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Analysis of ESTs generated from inner bark tissue of an Acacia auriculiformis x Acacia mangium hybrid


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Yong, SYC, Choong, CY, Cheong, PL, Pang, SL, Amalina, RN, Harikrishna, JA, Mat-Isa, MN, Hedley, P, Milne, L, Vaillancourt, RE and Wickneswari, R 2011 , 'Analysis of ESTs generated from inner bark tissue of an Acacia auriculiformis x Acacia mangium hybrid' , Tree Genetics & Genomes, vol. 7, no. 1 , pp. 143-152 , doi: 10.1007/s11295-010-0321-y.

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The majority of plant expressed sequence tags
(ESTs) available in the public databases are from nonwoody
species such as Arabidopsis, maize, soybean, and
rice, with the exception of the model tree species, Populus.
In this study, we report the first EST database constructed
from the commercially important tree species Acacia. ESTs
were generated from pooled RNA extracted from the
mature, intermediate, and young inner bark tissues of an
Acacia auriculiformis x Acacia mangium hybrid. Finally,
3,182 high-quality ESTs were analyzed representing a total
of 1,982 unique transcripts (663 contigs and 1,319 singletons)for the inner bark cDNA library. A total of 1,053
unigenes (1,750 ESTs) showed similarities with protein
sequences in public database where 867 were significant
matches (E value≤e−10). Further analysis performed on
unigenes with significant matches and known functions
identified 231 genes including genes involved in cellulose,
lignin, and hemicellulose biosynthesis. For cDNA library
validation, quantitative real-time RT-PCR was performed to
study the expression levels of the cellulose and lignin genes identified from this EST database in the phloem tissue of A. mangium, A. auriculiformis, and A. auriculiformis x A. mangium hybrid. All the seven candidate genes were expressed in all the individuals studied confirming the dependability of the EST database. The cDNA library and the EST database constructed are valuable resources for forest tree research aiming towards understanding the genetic control of wood formation and in the future endeavors to modify wood and fiber profile through marker-assisted breeding programs.

Item Type: Article
Authors/Creators:Yong, SYC and Choong, CY and Cheong, PL and Pang, SL and Amalina, RN and Harikrishna, JA and Mat-Isa, MN and Hedley, P and Milne, L and Vaillancourt, RE and Wickneswari, R
Keywords: cDNA library – Wood formation genes – Transcript profiling – Library validation – Comparative sequence analysis
Journal or Publication Title: Tree Genetics & Genomes
ISSN: 1614-2942
DOI / ID Number: 10.1007/s11295-010-0321-y
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