A guinea fowl genome assembly provides new evidence on evolution following domestication and selection in galliformes
Open accessAbstract
The helmeted guinea fowl Numida meleagris belongs to the order Galliformes. Its natural range includes a large part of sub-Saharan Africa, from Senegal to Eritrea and from Chad to South Africa. Archaeozoological and artistic evidence suggest domestication of this species may have occurred about 2,000 years BP in Mali and Sudan primarily as a food resource, although villagers also benefit from its capacity to give loud alarm calls in case of danger, of its ability to consume parasites such as ticks and to hunt snakes, thus suggesting its domestication may have resulted from a commensal association process. Today, it is still farmed in Africa, mainly as a traditional village poultry, and is also bred more intensively in other countries, mainly France and Italy. The lack of available molecular genetic markers has limited the genetic studies conducted to date on guinea fowl. We present here a first-generation whole-genome sequence draft assembly used as a reference for a study by a Pool-seq approach of wild and domestic populations from Europe and Africa. We show that the domestic populations share a higher genetic similarity between each other than they do to wild populations living in the same geographical area. Several genomic regions showing selection signatures putatively related to domestication or importation to Europe were detected, containing candidate genes, most notably EDNRB2, possibly explaining losses in plumage coloration phenotypes in domesticated populations.
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Comparing HGFv1 with NumMel1.0, the contig N50 increases approximately 62 times (14.17 vs. 0.23 Mb) whereas gaps reduce approximately 15 Mb (5.38 vs. 20.12 Mb).
“Comparing the HGFv1 assembly with the reference NumMel1.0 (Vignal et al. 2019), the contig N50 increases ∼ 62 times (14.17 vs. 0.23 Mb) whereas the gaps reduce ∼15 Mb (5.38 vs. 20.12 Mb) (table 1).”
From Genomic Analyses Unveil Helmeted Guinea Fowl (<i>Numida meleagris</i>) Domestication in West Africa (2021) · cites this paper as Vignal et al. 2019
A previous study revealed that wild HGF populations from Burkina Faso in West Africa, rather than those from South Africa, showed a closer relationship to domestic HGF populations.
“This pattern is also supported by previous study revealing that the wild HGF populations from Burkina Faso in West Africa rather than those from South Africa showed a closer relationship to domestic HGF populations (Vignal et al. 2019).”
From Genomic Analyses Unveil Helmeted Guinea Fowl (<i>Numida meleagris</i>) Domestication in West Africa (2021) · cites this paper as Vignal et al. 2019
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Genomic Analyses Unveil Helmeted Guinea Fowl (<i>Numida meleagris</i>) Domestication in West Africa
Shen, Q.-K., Peng, M.-S., Adeola, A. C., Kui, L., Duan, S., Miao, Y.-W., Eltayeb, N. M., Lichoti, J. K., Otecko, N. O., Strillacci, M. G., et al. (2021) · Genome Biology and Evolution · doi:10.1093/gbe/evab090 · Cited by 13 · see citing works
- Authors
- Vignal, A., Boitard, S., Thébault, N., Dayo, G., Yapi‐Gnaore, V., Youssao Abdou Karim, I., Berthouly‐Salazar, C., Pálinkás‐Bodzsár, N., Guémené, D., Thibaud‐Nissen, F., Warren, W. C., Tixier‐Boichard, M., & Rognon, X.
- Affiliations
- GenPhySE INRA, INPT, INP‐ENVT Université de Toulouse Castanet Tolosan France
- École Nationale Vétérinaire de Toulouse (FR)
- Centre international de recherche-développement sur l'elevage en zone subhumide (BF)
- Ecole Polytechnique d'Abomey‐Calavi Université d'Abomey‐Calavi Cotonou Bénin
- Université de Montpellier (FR)
- Research Centre for Farm Animal Gene Conservation Gödöllö Hungary
- Centre INRA Val de Loire, SYSAAF Nouzilly France
- National Center for Biotechnology Information National Library of Medicine National Institutes of Health Bethesda Maryland
- Washington University in St. Louis (US)
- AgroParisTech (FR)
- ORCID
- Venue
- Molecular Ecology Resources
- Publisher
- Wiley
- Published
- 2019-05-05
- Volume
- 19
- Issue
- 4
- Pages
- 997-1014
- ISSN
- 1755-098X (ISSN-L)
- 1755-0998
- PMC
- PMC6579635
- OpenAlex
- W2926020105
- Cited by
- 48
- References
- 66
- Citations by year
- 2026: 4 · 2025: 5 · 2024: 2 · 2023: 6 · 2022: 14 · 2021: 7 · 2020: 7 · 2019: 3
- FWCI
- 4.67
- Type
- journal article
- Language
- en
- Open access
- hybrid
- doi.org
- Licence
- Locations
- Molecular Ecology Resources (publishedVersion, cc-by)
- Europe PMC (PubMed Central) (publishedVersion, cc-by)
- PubMed Central (publishedVersion, cc-by)
- PubMed (publishedVersion)
- HAL (submittedVersion, cc-by)
- Digital Commons@Becker (Washington University School of Medicine) (submittedVersion, cc-by)
- Funders
- AgroParisTech
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetic and phenotypic traits in livestock
- Life Sciences › Agricultural and Biological Sciences › Animal Science and Zoology › Livestock and Poultry Management
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetic Mapping and Diversity in Plants and Animals
- Keywords
- helmeted guineafowl, guinea fowl, Galliformes, domestication, selection signatures, whole genome assembly, domestication signatures, candidate genes, poultry genetics
- MeSH terms
- Domestication, Whole Genome Sequencing, Africa, Animals, Europe, Selection, Genetic, Genome, Sequence Analysis, DNA, Evolution, Molecular, Computational Biology, Galliformes
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