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Fine mapping and candidate gene analysis of a major QTL for panicle structure in rice.

Peng Y, Gao Z, Zhang B, Liu C, Xu J, Ruan B, Hu J, Dong G, Guo L, Liang G, Qian Q - Plant Cell Rep. (2014)

Bottom Line: Gene prediction analysis identified four putative genes, among which Os03g0203200, a previously reported gene for plant height and tiller number, Dwarf 88 (D88)/Dwarf 14 (D14), had three nucleotide substitutions in 93-11 compared with PA64s.The T to G substitution resulted in one amino acid change from valine in 93-11 to glycine in PA64s.The expression of APO1 and IPA1 increased, while GN1a and DST decreased in 93-11 compared with PA64s.

View Article: PubMed Central - PubMed

Affiliation: Key Laboratory of Plant Functional Genomics of the Ministry of Education, Jiangsu Key Laboratory of Crop Genetics and Physiology College of Agriculture, Yangzhou University, Yangzhou, 225009, China, youlinp@hotmail.com.

ABSTRACT

Key message: A gene not only control tiller and plant height, but also regulate panicle structure by QTL dissection in rice. An ideal panicle structure is important for improvement of plant architecture and rice yield. In this study, using recombinant inbred lines (RILs) of PA64s and 93-11, we identified a quantitative trait locus (QTL), designated qPPB3 for primary panicle branch number. With a BC3F2 population derived from a backcross between a resequenced RIL carrying PA64s allele and 93-11, qPPB3 was fine mapped to a 34.6-kb genomic region. Gene prediction analysis identified four putative genes, among which Os03g0203200, a previously reported gene for plant height and tiller number, Dwarf 88 (D88)/Dwarf 14 (D14), had three nucleotide substitutions in 93-11 compared with PA64s. The T to G substitution resulted in one amino acid change from valine in 93-11 to glycine in PA64s. Real-time PCR analysis showed expression level of D88 was higher in 93-11 than PA64s. The expression of APO1 and IPA1 increased, while GN1a and DST decreased in 93-11 compared with PA64s. Therefore, D88/D14 is not only a key regulator for branching, but also affects panicle structure.

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Expression level of D88 and other panicle related gene by real-time PCR. RNA was isolated from panicle (panicle length <5 mm). * and ** indicate the least significant difference at 0.05 and 0.01 probability level between parents, respectively. Values are the mean ± SD with three replicates
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Fig4: Expression level of D88 and other panicle related gene by real-time PCR. RNA was isolated from panicle (panicle length <5 mm). * and ** indicate the least significant difference at 0.05 and 0.01 probability level between parents, respectively. Values are the mean ± SD with three replicates

Mentions: RNA was extracted from inflorescences with length less than 5 mm at the formation stage of panicle primary branch. At the initial formation stage of panicle, the expression level of D88 in PA64s was significantly lower than that in 93-11 (Fig. 4), which is consistent with the previous report that lower expression of D88 gene led to higher tillers but smaller panicle in the d88 mutant (Gao et al. 2009). With the same material, the expression of APO1 and IPA1 in 93-11 also significantly increased compared with PA64s, while the expression of GN1a and DST, two negative regulators of grain number, enhanced in PA64s significantly.Fig. 4


Fine mapping and candidate gene analysis of a major QTL for panicle structure in rice.

Peng Y, Gao Z, Zhang B, Liu C, Xu J, Ruan B, Hu J, Dong G, Guo L, Liang G, Qian Q - Plant Cell Rep. (2014)

Expression level of D88 and other panicle related gene by real-time PCR. RNA was isolated from panicle (panicle length <5 mm). * and ** indicate the least significant difference at 0.05 and 0.01 probability level between parents, respectively. Values are the mean ± SD with three replicates
© Copyright Policy - OpenAccess
Related In: Results  -  Collection

Show All Figures
getmorefigures.php?uid=PMC4197378&req=5

Fig4: Expression level of D88 and other panicle related gene by real-time PCR. RNA was isolated from panicle (panicle length <5 mm). * and ** indicate the least significant difference at 0.05 and 0.01 probability level between parents, respectively. Values are the mean ± SD with three replicates
Mentions: RNA was extracted from inflorescences with length less than 5 mm at the formation stage of panicle primary branch. At the initial formation stage of panicle, the expression level of D88 in PA64s was significantly lower than that in 93-11 (Fig. 4), which is consistent with the previous report that lower expression of D88 gene led to higher tillers but smaller panicle in the d88 mutant (Gao et al. 2009). With the same material, the expression of APO1 and IPA1 in 93-11 also significantly increased compared with PA64s, while the expression of GN1a and DST, two negative regulators of grain number, enhanced in PA64s significantly.Fig. 4

Bottom Line: Gene prediction analysis identified four putative genes, among which Os03g0203200, a previously reported gene for plant height and tiller number, Dwarf 88 (D88)/Dwarf 14 (D14), had three nucleotide substitutions in 93-11 compared with PA64s.The T to G substitution resulted in one amino acid change from valine in 93-11 to glycine in PA64s.The expression of APO1 and IPA1 increased, while GN1a and DST decreased in 93-11 compared with PA64s.

View Article: PubMed Central - PubMed

Affiliation: Key Laboratory of Plant Functional Genomics of the Ministry of Education, Jiangsu Key Laboratory of Crop Genetics and Physiology College of Agriculture, Yangzhou University, Yangzhou, 225009, China, youlinp@hotmail.com.

ABSTRACT

Key message: A gene not only control tiller and plant height, but also regulate panicle structure by QTL dissection in rice. An ideal panicle structure is important for improvement of plant architecture and rice yield. In this study, using recombinant inbred lines (RILs) of PA64s and 93-11, we identified a quantitative trait locus (QTL), designated qPPB3 for primary panicle branch number. With a BC3F2 population derived from a backcross between a resequenced RIL carrying PA64s allele and 93-11, qPPB3 was fine mapped to a 34.6-kb genomic region. Gene prediction analysis identified four putative genes, among which Os03g0203200, a previously reported gene for plant height and tiller number, Dwarf 88 (D88)/Dwarf 14 (D14), had three nucleotide substitutions in 93-11 compared with PA64s. The T to G substitution resulted in one amino acid change from valine in 93-11 to glycine in PA64s. Real-time PCR analysis showed expression level of D88 was higher in 93-11 than PA64s. The expression of APO1 and IPA1 increased, while GN1a and DST decreased in 93-11 compared with PA64s. Therefore, D88/D14 is not only a key regulator for branching, but also affects panicle structure.

Show MeSH
Related in: MedlinePlus