Building an octaploid genome and transcriptome of the medicinal plant Pogostemon cablin from Lamiales

The Lamiales order presents highly varied genome sizes and highly specialized life strategies. Patchouli, Pogostemon cablin (Blanco) Benth. from the Lamiales, has been widely cultivated in tropical and subtropical areas of Asia owing to high demand for its essential oil. Here, we generated ~681 Gb g...

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Bibliographic Details
Published in:Scientific data 2018-12, Vol.5 (1), p.180274-11, Article 180274
Main Authors: He, Yang, Peng, Fu, Deng, Cao, Xiong, Liang, Huang, Zi-yan, Zhang, Ruo-qi, Liu, Meng-jia, Peng, Cheng
Format: Article
Language:English
Subjects:
631/181
631/449
Data Descriptor
Gene expression
Gene regulation
Genome, Plant
Genomes
Humanities and Social Sciences
Lamiales
Medicinal plants
multidisciplinary
Pogostemon - genetics
Pogostemon cablin
Polyploidy
Science
Transcriptome
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Summary:The Lamiales order presents highly varied genome sizes and highly specialized life strategies. Patchouli, Pogostemon cablin (Blanco) Benth. from the Lamiales, has been widely cultivated in tropical and subtropical areas of Asia owing to high demand for its essential oil. Here, we generated ~681 Gb genomic sequences (~355X coverage) for the patchouli, and the assembled genome is ~1.91 Gb and with 110,850 predicted protein-coding genes. Analyses showed clear evidence of whole-genome octuplication (WGO) since the pan-eudicots γ triplication, which is a recent and exclusive polyploidization event and occurred at ~6.31 million years ago. Analyses of TPS gene family showed the expansion of type-a, which is responsible for the synthesis of sesquiterpenes and maybe highly specialization in patchouli. Our datasets provide valuable resources for plant genome evolution, and for identifying of genes related to secondary metabolites and their gene expression regulation. Design Type(s) phylogenetic analysis objective • replicate design • sequence assembly objective Measurement Type(s) whole genome sequencing • transcriptional profiling assay Technology Type(s) DNA sequencing • RNA sequencing Factor Type(s) Read Length • biological replicate Sample Characteristic(s) Pogostemon cablin • root • stem • leaf Machine-accessible metadata file describing the reported data (ISA-Tab format)
ISSN:2052-4463
2052-4463
DOI:10.1038/sdata.2018.274