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Transcriptome differences between fiber-type and seed-type Cannabis sativa variety exposed to salinity

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Abstract

The industrial hemp varieties ‘Yunma 5’ and ‘Bamahuoma,’ which demonstrate growth vigor and environmental adaptability, have been primarily cultivated in Yunnan and Guangxi, China, respectively, for fiber and seeds. The results of physiological measurements showed the phenotypic differences between the two varieties in response to salt stress. RNA-Seq analysis was first performed on leaves of both varieties sampled at four time intervals (0, 2, 4, 6 days) after treatment with salt (500 mM NaCl) We identified 220 co-up-regulated differentially expressed genes (DEGs) in the two varieties, while 26 up-regulated DEGs and 24 down-regulated DEGs were identified exclusively in the single varieties after 2 days of salt stress. Among the 220 DEGs, we identified 22 transcription factors, including key transcription factors involved in salt stress, such as MYB, NAC, GATA, and HSF. We applied gene expression profile analysis and found that ‘Yunma 5’ and ‘Bamahuoma’ have variety-specific pathways for resisting salt stress. The DEGs of ‘Yunma 5’ were enriched in spliceosome and amino acid metabolism genes, while the DEGs of ‘Bamahuoma’ were enriched in fatty acid metabolism, amino acid metabolism, and endoplasmic reticulum protein processing pathway. Although there were common DEGs, such as genes encoding cysteine protease and alpha/beta-hydrolase superfamily, the two varieties’ responses to salt stress impacted different metabolic pathways. The DEGs that were co-expressed in both varieties under stress may provide useful insights into the tolerance of cultivated hemp and other bast fiber crops to saline soil conditions. These transcriptomes also represent reference sequences for industrial hemp.

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Abbreviations

REC:

Relative electric conductivity

DEG:

Differentially expressed gene

qRT-PCR:

Quantitative real-time PCR

ABA:

Abscisic acid

KEGG:

The Kyoto Encyclopedia of Genes and Genomes database

FDR:

False discovery rate

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Acknowledgments

We are grateful for the support of the National Natural Science Foundation of China (Grant No. 31371678 and 31501350) and the China Agriculture Research System (CARS-19-E15).

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Authors and Affiliations

  1. Plant Improvement and Utilization Lab, Yunnan University, Kunming, 650091, Yunnan, China

    Jiajia Liu, Qin Qiao, Xia Cheng, Guanghui Du, Gang Deng & Feihu Liu

  2. Kunming Medical University Haiyuan College, Kunming, 650106, Yunnan, China

    Mingzhi Zhao

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  1. Jiajia Liu
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  2. Qin Qiao
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  3. Xia Cheng
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  4. Guanghui Du
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Correspondence to Feihu Liu.

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Liu, J., Qiao, Q., Cheng, X. et al. Transcriptome differences between fiber-type and seed-type Cannabis sativa variety exposed to salinity. Physiol Mol Biol Plants 22, 429–443 (2016). https://doi.org/10.1007/s12298-016-0381-z

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