RRC ID 78955
Author Kubo T, Yamagata Y, Matsusaka H, Toyoda A, Sato Y, Kumamaru T.
Title MiRiQ Database: A Platform for In Silico Rice Mutant Screening.
Journal Plant Cell Physiol
Abstract Genetic studies using mutant resources have significantly contributed to elucidating plant gene function. Massive mutant libraries sequenced by next-generation sequencing technology facilitate mutant identification and functional analysis of genes of interest. Here, we report the creation and release of an open-access database (https://miriq.agr.kyushu-u.ac.jp/index.php), called Mutation-induced Rice in Kyushu University (MiRiQ), designed for in silico mutant screening based on a whole-genome-sequenced mutant library. This database allows any user to easily find mutants of interest without laborious efforts such as large-scale screening by PCR. The initial version of the MiRiQ database (version 1.0) harbors a total of 1.6 million single-nucleotide variants (SNVs) and InDels of 721 M1 plants that were mutagenized by N-methyl-N-nitrosourea treatment of the rice cultivar Nipponbare (Oryza sativa ssp. japonica). The SNVs were distributed among 87% of all 35,630 annotated protein-coding genes of the Nipponbare genome and were predicted to induce missense and nonsense mutations. The MiRiQ database provides built-in tools, such as a search tool by keywords and JBrowse for mutation searches. Users can request mutant seeds in the M2 or M3 generations from a request form linked to this database. We believe that the availability of a wide range of gene mutations in this database will benefit the plant science community and breeders worldwide by accelerating functional genomic research and crop improvement.
Volume 65(1)
Pages 169-174
Published 2024-1-19
DOI 10.1093/pcp/pcad134
PII 7335587
PMID 37930817
PMC PMC10799713
MeSH Base Sequence Genes, Plant Genome, Plant / genetics Humans Mutation / genetics Oryza* / genetics
IF 4.062
Rice Induced mutation lines