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Data from: Exome genotyping, linkage disequilibrium and population structure in loblolly pine (Pinus taeda L.)

posted on 2023-11-30, 08:13 authored by Mengmeng Lu, Konstantin V. Krutovsky, C. Dana Nelson, Tomasz E. Koralewski, Thomas D. Byram, Carol A. Loopstra

Loblolly pine (Pinus taeda L.) is one of the most widely planted and commercially important forest tree species in the USA and worldwide, and is an object of intense genomic research. However, whole genome resequencing in loblolly pine is hampered by its large size and complexity and a lack of a good reference. As a valid and more feasible alternative, entire exome sequencing was hence employed to identify the gene-associated single nucleotide polymorphisms (SNPs) and to genotype the sampled trees.

Resources in this dataset:

  • Resource Title: Availability of supporting data.

    File Name: Web Page, url:

    The data sets supporting the results of this article are included within the article and additional files. The raw SNP data and Illumina HiSeq short read sequences are deposited in the NCBI Single Nucleotide Polymorphism Database (dbSNP) (accession numbers ss1995911273-ss1996900602; and Sequence Read Archive (SRA) (accession number SRP075763;


National Institute of Food and Agriculture, 2011-68002-30185


Data contact name

Loopstra, Carol

Data contact email




  • Not specified

ISO Topic Category

  • biota

National Agricultural Library Thesaurus terms

Pinus taeda; forest trees; United States; genomics; sequence analysis; single nucleotide polymorphism; genotype; exons; chromosome mapping; oligonucleotides; hybridization probes; DNA fragmentation; oligonucleotide probes; genome; introns; intergenic DNA; linkage disequilibrium; correlation; population structure; genetic variation; genotyping by sequencing

Pending citation

  • No

Public Access Level

  • Public

Preferred dataset citation

Lu, Mengmeng; Krutovsky, Konstantin V.; Nelson, C. Dana; Koralewski, Tomasz E.; Byram, Thomas D.; Loopstra, Carol A. (2018). Data from: Exome genotyping, linkage disequilibrium and population structure in loblolly pine (Pinus taeda L.). NCBI.