RRC ID 852
Author Asamizu E, Nakamura Y, Sato S, Tabata S.
Title Characteristics of the Lotus japonicus gene repertoire deduced from large-scale expressed sequence tag (EST) analysis.
Journal Plant Mol. Biol.
Abstract To perform a comprehensive analysis of genes expressed in a model legume, Lotus japonicus, a total of 74472 3'-end expressed sequence tags (EST) were generated from cDNA libraries produced from six different organs. Clustering of sequences was performed with an identity criterion of 95% for 50 bases, and a total of 20457 non-redundant sequences, 8503 contigs and 11954 singletons were generated. EST sequence coverage was analyzed by using the annotated L. japonicus genomic sequence and 1093 of the 1889 predicted protein-encoding genes (57.9%) were hit by the EST sequence(s). Gene content was compared to several plant species. Among the 8503 contigs, 471 were identified as sequences conserved only in leguminous species and these included several disease resistance-related genes. This suggested that in legumes, these genes may have evolved specifically to resist pathogen attack. The rate of gene sequence divergence was assessed by comparing similarity level and functional category based on the Gene Ontology (GO) annotation of Arabidopsis genes. This revealed that genes encoding ribosomal proteins, as well as those related to translation, photosynthesis, and cellular structure were more abundantly represented in the highly conserved class, and that genes encoding transcription factors and receptor protein kinases were abundantly represented in the less conserved class. To make the sequence information and the cDNA clones available to the research community, a Web database with useful services was created at http://www.kazusa.or.jp/en/plant/lotus/EST/.
Volume 54(3)
Pages 405-14
Published 2004-2
DOI 10.1023/B:PLAN.0000036372.46942.b8
PII 5271666
PMID 15284495
MeSH DNA, Complementary / chemistry DNA, Complementary / genetics Expressed Sequence Tags* Gene Expression Regulation, Plant Gene Library Genes, Plant / genetics* Genome, Plant Lotus / genetics* Molecular Sequence Data Sequence Analysis, DNA
IF 3.543
Times Cited 43
WOS Category PLANT SCIENCES BIOCHEMISTRY & MOLECULAR BIOLOGY
Resource
Lotus / Glycine Miyakojima MG-20 Gifu B-129 cDNA