Open Access Research article

Identification of genes related to agarwood formation: transcriptome analysis of healthy and wounded tissues of Aquilaria sinensis

Yanhong Xu1, Zheng Zhang12, Mengxi Wang3, Jianhe Wei12*, Hongjiang Chen2, Zhihui Gao1, Chun Sui1, Hongmei Luo1, Xingli Zhang1, Yun Yang2, Hui Meng2 and Wenlan Li3

  • * Corresponding author: Jianhe Wei wjianh@263.net

  • † Equal contributors

Author Affiliations

1 Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences & Peking Union Medical College, No. 151, Malianwa North Road, Haidian District, Beijing, 100193, China

2 Hainan Branch Institute of Medicinal Plant (Hainan Provincial Key Laboratory of Resources Conservation and Development of Southern Medicine), Chinese Academy of Medical Sciences & Peking Union Medical College, Wanning, 571533, China

3 Research Center on Life Sciences and Environmental Sciences, Harbin University of Commerce, Harbin, 150076, China

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BMC Genomics 2013, 14:227  doi:10.1186/1471-2164-14-227

Published: 8 April 2013

Additional files

Additional file 1: Figure S1:

Sesquiterpene biosynthesis pathway in plants.

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Additional file 2: Table S1:

Distribution of the number of reads in the Aquilaria sinensis unigenes.

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Additional file 3: Table S2:

Summary of annotation of the A. sinensis 454 assembled unigenes.

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Additional file 4: Figure S2:

Comparison of healthy and wounded tissue libraries based on GO terms.

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Additional file 5: Figure S3:

Functional classification of differentially expressed genes based on GO terms.

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Additional file 6: Figure S4:

Phenetic analysis of the proteins translated from the full-length AsFPS sequence from Aquilaria sinensis and some characterized farnesyl diphosphate synthase sequences from other plant species. Bootstrap values after 1000 replications are shown on the branches.

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Additional file 7: Figure S5:

Alignment of nucleotide sequences for 3 sesquiterpene synthase (ASS) genes.

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Additional file 8: Figure S6:

Alignment of deduced amino acid sequences for 3 ASSs.

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Additional file 9: Figure S7:

Phenetic analysis of 3 full-length sesquiterpene synthase sequences from A. sinensis (ASS1-3) and some characterized sesquiterpene synthase sequences from other plant species. Bootstrap values after 1000 replications are shown on the branches.

Format: DOCX Size: 19.5MB Download file

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Additional file 10: Table S3:

Major transcription factors identified from A. sinensis.

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Additional file 11: Table S4:

Unigenes annotated as being related to the calcium signaling and mitogen-activated protein kinase signaling pathways.

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Additional file 12: Table S5:

Candidate regulators used for RT-PCR analysis.

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Additional file 13: Table S6:

Primers used in this study.

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