ArticleBMC genomics2017
Global transcriptional landscape and promoter mapping of the gut commensal Bifidobacterium breve UCC2003.
Article in BMC genomics, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
20 citing papers in PubMed, 32 citations in OpenAlex.
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- Human Milk Oligosaccharide Utilization in Intestinal Bifidobacteria Is Governed by Global Transcriptional Regulator NagR.mSystems · 2022Article
- The Gene Expression Profile Differs in Growth Phases of theMicroorganisms · 2022Article
- Maximum depth sequencing reveals an ON/OFF replication slippage switch and apparent in vivo selection for bifidobacterial pilus expression.Scientific reports · 2022Article
- Bifidobacterium species associated with breastfeeding produce aromatic lactic acids in the infant gut.Nature microbiology · 2021Observational
- Systematic dissection of σCell reports · 2021Article
- Molecular analysis of the replication functions of the bifidobacterial conjugative megaplasmid pMP7017.Microbial biotechnology · 2021Article
- A Resource for Cloning and Expression Vectors Designed for Bifidobacteria: Overview of Available Tools and Biotechnological Applications.Methods in molecular biology (Clifton, N.J.) · 2021Review
- Broad Purpose Vector for Site-Directed Insertional Mutagenesis inFrontiers in microbiology · 2021Article
- Construction of a reporter system for bifidobacteria using chloramphenicol acetyltransferase and its application for evaluation of promoters and terminators.Bioscience of microbiota, food and health · 2021Article
- Application of Recombinase-Based In Vivo Expression Technology toMicroorganisms · 2020Article
- Structure of a Core Promoter in Bifidobacterium longum NCC2705.Journal of bacteriology · 2020Article
- Gene Networks Underlying the Resistance ofFrontiers in immunology · 2020Article
- Effects of Linoleic Acid on Gut-DerivedMicroorganisms · 2019Article
- Transcriptional control of central carbon metabolic flux in Bifidobacteria by two functionally similar, yet distinct LacI-type regulators.Scientific reports · 2019Article
- Metabolism of the predominant human milk oligosaccharide fucosyllactose by an infant gut commensal.Scientific reports · 2019Article
- Dissecting the Evolutionary Development of the SpeciesApplied and environmental microbiology · 2019Article
- Bifidobacterium breve UCC2003 Employs Multiple Transcriptional Regulators To Control Metabolism of Particular Human Milk Oligosaccharides.Applied and environmental microbiology · 2018Article
Corrections and comments
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Authors and funding
8 authors at 3 institutions in 3 countries.
Funding
Abstract
backgroundBifidobacterium 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.
resultsThe 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.
conclusionThe 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.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.