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Alternative Splicing Reveals Acute Stress Response of Litopenaeus vannamei at High Alkalinity

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Abstract

Alkalinity is regarded as one of the primary stressors for aquatic animals in saline-alkaline water. Alternative splicing (AS) can significantly increase the diversity of transcripts and play key roles in stress response; however, the studies on AS under alkalinity stress of crustaceans are still limited. In the present study, we devoted ourselves to the study of AS under acute alkalinity stress at control (50 mg/L) and treatment groups (350 mg/L) by RNA-seq in pacific white shrimp (Litopenaeus vannamei). We identified a total of 10,556 AS events from 4865 genes and 619 differential AS (DAS) events from 519 DAS genes in pacific white shrimp. Functional annotation showed that the DAS genes primarily involved in spliceosome. Five splicing factors (SFs), U2AF1, PUF60, CHERP, SR140 and SRSF2 were significantly up-regulated and promoted AS. Furthermore, alkalinity activated the Leukocyte transendothelial migration, mTOR signaling pathway and AMPK signaling pathway, which regulated MAPK1, EIF3B and IGFP-RP1 associated with these pathways. We also studied three SFs (HSFP1, SRSF2 and NHE-RF1), which underwent AS to form different transcript isoforms. The above results demonstrated that AS was a regulatory mechanism in pacific white shrimp in response to acute alkalinity stress. SFs played vital roles in AS of pacific white shrimp, such as HSFP1, SRSF2 and NHE-RF1. DAS genes were significantly modified in immunity of pacific white shrimp to cope with alkalinity stress. This is the first study on the response of AS to acute alkalinity stress, which provided scientific basis for AS mechanism of crustaceans response to alkalinity stress.

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Data Availability

The data presented in this study are available in the Supplementary information. The datasets presented in this study can also be found in online repositories. The names of the repository/repositories and accession number(s) can be found below: NCBI under accession number is PRJNA1002106.

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Funding

We thank the members of Gansu Agriculture University for the valuable discussions. This research was funded by Gansu Natural Science Foundation (21JR7RA800) and Gansu Agricultural University Talent Fund (GAU-KYQD-2020-14).

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Authors and Affiliations

  1. College of Animal Science and Technology, Gansu Agricultural University, No. 1 Yingmen Village, Anning District, Gansu Province, Lanzhou, 730070, China

    Xiang Shi, Ruiqi Zhang, Zhe Liu, Guiyan Zhao, Jintao Guo, Xue Mao & Baoyi Fan

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  1. Xiang Shi
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  2. Ruiqi Zhang
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  3. Zhe Liu
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  4. Guiyan Zhao
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Contributions

Xiang Shi was involved in data analyses, statistical analyses, language revisions, journal selection, and manuscript submissions and revisions. Ruiqi Zhang and Zhe Liu contributed to the experimental design and implementation. Xiang Shi and Ruiqi Zhang contributed to the supervision and assistance of students in managing animals and collecting and analyzing samples. Guiyan Zhao, Jintao Guo, Xue Mao and Baoyi Fan were responsible for the trial implementation, supervision of students collecting and analyzing samples, and manuscript preparation. Xiang Shi and Ruiqi Zhang contributed to supervision of sample collection and analysis and manuscript editing. All authors contributed to the article and approved the submitted version.

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Correspondence to Ruiqi Zhang.

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The animal study was reviewed and approved by Gansu Agricultural University (applicant number: GSAU-Eth-AST-2022–015). All experiments were carried out according to the “Chinese Laboratory Animal Care and Use Guide”.

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Shi, X., Zhang, R., Liu, Z. et al. Alternative Splicing Reveals Acute Stress Response of Litopenaeus vannamei at High Alkalinity. Mar Biotechnol 26, 103–115 (2024). https://doi.org/10.1007/s10126-023-10281-w

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