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Identification of vernalization responsive genes in the winter wheat cultivar Jing841 by transcriptome sequencing

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Abstract

This study aimed to identify vernalization responsive genes in the winter wheat cultivar Jing841 by comparing the transcriptome data with that of a spring wheat cultivar Liaochun10. For each cultivar, seedlings before and after the vernalization treatment were sequenced by Solexa/Illumina sequencing. Genes differentially expressed after and before vernalization were identified as differentially expressed genes (DEGs) using false discovery rate (FDR) ≤ 0.001 and |log2 (fold change)| >1 as cutoffs. The Jing841-specific DEGs were screened and subjected to functional annotation using gene ontology (GO) database. Vernalization responsive genes among the specific genes were selected for validation by quantitative reverse transcription polymerase chain reaction (qRT-PCR) and the expression change over the time was investigated for the top 11 genes with the most significant expression differences. A total of 138,062 unigenes were obtained. Overall, 636 DEGs were identified as vernalization responsive genes including some known genes such as VRN-1 and COR14a, and some unknown contigs. The qRT-PCR validated changes in the expression of 18 DEGs that were detected by RNA-seq. Among them, 11 genes displayed four different types of expression patterns over time during the 30-day-long vernalization treatment. Genes or contigs such as VRN-A1, COR14a, IRIP, unigene1806 and Cl18953. Contig2 probably have critical roles in vernalization.

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Acknowledgement

This work was financially supported by the Twelfth Five-Year National Science and Technology Pillar Programme (2011BAD16B07).

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Authors and Affiliations

  1. College of Agriculture, Henan University of Science and Technology, Luoyang, 471003, People’s Republic of China

    YALAN FENG

  2. National Engineering Research Centre for Wheat, Henan Agricultural University, Zhengzhou, 450002, People’s Republic of China

    YALAN FENG, YONGYING ZHAO, KETAO WANG, YONG CHUN LI, XIANG WANG & JUN YIN

  3. Collaborative Innovation Center of Henan Grain Crops, Henan Agricultural University, Zhengzhou, 450002, People’s Republic of China

    YALAN FENG, YONGYING ZHAO, YONG CHUN LI, XIANG WANG & JUN YIN

  4. National Key Laboratory of Wheat and Maize Crop Science, Henan Agricultural University, Zhengzhou, 450002, People’s Republic of China

    YALAN FENG, YONGYING ZHAO, YONG CHUN LI, XIANG WANG & JUN YIN

  5. Wheat Research Institute, Henan Academy of Agricultural Sciences, Zhengzhou, 450002, People’s Republic of China

    YONGYING ZHAO

  6. Key Laboratory of Biology and Genetic Improvement of Horticultural Crops of the Ministry of Agriculture, Sino-Dutch Joint Laboratory of Horticultural Genomics, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing, 100081, People’s Republic of China

    KETAO WANG

  7. China Agricultural University, Beijing, 100083, People’s Republic of China

    KETAO WANG

Authors
  1. YALAN FENG
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  2. YONGYING ZHAO
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  3. KETAO WANG
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  4. YONG CHUN LI
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  5. XIANG WANG
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  6. JUN YIN
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Corresponding author

Correspondence to JUN YIN.

Additional information

Corresponding editor: Arun Joshi

[Feng Y., Zhao Y., Wang K., Li Y. C., Wang X. and Yin J. 2016 Identification of vernalization responsive genes in the winter wheat cultivar Jing841 by transcriptome sequencing. J. Genet. 95, xx–xx]

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FENG, Y., ZHAO, Y., WANG, K. et al. Identification of vernalization responsive genes in the winter wheat cultivar Jing841 by transcriptome sequencing. J Genet 95, 957–964 (2016). https://doi.org/10.1007/s12041-016-0724-0

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  • DOI: https://doi.org/10.1007/s12041-016-0724-0

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