title: The Spatial and Temporal Transcriptomic Landscapes of Ginseng, Panax ginseng C. A. Meyer.
abstract: Ginseng, including Asian ginseng (Panax ginseng C. A. Meyer) and American ginseng (P. quinquefolius L.), is one of the most important medicinal herbs in Asia and North America, but significantly understudied. This study sequenced and characterized the transcriptomes and expression profiles of genes expressed in 14 tissues and four different aged roots of Asian ginseng. A total of 265.2 million 100-bp clean reads were generated using the high-throughput sequencing platform HiSeq 2000, representing >8.3x of the 3.2-Gb ginseng genome. From the sequences, 248,993 unigenes were assembled for whole plant, 61,912-113,456 unigenes for each tissue and 54,444-65,412 unigenes for different year-old roots. We comprehensively analyzed the unigene sets and gene expression profiles. We found that the number of genes allocated to each functional category is stable across tissues or developmental stages, while the expression profiles of different genes of a gene family or involved in ginsenoside biosynthesis dramatically diversified spatially and temporally. These results provide an overall insight into the spatial and temporal transcriptome dynamics and landscapes of Asian ginseng, and comprehensive resources for advanced research and breeding of ginseng and related species.
authors.affiliation: College of Life Science, Jilin Agricultural University, Changchun 130118, Jilin, China.
authors.forename: Kangyu
authors.initials: K
authors.lastname: Wang
authors.affiliation: College of Life Science, Jilin Agricultural University, Changchun 130118, Jilin, China.
authors.forename: Shicui
authors.initials: S
authors.lastname: Jiang
authors.affiliation: College of Life Science, Jilin Agricultural University, Changchun 130118, Jilin, China.
authors.forename: Chunyu
authors.initials: C
authors.lastname: Sun
authors.affiliation: College of Life Science, Jilin Agricultural University, Changchun 130118, Jilin, China.
authors.forename: Yanping
authors.initials: Y
authors.lastname: Lin
authors.affiliation: College of Life Science, Jilin Agricultural University, Changchun 130118, Jilin, China.
authors.forename: Rui
authors.initials: R
authors.lastname: Yin
authors.affiliation: College of Life Science, Jilin Agricultural University, Changchun 130118, Jilin, China.
authors.forename: Yi
authors.initials: Y
authors.lastname: Wang
authors.affiliation: College of Life Science, Jilin Agricultural University, Changchun 130118, Jilin, China.
authors.forename: Meiping
authors.initials: M
authors.lastname: Zhang
mesh_terms: D053898:Biosynthetic Pathways / Q000235:genetics; D019295:Computational Biology / Q000379:methods; D020869:Gene Expression Profiling; D018506:Gene Expression Regulation, Plant; D063990:Gene Ontology; D053263:Gene Regulatory Networks; D036145:Ginsenosides / Q000378:metabolism; D058977:Molecular Sequence Annotation; D009928:Organ Specificity / Q000235:genetics; D005894:Panax / Q000235:genetics* / Q000378:metabolism; D018517:Plant Roots / Q000235:genetics; D013997:Time Factors; D059467:Transcriptome
chemical_list: D036145:Ginsenosides