Nucleotide sequence analysis of two lignin genes in Acacia auriculiformis × Acacia mangium hybrid for enhancement of wood pulp quality

A. Sukganah, Chee Yen Choong, J. Russell, D. Neale, R Wickneswari V Ratnam

Research output: Contribution to journalArticle

1 Citation (Scopus)

Abstract

There is large potential in the establishment of Acacia auriculiformis × Acacia mangium hybrid plantations through selection of high quality parents especially with characteristics favourable for some end products like pulp and fibre. Trees altered in their lignin profile with reduced amounts of lignin or increased extractable syringyl are desirable in the pulp and paper industry. Cinnamoyl-CoA reductase (CCR) and caffeic acid O-methyltransferase (COMT) are two enzymes likely to regulate lignin content and composition in the syringyl (S)- and guaiacyl (G)-related monolignols at specific branches of the lignin biosynthetic pathway. A goal of this study was to discover the genetic variation in CCR and COMT genes in Acacia species using single nucleotide polymorphisms (SNPs). In this study, two lignin genes, CCR (3,317 bp) and COMT (2,764 bp), were isolated from the Acacia hybrid, sequenced and analysed in silico. Southern blot analysis suggested that there are one to two copies of genes encoding CCR and COMT in the Acacia hybrid. Upon genotyping 480 individuals from natural populations of A. auriculiformis and A. mangium, six CCR SNPs were found in A. auriculiformis and five CCR SNPs in A. mangium. Three COMT SNPs were found in A. auriculiformis and one COMT SNP in A. mangium. A pair of CCR SNPs showed high linkage disequlibrium (LD) with r 2 value of 0.870 in an A. mangium population from Papua New Guinea. The SNPs will be further exploited through the candidate gene-based LD mapping to identify QTLs for the Acacia marker-assisted breeding. This is the first documentation of the isolation, cloning and re-sequencing of CCR and COMT genes in the Acacia hybrid and the natural populations of A. auriculiformis and A. mangium.

Original languageEnglish
Pages (from-to)1369-1381
Number of pages13
JournalTree Genetics and Genomes
Volume9
Issue number5
DOIs
Publication statusPublished - Oct 2013

Fingerprint

cinnamoyl CoA reductase
caffeate O-methyltransferase
wood pulp
Acacia auriculiformis
Acacia
Acacia mangium
Lignin
lignin
Sequence Analysis
polymorphism
single nucleotide polymorphism
Single Nucleotide Polymorphism
sequence analysis
nucleotide sequences
gene
acid
Genes
genes
pulp and paper industry
Population

Keywords

  • Caffeic acid O-methyltransferase (COMT)
  • Cinnamoyl-CoA reductase (CCR)
  • Monolignols

ASJC Scopus subject areas

  • Forestry
  • Horticulture
  • Genetics
  • Molecular Biology

Cite this

Nucleotide sequence analysis of two lignin genes in Acacia auriculiformis × Acacia mangium hybrid for enhancement of wood pulp quality. / Sukganah, A.; Choong, Chee Yen; Russell, J.; Neale, D.; V Ratnam, R Wickneswari.

In: Tree Genetics and Genomes, Vol. 9, No. 5, 10.2013, p. 1369-1381.

Research output: Contribution to journalArticle

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