@article{fdi:010087728,
  title = {{G}enome-wide admixture mapping identifies wild ancestry-of-origin segments in cultivated robusta coffee},
  author = {{V}i, {T}. and {V}igouroux, {Y}ves and {C}ubry, {P}hilippe and {M}arraccini, {P}. and {P}han, {H}. and {K}hong, {G}. {N}. and {P}oncet, {V}al{\'e}rie},
  editor = {},
  language = {{ENG}},
  abstract = {{H}umans have had a major influence on the dissemination of crops beyond their native range, thereby offering new hybridization opportunities. {C}haracterizing admixed genomes with mosaic origins generates valuable insight into the adaptive history of crops and the impact on current varietal diversity. {W}e applied the {ELAI} tool-an efficient local ancestry inference method based on a two-layer hidden {M}arkov model to track segments of wild origin in cultivated accessions in the case of multiway admixtures. {S}ource populations-which may actually be limited and partially admixed-must be generally specified when using such inference models. {W}e thus developed a framework to identify local ancestry with admixed source populations. {U}sing sequencing data for wild and cultivated {C}offea canephora (commonly called {R}obusta), our approach was found to be highly efficient and accurate on simulated hybrids. {A}pplication of the method to assess elite {R}obusta varieties from {V}ietnam led to the identification of an accession derived from a likely backcross between two genetic groups from the {C}ongo {B}asin and the western coastal region of {C}entral {A}frica. {A}dmixtures resulting from crop hybridization and diffusion could thus lead to the generation of elite high-yielding varieties. {O}ur methods should be widely applicable to gain insight into the role of hybridization during plant and animal evolutionary history.},
  keywords = {local ancestry inference ; {ELAI} ; crops ; admixture ; crop diffusion ; {C}offea canephora ; {AFRIQUE} ; {VIET} {NAM}},
  booktitle = {},
  journal = {{G}enome {B}iology and {E}volution},
  volume = {15},
  numero = {5},
  pages = {evad065 [12 p.]},
  ISSN = {1759-6653},
  year = {2023},
  DOI = {10.1093/gbe/evad065},
  URL = {https://www.documentation.ird.fr/hor/fdi:010087728},
}