ArticleBioinformatics (Oxford, England)2013
Assembling the 20 Gb white spruce (Picea glauca) genome from whole-genome shotgun sequencing data.
Article in Bioinformatics (Oxford, England), 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 155 papers.
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Who cites it
155 citing papers in PubMed, 389 citations in OpenAlex.
- Genomic models for accurate estimation of breeding values in Sitka spruce (Picea sitchensis Bong. Carr).Heredity · 2026Article
- Cunninghamia lanceolata genome illuminates the evolutionary dynamics of gymnosperms.Cell reports · 2026Article
- Metagenomic Assembly and Gene Prediction.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Application and development prospect of genomic selection breeding in coniferous trees.Planta · 2025Review
- Chromosome-level genome assembly of Pinus massoniana provides insights into conifer adaptive evolution.GigaScience · 2025Article
- De novo transcriptome assembly and discovery of drought-responsive genes in white spruce (Picea glauca).PloS one · 2025Article
- When less is more: sketching with minimizers in genomics.Genome biology · 2024Review
- Conifers Concentrate Large Numbers of NLR Immune Receptor Genes on One Chromosome.Genome biology and evolution · 2024Article
- High-density genetic linkage mapping in Sitka spruce advances the integration of genomic resources in conifers.G3 (Bethesda, Md.) · 2024Article
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- Reciprocal expression of MADS-box genes and DNA methylation reconfiguration initiate bisexual cones in spruce.Communications biology · 2024Article
- Unraveling site-specific seed formation abnormalities inFrontiers in plant science · 2024Article
- Assembly and annotation of the black spruce genome provide insights on spruce phylogeny and evolution of stress response.G3 (Bethesda, Md.) · 2023Article
- The Development of Plant Genome Sequencing Technology and Its Conservation and Application in Endangered Gymnosperms.Plants (Basel, Switzerland) · 2023Review
- Comprehensive Organ-Specific Profiling of Douglas Fir (Biomolecules · 2023Article
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- The western redcedar genome reveals low genetic diversity in a self-compatible conifer.Genome research · 2022Article
- Scalable, ultra-fast, and low-memory construction of compacted de Bruijn graphs with Cuttlefish 2.Genome biology · 2022Article
- Evolution of complex genome architecture in gymnosperms.GigaScience · 2022Article
95 more citing papers are in PubMed but not listed here.
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Authors and funding
24 authors at 4 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
unlabelledWhite spruce (Picea glauca) is a dominant conifer of the boreal forests of North America, and providing genomics resources for this commercially valuable tree will help improve forest management and conservation efforts. Sequencing and assembling the large and highly repetitive spruce genome though pushes the boundaries of the current technology. Here, we describe a whole-genome shotgun sequencing strategy using two Illumina sequencing platforms and an assembly approach using the ABySS software. We report a 20.8 giga base pairs draft genome in 4.9 million scaffolds, with a scaffold N50 of 20,356 bp. We demonstrate how recent improvements in the sequencing technology, especially increasing read lengths and paired end reads from longer fragments have a major impact on the assembly contiguity. We also note that scalable bioinformatics tools are instrumental in providing rapid draft assemblies. AVAILABILITY: The Picea glauca genome sequencing and assembly data are available through NCBI (Accession#: ALWZ0100000000 PID: PRJNA83435). http://www.ncbi.nlm.nih.gov/bioproject/83435.
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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.