A deep transcriptomic analysis of pod development in the vanilla orchid (Vanilla planifolia)

BMC Genomics

Fang Chen²  Richard A Dixon²  Faith C Belanger¹  Daphna Havkin-Frenkel¹  Thomas Widiez¹  Yuhong Tang³  Nick Krom³  Xiaolan Rao² 

[1] Department of Plant Biology and Pathology, Rutgers, The State University of New Jersey, 59 Dudley Road, New Brunswick, NJ 08901, USA;Department of Biological Sciences, University of North Texas, 1155 Union Circle #305220, Denton, TX 76203, USA;Samuel Roberts Noble Foundation, 2510 Sam Noble Parkway, Ardmore, OK 73402, USA

关键词: Vanillin;    Lignin;    RNA sequencing;    Transcriptome;    Vanilla planifolia;    Vanilla;   

Others  :  1127618
DOI  :  10.1186/1471-2164-15-964

 received in 2014-04-28, accepted in 2014-10-28,  发布年份 2014

【 摘 要 】

Background

Pods of the vanilla orchid (Vanilla planifolia) accumulate large amounts of the flavor compound vanillin (3-methoxy, 4-hydroxy-benzaldehyde) as a glucoside during the later stages of their development. At earlier stages, the developing seeds within the pod synthesize a novel lignin polymer, catechyl (C) lignin, in their coats. Genomic resources for determining the biosynthetic routes to these compounds and other flavor components in V. planifolia are currently limited.

Results

Using next-generation sequencing technologies, we have generated very large gene sequence datasets from vanilla pods at different times of development, and representing different tissue types, including the seeds, hairs, placental and mesocarp tissues. This developmental series was chosen as being the most informative for interrogation of pathways of vanillin and C-lignin biosynthesis in the pod and seed, respectively. The combined 454/Illumina RNA-seq platforms provide both deep sequence coverage and high quality de novo transcriptome assembly for this non-model crop species.

Conclusions

The annotated sequence data provide a foundation for understanding multiple aspects of the biochemistry and development of the vanilla bean, as exemplified by the identification of candidate genes involved in lignin biosynthesis. Our transcriptome data indicate that C-lignin formation in the seed coat involves coordinate expression of monolignol biosynthetic genes with the exception of those encoding the caffeoyl coenzyme A 3-O-methyltransferase for conversion of caffeoyl to feruloyl moieties. This database provides a general resource for further studies on this important flavor species.

【 授权许可】

   
2014 Rao et al.; licensee BioMed Central Ltd.

【 图 表 】

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