ArticleScience advances2018
Improved de novo genomic assembly for the domestic donkey.
Article in Science advances, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers.
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Who cites it
35 citing papers in PubMed.
- Genetic Structure and Selection Signals in Hetian Gray Donkeys and Xinjiang Donkeys from Xinjiang, China.Animals : an open access journal from MDPI · 2026Article
- Preliminary Evaluation of Muscle Fiber Composition in the Middle Gluteal Muscle in Race Mules and Mammoth Donkeys.Animals : an open access journal from MDPI · 2026Article
- The Donkey Genome: From Evolutionary Insights to Sustainable Breeding Strategies.Animals : an open access journal from MDPI · 2025Review
- Genetic diversity of the Y-chromosome in domestic animals: from evolutionary insights to functional implications.Molecular biology reports · 2025Review
- Unraveling the genetic and physiological potential of donkeys: insights from genomics, proteomics, and metabolomics approaches.Mammalian genome : official journal of the International Mammalian Genome Society · 2025Review
- Three-dimensional genome architecture persists in a 52,000-year-old woolly mammoth skin sample.Cell · 2024Article
- A metagenomic analysis of the phase 2 Anopheles gambiae 1000 genomes dataset reveals a wide diversity of cobionts associated with field collected mosquitoes.Communications biology · 2024Article
- Analysis of ddRAD-seq data provides new insights into the genomic structure and patterns of diversity in Italian donkey populations.Journal of animal science · 2024Article
- A review of genetic resources and trends of omics applications in donkey research: focus on China.Frontiers in veterinary science · 2024Review
- Structural variations in livestock genomes and their associations with phenotypic traits: a review.Frontiers in veterinary science · 2024Review
- Whole-genome sequencing provides novel insights into the evolutionary history and genetic adaptation of reindeer populations in northern Eurasia.Scientific reports · 2023Article
- Trio-binning of a hinny refines the comparative organization of the horse and donkey X chromosomes and reveals novel species-specific features.Scientific reports · 2023Article
- Exploring Genetic Markers: Mitochondrial DNA and Genomic Screening for Biodiversity and Production Traits in Donkeys.Animals : an open access journal from MDPI · 2023Review
- Refining the evolutionary tree of the horse Y chromosome.Scientific reports · 2023Article
- Article
- eSMC: a statistical model to infer admixture events from individual genomics data.BMC genomics · 2022Article
- Unlocking Horse Y Chromosome Diversity.Genes · 2022Review
- Analysis of the Whole-Genome Sequences from anGenes · 2022Article
- Review
- Article
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Authors and funding
11 authors.
Funding
Abstract
Donkeys and horses share a common ancestor dating back to about 4 million years ago. Although a high-quality genome assembly at the chromosomal level is available for the horse, current assemblies available for the donkey are limited to moderately sized scaffolds. The absence of a better-quality assembly for the donkey has hampered studies involving the characterization of patterns of genetic variation at the genome-wide scale. These range from the application of genomic tools to selective breeding and conservation to the more fundamental characterization of the genomic loci underlying speciation and domestication. We present a new high-quality donkey genome assembly obtained using the Chicago HiRise assembly technology, providing scaffolds of subchromosomal size. We make use of this new assembly to obtain more accurate measures of heterozygosity for equine species other than the horse, both genome-wide and locally, and to detect runs of homozygosity potentially pertaining to positive selection in domestic donkeys. Finally, this new assembly allowed us to identify fine-scale chromosomal rearrangements between the horse and the donkey that likely played an active role in their divergence and, ultimately, speciation.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.