Campylobacter fetus subspecies: Comparative genomics and prediction of potential virulence targets

Ali, Amjad; Soares, Siomar C.; Santos, Anderson; Guimarães, Luís Carlos; Barbosa, Eudes Guilherme Vieria; Almeida, Síntia; Abreu, Vinícius Augusto Carvalho de; Carneiro, Adriana Ribeiro; Ramos, Rommel Thiago Jucá; Bakhtiar, Syeda Marriam; Hassan, Syed Shah; Ussery, David W.; On, Stephen L. W.; Silva, Artur M. S.; Schneider, Maria Paula Cruz; Lage, Andrey Pereira; Miyoshi, Anderson; Azevedo, Vasco

doi:10.1016/j.gene.2012.07.070

Cited by 42 publications

(56 citation statements)

References 68 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…genomes, reported that it contains 552 gene families (Ali et al, 2012;Lefébure and Stanhope, 2009). This latest study included only one C. fetus subsp.…”

Section: Venerealismentioning

confidence: 99%

“…fetus genomes (ATCC19438 and 82-40 respectively) and estimated from these that the C. fetus sp. core genome contains 1 628 gene families (Ali et al, 2012;Fouts et al, 2005;Stynen et al, 2011).…”

Section: Venerealismentioning

confidence: 99%

“…genomes to identify the 1 295 core gene families of C. jejuni (Ali et al, 2012;Friis et al, 2010). Comparative analysis of 96 C. coli and C. jejuni genomes indicated that 76% and 82% of their core genes overlapped while the important number of genomes considered revealed that only 82 and 35 core genes were unique to C. coli and C. jejuni respectively (Lefébure et al, 2010).…”

Section: Venerealismentioning

confidence: 99%

“…fetus were recently estimated to 428 and 88 gene families respectively while 12 and ten putative PAI sequences were predicted from the genome of each subspecies (Ali et al, 2012). Although the PAI reported in C. fetus subsp.…”

Section: Venerealismentioning

confidence: 99%

“…venerealis ATCC19438 was absent in C. fetus subsp. fetus 82-40 genome (Ali et al, 2012), alignment with C. fetus subsp. fetus IMD523's PAI here indicated that they were 83% identical (GenBank Accessions EU443150.2 and FN594949.1).…”

Section: Venerealismentioning

confidence: 99%

See 4 more Smart Citations

Molecular diagnostic protocols for bovine genital campylobacteriosis using comparative genomics and virulence studies

Indjein¹

View full text Add to dashboard Cite

Bovine genital campylobacteriosis is difficult to identify due to problems with the isolation of its causative agent Campylobacter fetus subspecies venerealis. To optimise isolation methods, three selective culture and three transport and enrichment media (TEMs) were evaluated using a pure C. fetus subsp. venerealis culture, with and without simulated field contamination by Pseudomonas aeruginosa. For optimal C. fetus subsp. venerealis isolation and growth, TEMs should be returned from the field within 48h of collection and plated within 4h onto Campylobacter selective agar plates incubated for 48-72h at 37°C under microaerophilic conditions. Longer transport or TEM incubation resulted in overgrowth of P. aeruginosa limiting C. fetus subsp. venerealis recovery.In order to establish an isolate collection, the parA real-time PCR assay was used to screen bull preputial secretions prior to culturing positive samples. A more sensitive real-time PCR assay was designed from the ISCfe1 insertion element and used to assess additional preputial samples, compared to the parA real-time assay. A proportion of real-time negative samples was also cultured. Fourteen cultures were obtained from either ISCfe1 (8/43; 18.6%) or parA (6/51; 11.8%) negative samples. ISCfe1 and parA sequences were obtained from isolates not confirmed by conventional methods suggesting that both parA and ISCfe1 may be found in organisms other than C. fetus subsp. venerealis. Molecular testing of cultures (n=84) confirmed the presence of these sequences in isolates identified as other Campylobacter spp. or Arcobacter-like organisms, while they were not always detected in all biochemically confirmed C. fetus subsp. venerealis isolates. The lack of specificity of all methods highlights the need for more reliable C. fetus subsp. venerealis-specific gene targets.The draft genomes of two C. fetus subsp. venerealis biovars aligned to C. fetus subsp. fetus genome provided 26 unique C. fetus subsp. venerealis regions. In order to identify new diagnostic targets, 13 putative conventional and one real-time PCR assays designed from contigs common to both C. fetus subsp. venerealis biovars were developed to screen the Campylobacter-like culture collection (n=84). Isolates biochemically identified as organisms other than C. fetus subsp.venerealis were positive on the new real-time and six conventional PCR assays, indicating that they were not suitable subspecies-specific markers. Seven assays detected isolates phenotyped as C. fetus subsp. venerealis except for two aerotolerant isolates recognized as C. fetus subsp. venerealis by iii other published methods. These seven gene targets could be further investigated for real-time PCR assay development as in silico BLAST analysis confirmed their conservation in the genomes of five of our C. fetus subsp. venerealis isolates. However, further bioinformatics analysis revealed that they were found in several C. fetus subsp. fetus strains, underlining that a pan-genomics study including multiple C. fetus genomes is ne...

show abstract

“…genomes, reported that it contains 552 gene families (Ali et al, 2012;Lefébure and Stanhope, 2009). This latest study included only one C. fetus subsp.…”

Section: Venerealismentioning

confidence: 99%

Section: Venerealismentioning

confidence: 99%