The essential genomic landscape of the commensal Bifidobacterium breve UCC2003

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 the...

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Autores principales:	Lorena Ruiz, Francesca Bottacini, Christine J. Boinett, Amy K. Cain, Mary O’Connell-Motherway, Trevor D. Lawley, Douwe van Sinderen
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2017
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/37ad7c93945d4acfb61a9e0ab7799d2a
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spelling	oai:doaj.org-article:37ad7c93945d4acfb61a9e0ab7799d2a2021-12-02T15:06:04ZThe essential genomic landscape of the commensal Bifidobacterium breve UCC200310.1038/s41598-017-05795-y2045-2322https://doaj.org/article/37ad7c93945d4acfb61a9e0ab7799d2a2017-07-01T00:00:00Zhttps://doi.org/10.1038/s41598-017-05795-yhttps://doaj.org/toc/2045-2322Abstract 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.Lorena RuizFrancesca BottaciniChristine J. BoinettAmy K. CainMary O’Connell-MotherwayTrevor D. LawleyDouwe van SinderenNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 7, Iss 1, Pp 1-13 (2017)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Lorena Ruiz Francesca Bottacini Christine J. Boinett Amy K. Cain Mary O’Connell-Motherway Trevor D. Lawley Douwe van Sinderen The essential genomic landscape of the commensal Bifidobacterium breve UCC2003
description	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.
format	article
author	Lorena Ruiz Francesca Bottacini Christine J. Boinett Amy K. Cain Mary O’Connell-Motherway Trevor D. Lawley Douwe van Sinderen
author_facet	Lorena Ruiz Francesca Bottacini Christine J. Boinett Amy K. Cain Mary O’Connell-Motherway Trevor D. Lawley Douwe van Sinderen
author_sort	Lorena Ruiz
title	The essential genomic landscape of the commensal Bifidobacterium breve UCC2003
title_short	The essential genomic landscape of the commensal Bifidobacterium breve UCC2003
title_full	The essential genomic landscape of the commensal Bifidobacterium breve UCC2003
title_fullStr	The essential genomic landscape of the commensal Bifidobacterium breve UCC2003
title_full_unstemmed	The essential genomic landscape of the commensal Bifidobacterium breve UCC2003
title_sort	essential genomic landscape of the commensal bifidobacterium breve ucc2003
publisher	Nature Portfolio
publishDate	2017
url	https://doaj.org/article/37ad7c93945d4acfb61a9e0ab7799d2a
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The essential genomic landscape of the commensal Bifidobacterium breve UCC2003

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