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Conserved and novel heat stress-responsive microRNAs identified by deep sequencing in Pyropia yezoensis

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Abstract

Pyropia yezoensis is commonly known as a valuable marine red alga. As a cold-temperate species, high temperature is a critical abiotic stress factor that can affect the growth and development of this seaweed. Exploring the regulatory mechanisms of P. yezoensis resistance to high temperatures has significance in breeding high temperature-resistant strains. To investigate the potential role of microRNA (miRNA) regulation in heat stress, we constructed and sequenced four libraries (one control and three heat stressed). A total of 1213 miRNAs, corresponding to 174 miRNA families and 10 miRNAs precursors producing 14 novel mature miRNAs were identified. Among them, 98 miRNAs were differentially expressed under heat stress. The quantitative PCR of six selected miRNAs verified the deep sequencing data. This study represents the first set of heat-responsive miRNAs from P. yezoensis, and provides valuable information for understanding the miRNA-mediated heat stress responses and resistance mechanisms in P. yezoensis. The results offer a foundation for future studies on the genetic improvement of Pyropia heat stress tolerance.

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Acknowledgements

This research was funded by the National Science & Technology Pillar Program (2013BAD23B01), the National Nature Science Foundation of China (41176153 and 31770393), the key R & D program of Shandong Province (2015GSF115008)  and the Science Fund for Distinguished Young Scholars of Shandong Province (JQ201509).

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Authors and Affiliations

  1. Qingdao University of Science and Technology, Qingdao, 266042, China

    Chengwei Liang, Lei Shi, Cuicui Hao & Fengmei Li

  2. Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Qingdao, 266071, China

    Xiaowen Zhang & Naihao Ye

  3. Laboratory for Marine Fisheries and Aquaculture, Qingdao National Laboratory for Marine Science and Technology, Qingdao, 266200, China

    Xiaowen Zhang & Naihao Ye

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  1. Chengwei Liang
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  2. Xiaowen Zhang
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  3. Lei Shi
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  4. Cuicui Hao
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  5. Naihao Ye
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  6. Fengmei Li
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Correspondence to Naihao Ye.

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Electronic supplementary material

Figure S1

Predicted stem-loop structures of ten novel miRNAs precursors. Mature miRNAs were shown in red. (JPEG 537 kb)

High Resolution Image (TIFF 3037 kb)

Figure S2

The regulated tendency comparison of the heat stressed miRNA in three libraries. Each color of line represents one miRNA. (JPEG 33 kb)

High Resolution Image (TIFF 496 kb)

Table S1

The primers used for real-time PCR analysis of miRNA. (DOC 40 kb)

Table S2

Sequences, lengths, types and expression levels of all expressed miRNAs. (XLSX 377 kb)

Table S3

(XLSX 18 kb)

Table S4

Expression levels, fold changes and p-values of differentially expressed miRNA. (XLS 1486 kb)

Table S5

The regulated tendency comparison of the heat stressed miRNA in three libraries. (XLS 54.5 kb)

Table S6

KEGG analysis of the 976 transcripts that are predicted to be regulated by the differentially expressed miRNAs. (XLSX 21.4 kb)

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Liang, C., Zhang, X., Shi, L. et al. Conserved and novel heat stress-responsive microRNAs identified by deep sequencing in Pyropia yezoensis . J Appl Phycol 30, 685–696 (2018). https://doi.org/10.1007/s10811-017-1260-x

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  • DOI: https://doi.org/10.1007/s10811-017-1260-x

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