TY - JOUR
T1 - SSR marker development, genetic diversity and population structure analysis of Bambara groundnut [Vigna subterranea (L.) Verdc.] landraces
AU - Molosiwa, Odireleng
AU - Aliyu, Siise
AU - Stadler, Florian
AU - Mayes, Katie
AU - Massawe, Festo
AU - Mayes, Sean
N1 - Funding Information:
This project was funded by European Union INCO-DEV: Sixth framework programme through the BAMLINK project.
Publisher Copyright:
© 2015, Springer Science+Business Media Dordrecht.
PY - 2015/12/1
Y1 - 2015/12/1
N2 - We report here the development of 75 SSR markers for Bambara groundnut through various sequencing approaches and the subsequent utilization of these SSR markers and other marker types (DArT Arrays) for the analysis of genetic diversity, population structure and the selection of pure lines from landraces. To assess the level of genetic diversity in Bambara groundnut landrace collections, 68 and 201 polymorphic SSR and DArT markers, respectively, were assayed against 24 single individual seed from a core collection of landraces. Polymorphic information content (PIC) ranged from 0.08 to 0.89 with an average of 0.42 across all SSR polymorphic markers, with observed (Ho) and expected (He) heterozygosity of 0.01 and 0.5 respectively. For the population structure analysis, 12 SSR markers selected as highly polymorphic from the initial screen were assayed against 123 landrace accessions. The average PIC across the 12 SSR was 0.66 with an average Ho of 0.02 and an inbreeding coefficient (f) of 0.98, suggesting that seed derived from a single plant essentially represents an unselected variety. Based on the low level of Ho and high f observed in the landrace samples, a subset of 35 genotypes derived from the landraces were advanced for field trials in Botswana and scored for 37 phenotypic traits. These 35 individual genotypes were ranked for agronomic performance based on yield component factors and other qualitative traits after field evaluation. Five genotypes with good yield potential and adaptability were recommended as potential varieties for Botswanan agro-ecology.
AB - We report here the development of 75 SSR markers for Bambara groundnut through various sequencing approaches and the subsequent utilization of these SSR markers and other marker types (DArT Arrays) for the analysis of genetic diversity, population structure and the selection of pure lines from landraces. To assess the level of genetic diversity in Bambara groundnut landrace collections, 68 and 201 polymorphic SSR and DArT markers, respectively, were assayed against 24 single individual seed from a core collection of landraces. Polymorphic information content (PIC) ranged from 0.08 to 0.89 with an average of 0.42 across all SSR polymorphic markers, with observed (Ho) and expected (He) heterozygosity of 0.01 and 0.5 respectively. For the population structure analysis, 12 SSR markers selected as highly polymorphic from the initial screen were assayed against 123 landrace accessions. The average PIC across the 12 SSR was 0.66 with an average Ho of 0.02 and an inbreeding coefficient (f) of 0.98, suggesting that seed derived from a single plant essentially represents an unselected variety. Based on the low level of Ho and high f observed in the landrace samples, a subset of 35 genotypes derived from the landraces were advanced for field trials in Botswana and scored for 37 phenotypic traits. These 35 individual genotypes were ranked for agronomic performance based on yield component factors and other qualitative traits after field evaluation. Five genotypes with good yield potential and adaptability were recommended as potential varieties for Botswanan agro-ecology.
KW - Bambara groundnut
KW - Genetic diversity
KW - Landraces
KW - Population structure
KW - Pre-breeding
KW - Vigna subterranea
UR - http://www.scopus.com/inward/record.url?scp=84945486483&partnerID=8YFLogxK
U2 - 10.1007/s10722-015-0226-6
DO - 10.1007/s10722-015-0226-6
M3 - Article
SN - 0925-9864
VL - 62
SP - 1225
EP - 1243
JO - Genetic Resources and Crop Evolution
JF - Genetic Resources and Crop Evolution
IS - 8
ER -