Genomics of Thermophilic &lt;i&gt;Campylobacter&lt;/i&gt; Species

Gaskin, Duncan J. H.; Reuter, Mark; Shearer, Neil; Mulholland, Francis; Pearson, Bruce M.; Vliet, Arnoud H. M. van

doi:10.1159/000235765

Cited by 6 publications

(2 citation statements)

References 74 publications

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“…A motif search using the MEME Motif discovery tool identified the sequence of 5′-aAGGa as conserved RBS motif (Figure 1C). The relatively short 5′ UTRs of the other promoters in intergenic regions are consistent with the C. jejuni genome being tightly packed, since >93% of the genome is thought to contain functional regions [20,54]. With the exception of the annotated TPP riboswitch upstream of the cj0453 ( thiC ) gene [19], there were no metabolite-sensing riboswitches detected in the collection of 5′ UTRs.…”

Section: Resultsmentioning

confidence: 83%

Parallel evolution of genome structure and transcriptional landscape in the Epsilonproteobacteria

et al. 2013

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BackgroundGene reshuffling, point mutations and horizontal gene transfer contribute to bacterial genome variation, but require the genome to rewire its transcriptional circuitry to ensure that inserted, mutated or reshuffled genes are transcribed at appropriate levels. The genomes of Epsilonproteobacteria display very low synteny, due to high levels of reshuffling and reorganisation of gene order, but still share a significant number of gene orthologs allowing comparison. Here we present the primary transcriptome of the pathogenic Epsilonproteobacterium Campylobacter jejuni, and have used this for comparative and predictive transcriptomics in the Epsilonproteobacteria.ResultsDifferential RNA-sequencing using 454 sequencing technology was used to determine the primary transcriptome of C. jejuni NCTC 11168, which consists of 992 transcription start sites (TSS), which included 29 putative non-coding and stable RNAs, 266 intragenic (internal) TSS, and 206 antisense TSS. Several previously unknown features were identified in the C. jejuni transcriptional landscape, like leaderless mRNAs and potential leader peptides upstream of amino acid biosynthesis genes. A cross-species comparison of the primary transcriptomes of C. jejuni and the related Epsilonproteobacterium Helicobacter pylori highlighted a lack of conservation of operon organisation, position of intragenic and antisense promoters or leaderless mRNAs. Predictive comparisons using 40 other Epsilonproteobacterial genomes suggests that this lack of conservation of transcriptional features is common to all Epsilonproteobacterial genomes, and is associated with the absence of genome synteny in this subdivision of the Proteobacteria.ConclusionsBoth the genomes and transcriptomes of Epsilonproteobacteria are highly variable, both at the genome level by combining and division of multicistronic operons, but also on the gene level by generation or deletion of promoter sequences and 5′ untranslated regions. Regulatory features may have evolved after these species split from a common ancestor, with transcriptome rewiring compensating for changes introduced by genomic reshuffling and horizontal gene transfer.

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Section: Resultsmentioning

confidence: 83%

Parallel evolution of genome structure and transcriptional landscape in the Epsilonproteobacteria

et al. 2013

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“…MLST is the least sensitive method for typing, as it is dependent on only seven housekeeping genes (19). PFGE is dependent on point mutations in the enzyme site and is consequently more sensitive, but in C. jejuni the plasticity of the genome is renown and minor changes can falsely indicate strain differences (34). Array-based CGH provides the most discriminatory power utilizing all the genomic detail of the bacterium.…”

Section: Discussionmentioning

confidence: 99%

Genetic Diversity and Antimicrobial Susceptibility of Campylobacter jejuni Isolates Associated with Sheep Abortion in the United States and Great Britain

Sippy

Şahin

et al. 2014

J Clin Microbiol

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Importance of RNA stabilization: evaluation of ansB, ggt, and rpoA transcripts in microaerophilic Campylobacter jejuni 81-176

et al. 2012

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A subset of food-borne Campylobacter jejuni strains utilizes amino acids asparagine and glutamine as carbon sources that may enhance the ability of this microaerophilic pathogen to colonize specific tissues. In this study, we analyzed the transcript sizes of the ansB and ggt genes encoding the periplasmic asparaginase and γ-glutamyltranspeptidase in C. jejuni 81-176, respectively, and compared the expression level of mRNAs at different time points during the growth in vitro. In addition, we included the housekeeping rpoA gene, encoding the α-subunit of DNA-directed RNA polymerase, to monitor sample processing as it has been described as a stable reference gene in gene expression studies in C. jejuni. Our results revealed that both the ansB and ggt genes were expressed in the end of the logarithmic growth phase and their corresponding monocistronic mRNAs were not affected by sample processing steps. In contrast, the mRNAs of the polycistronic operon containing rpoA gene were highly induced at earlier stage of the logarithmic growth and were clearly differentially responding to external factors during cell harvesting step.

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Genomics of Thermophilic <i>Campylobacter</i> Species

Cited by 6 publications

References 74 publications

Parallel evolution of genome structure and transcriptional landscape in the Epsilonproteobacteria

Parallel evolution of genome structure and transcriptional landscape in the Epsilonproteobacteria

Genetic Diversity and Antimicrobial Susceptibility of Campylobacter jejuni Isolates Associated with Sheep Abortion in the United States and Great Britain

Importance of RNA stabilization: evaluation of ansB, ggt, and rpoA transcripts in microaerophilic Campylobacter jejuni 81-176

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