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A QTL for root growth angle on rice chromosome 7 is involved in the genetic pathway of DEEPER ROOTING 1.

Uga Y, Kitomi Y, Yamamoto E, Kanno N, Kawai S, Mizubayashi T, Fukuoka S - Rice (N Y) (2015)

Bottom Line: By crossing IR64 (which has a non-functional allele of DRO1) with Kinandang Patong (which has a functional allele of DRO1), we developed 26 chromosome segment substitution lines (CSSLs) that carried a particular chromosome segment from Kinandang Patong in the IR64 genetic background.Using these CSSLs, we found only one chromosomal region that was related to RGA: on chromosome 9, which includes DRO1.DRO3 may only affect RGA in plants with a functional DRO1 allele, suggesting that DRO3 is involved in the DRO1 genetic pathway.

View Article: PubMed Central - PubMed

Affiliation: National Institute of Agrobiological Sciences, 2-1-2 Kannondai, Tsukuba, Ibaraki 305-8602 Japan.

ABSTRACT

Background: Root growth angle (RGA) is an important trait that influences the ability of rice to avoid drought stress. DEEPER ROOTING 1 (DRO1), which is a major quantitative trait locus (QTL) for RGA, is responsible for the difference in RGA between the shallow-rooting cultivar IR64 and the deep-rooting cultivar Kinandang Patong. However, the RGA differences between these cultivars cannot be fully explained by DRO1. The objective of this study was to identify new QTLs for RGA explaining the difference in RGA between these cultivars.

Results: By crossing IR64 (which has a non-functional allele of DRO1) with Kinandang Patong (which has a functional allele of DRO1), we developed 26 chromosome segment substitution lines (CSSLs) that carried a particular chromosome segment from Kinandang Patong in the IR64 genetic background. Using these CSSLs, we found only one chromosomal region that was related to RGA: on chromosome 9, which includes DRO1. Using an F2 population derived from a cross between Kinandang Patong and the Dro1-NIL (near isogenic line), which had a functional DRO1 allele in the IR64 genetic background, we identified a new QTL for RGA (DRO3) on the long arm of chromosome 7.

Conclusions: DRO3 may only affect RGA in plants with a functional DRO1 allele, suggesting that DRO3 is involved in the DRO1 genetic pathway.

No MeSH data available.


Related in: MedlinePlus

Graphical genotypes of the 26 IK-CSSLs derived from a cross between IR64 and Kinandang Patong (see Additional file4for details). White, black, and gray boxes indicate genotypes homozygous for IR64 alleles, those homozygous for Kinandang Patong alleles, and those heterozygous for these alleles, respectively.
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Fig1: Graphical genotypes of the 26 IK-CSSLs derived from a cross between IR64 and Kinandang Patong (see Additional file4for details). White, black, and gray boxes indicate genotypes homozygous for IR64 alleles, those homozygous for Kinandang Patong alleles, and those heterozygous for these alleles, respectively.

Mentions: We developed a set of 26 CSSLs derived from a cross between IR64 and Kinandang Patong (hereafter, IK-CSSLs) (Figure 1). Based on physical map positions of the 519 DNA markers used in this study, each chromosome was covered by one to four lines that carried overlapping segments, except for small regions on chromosomes 2, 5, 7, 8, and 10 that were not covered. A small segment on the long arm of chromosome 12 in line SL1026 remained heterozygous, because seeds of plants homozygous for Kinandang Patong at this region in the IR64 genetic background could not be obtained. Phenotypic evaluation of several physiological and aboveground morphological traits (heading date, culm length, and the length and number of panicles) in paddy fields revealed significant differences between several lines and IR64, suggesting that many QTLs segregated in this parental combination (Additional file 1: Figure S1). On the other hand, only plants of SL1020, which was homozygous for Kinandang Patong throughout chromosome 9 and which contained functional allele of DRO1, had a significantly larger mean ratio of deep rooting (RDR; 53.4%) than that of IR64 (7.8%), although the RDR in this line was significantly smaller than that in Kinandang Patong (73.7%) (Figure 2). RDR of the other lines, which included non-functional alleles of DRO1, did not differ significantly from that of IR64, and ranged from 6.9 to 13.5%.Figure 1


A QTL for root growth angle on rice chromosome 7 is involved in the genetic pathway of DEEPER ROOTING 1.

Uga Y, Kitomi Y, Yamamoto E, Kanno N, Kawai S, Mizubayashi T, Fukuoka S - Rice (N Y) (2015)

Graphical genotypes of the 26 IK-CSSLs derived from a cross between IR64 and Kinandang Patong (see Additional file4for details). White, black, and gray boxes indicate genotypes homozygous for IR64 alleles, those homozygous for Kinandang Patong alleles, and those heterozygous for these alleles, respectively.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4384719&req=5

Fig1: Graphical genotypes of the 26 IK-CSSLs derived from a cross between IR64 and Kinandang Patong (see Additional file4for details). White, black, and gray boxes indicate genotypes homozygous for IR64 alleles, those homozygous for Kinandang Patong alleles, and those heterozygous for these alleles, respectively.
Mentions: We developed a set of 26 CSSLs derived from a cross between IR64 and Kinandang Patong (hereafter, IK-CSSLs) (Figure 1). Based on physical map positions of the 519 DNA markers used in this study, each chromosome was covered by one to four lines that carried overlapping segments, except for small regions on chromosomes 2, 5, 7, 8, and 10 that were not covered. A small segment on the long arm of chromosome 12 in line SL1026 remained heterozygous, because seeds of plants homozygous for Kinandang Patong at this region in the IR64 genetic background could not be obtained. Phenotypic evaluation of several physiological and aboveground morphological traits (heading date, culm length, and the length and number of panicles) in paddy fields revealed significant differences between several lines and IR64, suggesting that many QTLs segregated in this parental combination (Additional file 1: Figure S1). On the other hand, only plants of SL1020, which was homozygous for Kinandang Patong throughout chromosome 9 and which contained functional allele of DRO1, had a significantly larger mean ratio of deep rooting (RDR; 53.4%) than that of IR64 (7.8%), although the RDR in this line was significantly smaller than that in Kinandang Patong (73.7%) (Figure 2). RDR of the other lines, which included non-functional alleles of DRO1, did not differ significantly from that of IR64, and ranged from 6.9 to 13.5%.Figure 1

Bottom Line: By crossing IR64 (which has a non-functional allele of DRO1) with Kinandang Patong (which has a functional allele of DRO1), we developed 26 chromosome segment substitution lines (CSSLs) that carried a particular chromosome segment from Kinandang Patong in the IR64 genetic background.Using these CSSLs, we found only one chromosomal region that was related to RGA: on chromosome 9, which includes DRO1.DRO3 may only affect RGA in plants with a functional DRO1 allele, suggesting that DRO3 is involved in the DRO1 genetic pathway.

View Article: PubMed Central - PubMed

Affiliation: National Institute of Agrobiological Sciences, 2-1-2 Kannondai, Tsukuba, Ibaraki 305-8602 Japan.

ABSTRACT

Background: Root growth angle (RGA) is an important trait that influences the ability of rice to avoid drought stress. DEEPER ROOTING 1 (DRO1), which is a major quantitative trait locus (QTL) for RGA, is responsible for the difference in RGA between the shallow-rooting cultivar IR64 and the deep-rooting cultivar Kinandang Patong. However, the RGA differences between these cultivars cannot be fully explained by DRO1. The objective of this study was to identify new QTLs for RGA explaining the difference in RGA between these cultivars.

Results: By crossing IR64 (which has a non-functional allele of DRO1) with Kinandang Patong (which has a functional allele of DRO1), we developed 26 chromosome segment substitution lines (CSSLs) that carried a particular chromosome segment from Kinandang Patong in the IR64 genetic background. Using these CSSLs, we found only one chromosomal region that was related to RGA: on chromosome 9, which includes DRO1. Using an F2 population derived from a cross between Kinandang Patong and the Dro1-NIL (near isogenic line), which had a functional DRO1 allele in the IR64 genetic background, we identified a new QTL for RGA (DRO3) on the long arm of chromosome 7.

Conclusions: DRO3 may only affect RGA in plants with a functional DRO1 allele, suggesting that DRO3 is involved in the DRO1 genetic pathway.

No MeSH data available.


Related in: MedlinePlus