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Functional annotation and identification of MADS-box transcription factors related to tuber dormancy in Helianthus tuberosus L.

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Abstract

Dormancy-associated MADS-box (DAM) genes play an important role in plant dormancy and release phases. Little is known about the dormancy characteristics of Jerusalem artichoke tubers. Using bioinformatics, we identified and annotated 23 MADS-box gene sequences from the genome of the Jerusalem artichoke and we analyzed the differential expression of these genes at different developmental stages of tuber dormancy. The results show that all 23 genes encode basic proteins and most of the genes of the same subgroup have similar pI values. MADS-box genes from the Jerusalem artichoke and from other closely related species were divided into ten categories using phylogenetic analysis software. Based on the amino acid sequence of the MADS-domain proteins, ten highly conserved motifs were identified. Gene ontology annotation, InterProScan protein function prediction, and RT-PCR analysis showed that ten MADS-box genes play important roles in the dormancy process of Jerusalem artichoke tubers. Our work lays a foundation for further study of the role of MADS-box genes in the dormancy of the Jerusalem artichoke and other tuber crops.

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Funding

Funding was provided by Qinghai Academy of Agriculture and Forestry Sciences Innovation Fund (Grant number: 2017-NKY-04), Natural Science Foundation of China (Grant number: 31660588; 31660569; 31760600), The Fundamental Research Program of Qinghai (Grant number: 2017-ZJ-Y18), The Project of Qinghai Science & Technology Department (Grant number: 2016-ZJ-Y01), The Open Project of State Key Laboratory of Plateau Ecology and Agriculture of Qinghai University (Grant number: 2016-ZZ-06).

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  1. Shipeng Yang and Jieming Gao contributed equally.

Authors and Affiliations

  1. Qinghai Key Laboratory of Vegetable Genetics and Physiology, Academy of Agriculture and Forestry Sciences of Qinghai University (Qinghai Academy of Agriculture and Forestry Sciences), Xining, 810016, China

    Shipeng Yang, Jieming Gao, Lihui Wang, Xuemei Sun, Panpan Xu & Qiwen Zhong

  2. Qinghai University, Xining, 810016, China

    Jieming Gao

  3. Shanghai Biochip Co., Ltd. & National Engineering Center for Biochip at Shanghai, Shanghai, 201203, China

    Liwen Zhang

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  1. Shipeng Yang
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  4. Xuemei Sun
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Correspondence to Liwen Zhang or Qiwen Zhong.

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Yang, S., Gao, J., Wang, L. et al. Functional annotation and identification of MADS-box transcription factors related to tuber dormancy in Helianthus tuberosus L.. 3 Biotech 9, 378 (2019). https://doi.org/10.1007/s13205-019-1897-z

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