ArticleScientific reports2017
The essential genomic landscape of the commensal Bifidobacterium breve UCC2003.
Article in Scientific reports, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 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.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
22 citing papers in PubMed, 35 citations in OpenAlex.
- Host-associatedCurrent research in food science · 2026Article
- High-resolution analysis of the treated coeliac disease microbiome reveals strain-level variation.Gut microbes · 2025Article
- Strain-Level Differences ofJournal of microbiology and biotechnology · 2025Article
- A CRISPRi Gene Regulation System for Bifidobacteria.Microbial biotechnology · 2025Article
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- Article
- Exploring the Potential of Humoral Immune Response to CommensalBiomedicines · 2024Review
- Harnessing the endogenous Type I-C CRISPR-Cas system for genome editing inApplied and environmental microbiology · 2024Article
- Quantitative Physiology and Proteome Adaptations of Bifidobacterium breve NRBB57 at Near-Zero Growth Rates.Microbiology spectrum · 2023Article
- Identification of essential genes inMicrobial genomics · 2023Article
- M-TUBE enables large-volume bacterial gene delivery using a high-throughput microfluidic electroporation platform.PLoS biology · 2022Article
- Maximum depth sequencing reveals an ON/OFF replication slippage switch and apparent in vivo selection for bifidobacterial pilus expression.Scientific reports · 2022Article
- DEG 15, an update of the Database of Essential Genes that includes built-in analysis tools.Nucleic acids research · 2021Article
- Transposon Insertion Sequencing, a Global Measure of Gene Function.Annual review of genetics · 2020Review
- A decade of advances in transposon-insertion sequencing.Nature reviews. Genetics · 2020Review
- AlbaTraDIS: Comparative analysis of large datasets from parallel transposon mutagenesis experiments.PLoS computational biology · 2020Article
- Riboflavin Biosynthesis and Overproduction by a Derivative of the Human Gut CommensalFrontiers in microbiology · 2020Article
- Transcriptional control of central carbon metabolic flux in Bifidobacteria by two functionally similar, yet distinct LacI-type regulators.Scientific reports · 2019Article
- A Transposon Mutagenesis System for Bifidobacterium longum subsp. longum Based on an ISApplied and environmental microbiology · 2018Article
- Comparative genome and methylome analysis reveals restriction/modification system diversity in the gut commensal Bifidobacterium breve.Nucleic acids research · 2018Article
Corrections and comments
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Authors and funding
7 authors at 3 institutions in 2 countries.
Funding
Abstract
Bifidobacteria are common gut commensals with purported health-promoting effects. This has encouraged scientific research into bifidobacteria, though recalcitrance to genetic manipulation and scarcity of molecular tools has hampered our knowledge on the precise molecular determinants of their health-promoting attributes and gut adaptation. To overcome this problem and facilitate functional genomic analyses in bifidobacteria, we created a large Tn5 transposon mutant library of the commensal Bifidobacterium breve UCC2003 that was further characterized by means of a Transposon Directed Insertion Sequencing (TraDIS) approach. Statistical analysis of transposon insertion distribution revealed a set of 453 genes that are essential for or markedly contribute to growth of this strain under laboratory conditions. These essential genes encode functions involved in the so-called bifid-shunt, most enzymes related to nucleotide biosynthesis and a range of housekeeping functions. Comparison to the Bifidobacterium and B. breve core genomes highlights a high degree of conservation of essential genes at the species and genus level, while comparison to essential gene datasets from other gut bacteria identified essential genes that appear specific to bifidobacteria. This work establishes a useful molecular tool for scientific discovery of bifidobacteria and identifies targets for further studies aimed at characterizing essential functions not previously examined in bifidobacteria.
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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.