MutMap accelerates breeding of a salt-tolerant rice cultivar

Takagi, Hiroki; Tamiru, Muluneh; Abe, Akira; Yoshida, Kentaro; Uemura, Aiko; Yaegashi, Hiroki; Obara, Tsutomu; Oikawa, Kanta; Utsushi, Hiroe; Kanzaki, Eiko; Mitsuoka, Chikako; Natsume, Satoshi; Kosugi, Shunichi; Kanzaki, Hiromitsu; Matsumura, Hideo; Urasaki, Naoya; Kamoun, Sophien

doi:10.1038/nbt.3188

Cited by 301 publications

(227 citation statements)

References 22 publications

(10 reference statements)

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“…Consequently, mutagenesis represents an important source of novel variations for use in breeding. For example, EMS mutagenesis has been successfully applied to breeding of salt-tolerant rice (Takagi et al, 2015). We identified novel traits from our mutant library, such as msd and erl mutants, that could also be applied to sorghum improvement (Burow et al, 2014;Xin et al, 2015).…”

Section: Discussionmentioning

confidence: 99%

A Sorghum Mutant Resource as an Efficient Platform for Gene Discovery in Grasses

et al. 2016

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Sorghum (Sorghum bicolor) is a versatile C4 crop and a model for research in family Poaceae. High-quality genome sequence is available for the elite inbred line BTx623, but functional validation of genes remains challenging due to the limited genomic and germplasm resources available for comprehensive analysis of induced mutations. In this study, we generated 6400 pedigreed M4 mutant pools from EMS-mutagenized BTx623 seeds through single-seed descent. Whole-genome sequencing of 256 phenotyped mutant lines revealed >1.8 million canonical EMS-induced mutations, affecting >95% of genes in the sorghum genome. The vast majority (97.5%) of the induced mutations were distinct from natural variations. To demonstrate the utility of the sequenced sorghum mutant resource, we performed reverse genetics to identify eight genes potentially affecting drought tolerance, three of which had allelic mutations and two of which exhibited exact cosegregation with the phenotype of interest. Our results establish that a large-scale resource of sequenced pedigreed mutants provides an efficient platform for functional validation of genes in sorghum, thereby accelerating sorghum breeding. Moreover, findings made in sorghum could be readily translated to other members of the Poaceae via integrated genomics approaches.

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Section: Discussionmentioning

confidence: 99%

A Sorghum Mutant Resource as an Efficient Platform for Gene Discovery in Grasses

et al. 2016

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“…However, the large genomes of barley (5.5 Gb) and wheat (17 Gb) coupled with extensive regions of suppressed recombination [1, 2] make traditional map-based gene isolation in these crops both time-consuming and costly. In plants with small genomes, such as Arabidopsis and rice, whole genome sequencing on mapping populations has proven a powerful approach to aid gene isolation [3, 4]. Furthermore, whole genome sequencing and comparison of multiple independently derived mutants belonging to the same complementation group permits direct gene identification with little or no requirement for recombination [5, 6].…”

Section: Introductionmentioning

confidence: 99%

Rapid gene isolation in barley and wheat by mutant chromosome sequencing

et al. 2016

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Identification of causal mutations in barley and wheat is hampered by their large genomes and suppressed recombination. To overcome these obstacles, we have developed MutChromSeq, a complexity reduction approach based on flow sorting and sequencing of mutant chromosomes, to identify induced mutations by comparison to parental chromosomes. We apply MutChromSeq to six mutants each of the barley Eceriferum-q gene and the wheat Pm2 genes. This approach unambiguously identified single candidate genes that were verified by Sanger sequencing of additional mutants. MutChromSeq enables reference-free forward genetics in barley and wheat, thus opening up their pan-genomes to functional genomics.Electronic supplementary materialThe online version of this article (doi:10.1186/s13059-016-1082-1) contains supplementary material, which is available to authorized users.

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“…Inducing mutations by chemical and physical methods is a highly efficient approach to increase genetic diversity (Shirasawa et al, 2016). Mutants are also potential materials for breeding new cultivar (Takagi et al, 2015). Moreover, mutants are also powerful tools for gene clone and function analysis by reverse or forward approach (Emmanuel and Levy, 2002; Takagi et al, 2013, 2015; Rizal et al, 2015).…”

Section: Introductionmentioning

confidence: 99%

“…The EMS-induced mutants display improved traits, such as abiotic stress, phenotypic trait, and metabolite content. In rice, a salt-tolerant mutant was identified in 6,000 mutants (Takagi et al, 2015). A light-green exocarp mutant was discovered from the EMS-mutagenized cucumber line 406 with dark-green exocarp (Zhou et al, 2015).…”

Section: Introductionmentioning

confidence: 99%

The Analysis of Physiological Variations in M2 Generation of Solanum melongena L. Mutagenized by Ethyl Methane Sulfonate

Xiou

Lin

et al. 2017

Front. Plant Sci.

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The eggplant was mutagenized with ethyl methane sulfonate (EMS) to enhance its genetic variability in our previous paper. In this article, we further analyzed the phenotype of M2 generation of mutant eggplants. A total of 325 independent M2 families were investigated for phenotypic variation. In addition to the visible phenotypic variation, chlorogenic acid (CGA) concentrations were analyzed in 26 fruits of mutants with High Performance Liquid Chromatography assay. Seventeen fruits exhibited significantly higher concentrations of CGAs than those in wild-type. The anthocyanin concentration of S9-1, the purple black mutant, was higher than WT, meanwhile, the anthocyanin concentration of L6-4 and U36-1 was lower than WT. Furthermore, our RT-PCR result demonstrated that the expression levels of anthocyanin biosynthetic genes, except for SmPAL, were increased in S9-1, and the regulator SmMYB1 was decreased in L6-4 and U36-1 mutants. Together, our data indicated that, M2 generation showed abundant phenotypic variations and the strong potential usage for next step of breeding and molecular genetic mechanisms in eggplant.

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MutMap accelerates breeding of a salt-tolerant rice cultivar

Cited by 301 publications

References 22 publications

A Sorghum Mutant Resource as an Efficient Platform for Gene Discovery in Grasses

A Sorghum Mutant Resource as an Efficient Platform for Gene Discovery in Grasses

Rapid gene isolation in barley and wheat by mutant chromosome sequencing

The Analysis of Physiological Variations in M2 Generation of Solanum melongena L. Mutagenized by Ethyl Methane Sulfonate

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