Transposon sequencing analysis of Bradyrhizobium diazoefficiens 110spc4

Abstract Bradyrhizobium diazoefficiens USDA110 is one of the most effective nitrogen-fixing symbionts of soybeans. Here we carried out a large-scale transposon insertion sequencing (Tn-seq) analysis of strain Bd110spc4, which is derived from USDA110, with the goal of increasing available resources f...

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Autores principales:	Claudine Baraquet, Weijun Dai, Jose Mendiola, Kieran Pechter, Caroline S. Harwood
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/b10930c77ac84fde9990cf182641496f
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spelling	oai:doaj.org-article:b10930c77ac84fde9990cf182641496f2021-12-02T16:05:54ZTransposon sequencing analysis of Bradyrhizobium diazoefficiens 110spc410.1038/s41598-021-92534-z2045-2322https://doaj.org/article/b10930c77ac84fde9990cf182641496f2021-06-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-92534-zhttps://doaj.org/toc/2045-2322Abstract Bradyrhizobium diazoefficiens USDA110 is one of the most effective nitrogen-fixing symbionts of soybeans. Here we carried out a large-scale transposon insertion sequencing (Tn-seq) analysis of strain Bd110spc4, which is derived from USDA110, with the goal of increasing available resources for identifying genes crucial for the survival of this plant symbiont under diverse conditions. We prepared two transposon (Tn) insertion libraries of Bd110spc4 with 155,042 unique Tn insertions when the libraries were combined, which is an average of one insertion every 58.7 bp of the reference USDA110 genome. Application of bioinformatic filtering steps to remove genes too small to be expected to have Tn insertions, resulted in a list of genes that were classified as putatively essential. Comparison of this gene set with genes putatively essential for the growth of the closely related alpha-proteobacterium, Rhodopseudomonas palustris, revealed a small set of five genes that may be collectively essential for closely related members of the family Bradyrhizobiaceae. This group includes bacteria with diverse lifestyles ranging from plant symbionts to animal-associated species to free-living species.Claudine BaraquetWeijun DaiJose MendiolaKieran PechterCaroline S. HarwoodNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-8 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Claudine Baraquet Weijun Dai Jose Mendiola Kieran Pechter Caroline S. Harwood Transposon sequencing analysis of Bradyrhizobium diazoefficiens 110spc4
description	Abstract Bradyrhizobium diazoefficiens USDA110 is one of the most effective nitrogen-fixing symbionts of soybeans. Here we carried out a large-scale transposon insertion sequencing (Tn-seq) analysis of strain Bd110spc4, which is derived from USDA110, with the goal of increasing available resources for identifying genes crucial for the survival of this plant symbiont under diverse conditions. We prepared two transposon (Tn) insertion libraries of Bd110spc4 with 155,042 unique Tn insertions when the libraries were combined, which is an average of one insertion every 58.7 bp of the reference USDA110 genome. Application of bioinformatic filtering steps to remove genes too small to be expected to have Tn insertions, resulted in a list of genes that were classified as putatively essential. Comparison of this gene set with genes putatively essential for the growth of the closely related alpha-proteobacterium, Rhodopseudomonas palustris, revealed a small set of five genes that may be collectively essential for closely related members of the family Bradyrhizobiaceae. This group includes bacteria with diverse lifestyles ranging from plant symbionts to animal-associated species to free-living species.
format	article
author	Claudine Baraquet Weijun Dai Jose Mendiola Kieran Pechter Caroline S. Harwood
author_facet	Claudine Baraquet Weijun Dai Jose Mendiola Kieran Pechter Caroline S. Harwood
author_sort	Claudine Baraquet
title	Transposon sequencing analysis of Bradyrhizobium diazoefficiens 110spc4
title_short	Transposon sequencing analysis of Bradyrhizobium diazoefficiens 110spc4
title_full	Transposon sequencing analysis of Bradyrhizobium diazoefficiens 110spc4
title_fullStr	Transposon sequencing analysis of Bradyrhizobium diazoefficiens 110spc4
title_full_unstemmed	Transposon sequencing analysis of Bradyrhizobium diazoefficiens 110spc4
title_sort	transposon sequencing analysis of bradyrhizobium diazoefficiens 110spc4
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/b10930c77ac84fde9990cf182641496f
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Transposon sequencing analysis of Bradyrhizobium diazoefficiens 110spc4

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