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3 Biotech

, 9:152 | Cite as

Transcriptome-wide analysis of the difference of alternative splicing in susceptible and resistant silkworm strains after BmNPV infection

  • Gang Li
  • Kaiyue Zhou
  • Guodong Zhao
  • Heying QianEmail author
  • Anying XuEmail author
Original Article
  • 69 Downloads

Abstract

Novel alternative splicing events were identified from BmNPV-susceptible and -resistant silkworm strains after BmNPV infection using high-throughput RNA-sequencing strategy. In total, 12.82 Gb clean RNA-seq data were generated for the two midgut samples from BmNPV-susceptible and -resistant silkworm strains, and 14.78 Gb clean data for the two fat body samples. The number of alternative splicing events and isoforms in the BmNPV-susceptible silkworm strain was more than that in the BmNPV-resistant silkworm strain. Furthermore, alternative splicing genes uniquely present in BmNPV-resistant silkworm strain were involved in functions about ribosome, whereas, alternative splicing genes uniquely present in BmNPV-susceptible silkworm strain were implicated in functions like DNA helicase activity and signal transduction. Additionally, 33 expressed SR or SR-like proteins were identified, and three genes encoding SR or SR-like proteins (tetratricopeptide repeat protein 14 homolog, ubiquitin carboxyl-terminal hydrolase 32 and zinc finger CCCH domain-containing protein 18) have a higher number of different alternative splicing events between two silkworm strains. The present study suggested BmNPV treatment may have a smaller effect on the mRNA transcription in BmNPV-resistant silkworms than that in BmNPV-susceptible silkworms, and functions of alternative splicing genes are different between the two silkworm strains.

Keywords

Bombyx mori nucleopolyhedrovirus RNA-sequencing Alternative splicing SR proteins 

Notes

Acknowledgements

This work was supported by the National Natural Science Foundation of China (No. 31802136); the China Agriculture Research System (Sericulture industry, CARS-18); The Natural Science Foundation of the Jiangsu Higher Education Institutions of China (17KJB230001); Key Research & Development program of Zhenjiang (NY2018021, NY2017017).

Compliance with ethical standards

Conflict of interest

The authors declares that they have no conflict interest.

Supplementary material

13205_2019_1669_MOESM1_ESM.xlsx (407 kb)
T01.AltSplice_info: the alternative splicing information of the fat body of Qiufeng that is susceptible to BmNPV (XLSX 406 KB)
13205_2019_1669_MOESM2_ESM.xlsx (314 kb)
T02.AltSplice_info: the alternative splicing information of the fat body of QiufengN that is resistant to BmNPV (XLSX 314 KB)
13205_2019_1669_MOESM3_ESM.xlsx (341 kb)
T03.AltSplice_info: the alternative splicing information of the midgut of Qiufeng that is susceptible to BmNPV (XLSX 341 KB)
13205_2019_1669_MOESM4_ESM.xlsx (332 kb)
T04.AltSplice_info: the alternative splicing information of the midgut of QiufengN that is resistant to BmNPV (XLSX 331 KB)
13205_2019_1669_MOESM5_ESM.xlsx (56 kb)
T05. Alternative splicing events common between F1, F2, M1, M2 (XLSX 56 KB)
13205_2019_1669_MOESM6_ESM.docx (26 kb)
Table S1 The enriched Gene Ontology terms of FAS-genes and MAS-genes. Table S2 The enriched Gene Ontology terms of RAS-genes and SAS-genes. Table S3 Primers of 10 AS-genes of qRT-PCR (DOCX 26 KB)

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Copyright information

© King Abdulaziz City for Science and Technology 2019

Authors and Affiliations

  1. 1.Jiangsu University of Science and TechnologyZhenjiangPeople’s Republic of China
  2. 2.Key Laboratory of Silkworm and Mulberry Genetic Improvement, Ministry of Agriculture, The Sericultural Research InstituteChinese Academy of Agricultural SciencesZhenjiangPeople’s Republic of China

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