ArticleGigaScience2018
Single-molecule sequencing and optical mapping yields an improved genome of woodland strawberry (Fragaria vesca) with chromosome-scale contiguity.
Article in GigaScience, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 154 papers.
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Who cites it
154 citing papers in PubMed.
- Uncovering the genetic basis of fruit volatiles inHorticulture research · 2026Article
- The molecular regulation of axillary bud fate determination and outgrowth into branch crown in strawberry involves BRC1.The New phytologist · 2026Article
- The Landscape of Long Non-Coding RNAs Provides Insights Into the Domestication and Improvement of Pear Fruit.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Genome-wide discovery and characterization of terpene synthases contributing to strawberry aroma metabolism.Plant physiology · 2026Article
- The origin of the octoploid cloudberry (Rubus chamaemorus) genome is the result of multiple and complex polyploidization events.The Journal of heredity · 2026Article
- Genome-wide analysis of the NLR gene family in strawberry reveals a novel immune receptor architecture in Rosaceae.BMC genomics · 2026Article
- The chromosome-scale genome assembly and annotation of Rosa bracteata (Macartney Rose).Scientific data · 2026Article
- The Late Quaternary climate impact on the genome of the woodland strawberry (Fragaria vesca), a perennial herb.Communications biology · 2026Article
- Genome-Wide Identification of R2R3-MYB Gene Family in Strawberry (International journal of molecular sciences · 2026Article
- Strawberry atlas:PeerJ · 2026Article
- Article
- Stronger transgenerational plasticity in clonal compared to sexual offspring of Fragaria vesca: effects of drought, elevated temperature and CO2.Annals of botany · 2025Article
- The PERPETUAL FLOWERING locus: Necessary but insufficient for genomic prediction of runnerless and other asexual reproduction phenotypes in strawberry.The plant genome · 2025Article
- Comparative genomic analyses reveal different genetic basis of two types of fruit in Maloideae.Nature communications · 2025Article
- A chromosome-scale and haplotype-resolved genome assembly of tetraploid blackberry (Horticulture research · 2025Article
- A fully phased octoploid strawberry genome reveals the evolutionary dynamism of centromeric satellites.Genome biology · 2025Article
- Loss-of-function mutations in the fruit softening geneHorticulture research · 2025Article
- A high-quality chromosome-scale genome assembly of the Cherokee rose (Rosa laevigata).Scientific data · 2025Article
- Bioinformatics and Expression Profiling of the DHHC-CRD S-Acyltransferases Reveal Their Roles in Growth and Stress Response in Woodland Strawberry (Plants (Basel, Switzerland) · 2025Article
- Genome-wide association studies in a diverse strawberry collection unveil loci controlling agronomic and fruit quality traits.The plant genome · 2024Article
94 more citing papers are in PubMed but not listed here.
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Authors and funding
21 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Background: Although draft genomes are available for most agronomically important plant species, the majority are incomplete, highly fragmented, and often riddled with assembly and scaffolding errors. These assembly issues hinder advances in tool development for functional genomics and systems biology. Findings: Here we utilized a robust, cost-effective approach to produce high-quality reference genomes. We report a near-complete genome of diploid woodland strawberry (Fragaria vesca) using single-molecule real-time sequencing from Pacific Biosciences (PacBio). This assembly has a contig N50 length of ∼7.9 million base pairs (Mb), representing a ∼300-fold improvement of the previous version. The vast majority (>99.8%) of the assembly was anchored to 7 pseudomolecules using 2 sets of optical maps from Bionano Genomics. We obtained ∼24.96 Mb of sequence not present in the previous version of the F. vesca genome and produced an improved annotation that includes 1496 new genes. Comparative syntenic analyses uncovered numerous, large-scale scaffolding errors present in each chromosome in the previously published version of the F. vesca genome. Conclusions: Our results highlight the need to improve existing short-read based reference genomes. Furthermore, we demonstrate how genome quality impacts commonly used analyses for addressing both fundamental and applied biological questions.
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