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2014 ; 2014
(ä): 404578
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Gleditsia sinensis: transcriptome sequencing, construction, and application of
its protein-protein interaction network
#MMPMID24982878
Zhu L
; Zhang Y
; Guo W
; Wang Q
Biomed Res Int
2014[]; 2014
(ä): 404578
PMID24982878
show ga
Gleditsia sinensis is a genus of deciduous tree in the family Caesalpinioideae,
native to China, and is of great economic importance. However, despite its
economic value, gene sequence information is strongly lacking. In the present
study, transcriptome sequencing of G. sinensis was performed resulting in
approximately 75.5 million clean reads assembled into 142155 unique transcripts
generating 58583 unigenes. The average length of the unigenes was 900 bp, with an
N50 of 549 bp. The obtained unigene sequences were then compared to four protein
databases to include NCBI nonredundant protein (NRDB), Swiss-prot, Kyoto
Encyclopedia of Genes and Genomes (KEGG), and the Cluster of Orthologous Groups
(COG). Using BLAST procedure, 31385 unigenes (53.6%) were generated to have
functional annotations. Additionally, sequence homologies between identified
unigenes and genes of known species in a protein-protein interaction (PPI)
network facilitated G. sinensis PPI network construction. Based on this network
construction, new stress resistance genes (including cold, drought, and high
salinity) were predicted. The present study is the first investigation of
genome-wide gene expression in G. sinensis with the results providing a basis for
future functional genomic studies relating to this species.