Cloning, characterization, and evolution of the NBS-LRR-encoding resistance gene analogue family in polyploid cotton (Gossypium hirsutum L.)

Limei He, Chunguang Du, Lina Covaleda, Zhanyou Xu, A. Forest Robinson, John Z. Yu, Russell J. Kohel, Hong Bin Zhang

Research output: Contribution to journalArticleResearchpeer-review

55 Citations (Scopus)

Abstract

The nucleotide-binding site-leucine-rich repeat (NBS-LRR)-encoding gene family has attracted much research interest because approximately 75% of the plant disease resistance genes that have been cloned to date are from this gene family. We cloned the NBS-LRR-encoding genes from polyploid cotton by a polymerase chain reaction-based approach. A sample of 150 clones was selected from the NBS-LRR gene sequence library and was sequenced, and 61 resistance gene analogs (RGA) were identified. Sequence analysis revealed that RGA are abundant and highly diverged in the cotton genome and could be categorized into 10 distinct subfamilies based on the similarities of their nucleotide sequences. The numbers of members vary many fold among different subfamilies, and gene index analysis showed that each of the subfamilies is at a different stage of RGA family evolution. Genetic mapping of a selection of RGA indicates that the RGA reside on a limited number of the cotton chromosomes, with those from a single subfamily tending to cluster and two of the RGA loci being colocalized with the cotton bacterial blight resistance genes. The distribution of RGA between the two subgenomes A and D of cotton is uneven, with RGA being more abundant in the A subgenome than in the D subgenome. The data provide new insights into the organization and evolution of the NBS-LRR-encoding RGA family in polyploid plants.

Original languageEnglish
Pages (from-to)1234-1241
Number of pages8
JournalMolecular Plant-Microbe Interactions
Volume17
Issue number11
DOIs
StatePublished - 1 Jan 2004

Fingerprint

Gossypium
Polyploidy
Gossypium hirsutum
polyploidy
Leucine
leucine
Organism Cloning
binding sites
molecular cloning
cotton
Nucleotides
nucleotides
Binding Sites
Genes
genes
Plant Diseases
nucleotide sequences
Disease Resistance
DNA libraries
plant diseases and disorders

Cite this

He, Limei ; Du, Chunguang ; Covaleda, Lina ; Xu, Zhanyou ; Robinson, A. Forest ; Yu, John Z. ; Kohel, Russell J. ; Zhang, Hong Bin. / Cloning, characterization, and evolution of the NBS-LRR-encoding resistance gene analogue family in polyploid cotton (Gossypium hirsutum L.). In: Molecular Plant-Microbe Interactions. 2004 ; Vol. 17, No. 11. pp. 1234-1241.
@article{962f7af22c0f40048f683f9a263a7b24,
title = "Cloning, characterization, and evolution of the NBS-LRR-encoding resistance gene analogue family in polyploid cotton (Gossypium hirsutum L.)",
abstract = "The nucleotide-binding site-leucine-rich repeat (NBS-LRR)-encoding gene family has attracted much research interest because approximately 75{\%} of the plant disease resistance genes that have been cloned to date are from this gene family. We cloned the NBS-LRR-encoding genes from polyploid cotton by a polymerase chain reaction-based approach. A sample of 150 clones was selected from the NBS-LRR gene sequence library and was sequenced, and 61 resistance gene analogs (RGA) were identified. Sequence analysis revealed that RGA are abundant and highly diverged in the cotton genome and could be categorized into 10 distinct subfamilies based on the similarities of their nucleotide sequences. The numbers of members vary many fold among different subfamilies, and gene index analysis showed that each of the subfamilies is at a different stage of RGA family evolution. Genetic mapping of a selection of RGA indicates that the RGA reside on a limited number of the cotton chromosomes, with those from a single subfamily tending to cluster and two of the RGA loci being colocalized with the cotton bacterial blight resistance genes. The distribution of RGA between the two subgenomes A and D of cotton is uneven, with RGA being more abundant in the A subgenome than in the D subgenome. The data provide new insights into the organization and evolution of the NBS-LRR-encoding RGA family in polyploid plants.",
author = "Limei He and Chunguang Du and Lina Covaleda and Zhanyou Xu and Robinson, {A. Forest} and Yu, {John Z.} and Kohel, {Russell J.} and Zhang, {Hong Bin}",
year = "2004",
month = "1",
day = "1",
doi = "10.1094/MPMI.2004.17.11.1234",
language = "English",
volume = "17",
pages = "1234--1241",
journal = "Molecular Plant-Microbe Interactions",
issn = "0894-0282",
publisher = "American Phytopathological Society",
number = "11",

}

Cloning, characterization, and evolution of the NBS-LRR-encoding resistance gene analogue family in polyploid cotton (Gossypium hirsutum L.). / He, Limei; Du, Chunguang; Covaleda, Lina; Xu, Zhanyou; Robinson, A. Forest; Yu, John Z.; Kohel, Russell J.; Zhang, Hong Bin.

In: Molecular Plant-Microbe Interactions, Vol. 17, No. 11, 01.01.2004, p. 1234-1241.

Research output: Contribution to journalArticleResearchpeer-review

TY - JOUR

T1 - Cloning, characterization, and evolution of the NBS-LRR-encoding resistance gene analogue family in polyploid cotton (Gossypium hirsutum L.)

AU - He, Limei

AU - Du, Chunguang

AU - Covaleda, Lina

AU - Xu, Zhanyou

AU - Robinson, A. Forest

AU - Yu, John Z.

AU - Kohel, Russell J.

AU - Zhang, Hong Bin

PY - 2004/1/1

Y1 - 2004/1/1

N2 - The nucleotide-binding site-leucine-rich repeat (NBS-LRR)-encoding gene family has attracted much research interest because approximately 75% of the plant disease resistance genes that have been cloned to date are from this gene family. We cloned the NBS-LRR-encoding genes from polyploid cotton by a polymerase chain reaction-based approach. A sample of 150 clones was selected from the NBS-LRR gene sequence library and was sequenced, and 61 resistance gene analogs (RGA) were identified. Sequence analysis revealed that RGA are abundant and highly diverged in the cotton genome and could be categorized into 10 distinct subfamilies based on the similarities of their nucleotide sequences. The numbers of members vary many fold among different subfamilies, and gene index analysis showed that each of the subfamilies is at a different stage of RGA family evolution. Genetic mapping of a selection of RGA indicates that the RGA reside on a limited number of the cotton chromosomes, with those from a single subfamily tending to cluster and two of the RGA loci being colocalized with the cotton bacterial blight resistance genes. The distribution of RGA between the two subgenomes A and D of cotton is uneven, with RGA being more abundant in the A subgenome than in the D subgenome. The data provide new insights into the organization and evolution of the NBS-LRR-encoding RGA family in polyploid plants.

AB - The nucleotide-binding site-leucine-rich repeat (NBS-LRR)-encoding gene family has attracted much research interest because approximately 75% of the plant disease resistance genes that have been cloned to date are from this gene family. We cloned the NBS-LRR-encoding genes from polyploid cotton by a polymerase chain reaction-based approach. A sample of 150 clones was selected from the NBS-LRR gene sequence library and was sequenced, and 61 resistance gene analogs (RGA) were identified. Sequence analysis revealed that RGA are abundant and highly diverged in the cotton genome and could be categorized into 10 distinct subfamilies based on the similarities of their nucleotide sequences. The numbers of members vary many fold among different subfamilies, and gene index analysis showed that each of the subfamilies is at a different stage of RGA family evolution. Genetic mapping of a selection of RGA indicates that the RGA reside on a limited number of the cotton chromosomes, with those from a single subfamily tending to cluster and two of the RGA loci being colocalized with the cotton bacterial blight resistance genes. The distribution of RGA between the two subgenomes A and D of cotton is uneven, with RGA being more abundant in the A subgenome than in the D subgenome. The data provide new insights into the organization and evolution of the NBS-LRR-encoding RGA family in polyploid plants.

UR - http://www.scopus.com/inward/record.url?scp=18144417125&partnerID=8YFLogxK

U2 - 10.1094/MPMI.2004.17.11.1234

DO - 10.1094/MPMI.2004.17.11.1234

M3 - Article

VL - 17

SP - 1234

EP - 1241

JO - Molecular Plant-Microbe Interactions

JF - Molecular Plant-Microbe Interactions

SN - 0894-0282

IS - 11

ER -