Dataset Information

Genetic mapping of the ScHd1 gene in rye and an assessment of its relationship with earliness per se and plant morphology.

ABSTRACT: A fragment of the ScHd1 gene derived from eight inbred lines was sequenced and showed homology to other Hd1 genes from different cereals. Sequences were analysed with respect to the presence of a single-nucleotide polymorphism (SNP) difference. A C-T transition at position 312 of the consensus sequence was found, which distinguished two lines from the remaining six. The deduced amino acid sequence revealed a high identity (93%) to a Hd1-like protein from wheat. The identified mutation allowed the localisation of ScHd1 on a genetic map of rye (6RS). A small, statistically significant linkage between ScHd1 and earliness per se (eps) and some morphological traits was also established. The chromosomal region, including the S76 allele for the ScHd1 gene was linked to earlier heading, elongated spikes, a greater number of spikelets per spike and an increased weight of 1000 kernels.

SUBMITTER: Swiecka S

PROVIDER: S-EPMC4185098 | biostudies-literature | 2014 Nov

REPOSITORIES: biostudies-literature

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Genetic mapping of the ScHd1 gene in rye and an assessment of its relationship with earliness per se and plant morphology.

Swięcka Sandra S Berdzik Marcin M Myśków Beata B

Journal of applied genetics 20140520 4

A fragment of the ScHd1 gene derived from eight inbred lines was sequenced and showed homology to other Hd1 genes from different cereals. Sequences were analysed with respect to the presence of a single-nucleotide polymorphism (SNP) difference. A C-T transition at position 312 of the consensus sequence was found, which distinguished two lines from the remaining six. The deduced amino acid sequence revealed a high identity (93%) to a Hd1-like protein from wheat. The identified mutation allowed th ...[more]

PMID: 24840745

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Project description:BackgroundPigeonpea is an important grain legume of the semi-arid tropics and sub-tropical regions where it plays a crucial role in the food and nutritional security of the people. The average productivity of pigeonpea has remained very low and stagnant for over five decades due to lack of genomic information and intensive breeding efforts. Previous SSR-based linkage maps of pigeonpea used inter-specific crosses due to low inter-varietal polymorphism. Here our aim was to construct a high density intra-specific linkage map using genic-SNP markers for mapping of major quantitative trait loci (QTLs) for key agronomic traits, including plant height, number of primary and secondary branches, number of pods, days to flowering and days to maturity in pigeonpea.ResultsA population of 186 F2:3 lines derived from an intra-specific cross between inbred lines 'Pusa Dwarf' and 'HDM04-1' was used to construct a dense molecular linkage map of 296 genic SNP and SSR markers covering a total adjusted map length of 1520.22 cM for the 11 chromosomes of the pigeonpea genome. This is the first dense intra-specific linkage map of pigeonpea with the highest genome length coverage. Phenotypic data from the F2:3 families were used to identify thirteen QTLs for the six agronomic traits. The proportion of phenotypic variance explained by the individual QTLs ranged from 3.18% to 51.4%. Ten of these QTLs were clustered in just two genomic regions, indicating pleiotropic effects or close genetic linkage. In addition to the main effects, significant epistatic interaction effects were detected between the QTLs for number of pods per plant.ConclusionsA large amount of information on transcript sequences, SSR markers and draft genome sequence is now available for pigeonpea. However, there is need to develop high density linkage maps and identify genes/QTLs for important agronomic traits for practical breeding applications. This is the first report on identification of QTLs for plant type and maturity traits in pigeonpea. The QTLs identified in this study provide a strong foundation for further validation and fine mapping for utilization in the pigeonpea improvement.

Dataset Information

Genetic mapping of the ScHd1 gene in rye and an assessment of its relationship with earliness per se and plant morphology.

Publications

Genetic mapping of the ScHd1 gene in rye and an assessment of its relationship with earliness per se and plant morphology.

Similar Datasets

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