ArticleGigaScience2017
An improved assembly of the loblolly pine mega-genome using long-read single-molecule sequencing.
Article in GigaScience, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 65 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
65 citing papers in PubMed.
- From water to land: evolution of tRNA gene repertoires in photosynthetic organisms.The EMBO journal · 2026Review
- A reference genome sequence for the exceptionally long-lived Great Basin bristlecone pine, Pinus longaeva.G3 (Bethesda, Md.) · 2026Article
- Full-length transcriptome sequencing analysis and characterization of MADS-box genes in Rhododendron fortunei.BMC plant biology · 2026Article
- A Three-Tier In Vitro Strategy for Accelerated Pine Breeding and Resistance Research Against Pine Wilt Disease.Plants (Basel, Switzerland) · 2026Article
- Dwarfism in Pinus taeda originates from independent somatic mutations co-localized in a shared genomic region.Heredity · 2026Article
- Transcriptomic and enzymological evidence for plastid peptidoglycan synthesis in the gymnosperm Picea abies.The Plant journal : for cell and molecular biology · 2025Article
- NGATHA carpel development genes evolved in the common ancestor of seed plants.The Plant journal : for cell and molecular biology · 2025Article
- A Group 6 LEA Protein Plays Key Roles in Tolerance to Water Deficit, and in Maintaining the Glassy State and Longevity of Seeds.Plant, cell & environment · 2025Article
- Pinus radiata genome reveals a downward demographic trajectory and opportunities for genomics-assisted breeding.G3 (Bethesda, Md.) · 2025Article
- Optimising Exome Captures in Species With Large Genomes Using Species-Specific Repetitive DNA Blocker.Molecular ecology resources · 2025Article
- gymnotoa-db: a database and application to optimize functional annotation in gymnosperms.Database : the journal of biological databases and curation · 2025Article
- Development of a 101.6K liquid-phased probe for GWAS and genomic selection in pine wilt disease-resistance breeding in Masson pine.The plant genome · 2025Article
- Beneficial mutualistic fungus Suillus luteus provided excellent buffering insurance in Scots pine defense responses under pathogen challenge at transcriptome level.BMC plant biology · 2025Article
- Unveiling Key Genes and Unique Transcription Factors Involved in Secondary Cell Wall Formation inInternational journal of molecular sciences · 2024Article
- When less is more: sketching with minimizers in genomics.Genome biology · 2024Review
- Testing source elevation versus genotype as predictors of sugar pine performance in a post-fire restoration planting.Ecosphere (Washington, D.C) · 2024Article
- Seqrutinator: scrutiny of large protein superfamily sequence datasets for the identification and elimination of non-functional homologues.Genome biology · 2024Article
- Experimental Induction of Extreme Indented Growth Rings (Hazel Wood) inPlants (Basel, Switzerland) · 2024Article
- A genome sequence for the threatened whitebark pine.G3 (Bethesda, Md.) · 2024Article
- Genetic transformation in conifers: current status and future prospects.Forestry research · 2024Review
5 more citing papers are in PubMed but not listed here.
Corrections and comments
- Erratum issued
Authors and funding
9 authors.
Funding
Abstract
The 22-gigabase genome of loblolly pine (Pinus taeda) is one of the largest ever sequenced. The draft assembly published in 2014 was built entirely from short Illumina reads, with lengths ranging from 100 to 250 base pairs (bp). The assembly was quite fragmented, containing over 11 million contigs whose weighted average (N50) size was 8206 bp. To improve this result, we generated approximately 12-fold coverage in long reads using the Single Molecule Real Time sequencing technology developed at Pacific Biosciences. We assembled the long and short reads together using the MaSuRCA mega-reads assembly algorithm, which produced a substantially better assembly, P. taeda version 2.0. The new assembly has an N50 contig size of 25 361, more than three times as large as achieved in the original assembly, and an N50 scaffold size of 107 821, 61% larger than the previous assembly.
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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.