Metagenomic Anlaysis of microsymbiont selection by the legume plant host

Jorrin, Beatriz and Prieto Carbajo, Rosa Isabel and Brito Lopez, Maria Belen and Laguerre, Gisele and Imperial Ródenas, Juan (2012). Metagenomic Anlaysis of microsymbiont selection by the legume plant host. In: "10th European Nitrogen Fixation Conference (ENFC)", 02/09/2012-05/09/2012, Munich, Germany. p. 1.

Description

Title: Metagenomic Anlaysis of microsymbiont selection by the legume plant host
Author/s:
  • Jorrin, Beatriz
  • Prieto Carbajo, Rosa Isabel
  • Brito Lopez, Maria Belen
  • Laguerre, Gisele
  • Imperial Ródenas, Juan
Item Type: Presentation at Congress or Conference (Article)
Event Title: 10th European Nitrogen Fixation Conference (ENFC)
Event Dates: 02/09/2012-05/09/2012
Event Location: Munich, Germany
Title of Book: 10th European Nitrogen Fixation Conference (ENFC)
Date: 2012
Subjects:
Faculty: Centro de Investigación en Biotecnología y Genómica de Plantas (CBGP) (UPM)
Department: Biotecnologia [hasta 2014]
Creative Commons Licenses: Recognition - No derivative works - Non commercial

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Abstract

Rhizobium leguminosarum bv.viciae is able to establish nitrogen-fixing symbioses with legumes of the genera Pisum, Lens, Lathyrus and Vicia. Classic studies using trap plants (Laguerre et al., Young et al.) provided evidence that different plant hosts are able to select different rhizobial genotypes among those available in a given soil. However, these studies were necessarily limited by the paucity of relevant biodiversity markers. We have now reappraised this problem with the help of genomic tools. A well-characterized agricultural soil (INRA Bretennieres) was used as source of rhizobia. Plants of Pisum sativum, Lens culinaris, Vicia sativa and V. faba were used as traps. Isolates from 100 nodules were pooled, and DNA from each pool was sequenced (BGI-Hong Kong; Illumina Hiseq 2000, 500 bp PE libraries, 100 bp reads, 12 Mreads). Reads were quality filtered (FastQC, Trimmomatic), mapped against reference R. leguminosarum genomes (Bowtie2, Samtools), and visualized (IGV). An important fraction of the filtered reads were not recruited by reference genomes, suggesting that plant isolates contain genes that are not present in the reference genomes. For this study, we focused on three conserved genomic regions: 16S-23S rDNA, atpD and nodDABC, and a Single Nucleotide Polymorphism (SNP) analysis was carried out with meta / multigenomes from each plant. Although the level of polymorphism varied (lowest in the rRNA region), polymorphic sites could be identified that define the specific soil population vs. reference genomes. More importantly, a plant-specific SNP distribution was observed. This could be confirmed with many other regions extracted from the reference genomes (data not shown). Our results confirm at the genomic level previous observations regarding plant selection of specific genotypes. We expect that further, ongoing comparative studies on differential meta / multigenomic sequences will identify specific gene components of the plant-selected genotypes

More information

Item ID: 39272
DC Identifier: http://oa.upm.es/39272/
OAI Identifier: oai:oa.upm.es:39272
Official URL: https://www6.inra.fr/saclay-plant-sciences_eng/News/Congresses-Conferences/10th-European-Nitrogen-Fixation-Conference-ENFC
Deposited by: Memoria Investigacion
Deposited on: 13 May 2016 15:19
Last Modified: 13 May 2016 15:19
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