Integration of Genomics into Rice Breeding

Fukuoka, Shuichi; Ebana, Kaworu; Yamamoto, Tetsuro; Yano, Masahiro

doi:10.1007/s12284-010-9044-9

Cited by 28 publications

(16 citation statements)

References 48 publications

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“…Once favorable alleles in the genes/QTL on the introgressed segments have been identified, the CSILs become candidate lines for selection in the molecular breeding strategy (Fukuoka et al 2010;Wang et al 2007;Neeraja et al 2007). In this study, a stable fiber length qFL-A8-1 with the peak LOD of 9.21 and contribution rate of 6.58% was detected in all environments, which could enable elongation of fibers.…”

Section: Effect Of a T /D T Sub-genomes On The Fiber Quality Qtlmentioning

confidence: 74%

Inheritance of long staple fiber quality traits of Gossypium barbadense in G. hirsutum background using CSILs

et al. 2012

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Gossypium hirsutum is a high yield cotton species that exhibits only moderate performance in fiber qualities. A promising but challenging approach to improving its phenotypes is interspecific introgression, the transfer of valuable traits or genes from the germplasm of another species such as G. barbadense, an important cultivated extra long staple cotton species. One set of chromosome segment introgression lines (CSILs) was developed, where TM-1, the genetic standard in G. hirsutum, was used as the recipient parent and the long staple cotton G. barbadense Hai7124 was used as the donor parent by molecular marker-assisted selection (MAS) in BC(5)S(1–4) and BC(4)S(1–3) generations. After four rounds of MAS, the CSIL population was comprised of 174 lines containing 298 introgressed segments, of which 86 (49.4%) lines had single introgressed segments. The total introgressed segment length covered 2,948.7 cM with an average length of 16.7 cM and represented 83.3% of tetraploid cotton genome. The CSILs were highly varied in major fiber qualities. By integrated analysis of data collected in four environments, a total of 43 additive quantitative trait loci (QTL) and six epistatic QTL associated with fiber qualities were detected by QTL IciMapping 3.0 and multi-QTL joint analysis. Six stable QTL were detected in various environments. The CSILs developed and the analyses presented here will enhance the understanding of the genetics of fiber qualities in long staple G. barbadense and facilitate further molecular breeding to improve fiber quality in Upland cotton.

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Section: Effect Of a T /D T Sub-genomes On The Fiber Quality Qtlmentioning

confidence: 74%

Inheritance of long staple fiber quality traits of Gossypium barbadense in G. hirsutum background using CSILs

et al. 2012

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“…Advanced backcross progeny such as CSSLs can be useful for genetic analysis (Fukuoka et al 2010b). Because each CSSL has only one or a few segment substitutions, it is possible to detect QTLs with minor effects generated by the substituted segments (Ebitani et al 2005; Fukuoka et al 2010a; Kubo et al 2002; Marzougui et al 2011; Takai et al 2007). We were able to perform reliable assessment of BSR resistance using CSSLs, and we successfully identified a QTL for resistance to BSR, qRBS1 , located on the short arm of chromosome 10.…”

Section: Discussionmentioning

confidence: 99%

Identification of qRBS1, a QTL involved in resistance to bacterial seedling rot in rice

et al. 2013

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Bacterial seedling rot (BSR), a destructive disease of rice (Oryza sativa L.), is caused by the bacterial pathogen Burkholderia glumae. To identify QTLs for resistance to BSR, we conducted a QTL analysis using chromosome segment substitution lines (CSSLs) derived from a cross between Nona Bokra (resistant) and Koshihikari (susceptible). Comparison of the levels of BSR in the CSSLs and their recurrent parent, Koshihikari, revealed that a region on chromosome 10 was associated with resistance. Further genetic analyses using an F5 population derived from a cross between a resistant CSSL and Koshihikari confirmed that a QTL for BSR resistance was located on the short arm of chromosome 10. The Nona Bokra allele was associated with resistance to BSR. Substitution mapping in the Koshihikari genetic background demonstrated that the QTL, here designated as qRBS1 (quantitative trait locus for RESISTANCE TO BACTERIAL SEEDLING ROT 1), was located in a 393-kb interval (based on the Nipponbare reference genome sequence) defined by simple sequence repeat markers RM24930 and RM24944.

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“…To reduce the cost and time associated with whole genotyping, alternative approaches such as selective genotyping and bulk segregant analysis (BSA) were proposed (Darvasi & Soller, 1992;Bernier et al, 2007;Venuprasad et al, 2009;Vikram et al, 2009 With the availability of genome-wide polymorphic SNP markers, Single nucleotide polymorphism (SNP) genotypic arrays, and cheaper SNP assays, marker-assisted breeding can become a common breeding practice Fukuoka et al, 2010).…”

Section: Selective Genotyping and Bulk Segregant Analysismentioning

confidence: 99%

Sustainable Rice Yield in Water-Short Drought-Prone Environments: Conventional and Molecular Approaches

Swamy¹,

Kumar²

2012

Irrigation Systems and Practices in Challenging Environments

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Integration of Genomics into Rice Breeding

Cited by 28 publications

References 48 publications

Inheritance of long staple fiber quality traits of Gossypium barbadense in G. hirsutum background using CSILs

Inheritance of long staple fiber quality traits of Gossypium barbadense in G. hirsutum background using CSILs

Identification of qRBS1, a QTL involved in resistance to bacterial seedling rot in rice

Sustainable Rice Yield in Water-Short Drought-Prone Environments: Conventional and Molecular Approaches

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