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Identification and Characteristics of Batrachuperus karlschmidti miRNA Using Illumina Deep Sequencing

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Abstract

MicroRNAs (miRNAs) play critical roles in regulating many biological processes of eukaryotes. Batrachuperus karlschmidti, as an endangered amphibian species of salamander endemic to China, has attracted much attention because of its high values for paleontology evolutionary history research and decreasing population size. Most miRNAs have been identified in animals, no study is available concerning the miRNAs in B. karlschmidti. Herein, deep sequencing technology was used to identify and analyze miRNAs in B. karlschmidti. Totally, 13 377 954 reads were yielded. Of them, 2 724 630 unique reads representing 866 known and three novel miRNAs were identified. All these identified miRNAs were also verified using stem-loop qRT-PCR test method. Additionally, 5452 candidate target genes were predicted. GO and KEGG pathway analysis showed that the majority of targets were involved in a broad range of biological processes and metabolic pathways. Results also revealed that certain miRNA target genes are transcription factors, which might be associated with environmental adaptation of B. karlschmidti. Overall, our results provided the first large-scale identification and characterization of miRNAs in B. karlschmidti. Discovery of miRNAs in B. karlschmidti contributes to a better understanding of the complex roles of miRNA-mediated regulatory networks in gene expression in regulating diverse biological processes and greatly facilitates further functional studies on miRNAs in this species.

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Funding

Current research work was supported by the Natural Science Foundation of China (no. 31471971) and Foundation of Henan Educational Committee of China (no. 2015GGJS-054).

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Authors and Affiliations

  1. College of Animal Science and Technology, Henan University of Science and Technology, 471023, Luoyang, China

    Yong Huang, Jianli Xiong & Xihong Sun

  2. Purdue University, Department of Forestry and Natural Resource, 47907, West Lafayette, Indiana, , USA

    Paul B. Brown

Authors
  1. Yong Huang
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  2. Jianli Xiong
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  3. Paul B. Brown
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  4. Xihong Sun
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Corresponding authors

Correspondence to Yong Huang or Paul B. Brown.

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COMPLIANCE WITH ETHICAL STANDARDS

This study was conducted in strict accordance with the Guidelines for the Care and Use of Laboratory Animals in Henan University of Science and Technology. All efforts were made to minimize the sufferings of the animals.

Conflict of Interests

The authors declare no conflict of interest.

Additional information

Corresponding author: e-mail: huangyong1979111@126.com; pb@purdue.edu.

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Yong Huang, Xiong, J., Brown, P.B. et al. Identification and Characteristics of Batrachuperus karlschmidti miRNA Using Illumina Deep Sequencing. Russ J Bioorg Chem 46, 207–216 (2020). https://doi.org/10.1134/S1068162020020193

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  • DOI: https://doi.org/10.1134/S1068162020020193

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