ArticleG3 (Bethesda, Md.)2016
Assessing the Gene Content of the Megagenome: Sugar Pine (Pinus lambertiana).
Article in G3 (Bethesda, Md.), 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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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.
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Who cites it
24 citing papers in PubMed, 54 citations in OpenAlex.
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- A long-read and short-read transcriptomics approach provides the first high-quality reference transcriptome and genome annotation for Pseudotsuga menziesii (Douglas-fir).G3 (Bethesda, Md.) · 2023Article
- Spatial Distribution and Retention in Loblolly Pine Seedlings of Exogenous dsRNAs Applied through Roots.International journal of molecular sciences · 2022Article
- A high-resolution single-molecule sequencing-based Arabidopsis transcriptome using novel methods of Iso-seq analysis.Genome biology · 2022Article
- Micro-dissection and integration of long and short reads to create a robust catalog of kidney compartment-specific isoforms.PLoS computational biology · 2022Article
- Can Forest Trees Cope with Climate Change?-Effects of DNA Methylation on Gene Expression and Adaptation to Environmental Change.International journal of molecular sciences · 2021Review
- Fine dissection of limber pine resistance to Cronartium ribicola using targeted sequencing of the NLR family.BMC genomics · 2021Article
- Rootstock effects on scion gene expression in maritime pine.Scientific reports · 2021Article
- Breeding for Climate Change Resilience: A Case Study of Loblolly Pine (Frontiers in plant science · 2021Review
- Article
- Comparative Study of Pine Reference Genomes Reveals Transposable Element Interconnected Gene Networks.Genes · 2020Article
- Genomic basis of white pine blister rust quantitative disease resistance and its relationship with qualitative resistance.The Plant journal : for cell and molecular biology · 2020Article
- Molecular study of drought response in the Mediterranean coniferEcology and evolution · 2020Article
- EXFI: Exon and splice graph prediction without a reference genome.Ecology and evolution · 2020Article
- Identification of Transposable Elements in Conifer and Their Potential Application in Breeding.Evolutionary bioinformatics online · 2020Article
- Association Mapping and Development of Marker-Assisted Selection Tools for the Resistance to White Pine Blister Rust in the Alberta Limber Pine Populations.Frontiers in plant science · 2020Article
- Functional and morphological evolution in gymnosperms: A portrait of implicated gene families.Evolutionary applications · 2020Article
- Investigation of RNA Editing Sites within Bound Regions of RNA-Binding Proteins.High-throughput · 2019Article
- Utilization of Tissue Ploidy Level Variation inG3 (Bethesda, Md.) · 2019Article
- Transcriptome analysis reveals the effects of grafting on sweetpotato scions during the full blooming stages.Genes & genomics · 2019Article
Corrections and comments
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Authors and funding
9 authors at 4 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Sugar pine (Pinus lambertiana Douglas) is within the subgenus Strobus with an estimated genome size of 31 Gbp. Transcriptomic resources are of particular interest in conifers due to the challenges presented in their megagenomes for gene identification. In this study, we present the first comprehensive survey of the P. lambertiana transcriptome through deep sequencing of a variety of tissue types to generate more than 2.5 billion short reads. Third generation, long reads generated through PacBio Iso-Seq have been included for the first time in conifers to combat the challenges associated with de novo transcriptome assembly. A technology comparison is provided here to contribute to the otherwise scarce comparisons of second and third generation transcriptome sequencing approaches in plant species. In addition, the transcriptome reference was essential for gene model identification and quality assessment in the parallel project responsible for sequencing and assembly of the entire genome. In this study, the transcriptomic data were also used to address questions surrounding lineage-specific Dicer-like proteins in conifers. These proteins play a role in the control of transposable element proliferation and the related genome expansion in conifers.
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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.