Genome Structure of the Legume, Lotus japonicus

By Shusei Sato, Yasukazu Nakamura, T. Kaneko, E. Asamizu, Tomohiko Kato, Mitsuteru Nakao, S. Sasamoto, A. Watanabe, Akiko Ono, K. Kawashima and 19 more. DNA Research, 2008

675 citations recorded by the source corpus.

The legume Lotus japonicus has been widely used as a model system to investigate the genetic background of legume-specific phenomena such as symbiotic nitrogen fixation. Here, we report structural features of the L. japonicus genome. The 315.1-Mb sequences determined in this and previous studies correspond to 67% of the genome (472 Mb), and are likely to cover 91.3% of the gene space. Linkage mapping anchored 130-Mb sequences onto the six linkage groups. A total of 10 951 complete and 19 848 partial structures of protein-encoding genes were assigned to the genome. Comparative analysis of these genes revealed the expansion of several functional domains and gene families that are characteristic of L. japonicus. Synteny analysis detected traces of whole-genome duplication and the presence of synteny blocks with other plant genomes to various degrees. This study provides the first opportunity to look into the complex and unique genetic system of legumes.

Subfields: Plant Science

View Paper: https://www.semanticscholar.org/paper/4875e8a83be338411115cb308ad47aa417bf3c03

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Citations in the corpus

RIKEN tandem mass spectral database (ReSpect) for phytochemicals: a plant-specific MS/MS-based data resource and database. (2012, methodology): “As a case study, the metabolite quantitative locus analysis of a model legume Lotus japonicus (Sato et al., 2008) was carried out by annotating untargeted MS/MS data using ReSpect as a first step towards metabolite identification.”
Draft genome sequence of chickpea (Cicer arietinum) provides a resource for trait improvement (2013, positive): “…pair-wise comparisons 20 of the 28,269 chickpea gene models with 230,161 gene models from four sequenced legumes ( M. truncatula 13 , L. japonicus 21 , pigeonpea 14 , soybean 15 ) and two nonlegume species ( A. thaliana 22 and grape 23 ) identified 15,441 orthologous groups ( Supplementary Table…”
Plants with double genomes might have had a better chance to survive the Cretaceous–Tertiary extinction event (2009, background): “Legumes, represented by Medicago and Lotus, show evidence of several rounds of duplication (8, 9), whereas 3 ancestral genomes have been proposed to contribute to the Vitis lineage (5).”
Advances in Host Plant and Rhizobium Genomics to Enhance Symbiotic Nitrogen Fixation in Grain Legumes (2015, background): “Furthermore, the genomes of model legumes, Lotus japonicus (Sato et al., 2008), M. truncatula (Young et al., 2011) and some of the grain legume crops, chickpea (Varshney et al., 2013), pigeonpea (Varshney et al., 2012), and soybean (Schmutz et al., 2010) have since been sequenced, with common bean…”