ArticleNature communications2019
Long-read assembly of the Chinese rhesus macaque genome and identification of ape-specific structural variants.
Article in Nature communications, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 47 papers.
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Who cites it
47 citing papers in PubMed.
- Multiscale structural evolution of proline-rich protein genes shapes primate salivary defenses.Molecular biology and evolution · 2026Article
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- Genomics Insights Into High-Latitude Adaptation of Tibetan Macaques.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Long-read structural variant discovery and targeted short read genotyping enables population scale characterization of structural variation in rhesus macaques.Genome biology · 2025Article
- Forward and reverse genomic screens enhance the understanding of phenotypic variation in a large Chinese rhesus macaque cohort.Nature communications · 2025Article
- A complete and near-perfect rhesus macaque reference genome: lessons from subtelomeric repeats and sequencing bias.bioRxiv : the preprint server for biology · 2025Article
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- Melocular Evolution on Cold Temperature Adaptation of Chinese Rhesus Macaques.Current genomics · 2025Article
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- Units containing telomeric repeats are prevalent in subtelomeric regions of a Mesorhabditis isolate collected from the Republic of Korea.Genes & genomics · 2024Article
- Unraveling the architecture of major histocompatibility complex class II haplotypes in rhesus macaques.Genome research · 2024Article
- Genomic insights into adaptation to bipedal saltation and desert-like habitats of jerboas.Science China. Life sciences · 2024Article
- De Novo Genome Assembly for the Coppery Titi Monkey (Plecturocebus cupreus): An Emerging Nonhuman Primate Model for Behavioral Research.Genome biology and evolution · 2024Article
- Adaptive functions of structural variants in human brain development.Science advances · 2024Article
- Identification and characterization of structural variants related to meat quality in pigs using chromosome-level genome assemblies.BMC genomics · 2024Article
- Comparative transcriptome analysis between rhesus macaques (Zoological research · 2024Article
- Article
- A chromosome-level genome assembly of the Korean crossbred pig Nanchukmacdon (Sus scrofa).Scientific data · 2023Article
- Developmental regulation of conserved non-coding element evolution provides insights into limb loss in squamates.Science China. Life sciences · 2023Article
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Authors and funding
13 authors.
Funding
Abstract
We present a high-quality de novo genome assembly (rheMacS) of the Chinese rhesus macaque (Macaca mulatta) using long-read sequencing and multiplatform scaffolding approaches. Compared to the current Indian rhesus macaque reference genome (rheMac8), rheMacS increases sequence contiguity 75-fold, closing 21,940 of the remaining assembly gaps (60.8 Mbp). We improve gene annotation by generating more than two million full-length transcripts from ten different tissues by long-read RNA sequencing. We sequence resolve 53,916 structural variants (96% novel) and identify 17,000 ape-specific structural variants (ASSVs) based on comparison to ape genomes. Many ASSVs map within ChIP-seq predicted enhancer regions where apes and macaque show diverged enhancer activity and gene expression. We further characterize a subset that may contribute to ape- or great-ape-specific phenotypic traits, including taillessness, brain volume expansion, improved manual dexterity, and large body size. The rheMacS genome assembly serves as an ideal reference for future biomedical and evolutionary studies.
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