Genome-wide identification and comparative analysis of NBS-LRR resistance genes in Brassica napus

Salman Alamery, Soodeh Tirnaz, Philipp Bayer, Reece Tollenaere, Boulos Chaloub, David Edwards, Jacqueline Batley

Research output: Contribution to journalConference article

6 Citations (Scopus)
59 Downloads (Pure)

Abstract

Plant disease-resistance genes play a critical role in providing resistance against pathogens. The largest family of resistance genes are the nucleotide-binding site (NBS) and leucine-rich repeat (LRR) genes. They are classified into two major subfamilies, toll/interleukin-1 receptor (TIR)-NBS-LRR (TNL) and coiled-coil (CC)-NBS-LRR (CNL) proteins. We have identified and characterised 641 NBS-LRR genes in Brassica napus, 249 in B. rapa and 443 in B. oleracea. A ratio of 1:2 of CNL:TNL genes was found in the three species. Domain structure analysis revealed that 57% of the NBS-LRR genes are typical resistance genes and contain all three domains (TIR/CC, NBS, LRR), whereas the remaining genes are partially deleted or truncated. Of the NBS-LRR genes, 59% were found to be physically clustered, and individual genes involved in clusters were more polymorphic than those not clustered. Of the NBS-LRR genes in B. napus, 50% were identified as duplicates, reflecting a high level of genomic duplication and rearrangement. Comparative analysis between B. napus and its progenitor species indicated that >60% of NBS-LRR genes are conserved in B. napus. This study provides a valuable resource for the identification and characterisation of candidate NBS-LRR genes.

Original languageEnglish
Pages (from-to)79-93
Number of pages15
JournalCrop and Pasture Science
Volume69
Issue numberS1
DOIs
Publication statusPublished - 1 Jan 2018
EventInternational Brassica Conference : Phenomics to Genomics and Everything in Between - Melbourne, Australia
Duration: 1 Jan 20161 Jan 2016

Fingerprint

Brassica napus
leucine
binding sites
nucleotides
genome
genes
interleukin-1
receptors
Brassica rapa
Brassica oleracea
plant diseases and disorders
multigene family
disease resistance
genomics
pathogens

Cite this

@article{16099344983a4c9aa9515a58ab48c5fc,
title = "Genome-wide identification and comparative analysis of NBS-LRR resistance genes in Brassica napus",
abstract = "Plant disease-resistance genes play a critical role in providing resistance against pathogens. The largest family of resistance genes are the nucleotide-binding site (NBS) and leucine-rich repeat (LRR) genes. They are classified into two major subfamilies, toll/interleukin-1 receptor (TIR)-NBS-LRR (TNL) and coiled-coil (CC)-NBS-LRR (CNL) proteins. We have identified and characterised 641 NBS-LRR genes in Brassica napus, 249 in B. rapa and 443 in B. oleracea. A ratio of 1:2 of CNL:TNL genes was found in the three species. Domain structure analysis revealed that 57{\%} of the NBS-LRR genes are typical resistance genes and contain all three domains (TIR/CC, NBS, LRR), whereas the remaining genes are partially deleted or truncated. Of the NBS-LRR genes, 59{\%} were found to be physically clustered, and individual genes involved in clusters were more polymorphic than those not clustered. Of the NBS-LRR genes in B. napus, 50{\%} were identified as duplicates, reflecting a high level of genomic duplication and rearrangement. Comparative analysis between B. napus and its progenitor species indicated that >60{\%} of NBS-LRR genes are conserved in B. napus. This study provides a valuable resource for the identification and characterisation of candidate NBS-LRR genes.",
keywords = "comparative genomics, disease resistance, gene cluster, gene duplication.",
author = "Salman Alamery and Soodeh Tirnaz and Philipp Bayer and Reece Tollenaere and Boulos Chaloub and David Edwards and Jacqueline Batley",
year = "2018",
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language = "English",
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Genome-wide identification and comparative analysis of NBS-LRR resistance genes in Brassica napus. / Alamery, Salman; Tirnaz, Soodeh; Bayer, Philipp; Tollenaere, Reece; Chaloub, Boulos; Edwards, David; Batley, Jacqueline.

In: Crop and Pasture Science, Vol. 69, No. S1, 01.01.2018, p. 79-93.

Research output: Contribution to journalConference article

TY - JOUR

T1 - Genome-wide identification and comparative analysis of NBS-LRR resistance genes in Brassica napus

AU - Alamery, Salman

AU - Tirnaz, Soodeh

AU - Bayer, Philipp

AU - Tollenaere, Reece

AU - Chaloub, Boulos

AU - Edwards, David

AU - Batley, Jacqueline

PY - 2018/1/1

Y1 - 2018/1/1

N2 - Plant disease-resistance genes play a critical role in providing resistance against pathogens. The largest family of resistance genes are the nucleotide-binding site (NBS) and leucine-rich repeat (LRR) genes. They are classified into two major subfamilies, toll/interleukin-1 receptor (TIR)-NBS-LRR (TNL) and coiled-coil (CC)-NBS-LRR (CNL) proteins. We have identified and characterised 641 NBS-LRR genes in Brassica napus, 249 in B. rapa and 443 in B. oleracea. A ratio of 1:2 of CNL:TNL genes was found in the three species. Domain structure analysis revealed that 57% of the NBS-LRR genes are typical resistance genes and contain all three domains (TIR/CC, NBS, LRR), whereas the remaining genes are partially deleted or truncated. Of the NBS-LRR genes, 59% were found to be physically clustered, and individual genes involved in clusters were more polymorphic than those not clustered. Of the NBS-LRR genes in B. napus, 50% were identified as duplicates, reflecting a high level of genomic duplication and rearrangement. Comparative analysis between B. napus and its progenitor species indicated that >60% of NBS-LRR genes are conserved in B. napus. This study provides a valuable resource for the identification and characterisation of candidate NBS-LRR genes.

AB - Plant disease-resistance genes play a critical role in providing resistance against pathogens. The largest family of resistance genes are the nucleotide-binding site (NBS) and leucine-rich repeat (LRR) genes. They are classified into two major subfamilies, toll/interleukin-1 receptor (TIR)-NBS-LRR (TNL) and coiled-coil (CC)-NBS-LRR (CNL) proteins. We have identified and characterised 641 NBS-LRR genes in Brassica napus, 249 in B. rapa and 443 in B. oleracea. A ratio of 1:2 of CNL:TNL genes was found in the three species. Domain structure analysis revealed that 57% of the NBS-LRR genes are typical resistance genes and contain all three domains (TIR/CC, NBS, LRR), whereas the remaining genes are partially deleted or truncated. Of the NBS-LRR genes, 59% were found to be physically clustered, and individual genes involved in clusters were more polymorphic than those not clustered. Of the NBS-LRR genes in B. napus, 50% were identified as duplicates, reflecting a high level of genomic duplication and rearrangement. Comparative analysis between B. napus and its progenitor species indicated that >60% of NBS-LRR genes are conserved in B. napus. This study provides a valuable resource for the identification and characterisation of candidate NBS-LRR genes.

KW - comparative genomics

KW - disease resistance

KW - gene cluster

KW - gene duplication.

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U2 - 10.1071/CP17214

DO - 10.1071/CP17214

M3 - Conference article

VL - 69

SP - 79

EP - 93

JO - Crop & Pasture Science

JF - Crop & Pasture Science

SN - 1836-0947

IS - S1

ER -