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Full-length transcriptome characterization and comparative analysis of Gleditsia sinensis
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Full-length transcriptome characterization and comparative analysis of Gleditsia sinensis
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Journal Article
Full-length transcriptome characterization and comparative analysis of Gleditsia sinensis
2023
Overview
As an economically important tree,
Gleditsia sinensis
Lam. is widely planted. A lack of background genetic information on
G. sinensis
hinders molecular breeding. Based on PacBio single-molecule real-time (SMRT) sequencing and analysis of
G. sinensis
, a total of 95,183 non-redundant transcript sequences were obtained, of which 93,668 contained complete open reading frames (ORFs), 2,858 were long non-coding RNAs (LncRNAs) and 18,855 alternative splicing (AS) events were identified. Genes orthologous to different
Gleditsia
species pairs were identified, stress-related genes had been positively selected during the evolution. AGA, AGG, and CCA were identified as the universal optimal codon in the genus of
Gleditsia
.
EIF5A
was selected as a suitable fluorescent quantitative reference gene. 315 Cytochrome P450 monooxygenases (
CYP450s
) and 147 uridine diphosphate (UDP)-glycosyltransferases (
UGTs
) were recognized through the PacBio SMRT transcriptome. Randomized selection of
GsIAA14
for cloning verified the reliability of the PacBio SMRT transcriptome assembly sequence. In conclusion, the research data lay the foundation for further analysis of the evolutionary mechanism and molecular breeding of
Gleditsia
.
Publisher
BioMed Central,BioMed Central Ltd,Springer Nature B.V,BMC
Subject
/ Analysis
/ Animal Genetics and Genomics
/ Biomedical and Life Sciences
/ Breeding
/ Cloning
/ Farms
/ Genes
/ Genomics
/ Growth
/ Ka/Ks
/ Kinases
/ Microbial Genetics and Genomics
/ Proteins
/ Seeds
/ Uridine
