PMID- 30804390
OWN - NLM
STAT- MEDLINE
DCOM- 20200914
LR  - 20200914
IS  - 2045-2322 (Electronic)
IS  - 2045-2322 (Linking)
VI  - 9
IP  - 1
DP  - 2019 Feb 25
TI  - Comprehensive identification of the full-length transcripts and alternative 
      splicing related to the secondary metabolism pathways in the tea plant (Camellia 
      sinensis).
PG  - 2709
LID - 10.1038/s41598-019-39286-z [doi]
LID - 2709
AB  - Flavonoids, theanine and caffeine are the main secondary metabolites of the tea 
      plant (Camellia sinensis), which account for the tea's unique flavor quality and 
      health benefits. The biosynthesis pathways of these metabolites have been 
      extensively studied at the transcriptional level, but the regulatory mechanisms 
      are still unclear. In this study, to explore the transcriptome diversity and 
      complexity of tea plant, PacBio Iso-Seq and RNA-seq analysis were combined to 
      obtain full-length transcripts and to profile the changes in gene expression 
      during the leaf development. A total of 1,388,066 reads of insert (ROI) were 
      generated with an average length of 1,762 bp, and more than 54% (755,716) of the 
      ROIs were full-length non-chimeric (FLNC) reads. The Benchmarking Universal 
      Single-Copy Orthologue (BUSCO) completeness was 92.7%. A total of 93,883 
      non-redundant transcripts were obtained, and 87,395 (93.1%) were new 
      alternatively spliced isoforms. Meanwhile, 7,650 differential expression 
      transcripts (DETs) were identified. A total of 28,980 alternative splicing (AS) 
      events were predicted, including 1,297 differential AS (DAS) events. The 
      transcript isoforms of the key genes involved in the flavonoid, theanine and 
      caffeine biosynthesis pathways were characterized. Additionally, 5,777 fusion 
      transcripts and 9,052 long non-coding RNAs (lncRNAs) were also predicted. Our 
      results revealed that AS potentially plays a crucial role in the regulation of 
      the secondary metabolism of the tea plant. These findings enhanced our 
      understanding of the complexity of the secondary metabolic regulation of tea 
      plants and provided a basis for the subsequent exploration of the regulatory 
      mechanisms of flavonoid, theanine and caffeine biosynthesis in tea plants.
FAU - Qiao, Dahe
AU  - Qiao D
AUID- ORCID: 0000-0002-0583-0316
AD  - Tea Research Institute, Guizhou Academy of Agricultural Science, Guiyang, 550006, 
      Guizhou, China.
FAU - Yang, Chun
AU  - Yang C
AD  - Tea Research Institute, Guizhou Academy of Agricultural Science, Guiyang, 550006, 
      Guizhou, China.
FAU - Chen, Juan
AU  - Chen J
AD  - Tea Research Institute, Guizhou Academy of Agricultural Science, Guiyang, 550006, 
      Guizhou, China.
FAU - Guo, Yan
AU  - Guo Y
AD  - Tea Research Institute, Guizhou Academy of Agricultural Science, Guiyang, 550006, 
      Guizhou, China.
FAU - Li, Yan
AU  - Li Y
AD  - Tea Research Institute, Guizhou Academy of Agricultural Science, Guiyang, 550006, 
      Guizhou, China.
FAU - Niu, Suzhen
AU  - Niu S
AD  - College of tea science, Guizhou University, Guiyang, 550025, Guizhou, China.
FAU - Cao, Kemei
AU  - Cao K
AD  - College of tea science, Guizhou University, Guiyang, 550025, Guizhou, China.
FAU - Chen, Zhengwu
AU  - Chen Z
AD  - Tea Research Institute, Guizhou Academy of Agricultural Science, Guiyang, 550006, 
      Guizhou, China. zwchentea@163.com.
LA  - eng
SI  - figshare/10.6084/m9.figshare.7403933
PT  - Journal Article
PT  - Research Support, Non-U.S. Gov't
DEP - 20190225
PL  - England
TA  - Sci Rep
JT  - Scientific reports
JID - 101563288
RN  - 0 (Plant Proteins)
RN  - 0 (RNA, Long Noncoding)
SB  - IM
MH  - Alternative Splicing/genetics/physiology
MH  - Camellia sinensis/genetics/*metabolism
MH  - Gene Expression Regulation, Plant/genetics/physiology
MH  - Plant Proteins/genetics/*metabolism
MH  - RNA, Long Noncoding/genetics/metabolism
MH  - Secondary Metabolism/genetics/physiology
PMC - PMC6389920
COIS- The authors declare no competing interests.
EDAT- 2019/02/26 06:00
MHDA- 2020/09/15 06:00
PMCR- 2019/02/25
CRDT- 2019/02/27 06:00
PHST- 2018/10/26 00:00 [received]
PHST- 2019/01/22 00:00 [accepted]
PHST- 2019/02/27 06:00 [entrez]
PHST- 2019/02/26 06:00 [pubmed]
PHST- 2020/09/15 06:00 [medline]
PHST- 2019/02/25 00:00 [pmc-release]
AID - 10.1038/s41598-019-39286-z [pii]
AID - 39286 [pii]
AID - 10.1038/s41598-019-39286-z [doi]
PST - epublish
SO  - Sci Rep. 2019 Feb 25;9(1):2709. doi: 10.1038/s41598-019-39286-z.