Genome-wide Identification of microRNAs that Respond to Drought Stress in Seedlings of Tertiary Relict Ammopiptanthus mongolicus
microRNAs (miRNAs) are important post-transcriptional regulators of gene expression in plant abiotic stress responses. Ammopiptanthus mongolicus is a typical evergreen woody xerophyte, which makes it an ideal model system for studying drought tolerance in woody plants. The response of miRNAs to drou...
| Main Authors: | , , , , , |
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| Format: | Article |
| Language: | English |
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KeAi Communications Co., Ltd.
2017-09-01
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| Series: | Horticultural Plant Journal |
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S246801411730273X |
| _version_ | 1797203332654170112 |
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| author | Shengli LIU Yanjie NI Qian HE Jinyu WANG Yuzhen CHEN Cunfu LU |
| author_facet | Shengli LIU Yanjie NI Qian HE Jinyu WANG Yuzhen CHEN Cunfu LU |
| author_sort | Shengli LIU |
| collection | DOAJ |
| description | microRNAs (miRNAs) are important post-transcriptional regulators of gene expression in plant abiotic stress responses. Ammopiptanthus mongolicus is a typical evergreen woody xerophyte, which makes it an ideal model system for studying drought tolerance in woody plants. The response of miRNAs to drought stress is still unknown in this plant. In this research, we obtained 34 695 665 raw reads from two small RNA libraries constructed from control and drought-treated A. mongolicus seedlings by the Illumina deep sequencing technology. Length analysis revealed that reads of 20, 21, and 24 nucleotides accounted for the majority of the small RNAs in the two libraries. Sequence analyses identified 65 conserved miRNA sequences from 190 members of 31 miRNA families and 20 potential novel miRNAs from 17 families that were differentially expressed between the two libraries. The expression patterns of 25 of these miRNAs were significantly different in the two libraries, but only am-miR4a-c was downregulated during drought stress, the other 24 were upregulated. The expression trends determined by the HiSeq sequencing and by qRT-PCR were similar. Furthermore, 35 target genes for the conserved miRNA were markedly changed and 52 target genes for the potential novel miRNAs were predicted and their functions were annotated by computational analysis. Our results provide new molecular evidence for understanding the molecular mechanisms of drought response and tolerance in A. mongolicus. |
| first_indexed | 2024-04-24T08:17:39Z |
| format | Article |
| id | doaj.art-e13c3344fe0e4f5d9d5d7678ab7ff56e |
| institution | Directory Open Access Journal |
| issn | 2468-0141 |
| language | English |
| last_indexed | 2024-04-24T08:17:39Z |
| publishDate | 2017-09-01 |
| publisher | KeAi Communications Co., Ltd. |
| record_format | Article |
| series | Horticultural Plant Journal |
| spelling | doaj.art-e13c3344fe0e4f5d9d5d7678ab7ff56e2024-04-17T03:21:46ZengKeAi Communications Co., Ltd.Horticultural Plant Journal2468-01412017-09-013520921810.1016/j.hpj.2017.10.003Genome-wide Identification of microRNAs that Respond to Drought Stress in Seedlings of Tertiary Relict Ammopiptanthus mongolicusShengli LIU0Yanjie NI1Qian HE2Jinyu WANG3Yuzhen CHEN4Cunfu LU5Beijing Advanced Innovation Center for Tree Breeding by Molecular Design, College of Biological Sciences and Biotechnology, National Engineering Laboratory for Tree Breeding, Beijing Forestry University, Beijing 100083, ChinaBeijing Advanced Innovation Center for Tree Breeding by Molecular Design, College of Biological Sciences and Biotechnology, National Engineering Laboratory for Tree Breeding, Beijing Forestry University, Beijing 100083, ChinaBeijing Advanced Innovation Center for Tree Breeding by Molecular Design, College of Biological Sciences and Biotechnology, National Engineering Laboratory for Tree Breeding, Beijing Forestry University, Beijing 100083, ChinaAnalysis and Testing Center, Tsinghua University, Beijing 100083, ChinaBeijing Advanced Innovation Center for Tree Breeding by Molecular Design, College of Biological Sciences and Biotechnology, National Engineering Laboratory for Tree Breeding, Beijing Forestry University, Beijing 100083, ChinaBeijing Advanced Innovation Center for Tree Breeding by Molecular Design, College of Biological Sciences and Biotechnology, National Engineering Laboratory for Tree Breeding, Beijing Forestry University, Beijing 100083, ChinamicroRNAs (miRNAs) are important post-transcriptional regulators of gene expression in plant abiotic stress responses. Ammopiptanthus mongolicus is a typical evergreen woody xerophyte, which makes it an ideal model system for studying drought tolerance in woody plants. The response of miRNAs to drought stress is still unknown in this plant. In this research, we obtained 34 695 665 raw reads from two small RNA libraries constructed from control and drought-treated A. mongolicus seedlings by the Illumina deep sequencing technology. Length analysis revealed that reads of 20, 21, and 24 nucleotides accounted for the majority of the small RNAs in the two libraries. Sequence analyses identified 65 conserved miRNA sequences from 190 members of 31 miRNA families and 20 potential novel miRNAs from 17 families that were differentially expressed between the two libraries. The expression patterns of 25 of these miRNAs were significantly different in the two libraries, but only am-miR4a-c was downregulated during drought stress, the other 24 were upregulated. The expression trends determined by the HiSeq sequencing and by qRT-PCR were similar. Furthermore, 35 target genes for the conserved miRNA were markedly changed and 52 target genes for the potential novel miRNAs were predicted and their functions were annotated by computational analysis. Our results provide new molecular evidence for understanding the molecular mechanisms of drought response and tolerance in A. mongolicus.http://www.sciencedirect.com/science/article/pii/S246801411730273XAmmopiptanthus mongolicusdrought stressmicroRNAsqRT-PCR |
| spellingShingle | Shengli LIU Yanjie NI Qian HE Jinyu WANG Yuzhen CHEN Cunfu LU Genome-wide Identification of microRNAs that Respond to Drought Stress in Seedlings of Tertiary Relict Ammopiptanthus mongolicus Horticultural Plant Journal Ammopiptanthus mongolicus drought stress microRNAs qRT-PCR |
| title | Genome-wide Identification of microRNAs that Respond to Drought Stress in Seedlings of Tertiary Relict Ammopiptanthus mongolicus |
| title_full | Genome-wide Identification of microRNAs that Respond to Drought Stress in Seedlings of Tertiary Relict Ammopiptanthus mongolicus |
| title_fullStr | Genome-wide Identification of microRNAs that Respond to Drought Stress in Seedlings of Tertiary Relict Ammopiptanthus mongolicus |
| title_full_unstemmed | Genome-wide Identification of microRNAs that Respond to Drought Stress in Seedlings of Tertiary Relict Ammopiptanthus mongolicus |
| title_short | Genome-wide Identification of microRNAs that Respond to Drought Stress in Seedlings of Tertiary Relict Ammopiptanthus mongolicus |
| title_sort | genome wide identification of micrornas that respond to drought stress in seedlings of tertiary relict ammopiptanthus mongolicus |
| topic | Ammopiptanthus mongolicus drought stress microRNAs qRT-PCR |
| url | http://www.sciencedirect.com/science/article/pii/S246801411730273X |
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