were applied to these paired clinical isolates. The FAFLP-PCR profiles generated were phylogenetically analysed. For the 22 paired isolates there were no differences within pairs at five of the genetic loci studied. However, six pairs of isolates (27 %), of which four were antrum and corpus pairs, showed differences in the numbers of repeats located at the 39-end of the cagA gene. RAPD-PCR fingerprinting showed that 16 (73 %) pairs, nine of which were antrum and corpus pairs, possessed identical profiles, while six (27 %) displayed distinctly different profiles, indicating mixed infections. Three of the six pairs showing differences at the 39-end of the cagA gene yielded identical RAPD-PCR fingerprints. FAFLP-PCR fingerprinting and phylogenetic analysis revealed that all 16 pairs that displayed identical RAPD-PCR profiles had highly similar, but not identical, fingerprints, demonstrating that these pairs were ancestrally related but had undergone minor genomic alterations. Two antrum and corpus pairs of isolates, within the latter group, were isolates obtained from two siblings from the same family. This analysis demonstrated that each sibling was colonized by ancestrally related strains that exhibited differences in vacA genotype characteristics.

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“…Whole-genome DNA typing methods, such as fluorescent amplified fragment length polymorphisms (FAFLP) (1,2,13,14), have made it feasible to robustly analyze isolates from different patient populations at the genome sequence interface (2). Here we describe the data supporting genotypic diversity of natural strains of M. tuberculosis from patients with and without human immunodeficiency virus type 1 (HIV-1) infection.…”

mentioning

confidence: 99%

“…Standard reference strains M. tuberculosis H37Rv (virulent strain) and M. tuberculosis Erdman were used, and Mycobacterium bovis AN5, M. bovis ATCC 27290, M. bovis ATCC 27291, M. bovis BCG, seal bacillus, Mycobacterium microti, and Mycobacterium africanum were also studied as controls at various levels. Genomic DNA was prepared from all the isolates by a standard method described elsewhere (2) and processed for FAFLP analysis (1,2,13).…”

mentioning

confidence: 99%

Distinctiveness of Mycobacterium tuberculosis Genotypes from Human Immunodeficiency Virus Type 1-Seropositive and -Seronegative Patients in Lima, Peru

et al. 2003

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Genotypic analysis of Mycobacterium tuberculosis isolates obtained from human immunodeficiency virus type 1 (HIV-1)-seropositive (n ‫؍‬ 80) and -seronegative (n ‫؍‬ 25) patients from Lima, Peru, revealed two distinct genotypes correlating with the host immune status. While the level of intrastrain diversity of DNA fingerprints of HIV-seropositive isolates was less pronounced, these isolates showed many clonal groupings.

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Whole genome fingerprinting and genotyping of multiple drug resistant (MDR) isolates of Pseudomonas aeruginosa from endophthalmitis patients in India

Cited by 12 publications

References 14 publications

Tuberculosis in seals caused by a novel member of the Mycobacterium tuberculosis complex: Mycobacterium pinnipedii sp. nov.

Tuberculosis in seals caused by a novel member of the Mycobacterium tuberculosis complex: Mycobacterium pinnipedii sp. nov.

Microevolution between paired antral and paired antrum and corpus Helicobacter pylori isolates recovered from individual patients

Distinctiveness of Mycobacterium tuberculosis Genotypes from Human Immunodeficiency Virus Type 1-Seropositive and -Seronegative Patients in Lima, Peru

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