Genome-wide small RNA analysis of soybean reveals auxin-responsive microRNAs that are differentially expressed in response to salt stress in root apex
Root growth and the architecture of the root system in Arabidopsis are largely determined by root meristematic activity. Legume roots show strong developmental plasticity in response to both abiotic and biotic stimuli, including symbiotic rhizobia. However, a global analysis of gene regulation in th...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2016-01-01
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| Series: | Frontiers in Plant Science |
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| Online Access: | http://journal.frontiersin.org/Journal/10.3389/fpls.2015.01273/full |
| _version_ | 1828524088096718848 |
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| author | Zhengxi eSun Zhengxi eSun Zhengxi eSun Youning eWang Fupeng eMou Yinping eTian Liang eChen Senlei eZhang Qiong eJiang Xia eLi |
| author_facet | Zhengxi eSun Zhengxi eSun Zhengxi eSun Youning eWang Fupeng eMou Yinping eTian Liang eChen Senlei eZhang Qiong eJiang Xia eLi |
| author_sort | Zhengxi eSun |
| collection | DOAJ |
| description | Root growth and the architecture of the root system in Arabidopsis are largely determined by root meristematic activity. Legume roots show strong developmental plasticity in response to both abiotic and biotic stimuli, including symbiotic rhizobia. However, a global analysis of gene regulation in the root meristem of soybean plants is lacking. In this study, we performed a global analysis of the small RNA transcriptome of root tips from soybean seedlings grown under normal and salt stress conditions. In total, 71 miRNA candidates, including known and novel variants of 59 miRNA families, were identified. We found 66 salt-responsive miRNAs in the soybean root meristem; among them, 22 are novel miRNAs. Interestingly, we found auxin-responsive cis-elements in the promoters of many salt-responsive miRNAs, implying that these miRNAs may be regulated by auxin and auxin signaling plays a key role in regulating the plasticity of the miRNAome and root development in soybean. A functional analysis of miR399, a salt-responsive miRNA in the root meristem, indicates the crucial role of this miRNA in modulating soybean root developmental plasticity. Our data provide novel insight into the miRNAome-mediated regulatory mechanism in soybean root growth under salt stress. |
| first_indexed | 2024-12-11T20:39:54Z |
| format | Article |
| id | doaj.art-5e600196857c4b9a8a11e6d5575cbf39 |
| institution | Directory Open Access Journal |
| issn | 1664-462X |
| language | English |
| last_indexed | 2024-12-11T20:39:54Z |
| publishDate | 2016-01-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Plant Science |
| spelling | doaj.art-5e600196857c4b9a8a11e6d5575cbf392022-12-22T00:51:32ZengFrontiers Media S.A.Frontiers in Plant Science1664-462X2016-01-01610.3389/fpls.2015.01273174457Genome-wide small RNA analysis of soybean reveals auxin-responsive microRNAs that are differentially expressed in response to salt stress in root apexZhengxi eSun0Zhengxi eSun1Zhengxi eSun2Youning eWang3Fupeng eMou4Yinping eTian5Liang eChen6Senlei eZhang7Qiong eJiang8Xia eLi9Huazhong Agricultural UniversityInstitute of Genetics and Developmental Biology, Chinese Academy of SciencesUniversity of Chinese Academy of SciencesHuazhong Agricultural UniversityInstitute of Genetics and Developmental Biology, Chinese Academy of SciencesInstitute of Genetics and Developmental Biology, Chinese Academy of SciencesInstitute of Genetics and Developmental Biology, Chinese Academy of SciencesInstitute of Genetics and Developmental Biology, Chinese Academy of SciencesInstitute of Genetics and Developmental Biology, Chinese Academy of SciencesHuazhong Agricultural UniversityRoot growth and the architecture of the root system in Arabidopsis are largely determined by root meristematic activity. Legume roots show strong developmental plasticity in response to both abiotic and biotic stimuli, including symbiotic rhizobia. However, a global analysis of gene regulation in the root meristem of soybean plants is lacking. In this study, we performed a global analysis of the small RNA transcriptome of root tips from soybean seedlings grown under normal and salt stress conditions. In total, 71 miRNA candidates, including known and novel variants of 59 miRNA families, were identified. We found 66 salt-responsive miRNAs in the soybean root meristem; among them, 22 are novel miRNAs. Interestingly, we found auxin-responsive cis-elements in the promoters of many salt-responsive miRNAs, implying that these miRNAs may be regulated by auxin and auxin signaling plays a key role in regulating the plasticity of the miRNAome and root development in soybean. A functional analysis of miR399, a salt-responsive miRNA in the root meristem, indicates the crucial role of this miRNA in modulating soybean root developmental plasticity. Our data provide novel insight into the miRNAome-mediated regulatory mechanism in soybean root growth under salt stress.http://journal.frontiersin.org/Journal/10.3389/fpls.2015.01273/fullauxinsalt stressMicroRNA (miRNA)root meristemGlycine max |
| spellingShingle | Zhengxi eSun Zhengxi eSun Zhengxi eSun Youning eWang Fupeng eMou Yinping eTian Liang eChen Senlei eZhang Qiong eJiang Xia eLi Genome-wide small RNA analysis of soybean reveals auxin-responsive microRNAs that are differentially expressed in response to salt stress in root apex Frontiers in Plant Science auxin salt stress MicroRNA (miRNA) root meristem Glycine max |
| title | Genome-wide small RNA analysis of soybean reveals auxin-responsive microRNAs that are differentially expressed in response to salt stress in root apex |
| title_full | Genome-wide small RNA analysis of soybean reveals auxin-responsive microRNAs that are differentially expressed in response to salt stress in root apex |
| title_fullStr | Genome-wide small RNA analysis of soybean reveals auxin-responsive microRNAs that are differentially expressed in response to salt stress in root apex |
| title_full_unstemmed | Genome-wide small RNA analysis of soybean reveals auxin-responsive microRNAs that are differentially expressed in response to salt stress in root apex |
| title_short | Genome-wide small RNA analysis of soybean reveals auxin-responsive microRNAs that are differentially expressed in response to salt stress in root apex |
| title_sort | genome wide small rna analysis of soybean reveals auxin responsive micrornas that are differentially expressed in response to salt stress in root apex |
| topic | auxin salt stress MicroRNA (miRNA) root meristem Glycine max |
| url | http://journal.frontiersin.org/Journal/10.3389/fpls.2015.01273/full |
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