PMID- 23303632
OWN - NLM
STAT- MEDLINE
DCOM- 20130910
LR  - 20211021
IS  - 1862-1783 (Electronic)
IS  - 1673-1581 (Print)
IS  - 1673-1581 (Linking)
VI  - 14
IP  - 1
DP  - 2013 Jan
TI  - De-novo characterization of the soft-shelled turtle Pelodiscus sinensis 
      transcriptome using Illumina RNA-Seq technology.
PG  - 58-67
LID - 10.1631/jzus.B1200219 [doi]
AB  - The soft-shelled turtle Pelodiscus sinensis is a high-profile turtle species 
      because of its nutritional and medicinal value in Asian countries. However, 
      little is known about the genes that are involved in formation of their 
      nutritional quality traits, especially the molecular mechanisms responsible for 
      unsaturated fatty acid and collagen biosynthesis. In the present study, the 
      transcriptomes from six tissues from Pelodiscus sinensis were sequenced using an 
      Illumina paired-end sequencing platform. We obtained more than 47 million 
      sequencing reads and 73954 unigenes with an average size of 754 bp by de-novo 
      assembly. In total, 55.19% of the unigenes (40814) had significant similarity 
      with proteins in the National Center of Biotechnology Information (NCBI) 
      non-redundant protein database and Swiss-Prot database (E-value <10(-5)). Of 
      these annotated unigenes, 9156 and 11947 unigenes were assigned to 52 gene 
      ontology categories (GO) and 25 clusters of orthologous groups (COG), 
      respectively. In total, 26496 (35.83%) unigenes were assigned to 242 pathways 
      using the Kyoto Encyclopedia of Genes and Genomes pathway database (KEGG). In 
      addition, we found a number of highly expressed genes involved in the regulation 
      of P. sinensis unsaturated fatty acid biosynthesis and collagen formation, 
      including desaturases, growth factors, transcription factors, and extracellular 
      matrix components. Our data represent the most comprehensive sequence resource 
      available for the Chinese soft-shelled turtle and could provide a basis for new 
      research on this turtle as well as the molecular genetics and functional genomics 
      of other terrapins. To our knowledge, we report for the first time, the 
      large-scale RNA sequencing (RNA-Seq) of terrapin animals and would enrich the 
      knowledge of turtles for future research.
FAU - Wang, Wei
AU  - Wang W
AD  - Zhejiang Provincial Top Key Discipline of Modern Microbiology and Application, 
      College of Biological and Environmental Sciences, Zhejiang Wanli University, 
      Ningbo 315100, China.
FAU - Li, Cai-yan
AU  - Li CY
FAU - Ge, Chu-tian
AU  - Ge CT
FAU - Lei, Lei
AU  - Lei L
FAU - Gao, You-ling
AU  - Gao YL
FAU - Qian, Guo-ying
AU  - Qian GY
LA  - eng
PT  - Journal Article
PT  - Research Support, Non-U.S. Gov't
PL  - China
TA  - J Zhejiang Univ Sci B
JT  - Journal of Zhejiang University. Science. B
JID - 101236535
SB  - IM
MH  - Animals
MH  - Female
MH  - High-Throughput Nucleotide Sequencing/methods/veterinary
MH  - Male
MH  - Transcriptome
MH  - Turtles/*genetics
PMC - PMC3542959
EDAT- 2013/01/11 06:00
MHDA- 2013/09/11 06:00
PMCR- 2013/01/01
CRDT- 2013/01/11 06:00
PHST- 2013/01/11 06:00 [entrez]
PHST- 2013/01/11 06:00 [pubmed]
PHST- 2013/09/11 06:00 [medline]
PHST- 2013/01/01 00:00 [pmc-release]
AID - 10.1631/jzus.B1200219 [doi]
PST - ppublish
SO  - J Zhejiang Univ Sci B. 2013 Jan;14(1):58-67. doi: 10.1631/jzus.B1200219.