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Planta

, Volume 240, Issue 6, pp 1269–1286 | Cite as

Single nucleotide polymorphisms in a cellulose synthase gene (PtoCesA3) are associated with growth and wood properties in Populus tomentosa

  • Baohua Xu
  • Jiaxing Tian
  • Qingzhang Du
  • Chenrui Gong
  • Wei Pan
  • Deqiang ZhangEmail author
Original Article

Abstract

In plants, the composition and organization of the cell wall determine cell shape, enable cell expansion, and affect the properties of woody tissues. Cellulose synthase (CesA) genes encode the enzymes involved in the synthesis of cellulose which is the major component of plant primary and secondary cell walls. Here, we isolated a full-length PtoCesA3 cDNA from the stem cambium tissue of Populus tomentosa. Tissue-specific expression profiling showed that PtoCesA3 is highly expressed during primary cell wall formation. Estimation of single nucleotide polymorphism (SNP) diversity and linkage disequilibrium (LD) revealed that PtoCesA3 harbors high SNP diversity (π T = 0.00995 and θ w = 0.0102) and low LD (r 2 ≥ 0.1, within 1,280 bp). Association analysis in a P. tomentosa association population (460 individuals) showed that seven SNPs (false discovery rate Q < 0.10) and five haplotypes (Q < 0.10) were significantly associated with growth and wood properties, explaining 4.09–7.02 % of the phenotypic variance. All significant marker-trait associations were validated in at least one of the three smaller subsets (climatic regions) while five associations were repeated in the linkage population. Variation in RNA transcript abundance among genotypic classes of significant loci was also confirmed in the association or linkage populations. Identification of PtoCesA3 and examining its allelic polymorphisms using association studies open an avenue to understand the mechanism of cellulose synthesis in the primary cell wall and its effects on the properties of woody tissues.

Keywords

Association genetics Cellulose synthase Populus Primary cell wall Single nucleotide polymorphism Validation population Wood properties 

Abbreviations

CesA

Cellulose synthase

CSC

Cellulose synthesizing complex

D

Tree diameter at breast height

FL

Fiber length

FW

Fiber width

FL/FW

The length–width ratio of fibers

H

Tree height

HC

Holocellulose content

LC

Lignin content

LD

Linkage disequilibrium

QTLs

Quantitative trait loci

SNP

Single nucleotide polymorphism

UTR

Untranslated region

V

Stem volume

Notes

Acknowledgments

This work was supported by grants from the National ‘863’ Plan Project (No. 2013AA102702), the State Key Basic Research Program of China (No. 2012CB114506), and the Project of the National Natural Science Foundation of China (No. 31170622, 30872042).

Supplementary material

425_2014_2149_MOESM1_ESM.tif (286 kb)
The plot of nucleotide polymorphism at the PtoCesA3 locus. The left y axis represents the numbers of the loci and the right y axis represents the values of π(-lg), θ(-lg) and Tajima’s D (TIFF 286 kb)
425_2014_2149_MOESM2_ESM.doc (61 kb)
Supplementary material 2 (DOC 49 kb)

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Copyright information

© Springer-Verlag Berlin Heidelberg 2014

Authors and Affiliations

  • Baohua Xu
    • 1
    • 2
  • Jiaxing Tian
    • 1
    • 2
  • Qingzhang Du
    • 1
    • 2
  • Chenrui Gong
    • 1
    • 2
  • Wei Pan
    • 1
    • 2
  • Deqiang Zhang
    • 1
    • 2
    Email author
  1. 1.National Engineering Laboratory for Tree Breeding, College of Biological Sciences and TechnologyBeijing Forestry UniversityBeijingPeople’s Republic of China
  2. 2.Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants, Ministry of Education, College of Biological Sciences and TechnologyBeijing Forestry UniversityBeijingPeople’s Republic of China

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