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Data from: Polyceraty (multi-horns) in Damara sheep maps to ovine chromosome 2
- 负责人：
- DOI：
- doi:10.5061/dryad.6t34b
- 摘要：
- Polyceraty (presence of multiple horns) is rare in modern day ungulates. Although not found in wild sheep, polyceraty does occur in a small number of domestic sheep breeds covering a wide geographical region. Damara are fat-tailed hair sheep, from the south-western region of Africa, which display polyceraty, with horn number ranging from zero to four. We conducted a genome-wide association study for horn number with 43 Damara genotyped with 606 006 SNP markers. The analysis revealed a region with multiple significant SNPs on ovine chromosome 2, in a location different from the mutation for polled in sheep on chromosome 10. The causal mutation for polyceraty was not identified; however, the region associated with polyceraty spans nine HOXD genes, which are critical in embryonic development of appendages. Mutations in HOXD genes are implicated in polydactly phenotypes in mice and humans. There was no evidence for epistatic interactions contributing to polyceraty. This is the first report on the genetic mechanisms underlying polyceraty in the under-studied Damara.
MetaGWAS
- 负责人：
- Glass, Elizabeth;;Glass, Elizabeth;;Simpson, Colin;;Wilkinson, Samantha
- 关键词：
- DOI：
- doi:10.7488/4aaaf795-05ec-442d-b38a-f193b606ded8
- 摘要：
- /1]. GWAS analysis of combined datasets from various geographically different Holstein-Friesian cattle populations for traits related to resistance
Data from: Genome-wide association mapping in a wild avian population identifies a link between genetic and phenotypic variation in a life-history trait
- 负责人：
- 关键词：
- GWAS fitness trait clutch size
- DOI：
- doi:10.5061/dryad.sm1vt
- 摘要：
- Understanding the genetic basis of traits involved in adaptation is a major challenge in evolutionary biology but remains poorly understood. Here, we use genome-wide association mapping using a custom 50 k single nucleotide polymorphism (SNP) array in a natural population of collared flycatchers to examine the genetic basis of clutch size, an important life-history trait in many animal species. We found evidence for an association on chromosome 18 where one SNP significant at the genome-wide level explained 3.9% of the phenotypic variance. We also detected two suggestive quantitative trait loci (QTLs) on chromosomes 9 and 26. Fitness differences among genotypes were generally weak and not significant, although there was some indication of a sex-by-genotype interaction for lifetime reproductive success at the suggestive QTL on chromosome 26. This implies that sexual antagonism may play a role in maintaining genetic variation at this QTL. Our findings provide candidate regions for a classic avian life-history trait that will be useful for future studies examining the molecular and cellular function of, as well as evolutionary mechanisms operating at, these loci.
FAIRsharing record for: DisGeNET: a knowledge base for disease genomics;;DisGeNET
- 负责人：
- DOI：
- doi:10.25504/fairsharing.fssydn
- 摘要：
- involved in human diseases. DisGeNET integrates data from expert curated repositories, GWAS catalogues, animal models, and the scientific literature
Data from: Using the generalized index of dissimilarity to detect gene-gene interactions in multi-class phenotypes
- 负责人：
- 关键词：
- DOI：
- doi:10.5061/dryad.63nd8
- 摘要：
- was examined. The proposed method was also illustrated using real genome-wide association studies (GWAS) data from the Korean Association Resource (KARE) project.
Data from: Genome-wide association study of Arabidopsis thaliana identifies determinants of natural variation in seed oil composition
- 负责人：
- DOI：
- doi:10.5061/dryad.4p7gk
- 摘要：
- e, we characterized the seed oil composition of 391 world-wide, wild accessions of Arabidopsis thaliana, and performed a genome-wide association study (GWAS
Data from: Genetic dissection of complex behaviour traits in German Shepherd dogs.
- 负责人：
- 关键词：
- DOI：
- doi:10.5061/dryad.493rk16
- 摘要：
- ). Genome-wide association study (GWAS) and regional heritability mapping (RHM) approaches were employed to identify associations between behaviour traits and genetic variants
Data from: Characterizing both bacteria and fungi improves understanding of the Arabidopsis root microbiome
- 负责人：
- DOI：
- doi:10.5061/dryad.n7n170m
- 摘要：
- Roots provide plants mineral nutrients and stability in soil; while doing so, they come into contact with diverse soil microbes that affect plant health and productivity. Despite their ecological and agricultural relevance, the factors that shape the root microbiome remain poorly understood. We grew a worldwide panel of replicated Arabidopsis thaliana accessions outdoors and over winter to characterize their root-microbial communities. Although studies of the root microbiome tend to focus on bacteria, we found evidence that fungi have a strong influence on the structure of the root microbiome. Moreover, host effects appear to have a stronger influence on plant-fungal communities than plant-bacterial communities. Mapping the host genes that affect microbiome traits identified a priori candidate genes with roles in plant immunity; the root microbiome also appears to be strongly affected by genes that impact root and root hair development. Our results suggest that future analyses of the root microbiome should focus on multiple kingdoms, and that the root microbiome is shaped not only by genes involved in defense, but also by genes involved in plant form and physiology.
Data from: CAG repeat not polyglutamine length determines timing of Huntington’s disease onset
- 负责人：
- DOI：
- doi:10.5061/dryad.5d4s2r8
- 摘要：
- naturally occurring genetic modifier loci, defined by GWAS, may influence HD pathogenesis through other mechanisms. These findings have profound implications
Data from: A genome-wide association study identifies a region strongly associated with symmetrical onychomadesis on chromosome 12 in dogs
- 负责人：
- 关键词：
- GWAS dog DLA English setter Gordon setter symmetrical lupoid onychodystropy symmetrical onychomadesis
- DOI：
- doi:10.5061/dryad.11b20
- 摘要：
- Symmetrical onychomadesis causes periodic loss of claws in otherwise healthy dogs. Genome-wide association analysis in 225 Gordon Setters identified a single region associated with symmetrical onychomadesis on chromosome 12 (spanning about 3.3 mb). A meta-analysis including also English Setters indicated that this genomic region predisposes for symmetrical onychomadesis in English Setters as well. The associated region spans most of the major histocompatibility complex and nearly 1 Mb downstream. Like many other autoimmune diseases, associations of symmetrical onychomadesis with DLA class II alleles have been reported. In this study, no associated markers were revealed within any of the DLA-DRB1, -DQA1 or -DQB1 genes, and the odds for symmetrical onychomadesis in the Gordon Setters were much higher, carrying significant single nucleotide polymorphisms compared to the odds of any of the recorded DLA-DRB1/DQA1/DQB1 haplotypes. We noticed that some of the associated DLA haplotypes were different between the English Setters and the Gordon Setters. Interestingly, associated SNP chip markers showed a more consistent pattern of allelic variants related to cases or controls regardless of breed. In conclusion, the associated genetic markers identified in this study hold the potential to aid in selection of breeding animals to reduce the frequency of symmetrical onychomadesis in the dog.
