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

Mizobuchi R, Sato H, Fukuoka S, Tsushima S, Imbe T, Yano M - Theor. Appl. Genet. (2013)

Bottom Line: 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.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.

View Article: PubMed Central - PubMed

Affiliation: National Institute of Agrobiological Sciences, Kannondai 2-1-2, Tsukuba, Ibaraki, Japan. ritsuko@affrc.go.jp

ABSTRACT
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.

Show MeSH

Related in: MedlinePlus

Chromosomal location of a QTL for resistance to bacterial seedling rot (BSR) on the short arm of chromosome 10 and allelic differences for marker RM474. a The log-likelihood curve indicates a putative QTL position on chromosome 10 in an F5 population derived from Koshihikari × SL535. LOD logarithm of odds; a additive effect of Nona Bokra allele, d dominance effect of Nona Bokra allele, PVE percentage of variance explained. b Frequency distribution of the BSR ratio in F5 plants showing the three genotype classes of SSR marker RM474, which was found to be linked to the QTL. Labels of x axis indicate maximum BSR ratio in each bin. Genotypes of RM474 are represented as white bars (homozygous for Koshihikari allele), gray bars (heterozygous allele), and black bars (homozygous for Nona Bokra allele). The BSR ratios in the F5 population were determined 8 days after sowing. Arrows indicate the mean values for SL535 and Koshihikari; horizontal lines across the arrows indicate the standard deviations
© Copyright Policy - OpenAccess
Related In: Results  -  Collection


getmorefigures.php?uid=PMC3755214&req=5

Fig3: Chromosomal location of a QTL for resistance to bacterial seedling rot (BSR) on the short arm of chromosome 10 and allelic differences for marker RM474. a The log-likelihood curve indicates a putative QTL position on chromosome 10 in an F5 population derived from Koshihikari × SL535. LOD logarithm of odds; a additive effect of Nona Bokra allele, d dominance effect of Nona Bokra allele, PVE percentage of variance explained. b Frequency distribution of the BSR ratio in F5 plants showing the three genotype classes of SSR marker RM474, which was found to be linked to the QTL. Labels of x axis indicate maximum BSR ratio in each bin. Genotypes of RM474 are represented as white bars (homozygous for Koshihikari allele), gray bars (heterozygous allele), and black bars (homozygous for Nona Bokra allele). The BSR ratios in the F5 population were determined 8 days after sowing. Arrows indicate the mean values for SL535 and Koshihikari; horizontal lines across the arrows indicate the standard deviations

Mentions: To confirm the presence of a putative QTL and to verify the effect of each allele, we developed advanced progeny from a cross between SL535 and Koshihikari. A QTL analysis using an F5 population derived from this cross revealed a wide range of variation in the BSR ratio (14.2 to 96.7 %) and detected one QTL between SSR markers RM474 and RM7361 on the short arm of chromosome 10 (Fig. 3a). This QTL accounted for 22 % of the phenotypic variance in the F5 plants, and the Nona Bokra allele decreased the BSR ratio by 21.7 % (Fig. 3a). On the basis of the genotype at RM474, the SSR marker most closely linked to the QTL, we classified the F5 plants as homozygous for the Nona Bokra allele, homozygous for the Koshihikari allele, or heterozygous (Fig. 3b). F5 plants homozygous for the Koshihikari allele showed a high BSR mean ratio (81.4 %) ranging from 53.3 to 96.7 %. In contrast, the BSR mean ratio was 40.7 % ranging from 14.2 to 57.5 % in plants homozygous for the Nona Bokra allele and 50.5 % ranging from 24.2 to 73.3 % in the heterozygous plants. The distribution of BSR ratios of plants homozygous for the Nona Bokra allele was shifted toward lower ratios than the distribution for heterozygotes. These results clearly confirmed the existence of a QTL on the short arm of chromosome 10 and that the Nona Bokra allele at the QTL decreased the BSR ratio. Fig. 3


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

Mizobuchi R, Sato H, Fukuoka S, Tsushima S, Imbe T, Yano M - Theor. Appl. Genet. (2013)

Chromosomal location of a QTL for resistance to bacterial seedling rot (BSR) on the short arm of chromosome 10 and allelic differences for marker RM474. a The log-likelihood curve indicates a putative QTL position on chromosome 10 in an F5 population derived from Koshihikari × SL535. LOD logarithm of odds; a additive effect of Nona Bokra allele, d dominance effect of Nona Bokra allele, PVE percentage of variance explained. b Frequency distribution of the BSR ratio in F5 plants showing the three genotype classes of SSR marker RM474, which was found to be linked to the QTL. Labels of x axis indicate maximum BSR ratio in each bin. Genotypes of RM474 are represented as white bars (homozygous for Koshihikari allele), gray bars (heterozygous allele), and black bars (homozygous for Nona Bokra allele). The BSR ratios in the F5 population were determined 8 days after sowing. Arrows indicate the mean values for SL535 and Koshihikari; horizontal lines across the arrows indicate the standard deviations
© Copyright Policy - OpenAccess
Related In: Results  -  Collection

Show All Figures
getmorefigures.php?uid=PMC3755214&req=5

Fig3: Chromosomal location of a QTL for resistance to bacterial seedling rot (BSR) on the short arm of chromosome 10 and allelic differences for marker RM474. a The log-likelihood curve indicates a putative QTL position on chromosome 10 in an F5 population derived from Koshihikari × SL535. LOD logarithm of odds; a additive effect of Nona Bokra allele, d dominance effect of Nona Bokra allele, PVE percentage of variance explained. b Frequency distribution of the BSR ratio in F5 plants showing the three genotype classes of SSR marker RM474, which was found to be linked to the QTL. Labels of x axis indicate maximum BSR ratio in each bin. Genotypes of RM474 are represented as white bars (homozygous for Koshihikari allele), gray bars (heterozygous allele), and black bars (homozygous for Nona Bokra allele). The BSR ratios in the F5 population were determined 8 days after sowing. Arrows indicate the mean values for SL535 and Koshihikari; horizontal lines across the arrows indicate the standard deviations
Mentions: To confirm the presence of a putative QTL and to verify the effect of each allele, we developed advanced progeny from a cross between SL535 and Koshihikari. A QTL analysis using an F5 population derived from this cross revealed a wide range of variation in the BSR ratio (14.2 to 96.7 %) and detected one QTL between SSR markers RM474 and RM7361 on the short arm of chromosome 10 (Fig. 3a). This QTL accounted for 22 % of the phenotypic variance in the F5 plants, and the Nona Bokra allele decreased the BSR ratio by 21.7 % (Fig. 3a). On the basis of the genotype at RM474, the SSR marker most closely linked to the QTL, we classified the F5 plants as homozygous for the Nona Bokra allele, homozygous for the Koshihikari allele, or heterozygous (Fig. 3b). F5 plants homozygous for the Koshihikari allele showed a high BSR mean ratio (81.4 %) ranging from 53.3 to 96.7 %. In contrast, the BSR mean ratio was 40.7 % ranging from 14.2 to 57.5 % in plants homozygous for the Nona Bokra allele and 50.5 % ranging from 24.2 to 73.3 % in the heterozygous plants. The distribution of BSR ratios of plants homozygous for the Nona Bokra allele was shifted toward lower ratios than the distribution for heterozygotes. These results clearly confirmed the existence of a QTL on the short arm of chromosome 10 and that the Nona Bokra allele at the QTL decreased the BSR ratio. Fig. 3

Bottom Line: 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.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.

View Article: PubMed Central - PubMed

Affiliation: National Institute of Agrobiological Sciences, Kannondai 2-1-2, Tsukuba, Ibaraki, Japan. ritsuko@affrc.go.jp

ABSTRACT
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.

Show MeSH
Related in: MedlinePlus