ArticleBMC genomics2013
An initial assessment of linkage disequilibrium (LD) in coffee trees: LD patterns in groups of Coffea canephora Pierre using microsatellite analysis.
Article in BMC genomics, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.
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4 citing papers in PubMed.
- Genome wide association study of 5 agronomic traits in olive (Olea europaea L.).Scientific reports · 2019Article
- Identification by the DArTseq method of the genetic origin of the Coffea canephora cultivated in Vietnam and Mexico.BMC plant biology · 2016Article
- Population genetic analysis reveals cryptic sex in the phytopathogenic fungus Alternaria alternata.Scientific reports · 2015Article
- Developing core collections to optimize the management and the exploitation of diversity of the coffee Coffea canephora.Genetica · 2014Article
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Authors and funding
8 authors.
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Abstract
backgroundA reciprocal recurrent selection program has been under way for the Coffea canephora coffee tree for approximately thirty years in the Ivory Coast. Association genetics would help to speed up this program by more rapidly selecting zones of interest in the genome. However, prior to any such studies, the linkage disequilibrium (LD) needs to be assessed between the markers on the genome. These data are essential for guiding association studies.
resultsThis article describes the first results of an LD assessment in a coffee tree species. Guinean and Congolese breeding populations of C. canephora have been used for this work, with the goal of identifying ways of using these populations in association genetics. We identified changes in the LD along the genome within the different C. canephora diversity groups. In the different diversity groups studied, the LD was variable. Some diversity groups displayed disequilibria over long distances (up to 25 cM), whereas others had disequilibria not exceeding 1 cM. We also discovered a fine structure within the Guinean group.
conclusionsGiven these results, association studies can be used within the species C. canephora. The coffee recurrent selection scheme being implemented in the Ivory Coast can thus be optimized. Lastly, our results could be used to improve C. arabica because one of its parents is closely related to C. canephora.
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