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A transcriptome-based association study of growth, wood quality, and oleoresin traits in a slash pine breeding population

Ding, Xianyin and Diao, Shu and Luan, Qifu and Wu, Harry and Zhang, Yini and Jiang, Jingmin (2022). A transcriptome-based association study of growth, wood quality, and oleoresin traits in a slash pine breeding population. PLoS Genetics. 18 :2 , e1010017
[Research article]

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Abstract

Slash pine (Pinus elliottii Engelm.) is an important timber and resin species in the United States, China, Brazil and other countries. Understanding the genetic basis of these traits will accelerate its breeding progress. We carried out a genome-wide association study (GWAS), transcriptome-wide association study (TWAS) and weighted gene co-expression network analysis (WGCNA) for growth, wood quality, and oleoresin traits using 240 unrelated individuals from a Chinese slash pine breeding population. We developed high quality 53,229 single nucleotide polymorphisms (SNPs). Our analysis reveals three main results: (1) the Chinese breeding population can be divided into three genetic groups with a mean inbreeding coefficient of 0.137; (2) 32 SNPs significantly were associated with growth and oleoresin traits, accounting for the phenotypic variance ranging from 12.3% to 21.8% and from 10.6% to 16.7%, respectively; and (3) six genes encoding PeTLP, PeAP2/ERF, PePUP9, PeSLP, PeHSP, and PeOCT1 proteins were identified and validated by quantitative real time polymerase chain reaction for their association with growth and oleoresin traits. These results could be useful for tree breeding and functional studies in advanced slash pine breeding program.

Authors/Creators:Ding, Xianyin and Diao, Shu and Luan, Qifu and Wu, Harry and Zhang, Yini and Jiang, Jingmin
Title:A transcriptome-based association study of growth, wood quality, and oleoresin traits in a slash pine breeding population
Series Name/Journal:PLoS Genetics
Year of publishing :2022
Volume:18
Number:2
Article number:e1010017
Number of Pages:24
ISSN:1553-7390
Language:English
Publication Type:Research article
Article category:Scientific peer reviewed
Version:Published version
Copyright:Creative Commons: Attribution 4.0
Full Text Status:Public
Subjects:(A) Swedish standard research categories 2011 > 4 Agricultural Sciences > 401 Agricultural, Forestry and Fisheries > Forest Science
URN:NBN:urn:nbn:se:slu:epsilon-p-118834
Permanent URL:
http://urn.kb.se/resolve?urn=urn:nbn:se:slu:epsilon-p-118834
Additional ID:
Type of IDID
DOI10.1371/journal.pgen.1010017
ID Code:28864
Faculty:S - Faculty of Forest Sciences
Department:(S) > Dept. of Forest Genetics and Plant Physiology
Deposited By: SLUpub Connector
Deposited On:15 Sep 2022 14:28
Metadata Last Modified:15 Sep 2022 14:31

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