Transcriptome Analysis of Paraburkholderia phymatum under Nitrogen Starvation and during Symbiosis with Phaseolus Vulgaris
Paraburkholderia phymatum belongs to the β-subclass of proteobacteria. It has recently been shown to be able to nodulate and fix nitrogen in symbiosis with several mimosoid and papilionoid legumes. In contrast to the symbiosis of legumes with α-proteobacteria, very little is known about the molecula...
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doaj-79dc22737a80473baa8595f5e455790d2020-11-25T00:35:54ZengMDPI AGGenes2073-44252017-12-0181238910.3390/genes8120389genes8120389Transcriptome Analysis of Paraburkholderia phymatum under Nitrogen Starvation and during Symbiosis with Phaseolus VulgarisMartina Lardi0Yilei Liu1Gabriela Purtschert2Samanta Bolzan de Campos3Gabriella Pessi4Department of Plant and Microbial Biology, University of Zurich, CH-8057 Zurich, SwitzerlandDepartment of Plant and Microbial Biology, University of Zurich, CH-8057 Zurich, SwitzerlandDepartment of Plant and Microbial Biology, University of Zurich, CH-8057 Zurich, SwitzerlandDepartment of Plant and Microbial Biology, University of Zurich, CH-8057 Zurich, SwitzerlandDepartment of Plant and Microbial Biology, University of Zurich, CH-8057 Zurich, SwitzerlandParaburkholderia phymatum belongs to the β-subclass of proteobacteria. It has recently been shown to be able to nodulate and fix nitrogen in symbiosis with several mimosoid and papilionoid legumes. In contrast to the symbiosis of legumes with α-proteobacteria, very little is known about the molecular determinants underlying the successful establishment of this mutualistic relationship with β-proteobacteria. In this study, we performed an RNA-sequencing (RNA-seq) analysis of free-living P. phymatum growing under nitrogen-replete and -limited conditions, the latter partially mimicking the situation in nitrogen-deprived soils. Among the genes upregulated under nitrogen limitation, we found genes involved in exopolysaccharides production and in motility, two traits relevant for plant root infection. Next, RNA-seq data of P. phymatum grown under free-living conditions and from symbiotic root nodules of Phaseolus vulgaris (common bean) were generated and compared. Among the genes highly upregulated during symbiosis, we identified—besides the nif gene cluster—an operon encoding a potential cytochrome o ubiquinol oxidase (Bphy_3646-49). Bean root nodules induced by a cyoB mutant strain showed reduced nitrogenase and nitrogen fixation abilities, suggesting an important role of the cytochrome for respiration inside the nodule. The analysis of mutant strains for the RNA polymerase transcription factor RpoN (σ54) and its activator NifA indicated that—similar to the situation in α-rhizobia—P. phymatum RpoN and NifA are key regulators during symbiosis with P. vulgaris.https://www.mdpi.com/2073-4425/8/12/389differential gene expressionrhizobiainfectionnitrogen fixationnodulationNifAcytochromesigma factorexopolysaccharidesmotility |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Martina Lardi Yilei Liu Gabriela Purtschert Samanta Bolzan de Campos Gabriella Pessi |
spellingShingle |
Martina Lardi Yilei Liu Gabriela Purtschert Samanta Bolzan de Campos Gabriella Pessi Transcriptome Analysis of Paraburkholderia phymatum under Nitrogen Starvation and during Symbiosis with Phaseolus Vulgaris Genes differential gene expression rhizobia infection nitrogen fixation nodulation NifA cytochrome sigma factor exopolysaccharides motility |
author_facet |
Martina Lardi Yilei Liu Gabriela Purtschert Samanta Bolzan de Campos Gabriella Pessi |
author_sort |
Martina Lardi |
title |
Transcriptome Analysis of Paraburkholderia phymatum under Nitrogen Starvation and during Symbiosis with Phaseolus Vulgaris |
title_short |
Transcriptome Analysis of Paraburkholderia phymatum under Nitrogen Starvation and during Symbiosis with Phaseolus Vulgaris |
title_full |
Transcriptome Analysis of Paraburkholderia phymatum under Nitrogen Starvation and during Symbiosis with Phaseolus Vulgaris |
title_fullStr |
Transcriptome Analysis of Paraburkholderia phymatum under Nitrogen Starvation and during Symbiosis with Phaseolus Vulgaris |
title_full_unstemmed |
Transcriptome Analysis of Paraburkholderia phymatum under Nitrogen Starvation and during Symbiosis with Phaseolus Vulgaris |
title_sort |
transcriptome analysis of paraburkholderia phymatum under nitrogen starvation and during symbiosis with phaseolus vulgaris |
publisher |
MDPI AG |
series |
Genes |
issn |
2073-4425 |
publishDate |
2017-12-01 |
description |
Paraburkholderia phymatum belongs to the β-subclass of proteobacteria. It has recently been shown to be able to nodulate and fix nitrogen in symbiosis with several mimosoid and papilionoid legumes. In contrast to the symbiosis of legumes with α-proteobacteria, very little is known about the molecular determinants underlying the successful establishment of this mutualistic relationship with β-proteobacteria. In this study, we performed an RNA-sequencing (RNA-seq) analysis of free-living P. phymatum growing under nitrogen-replete and -limited conditions, the latter partially mimicking the situation in nitrogen-deprived soils. Among the genes upregulated under nitrogen limitation, we found genes involved in exopolysaccharides production and in motility, two traits relevant for plant root infection. Next, RNA-seq data of P. phymatum grown under free-living conditions and from symbiotic root nodules of Phaseolus vulgaris (common bean) were generated and compared. Among the genes highly upregulated during symbiosis, we identified—besides the nif gene cluster—an operon encoding a potential cytochrome o ubiquinol oxidase (Bphy_3646-49). Bean root nodules induced by a cyoB mutant strain showed reduced nitrogenase and nitrogen fixation abilities, suggesting an important role of the cytochrome for respiration inside the nodule. The analysis of mutant strains for the RNA polymerase transcription factor RpoN (σ54) and its activator NifA indicated that—similar to the situation in α-rhizobia—P. phymatum RpoN and NifA are key regulators during symbiosis with P. vulgaris. |
topic |
differential gene expression rhizobia infection nitrogen fixation nodulation NifA cytochrome sigma factor exopolysaccharides motility |
url |
https://www.mdpi.com/2073-4425/8/12/389 |
work_keys_str_mv |
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