ArticlePlant molecular biology2004
Characteristics of the Lotus japonicus gene repertoire deduced from large-scale expressed sequence tag (EST) analysis.
Article in Plant molecular biology, 2004. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed.
- Biotechnological Perspectives of Omics and Genetic Engineering Methods in Alfalfa.Frontiers in plant science · 2020Review
- Genomics of Plant Disease Resistance in Legumes.Frontiers in plant science · 2019Review
- Gene expression and localization of a β-1,3-glucanase of Lotus japonicus.Journal of plant research · 2016Article
- Emerging Genomic Tools for Legume Breeding: Current Status and Future Prospects.Frontiers in plant science · 2016Review
- The SNARE protein SYP71 expressed in vascular tissues is involved in symbiotic nitrogen fixation in Lotus japonicus nodules.Plant physiology · 2012Article
- The National BioResource Project (NBRP) Lotus and Glycine in Japan.Breeding science · 2012Article
- Construction and EST sequencing of full-length, drought stress cDNA libraries for common beans (Phaseolus vulgaris L.).BMC plant biology · 2011Article
- Bioinformatic analysis of ESTs collected by Sanger and pyrosequencing methods for a keystone forest tree species: oak.BMC genomics · 2010Article
- Comparative gene expression analysis of susceptible and resistant near-isogenic lines in common wheat infected by Puccinia triticina.DNA research : an international journal for rapid publication of reports on genes and genomes · 2010Article
- Host plant genome overcomes the lack of a bacterial gene for symbiotic nitrogen fixation.Nature · 2009Article
- Article
- Genome structure of the legume, Lotus japonicus.DNA research : an international journal for rapid publication of reports on genes and genomes · 2008Article
- Comparative analysis of expressed genes from cacao meristems infected by Moniliophthora perniciosa.Annals of botany · 2007Article
- Using genomics to study legume seed development.Plant physiology · 2007Review
- Differentiation of the two rice subspecies indica and japonica: a Gene Ontology perspective.Functional & integrative genomics · 2007Article
- NUCLEOPORIN85 is required for calcium spiking, fungal and bacterial symbioses, and seed production in Lotus japonicus.The Plant cell · 2007Article
- Expression profile of two storage-protein gene families in hexaploid wheat revealed by large-scale analysis of expressed sequence tags.Plant physiology · 2005Article
- Sequencing the genespaces of Medicago truncatula and Lotus japonicus.Plant physiology · 2005Review
Corrections and comments
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
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/.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.