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PMID: 16286450 Published · ppublish English Journal Article Research Support, N.I.H., Extramural Research Support, U.S. Gov't, Non-P.H.S.

Evolutionary expansion, gene structure, and expression of the rice wall-associated kinase gene family.

Plant physiology ·Vol. 139 ·No. 3 ·2005-11-00 ·Pages 1107-24

Zhang S, Chen C, Li L, Meng L, Singh J, Jiang N, Deng XW, He ZH, Lemaux PG

Abstract

The wall-associated kinase (WAK) gene family, one of the receptor-like kinase (RLK) gene families in plants, plays important roles in cell expansion, pathogen resistance, and heavy-metal stress tolerance in Arabidopsis (Arabidopsis thaliana). Through a reiterative database search and manual reannotation, we identified 125 OsWAK gene family members from rice (Oryza sativa) japonica cv Nipponbare; 37 (approximately 30%) OsWAKs were corrected/reannotated from earlier automated annotations. Of the 125 OsWAKs, 67 are receptor-like kinases, 28 receptor-like cytoplasmic kinases, 13 receptor-like proteins, 12 short genes, and five pseudogenes. The two-intron gene structure of the Arabidopsis WAK/WAK-Likes is generally conserved in OsWAKs; however, extra/missed introns were observed in some OsWAKs either in extracellular regions or in protein kinase domains. In addition to the 38 OsWAKs with full-length cDNA sequences and the 11 with rice expressed sequence tag sequences, gene expression analyses, using tiling-microarray analysis of the 20 OsWAKs on chromosome 10 and reverse transcription-PCR analysis for five OsWAKs, indicate that the majority of identified OsWAKs are likely expressed in rice. Phylogenetic analyses of OsWAKs, Arabidopsis WAK/WAK-Likes, and barley (Hordeum vulgare) HvWAKs show that the OsWAK gene family expanded in the rice genome due to lineage-specific expansion of the family in monocots. Localized gene duplications appear to be the primary genetic event in OsWAK gene family expansion and the 125 OsWAKs, present on all 12 chromosomes, are mostly clustered.

MeSH Terms
Arabidopsis/genetics Cell Wall/enzymology Chromosomes, Plant Computational Biology Gene Duplication Gene Expression Regulation, Plant Genes, Plant/genetics Genome, Plant Hordeum/genetics Introns/genetics Microarray Analysis Multigene Family/genetics Oryza/cytology,enzymology,genetics Phosphotransferases/chemistry,classification,genetics Phylogeny Physical Chromosome Mapping Plant Proteins/chemistry,genetics Pseudogenes/genetics RNA, Messenger/genetics,metabolism
Chemicals
Plant Proteins RNA, Messenger Phosphotransferases
Authors & Affiliations
9 authors, click to expand affiliations / ORCID
Zhang Shibo
Department of Plant and Microbial Biology, University of California, Berkeley, CA 94720, USA. [email protected]
Chen Calvin
Li Lei
Meng Ling
Singh Jaswinder
Jiang Ning
Deng Xing-Wang
He Zheng-Hui
Lemaux Peggy G
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Article Info
Journal
Plant physiology
Abbr.
Plant Physiol
ISSN
0032-0889
DOI
10.1104/pp.105.069005
Email
[email protected]
Published
2005-11-00
Pages
1107-24
Language
English
Region
United States
NLM ID
0401224
PMCID
PMC1283751
Subset
IM
Grants
NIGMS NIH HHS · GM52588 · United States
External Links
PubMed source DOI: 10.1104/pp.105.069005 PMC Full Text View journal details
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