Type

Journal Article

Authors

Douwe van Sinderen
Marco Ventura
Muireann Egan
Gabriele Andrea Lugli
Chiara Ferrario
Christian Milani
Aldert Zomer
Francesca Bottacini

Subjects

Biochemistry

Topics
mapping bifidobacteria probiotics gut microbiota bifidobacterium breve ucc2003 bifidobacterium breve landscape global genes essential gene expression transcription

Global transcriptional landscape and promoter mapping of the gut commensal Bifidobacterium breve UCC2003 (2017)

Abstract Background: Bifidobacterium breve represents a common member of the infant gut microbiota and its presence in the gut has been associated with host well being. For this reason it is relevant to investigate and understand the molecular mechanisms underlying the establishment, persistence and activities of this gut commensal in the host environment. Results: The assessment of vegetative promoters in the bifidobacterial prototype Bifidobacterium breve UCC2003 was performed employing a combination of RNA tiling array analysis and cDNA sequencing. Canonical −10 (TATAAT) and −35 (TTGACA) sequences were identified upstream of transcribed genes or operons, where deviations from this consensus correspond to transcription level variations. A Random Forest analysis assigned the −10 region of B. breve promoters as the element most impacting on the level of transcription, followed by the spacer length and the 5’-UTR length of transcripts. Furthermore, our transcriptome study also identified rho-independent termination as the most common and effective termination signal of highly and moderately transcribed operons in B. breve. Conclusion: The present study allowed us to identify genes and operons that are actively transcribed in this organism during logarithmic growth, and link promoter elements with levels of transcription of essential genes in this organism. As homologs of many of our identified genes are present across the whole genus Bifidobacterium, our dataset constitutes a transcriptomic reference to be used for future investigations of gene expression in members of this genus.
Collections Ireland -> University College Cork -> APC Microbiome Institute
Ireland -> University College Cork -> College of Science, Engineering and Food Science
Ireland -> University College Cork -> APC Microbiome Institute- Journal Articles
Ireland -> University College Cork -> Microbiology
Ireland -> University College Cork -> Research Institutes and Centres
Ireland -> University College Cork -> Microbiology - Journal Articles

Full list of authors on original publication

Douwe van Sinderen, Marco Ventura, Muireann Egan, Gabriele Andrea Lugli, Chiara Ferrario, Christian Milani, Aldert Zomer, Francesca Bottacini

Experts in our system

1
Douwe van Sinderen
University College Cork
 
2
Marco Ventura
University College Cork
Total Publications: 31
 
3
Muireann Egan
University College Cork
Total Publications: 6
 
4
Gabriele A. Lugli
University College Cork
Total Publications: 17
 
5
Christian Milani
University College Cork
Total Publications: 9
 
6
Aldert Zomer
University College Cork
Total Publications: 12
 
7
Francesca Bottacini
University College Cork