Whole-genome resequencing of Red Junglefowl and indigenous village chicken reveal new insights on the genome dynamics of the species
The red jungle fowl Gallus gallus is the main progenitor of domestic chicken, the commonest livestock species, outnumbering humans by an approximate ratio of six to one. The genetic control for production traits have been well studied in commercial chicken, but the selection pressures underlying uni...
| Main Authors: | , , , , , |
|---|---|
| Format: | Conference Paper |
| Language: | Inglés |
| Published: |
2019
|
| Subjects: | |
| Online Access: | https://hdl.handle.net/10568/106375 |
| _version_ | 1855540650593746944 |
|---|---|
| author | Lawal, R.A. Raed, M.A. Riyadh, S.A. Pradeepa, S. Mwacharo, Joram M. Hanotte, Olivier H. |
| author_browse | Hanotte, Olivier H. Lawal, R.A. Mwacharo, Joram M. Pradeepa, S. Raed, M.A. Riyadh, S.A. |
| author_facet | Lawal, R.A. Raed, M.A. Riyadh, S.A. Pradeepa, S. Mwacharo, Joram M. Hanotte, Olivier H. |
| author_sort | Lawal, R.A. |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | The red jungle fowl Gallus gallus is the main progenitor of domestic chicken, the commonest livestock species, outnumbering humans by an approximate ratio of six to one. The genetic control for production traits have been well studied in commercial chicken, but the selection pressures underlying unique adaptation and production to local environments remain largely unknown in indigenous village chicken. Likewise, the genome regions under positive selection in the wild red junglefowl remain untapped. Here, using the pool heterozygosity approach, we analysed indigenous village chicken populations from Ethiopia, Saudi Arabia, and Sri Lanka, alongside six red junglefowl, for signatures of positive selection across the autosomes. Two red junglefowl candidate selected regions were shared with all domestic chicken populations. Four candidates sweep regions, unique to and shared among all indigenous domestic chicken, were detected. Only one region includes annotated genes (TSHR and GTF2A1). Candidate regions that were unique to each domestic chicken population with functions relating to adaptation to temperature gradient, production, reproduction and immunity were identified. Our results provide new insights on the consequence of the selection pressures that followed domestication on the genome landscape of the domestic village chicken. |
| format | Conference Paper |
| id | CGSpace106375 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2019 |
| publishDateRange | 2019 |
| publishDateSort | 2019 |
| record_format | dspace |
| spelling | CGSpace1063752023-02-15T10:23:43Z Whole-genome resequencing of Red Junglefowl and indigenous village chicken reveal new insights on the genome dynamics of the species International Livestock Research Institute Lawal, R.A. Raed, M.A. Riyadh, S.A. Pradeepa, S. Mwacharo, Joram M. Hanotte, Olivier H. animal breeding breeds chickens poultry indigenous breeds genetics The red jungle fowl Gallus gallus is the main progenitor of domestic chicken, the commonest livestock species, outnumbering humans by an approximate ratio of six to one. The genetic control for production traits have been well studied in commercial chicken, but the selection pressures underlying unique adaptation and production to local environments remain largely unknown in indigenous village chicken. Likewise, the genome regions under positive selection in the wild red junglefowl remain untapped. Here, using the pool heterozygosity approach, we analysed indigenous village chicken populations from Ethiopia, Saudi Arabia, and Sri Lanka, alongside six red junglefowl, for signatures of positive selection across the autosomes. Two red junglefowl candidate selected regions were shared with all domestic chicken populations. Four candidates sweep regions, unique to and shared among all indigenous domestic chicken, were detected. Only one region includes annotated genes (TSHR and GTF2A1). Candidate regions that were unique to each domestic chicken population with functions relating to adaptation to temperature gradient, production, reproduction and immunity were identified. Our results provide new insights on the consequence of the selection pressures that followed domestication on the genome landscape of the domestic village chicken. 2019-08-02 2020-01-03T11:10:14Z 2020-01-03T11:10:14Z Conference Paper https://hdl.handle.net/10568/106375 en Limited Access Lawal, R.A., Raed, M.A., Riyadh, S.A., Pradeepa, S., Mwacharo, J.M. and Hanotte, O. 2019. Whole-genome resequencing of Red Junglefowl and indigenous village chicken reveal new insights on the genome dynamics of the species. Paper presented at the Seventh All Africa conference on Animal Agriculture, Accra, Ghana, 29 July-2 August 2019. |
| spellingShingle | animal breeding breeds chickens poultry indigenous breeds genetics Lawal, R.A. Raed, M.A. Riyadh, S.A. Pradeepa, S. Mwacharo, Joram M. Hanotte, Olivier H. Whole-genome resequencing of Red Junglefowl and indigenous village chicken reveal new insights on the genome dynamics of the species |
| title | Whole-genome resequencing of Red Junglefowl and indigenous village chicken reveal new insights on the genome dynamics of the species |
| title_full | Whole-genome resequencing of Red Junglefowl and indigenous village chicken reveal new insights on the genome dynamics of the species |
| title_fullStr | Whole-genome resequencing of Red Junglefowl and indigenous village chicken reveal new insights on the genome dynamics of the species |
| title_full_unstemmed | Whole-genome resequencing of Red Junglefowl and indigenous village chicken reveal new insights on the genome dynamics of the species |
| title_short | Whole-genome resequencing of Red Junglefowl and indigenous village chicken reveal new insights on the genome dynamics of the species |
| title_sort | whole genome resequencing of red junglefowl and indigenous village chicken reveal new insights on the genome dynamics of the species |
| topic | animal breeding breeds chickens poultry indigenous breeds genetics |
| url | https://hdl.handle.net/10568/106375 |
| work_keys_str_mv | AT lawalra wholegenomeresequencingofredjunglefowlandindigenousvillagechickenrevealnewinsightsonthegenomedynamicsofthespecies AT raedma wholegenomeresequencingofredjunglefowlandindigenousvillagechickenrevealnewinsightsonthegenomedynamicsofthespecies AT riyadhsa wholegenomeresequencingofredjunglefowlandindigenousvillagechickenrevealnewinsightsonthegenomedynamicsofthespecies AT pradeepas wholegenomeresequencingofredjunglefowlandindigenousvillagechickenrevealnewinsightsonthegenomedynamicsofthespecies AT mwacharojoramm wholegenomeresequencingofredjunglefowlandindigenousvillagechickenrevealnewinsightsonthegenomedynamicsofthespecies AT hanotteolivierh wholegenomeresequencingofredjunglefowlandindigenousvillagechickenrevealnewinsightsonthegenomedynamicsofthespecies AT lawalra internationallivestockresearchinstitute AT raedma internationallivestockresearchinstitute AT riyadhsa internationallivestockresearchinstitute AT pradeepas internationallivestockresearchinstitute AT mwacharojoramm internationallivestockresearchinstitute AT hanotteolivierh internationallivestockresearchinstitute |