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Single-nucleotide polymorphisms in PtoCesA7 and their association with growth and wood properties in Populus tomentosa

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Abstract

Cellulose synthase (CesA) genes encode the enzymes that synthesize cellulose; therefore, CesAs play central roles in plant development and affect the yield and quality of wood, essential properties for industrial applications of plant biomass. To effectively manipulate wood biosynthesis in trees and improve wood quality, we thus require a better understanding of the natural variation in CesAs. Association studies have emerged as a powerful tool for identification of variation associated with quantitative traits. Here, we used a candidate gene-based association mapping approach to identify PtoCesA7 allelic variants that associate with growth and wood quality traits in Populus tomentosa. We isolated a full-length PtoCesA7 cDNA and observed high PtoCesA7 expression in xylem, consistent with the xylem-specific expression of CesA7. Nucleotide diversity and linkage disequilibrium (LD) in PtoCesA7, sampled from the P. tomentosa natural distribution, revealed that PtoCesA7 harbors high nucleotide diversity (π T = 0.0091) and low LD (r 2 ≥ 0.1, within 800 bp). By association analysis, we identified seven single-nucleotide polymorphisms (SNPs) (false discovery rate Q < 0.10) and 12 haplotypes (Q < 0.10) that associated with growth and wood properties, explaining 3.62–10.59 % of the phenotypic variance. We also validated 9 of the 10 significant marker–trait associations in at least one of three smaller subsets (climatic regions) or in a linkage-mapping population. Thus, our study identified functional PtoCesA7 allelic variants associated with growth and wood quality traits, giving new insights into genes affecting wood quality and quantity. From an applied perspective, the SNPs revealed in this study have potential applications in marker-assisted breeding.

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Acknowledgments

This work was supported by Grants from the National ‘863’ Plan Project (No. 2011AA10020102), the State Key Basic Research Program of China (No. 2012CB114506), and the Project of the National Natural Science Foundation of China (No. J1103516, 31170622, 30872042).

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  1. National Engineering Laboratory for Tree Breeding, College of Biological Sciences and Technology, Beijing Forestry University, Beijing, 100083, People’s Republic of China

    Jiaxing Tian, Mengqi Chang, Qingzhang Du, Baohua Xu & Deqiang Zhang

  2. Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants, Ministry of Education, College of Biological Sciences and Technology, Beijing Forestry University, Beijing, 100083, People’s Republic of China

    Jiaxing Tian, Mengqi Chang, Qingzhang Du, Baohua Xu & Deqiang Zhang

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  1. Jiaxing Tian
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Correspondence to Deqiang Zhang.

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Communicated by S. Hohmann.

Sequence data from this article have been deposited in the GenBank Data Library under the accession Nos. KF613995-KF614035.

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Tian, J., Chang, M., Du, Q. et al. Single-nucleotide polymorphisms in PtoCesA7 and their association with growth and wood properties in Populus tomentosa . Mol Genet Genomics 289, 439–455 (2014). https://doi.org/10.1007/s00438-014-0824-6

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