Molecular Fingerprinting and Hybridity Authentication in Cowpea Using Single Nucleotide Polymorphism Based Kompetitive Allele-Specific PCR Assay.

Autor: Ongom PO; International Institute of Tropical Agriculture (IITA), Kano, Nigeria., Fatokun C; International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria., Togola A; International Institute of Tropical Agriculture (IITA), Kano, Nigeria., Salvo S; Bayer Research and Development Services LLC, Chesterfield, MO, United States., Oyebode OG; International Institute of Tropical Agriculture (IITA), Kano, Nigeria., Ahmad MS; International Institute of Tropical Agriculture (IITA), Kano, Nigeria., Jockson ID; International Institute of Tropical Agriculture (IITA), Kano, Nigeria., Bala G; International Institute of Tropical Agriculture (IITA), Kano, Nigeria., Boukar O; International Institute of Tropical Agriculture (IITA), Kano, Nigeria.
Jazyk: angličtina
Zdroj: Frontiers in plant science [Front Plant Sci] 2021 Oct 05; Vol. 12, pp. 734117. Date of Electronic Publication: 2021 Oct 05 (Print Publication: 2021).
DOI: 10.3389/fpls.2021.734117
Abstrakt: Optimization of a breeding program for increased genetic gain requires quality assurance (QA) and quality control (QC) at key phases of the breeding process. One vital phase in a breeding program that requires QC and QA is the choice of parents and successful hybridizations to combine parental attributes and create variations. The objective of this study was to determine parental diversity and confirm hybridity of cowpea F 1 progenies using KASP (Kompetitive Allele-Specific PCR)-based single nucleotide polymorphism (SNP) markers. A total of 1,436 F 1 plants were derived from crossing 220 cowpea breeding lines and landraces to 2 elite sister lines IT99K-573-1-1 and IT99K-573-2-1 as male parents, constituting 225 cross combinations. The progenies and the parents were genotyped with 17 QC SNP markers via high-throughput KASP genotyping assay. The QC markers differentiated the parents with mean efficiency of 37.90% and a range of 3.4-82.8%, revealing unique fingerprints of the parents. Neighbor-Joining cladogram divided the 222 parents into 3 clusters. Genetic distances between parents ranged from 0 to 3.74 with a mean of 2.41. Principal component analysis (PCA) depicted a considerable overlap between parents and F 1 progenies with more scatters among parents than the F 1 s. The differentiation among parents and F 1 s was best contributed to by 82% of the markers. As expected, parents and F 1 s showed a significant contrast in proportion of heterozygous individuals, with mean values of 0.02 and 0.32, respectively. KASP markers detected true hybridity with 100% success rate in 72% of the populations. Overall, 79% of the putative F 1 plants were true hybrids, 14% were selfed plants, and 7% were undetermined due to missing data and lack of marker polymorphism between parents. The study demonstrated an effective application of KASP-based SNP assay in fingerprinting, confirmation of hybridity, and early detection of false F 1 plants. The results further uncovered the need to deploy markers as a QC step in a breeding program.
Competing Interests: SS is employed by the company Bayer Research and Development Services LLC. The remaining authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest.
(Copyright © 2021 Ongom, Fatokun, Togola, Salvo, Oyebode, Ahmad, Jockson, Bala and Boukar.)
Databáze: MEDLINE
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