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De novo assembly and characterization of stress transcriptome and regulatory networks under temperature, salt and hormone stresses in Lilium lancifolium

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Abstract

Plants have continually confrontation with different abiotic stresses, including salt, low temperature, drought or hormone stress. The plants acclimate to the environmental stresses relating with the falls of the molecular mesh including the stress signal receiver, signal transcriptional regulation and the expression of functional and structure genes. Using the RNA-seq, we carried out a transcriptional analysis under cold treatment for investigating a profound comprehension of the signal network and molecular metabolisms reaction included in abiotic stress reaction for Lilium lancifolium. Our study identified 18,722 unigenes had demonstrated the resemblance to the known exact proteins in the Swiss-Prot protein database and classified them by Gene ontology into three primary kinds: cellular component, biological process, and molecular function, and then 15,898 unigenes aligned to existing sequences in the KEGG databases. Based on the transcriptome results of cold stress, more stress-related genes were identified and analyzed of their expressions in other abiotic stress treatments as 37 °C, ABA, JA and Na. Meanwhile, bioinformatics qRT-PCR analyses of stress genes as LlDREB1, LlAP2, LlNAC1, LlHOT, LlR2R3-MYB and LlCDPK revealed that novel candidate genes encoding ethylene responsive transporters and serine/threonine receptor-like kinases, which contributed to speculate the signal regulation pathway during the abiotic stresses; engineering genes could also boost the tolerance to stress, as protected and maintained the function and structure of cellular components. Our research conjectured the abiotic stress signal transduction pathway and identified the expected key ingredients regulating the stress tolerance in Lilium lancifolium, which would enable the in-depth molecular exploration of stress-tolerance mechanisms in lily.

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Abbreviations

ABA:

Abscisic acid

DREB:

Dehydration responsive element binding protein

EREBP:

Ethylene-responsive element binding protein

MYB:

Myeloblastosis

NAC:

NAM, ATAF1-2, CUC2

TF:

Transcription factor

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Acknowledgments

This work was supported by the ‘863’ research program (Grant No. 2011AA10020804), China National Natural Science Foundation (Grant No. 31071815 and No. 31272204), and the D. Programs Foundation of the Ministry of Education of China (Grant No. 20110014110006).

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Authors and Affiliations

  1. College of Landscape Architecture, Beijing Forestry University, Beijing, 100083, China

    Jingmao Wang, Qing Wang, Xiaohua Liu, Jiahui Gu, Wenqi Li, Suliya Ma & Yingmin Lu

  2. Beijing Key Laboratory of Ornamental Plants Germplasm Innovation & Molecular Breeding, Beijing, 100083, China

    Jingmao Wang, Qing Wang, Xiaohua Liu, Jiahui Gu, Wenqi Li, Suliya Ma & Yingmin Lu

  3. China National Engineering Research Center for Floriculture, Beijing, 100083, China

    Jingmao Wang, Qing Wang, Xiaohua Liu, Jiahui Gu, Wenqi Li, Suliya Ma & Yingmin Lu

  4. College of Soil and Water Conservation, Beijing Forestry University, Beijing, 100083, China

    Yang Yang

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  1. Jingmao Wang
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  2. Qing Wang
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Correspondence to Yingmin Lu.

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11033_2014_3725_MOESM1_ESM.doc

Availability of supporting data: The supporting data set could be available in the NCBI GenBank repository (http://www.ncbi.nlm.nih.gov/genbank/), the ID numbers are KJ489026, KJ489025, KJ467617, KJ489024, KJ467624, KJ467618, KJ467623, KJ467622, KJ467620, KJ467621. Additional file 1: Table S1. Expressions of different genes using the Heat-map. Heat-map of 102 differentially expressed genes involved in the cold response and acclimation of Lilium lancifolium. (DOC 135 kb)

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Wang, J., Wang, Q., Yang, Y. et al. De novo assembly and characterization of stress transcriptome and regulatory networks under temperature, salt and hormone stresses in Lilium lancifolium . Mol Biol Rep 41, 8231–8245 (2014). https://doi.org/10.1007/s11033-014-3725-1

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  • DOI: https://doi.org/10.1007/s11033-014-3725-1

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