MutMap‐Gap: whole‐genome resequencing of mutant F2 progeny bulk combined with de novo assembly of gap regions identifies the rice blast resistance gene Pii. Issue 1 (24th June 2013)

• Record Type: Journal Article
• 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
• Is Part Of: New phytologist. Volume 200:Issue 1(2013)
• Page Start: 276
• Page End: 283
• Publication Date: 2013-06-24
• Subjects: Botany -- Periodicals; 580
• DOI: 10.1111/nph.12369
• Languages: English
• ISSNs: 0028-646X

Abstract

<abstract abstract-type="main" id="nph12369-abs-0001"> <title>Summary</title> <p> <list id="nph12369-list-0001" list-type="bullet"> <list-item> <p>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.</p> </list-item> <list-item> <p>Here we report on a method called 'MutMap‐Gap', which involves delineating a candidate region harboring a mutation of interest using the recently reported MutMap method, followed by <italic>de novo</italic> assembly, alignment, and identification of the mutation within genome gaps.</p> </list-item> <list-item> <p>We applied MutMap‐Gap to isolate the blast resistant gene <italic>Pii</italic> from the rice cv Hitomebore using mutant lines that have lost <italic>Pii</italic> function.</p> </list-item> <list-item> <p>MutMap‐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.</p> </list-item> </list> </p> </abstract>