| dc.contributor.author | Padi, F.K. |
| dc.contributor.author | Ofori, A. |
| dc.contributor.author | Takrama, J. |
| dc.contributor.author | Djan, E. |
| dc.contributor.author | Opoku, S.Y. |
| dc.contributor.author | Dadzie, A.M. |
| dc.contributor.author | Bhattacharjee, R. |
| dc.contributor.author | Motamayor, J. |
| dc.contributor.author | Zhang, D. |
| dc.date.accessioned | 2019-12-04T10:58:04Z |
| dc.date.available | 2019-12-04T10:58:04Z |
| dc.date.issued | 2015 |
| dc.identifier.citation | Padi, F.K., Ofori, A., Takrama, J., Djan, E., Opoku, S.Y., Dadzie, A.M., ... & Zhang, D. (2015). The impact of SNP fingerprinting and parentage analysis on the effectiveness of variety recommendations in cacao. Tree Genetics & Genomes, 11(3), 1-14. |
| dc.identifier.issn | 1614-2942 |
| dc.identifier.uri | https://hdl.handle.net/20.500.12478/908 |
| dc.description | Published online: 26 April 2015 |
| dc.description.abstract | Evidence for the impact of mislabeling and/or pollen
contamination on consistency of field performance has
been lacking to reinforce the need for strict adherence to quality
control protocols in cacao seed garden and germplasm plot
management. The present study used SNP fingerprinting at 64
loci to examine the diversity, labeling errors and parentage in
2551 trees obtained from six seed gardens, breeders clone
collection and single-cross progenies and a sample of farmers’
trees in Ghana. Clone mislabeling was pervasive, both within
the seed garden clones and among clones of the breeders’
active collection. Among the seed garden clones, mislabeled
trees were assigned to other parental clones used in the seed
garden, pointing to labeling errors prior to planting as the
principal cause of mislabeling. Among the breeders’ clone
collection, both homonymous and synonymous mislabeling
were identified in addition to trees with unique genotypes.
This implicates pre-planting labeling errors and rootstocks
overtaking budded scions. Parentage analysis supported the
Amelonado ancestry of farmers’ varieties but with significant
contribution of Upper Amazon introductions. Parentage of
recently developed clones and of progenies of controlled
crosses showed evidence of both pollen contamination and
effects of mislabeled parents. The observed patterns of unexpected
parentage had direct effects on the consistency of the
variety performance between trials and increased within-plot
variability for families with mixed ancestry. The results provide
a strong basis for mainstreaming SNP fingerprinting in
cacao breeding programs to improve the efficiency of the variety
development process.Evidence for the impact of mislabeling and/or pollen
contamination on consistency of field performance has
been lacking to reinforce the need for strict adherence to quality
control protocols in cacao seed garden and germplasm plot
management. The present study used SNP fingerprinting at 64
loci to examine the diversity, labeling errors and parentage in
2551 trees obtained from six seed gardens, breeders clone
collection and single-cross progenies and a sample of farmers’
trees in Ghana. Clone mislabeling was pervasive, both within
the seed garden clones and among clones of the breeders’
active collection. Among the seed garden clones, mislabeled
trees were assigned to other parental clones used in the seed
garden, pointing to labeling errors prior to planting as the
principal cause of mislabeling. Among the breeders’ clone
collection, both homonymous and synonymous mislabeling
were identified in addition to trees with unique genotypes.
This implicates pre-planting labeling errors and rootstocks
overtaking budded scions. Parentage analysis supported the
Amelonado ancestry of farmers’ varieties but with significant
contribution of Upper Amazon introductions. Parentage of
recently developed clones and of progenies of controlled
crosses showed evidence of both pollen contamination and
effects of mislabeled parents. The observed patterns of unexpected
parentage had direct effects on the consistency of the
variety performance between trials and increased within-plot
variability for families with mixed ancestry. The results provide
a strong basis for mainstreaming SNP fingerprinting in
cacao breeding programs to improve the efficiency of the variety
development process.Evidence for the impact of mislabeling and/or pollen
contamination on consistency of field performance has
been lacking to reinforce the need for strict adherence to quality
control protocols in cacao seed garden and germplasm plot
management. The present study used SNP fingerprinting at 64
loci to examine the diversity, labeling errors and parentage in
2551 trees obtained from six seed gardens, breeders clone
collection and single-cross progenies and a sample of farmers’
trees in Ghana. Clone mislabeling was pervasive, both within
the seed garden clones and among clones of the breeders’
active collection. Among the seed garden clones, mislabeled
trees were assigned to other parental clones used in the seed
garden, pointing to labeling errors prior to planting as the
principal cause of mislabeling. Among the breeders’ clone
collection, both homonymous and synonymous mislabeling
were identified in addition to trees with unique genotypes.
This implicates pre-planting labeling errors and rootstocks
overtaking budded scions. Parentage analysis supported the
Amelonado ancestry of farmers’ varieties but with significant
contribution of Upper Amazon introductions. Parentage of
recently developed clones and of progenies of controlled
crosses showed evidence of both pollen contamination and
effects of mislabeled parents. The observed patterns of unexpected
parentage had direct effects on the consistency of the
variety performance between trials and increased within-plot
variability for families with mixed ancestry. The results provide
a strong basis for mainstreaming SNP fingerprinting in
cacao breeding programs to improve the efficiency of the variety
development process. |
| dc.language.iso | en |
| dc.subject | Genetic Structure |
| dc.subject | Theobroma Cacoa |
| dc.title | The impact of SNP fingerprinting and parentage analysis on the effectiveness of variety recommendations in cacao |
| dc.type | Journal Article |
| dc.description.version | Peer Review |
| cg.contributor.affiliation | Cocoa Research Institute of Ghana |
| cg.contributor.affiliation | International Institute of Tropical Agriculture |
| cg.contributor.affiliation | Mars, Inc. |
| cg.contributor.affiliation | United States Department of Agriculture |
| cg.coverage.region | Africa |
| cg.coverage.region | West Africa |
| cg.coverage.country | Ghana |
| cg.isijournal | ISI Journal |
| cg.authorship.types | CGIAR and developing country institute |
| cg.iitasubject | Cocoa |
| cg.iitasubject | Genetic Improvement |
| cg.journal | Tree Genetics & Genomes |
| cg.howpublished | Formally Published |
| cg.accessibilitystatus | Limited Access |
| local.dspaceid | 76407 |
| cg.identifier.doi | https://dx.doi.org/10.1007/s11295-015-0875-9 |
