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- Title
Mut Map- Gap: whole-genome resequencing of mutant F2 progeny bulk combined with de novo assembly of gap regions identifies the rice blast resistance gene Pii.
- Authors
Takagi, Hiroki; Uemura, Aiko; Yaegashi, Hiroki; Tamiru, Muluneh; Abe, Akira; Mitsuoka, Chikako; Utsushi, Hiroe; Natsume, Satoshi; Kanzaki, Hiroyuki; Matsumura, Hideo; Saitoh, Hiromasa; Yoshida, Kentaro; Cano, Liliana M.; Kamoun, Sophien; Terauchi, Ryohei
- Abstract
Next-generation sequencing allows the identification of mutations responsible for mutant phenotypes by whole-genome resequencing and alignment to a reference genome. However, when the resequenced cultivar/line displays significant structural variation from the reference genome, mutations in the genome regions missing from the reference (gaps) cannot be identified by simple alignment., Here we report on a method called ' Mut Map- Gap', which involves delineating a candidate region harboring a mutation of interest using the recently reported Mut Map method, followed by de novo assembly, alignment, and identification of the mutation within genome gaps., We applied Mut Map- Gap to isolate the blast resistant gene Pii from the rice cv Hitomebore using mutant lines that have lost Pii function., Mut Map- Gap should prove useful for cloning genes that exhibit significant structural variations such as disease resistance genes of the nucleotide-binding site-leucine rich repeat ( NBS- LRR) class.
- Subjects
GENOMICS; PROGENY tests (Botany); RICE blast disease; GENETICS of disease resistance of plants; RICE genetics
- Publication
New Phytologist, 2013, Vol 200, Issue 1, p276
- ISSN
0028-646X
- Publication type
Article
- DOI
10.1111/nph.12369