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Transcriptome analysis of non-heading Chinese cabbage under heat stress by RNA-seq and marker identification

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Abstract

Non-heading Chinese cabbage (Brassica campestris L. ssp. chinensis Makino), an important vegetable in East Asian countries, is rich in vitamin C, dietary fiber, and other health-enhancing factors. As a staple vegetable, its genetic studies have been hindered due to the lack of polymorphic genetic markers. In this research, 2.3 and 2.1 Gb RNA-seq data have been obtained for a heat-sensitive cultivar “GHA” and a heat-resistant cultivar “XK”, respectively. Totally, 3267 novel transcripts were identified from the assembled 29,037 transcripts. A total of 139 differential expressed genes (DEGs) have been identified. Most DEGs were involved in the signal transduction and general function prediction. Moreover, 37 polymorphic EST-SSR loci and 285,573 SNP markers have been developed. This study will provide valuable transcript sequences and functional markers for further genetic diversity analysis, quantitative trait locus identification, as well as molecular marker assisted selection of Brassicaceae species.

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Acknowledgements

This work was supported by Fund of National Commodity Vegetable Technology System (CARS-25-G-30), the Natural Science Foundation of Hubei Province of China (2013CFA102), Hubei Collaborative Innovation Center for the Characteristic Resources Exploitation of Dabie Mountains (2015TD07), and Breeding and application of late bolting Chinese Cabbage (2016000311).

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Author notes

  1. Shuzhen Wang and Guolin Zhou have contributed equally to this work.

Authors and Affiliations

  1. Wuhan Provincial Engineering Research Center of Vegetable Seeds and Seedlings, Wuhan Vegetable Research Institute, Wuhan Academy of Agricultural Science & Technology, Wuhan, 430345, China

    Guolin Zhou, Xingxue Huang, Bingcai Wang, Chufa Lin, Xia Li, Yongpeng Jia & Aihua Wang

  2. College of Life Science, Huanggang Normal University, Huanggang, 438000, Hubei Province, China

    Shuzhen Wang

  3. Hubei Collaborative Innovation Center for the Characteristic Resources Exploitation of Dabie Mountains, Huanggang, China

    Shuzhen Wang

  4. State Key Laboratory of Hybrid Rice, College of Life Sciences, Wuhan University, Wuhan, 430072, China

    Jihong Hu

Authors
  1. Shuzhen Wang
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  2. Guolin Zhou
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Correspondence to Aihua Wang.

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Wang, S., Zhou, G., Huang, X. et al. Transcriptome analysis of non-heading Chinese cabbage under heat stress by RNA-seq and marker identification. Euphytica 213, 109 (2017). https://doi.org/10.1007/s10681-017-1891-7

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