Supporting data for "Whole-genome resequencing reveals signatures of selection and timing of duck domestication"
Dataset type: Genomic, Transcriptomic
Data released on March 15, 2018
Zhang Z; Jia Y; Almeida P; Mank JE; Tuinen Mv; Wang Q; Jiang Z; Chen Y; Zhan K; Hou S; Zhou Z; Li H; Yang F; He Y; Ning Z; Yang N; Qu L (2018): Supporting data for "Whole-genome resequencing reveals signatures of selection and timing of duck domestication" GigaScience Database. http://dx.doi.org/10.5524/100417
The genetic basis of animal domestication remains poorly understood, and systems with substantial phenotypic differences between wild and domestic populations are useful for elucidating the genetic basis of adaptation to new environments as well as the genetic basis of rapid phenotypic change.
Here, we sequenced the whole genome of 78 individual ducks, from two wild and seven domesticated populations, with an average sequencing depth of 6.42X per individual.
Our population and demographic analyses indicate a complex history of domestication, with early selection for separate meat and egg lineages. Genomic comparison of wild to domesticated populations suggest that genes affecting brain and neuronal development have undergone strong positive selection during domestication. Our FST analysis also indicates that the duck white plumage is the result of selection at the melanogenesis associated transcription factor locus.
Our results advance the understanding of animal domestication and selection for complex phenotypic traits.
Additional details
Read the peer-reviewed publication(s):
(PubMed: 29635409)
Accessions (data generated as part of this study):
PROJECT:
PRJNA419832
PROJECT:
PRJNA419583
SRA:
SRA633983
SRA:
SRP125529
Sample ID | Taxonomic ID | Common Name | Genbank Name | Scientific Name | Sample Attributes |
---|---|---|---|---|---|
SAMN08093172 | 8839 | Mallard duck | mallard | Anas platyrhynchos | Alternative names:MDNM1_brain Common name:mallard Infra specific name:Mallard ... + |
SAMN08093173 | 8839 | Mallard duck | mallard | Anas platyrhynchos | Alternative names:MDNM2_brain Common name:mallard Infra specific name:Mallard ... + |
SAMN08093174 | 8839 | Mallard duck | mallard | Anas platyrhynchos | Alternative names:MDNM3_brain Common name:mallard Infra specific name:Mallard ... + |
SAMN08093175 | 8839 | Mallard duck | mallard | Anas platyrhynchos | Alternative names:MDZM1_brain Common name:mallard Infra specific name:Mallard ... + |
SAMN08093176 | 8839 | Mallard duck | mallard | Anas platyrhynchos | Alternative names:MDZM2_brain Common name:mallard Infra specific name:Mallard ... + |
SAMN08093177 | 8839 | Mallard duck | mallard | Anas platyrhynchos | Alternative names:MDZM3_brain Common name:mallard Infra specific name:Mallard ... + |
SAMN08093178 | 8839 | Mallard duck | mallard | Anas platyrhynchos | Alternative names:MDZM4_brain Common name:mallard Infra specific name:Mallard ... + |
SAMN08093179 | 8839 | Mallard duck | mallard | Anas platyrhynchos | Alternative names:PKM1_brain Common name:mallard Infra specific name:Pekin ... + |
SAMN08093180 | 8839 | Mallard duck | mallard | Anas platyrhynchos | Alternative names:CVM1_brain Common name:mallard Infra specific name:Cherry Valley ... + |
SAMN08093181 | 8839 | Mallard duck | mallard | Anas platyrhynchos | Alternative names:MLM1_brain Common name:mallard Infra specific name:Maple Leaf ... + |