ArticleG3 (Bethesda, Md.)2021
Improved contiguity of the threespine stickleback genome using long-read sequencing.
Article in G3 (Bethesda, Md.), 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 50 papers.
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Who cites it
50 citing papers in PubMed.
- Rates of Evolution Differ Between Cell Types Identified by Single-Cell RNAseq in Threespine Stickleback.Molecular ecology · 2026Article
- Rapid genome-wide purging following tsunami-induced hybridization in a stickleback population.Nature ecology & evolution · 2026Article
- Hybridization but Minimal Introgression: Ecologically-Based Divergent Selection Maintains a Steep Hybrid Zone in Parapatric Stickleback Fish.Molecular ecology · 2026Article
- Parallel adaptation to geothermally-warmed habitats due to common structural variation and functional developmental pathways.Nature communications · 2026Article
- Two Genetically Distinct Lineages in Galician Populations of the Three-Spined Stickleback (Ecology and evolution · 2026Article
- The genomic architecture of local adaptation in two connected populations of three-spined stickleback.G3 (Bethesda, Md.) · 2026Article
- Comparative Genomics of Transisthmian Damselfishes (Abudefduf saxatilis and A. troschelii).Genome biology and evolution · 2026Article
- Rapid and repeated evolution of myosin copy number in threespine stickleback.Current biology : CB · 2026Article
- Predator Communities With Invasive Pike Are Associated With Changes in Parental Care and Brain Gene Expression in Wild Alaskan Stickleback.Integrative and comparative biology · 2026Article
- Contemporary Evolution of an At-Risk Stickleback Population During a Severe Drought.Evolutionary applications · 2026Article
- Changes in gene regulation are associated with the evolution of resistance to a novel parasite.Frontiers in immunology · 2026Article
- Shared and Unique Patterns of Genomic Differentiation and Introgression Between Japanese Stickleback Species Across Three Sympatric Sites.Molecular ecology · 2026Article
- Rapid and repeated evolution of myosin copy number in threespine stickleback.bioRxiv : the preprint server for biology · 2025Article
- Article
- 3D Genome Constrains Breakpoints of Inversions That Can Act as Barriers to Gene Flow in the Stickleback.Molecular ecology · 2025Article
- A Y-linked duplication of anti-Mullerian hormone is the sex determination gene in threespine stickleback.PLoS genetics · 2025Article
- Temperature and Pressure Shaped the Evolution of Antifreeze Proteins in Polar and Deep Sea Zoarcoid Fishes.Molecular biology and evolution · 2025Article
- Functional mutations in the thyroid-stimulating hormone receptor in natural stickleback populations at sites identical to human disease-causing mutations.BMC ecology and evolution · 2025Article
- Strong but diffuse genetic divergence underlies differentiation in an incipient species of marine stickleback.bioRxiv : the preprint server for biology · 2025Article
- Single cell RNA-sequencing reveals no evidence for meiotic sex chromosome inactivation in the threespine stickleback fish.PLoS genetics · 2025Article
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Authors and funding
3 authors.
Funding
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Abstract
While the cost and time for assembling a genome has drastically decreased, it still remains a challenge to assemble a highly contiguous genome. These challenges are rapidly being overcome by the integration of long-read sequencing technologies. Here, we use long-read sequencing to improve the contiguity of the threespine stickleback fish (Gasterosteus aculeatus) genome, a prominent genetic model species. Using Pacific Biosciences sequencing, we assembled a highly contiguous genome of a freshwater fish from Paxton Lake. Using contigs from this genome, we were able to fill over 76.7% of the gaps in the existing reference genome assembly, improving contiguity over fivefold. Our gap filling approach was highly accurate, validated by 10X Genomics long-distance linked-reads. In addition to closing a majority of gaps, we were able to assemble segments of telomeres and centromeres throughout the genome. This highlights the power of using long sequencing reads to assemble highly repetitive and difficult to assemble regions of genomes. This latest genome build has been released through a newly designed community genome browser that aims to consolidate the growing number of genomics datasets available for the threespine stickleback fish.
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