共 55 条
Alternative splicing and trans-splicing events revealed by analysis of the Bombyx mori transcriptome
被引:46
作者:
Shao, Wei
[2
]
Zhao, Qiong-Yi
[1
]
Wang, Xiu-Ye
[2
]
Xu, Xin-Yan
[2
]
Tang, Qing
[2
]
Li, Muwang
[3
]
Li, Xuan
[1
]
Xu, Yong-Zhen
[2
]
机构:
[1] Chinese Acad Sci, Shanghai Inst Biol Sci, Inst Plant Physiol & Ecol, Key Lab Synthet Biol, Shanghai 200032, Peoples R China
[2] Chinese Acad Sci, Shanghai Inst Biol Sci, Inst Plant Physiol & Ecol, Key Lab Insect Dev & Evolutionary Biol, Shanghai 200032, Peoples R China
[3] Chinese Acad Agr Sci, Sericultural Res Inst, Zhenjiang 212018, Jiangsu, Peoples R China
来源:
关键词:
RNA-seq;
alternative splicing;
trans-splicing;
Bombyx mori;
SR protein;
SILKWORM BOMBYX;
REGULATORY ELEMENTS;
GENE-EXPRESSION;
DROSOPHILA;
COMPLEXITY;
DOUBLESEX;
GENOME;
LOCUS;
MECHANISMS;
MOD(MDG4);
D O I:
10.1261/rna.029751.111
中图分类号:
Q5 [生物化学];
Q7 [分子生物学];
学科分类号:
071010 ;
081704 ;
摘要:
Alternative splicing and trans-splicing events have not been systematically studied in the silkworm Bombyx mori. Here, the silkworm transcriptome was analyzed by RNA-seq. We identified 320 novel genes, modified 1140 gene models, and found thousands of alternative splicing and 58 trans-splicing events. Studies of three SR proteins show that both their alternative splicing patterns and mRNA products are conserved from insect to human, and one isoform of Srsf6 with a retained intron is expressed sex-specifically in silkworm gonads. Trans-splicing of mod(mdg4) in silkworm was experimentally confirmed. We identified integrations from a common 5'-gene with 46 newly identified alternative 3'-exons that are located on both DNA strands over a 500-kb region. Other trans-splicing events in B. mori were predicted by bioinformatic analysis, in which 12 events were confirmed by RT-PCR, six events were further validated by chimeric SNPs, and two events were confirmed by allele-specific RT-PCR in F-1 hybrids from distinct silkworm lines of JS and L10, indicating that trans-splicing is more widespread in insects than previously thought. Analysis of the B. mori transcriptome by RNA-seq provides valuable information of regulatory alternative splicing events. The conservation of splicing events across species and newly identified trans-splicing events suggest that B. mori is a good model for future studies.
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页码:1395 / 1407
页数:13
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