Genome-wide identification of bacterial plant colonization genes.
Diverse soil-resident bacteria can contribute to plant growth and health, but the molecular mechanisms enabling them to effectively colonize their plant hosts remain poorly understood. We used randomly barcoded transposon mutagenesis sequencing (RB-TnSeq) in Pseudomonas simiae, a model root-colonizi...
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2017-09-01
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doaj-b6531c92d5d240fa8b072506ea364db12021-07-02T01:15:33ZengPublic Library of Science (PLoS)PLoS Biology1544-91731545-78852017-09-01159e200286010.1371/journal.pbio.2002860Genome-wide identification of bacterial plant colonization genes.Benjamin J ColeMeghan E FeltcherRobert J WatersKelly M WetmoreTatiana S MucynElizabeth M RyanGaoyan WangSabah Ul-HasanMeredith McDonaldYasuo YoshikuniRex R MalmstromAdam M DeutschbauerJeffery L DanglAxel ViselDiverse soil-resident bacteria can contribute to plant growth and health, but the molecular mechanisms enabling them to effectively colonize their plant hosts remain poorly understood. We used randomly barcoded transposon mutagenesis sequencing (RB-TnSeq) in Pseudomonas simiae, a model root-colonizing bacterium, to establish a genome-wide map of bacterial genes required for colonization of the Arabidopsis thaliana root system. We identified 115 genes (2% of all P. simiae genes) with functions that are required for maximal competitive colonization of the root system. Among the genes we identified were some with obvious colonization-related roles in motility and carbon metabolism, as well as 44 other genes that had no or vague functional predictions. Independent validation assays of individual genes confirmed colonization functions for 20 of 22 (91%) cases tested. To further characterize genes identified by our screen, we compared the functional contributions of P. simiae genes to growth in 90 distinct in vitro conditions by RB-TnSeq, highlighting specific metabolic functions associated with root colonization genes. Our analysis of bacterial genes by sequence-driven saturation mutagenesis revealed a genome-wide map of the genetic determinants of plant root colonization and offers a starting point for targeted improvement of the colonization capabilities of plant-beneficial microbes.http://europepmc.org/articles/PMC5627942?pdf=render |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Benjamin J Cole Meghan E Feltcher Robert J Waters Kelly M Wetmore Tatiana S Mucyn Elizabeth M Ryan Gaoyan Wang Sabah Ul-Hasan Meredith McDonald Yasuo Yoshikuni Rex R Malmstrom Adam M Deutschbauer Jeffery L Dangl Axel Visel |
spellingShingle |
Benjamin J Cole Meghan E Feltcher Robert J Waters Kelly M Wetmore Tatiana S Mucyn Elizabeth M Ryan Gaoyan Wang Sabah Ul-Hasan Meredith McDonald Yasuo Yoshikuni Rex R Malmstrom Adam M Deutschbauer Jeffery L Dangl Axel Visel Genome-wide identification of bacterial plant colonization genes. PLoS Biology |
author_facet |
Benjamin J Cole Meghan E Feltcher Robert J Waters Kelly M Wetmore Tatiana S Mucyn Elizabeth M Ryan Gaoyan Wang Sabah Ul-Hasan Meredith McDonald Yasuo Yoshikuni Rex R Malmstrom Adam M Deutschbauer Jeffery L Dangl Axel Visel |
author_sort |
Benjamin J Cole |
title |
Genome-wide identification of bacterial plant colonization genes. |
title_short |
Genome-wide identification of bacterial plant colonization genes. |
title_full |
Genome-wide identification of bacterial plant colonization genes. |
title_fullStr |
Genome-wide identification of bacterial plant colonization genes. |
title_full_unstemmed |
Genome-wide identification of bacterial plant colonization genes. |
title_sort |
genome-wide identification of bacterial plant colonization genes. |
publisher |
Public Library of Science (PLoS) |
series |
PLoS Biology |
issn |
1544-9173 1545-7885 |
publishDate |
2017-09-01 |
description |
Diverse soil-resident bacteria can contribute to plant growth and health, but the molecular mechanisms enabling them to effectively colonize their plant hosts remain poorly understood. We used randomly barcoded transposon mutagenesis sequencing (RB-TnSeq) in Pseudomonas simiae, a model root-colonizing bacterium, to establish a genome-wide map of bacterial genes required for colonization of the Arabidopsis thaliana root system. We identified 115 genes (2% of all P. simiae genes) with functions that are required for maximal competitive colonization of the root system. Among the genes we identified were some with obvious colonization-related roles in motility and carbon metabolism, as well as 44 other genes that had no or vague functional predictions. Independent validation assays of individual genes confirmed colonization functions for 20 of 22 (91%) cases tested. To further characterize genes identified by our screen, we compared the functional contributions of P. simiae genes to growth in 90 distinct in vitro conditions by RB-TnSeq, highlighting specific metabolic functions associated with root colonization genes. Our analysis of bacterial genes by sequence-driven saturation mutagenesis revealed a genome-wide map of the genetic determinants of plant root colonization and offers a starting point for targeted improvement of the colonization capabilities of plant-beneficial microbes. |
url |
http://europepmc.org/articles/PMC5627942?pdf=render |
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