Characterization and mapping of Dt1 locus which co-segregates with CcTFL1 for growth habit in pigeonpea

• Published in: Theoretical and applied genetics 2017-09, Vol.130 (9), p.1773-1784
• Main Authors: Saxena, Rachit K., Obala, Jimmy, Sinjushin, Andrey, Kumar, C.V. Sameer, Saxena, K.B., Varshney, Rajeev K.
• Format: Article
• Language: English
• Subjects: Agricultural economics; Agriculture; Alfalfa; Arid environments; Arid zones; Automation; Biochemistry; Biomedical and Life Sciences; Biotechnology; Cajanus - genetics; Cajanus - growth & development; Chromosome Mapping; Gene mapping; Genes, Plant; Genetic aspects; Genotype & phenotype; Genotyping; Genotyping Techniques; Glycine; Growth; Heredity; INDEL Mutation; Legumes; Life Sciences; Observations; Original; Original Article; Phenotype; Phenotypic variations; Pigeon pea; Plant Biochemistry; Plant Breeding/Biotechnology; Plant Genetics and Genomics; Plant growth; Plant Proteins - genetics; Polymorphism, Single Nucleotide; Quantitative trait loci; Semiarid environments; Single-nucleotide polymorphism
• ISSN: 0040-5752; 1432-2242
• DOI: 10.1007/s00122-017-2924-2

Key message We report growth habit profiling following SEM, genetic mapping and QTL analysis. Highlighted CcTFL1 , a candidate for determinacy in pigeonpea, since an Indel marker derived from this gene co-segregated with Dt1 locus. Pigeonpea ( Cajanus cajan ) is one of the most important legume crops grown in arid and semi-arid regions of the world. It is characterized with few unique features compared with other legume species, such as Lotus , Medicago , and Glycine . One of them is growth habit, an important agronomic trait. In the present study, identification of mutations affecting growth habit accompanied by a precise analysis of phenotype has been done which will shed more light upon developmental regulation in pigeonpea. A genetic study was conducted to examine the inheritance of growth habit and a genotyping by sequencing (GBS)-based genetic map constructed using F 2 mapping population derived from crossing parents ICP 5529 and ICP 11605. Inheritance studies clearly demonstrated the dominance of indeterminate (IDT) growth habit over determinate (DT) growth habit in F 2 and F 2:3 progenies. A total of 787 SNP markers were mapped in the genetic map of 1454 cM map length. Growth habit locus ( Dt1 ) was mapped on the CcLG03 contributing more than 61% of total phenotypic variations. Subsequently, QTL analysis highlighted one gene, CcTFL1 , as a candidate for determinacy in pigeonpea, since an Indel marker derived from this gene co-segregated with the Dt1 locus. Ability of this Indel-derived marker to differentiate DT/IDT lines was also validated on 262 pigeonpea lines. This study clearly demonstrated that CcTFL1 is a candidate gene for growth habit in pigeonpea and a user-friendly marker was developed in the present study which will allow low-cost genotyping without need of automation.