Bioinformatic Analysis of Functional Characteristics of miR172 Family in Tomato
MicroRNAs, a class of endogenous non-coding small RNAs about 21 nucleotides in length, play pivotal roles in plant physiological and biochemical processes. Tomato is important economic crop throughout the world. Recently, involvement of miRNAs in tomato has received significant attention. MiR172 is...
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| Veröffentlicht in: | The journal of Northeast Agricultural University 2013-12, Vol.20 (4), p.19-27 |
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| container_title | The journal of Northeast Agricultural University |
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| creator | Li, Jie Luan, Yu-shi Zhai, Jun-miao Liu, Ping Xia, Xiu-ying |
| description | MicroRNAs, a class of endogenous non-coding small RNAs about 21 nucleotides in length, play pivotal roles in plant physiological and biochemical processes. Tomato is important economic crop throughout the world. Recently, involvement of miRNAs in tomato has received significant attention. MiR172 is one of the conserved miRNAs in tomato. Investigation into the roles and the target genes of this small RNA molecular in Arabidopsis illustrated that miR172 functions in regulating the transitions between developmental stages and in specifying floral organ identify. Herein, we combined bioinformatics and molecular biology approaches to profile the functional characteristics of miR172 in tomato. The results of target prediction showed that AP2-like ethylene-responsive transcription factors were major targets of miR172, analysis of upstream sequence indicated the presence of stress-related cis-elements in its promoter regions, and further analysis of qRT-PCR confirmed that miR172 participated in various stress responses. Our research provided a paradigm for further in-depth investigation of the functional characteristics of miRNAs in tomato. |
| doi_str_mv | 10.1016/S1006-8104(14)60042-8 |
| format | Article |
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Tomato is important economic crop throughout the world. Recently, involvement of miRNAs in tomato has received significant attention. MiR172 is one of the conserved miRNAs in tomato. Investigation into the roles and the target genes of this small RNA molecular in Arabidopsis illustrated that miR172 functions in regulating the transitions between developmental stages and in specifying floral organ identify. Herein, we combined bioinformatics and molecular biology approaches to profile the functional characteristics of miR172 in tomato. The results of target prediction showed that AP2-like ethylene-responsive transcription factors were major targets of miR172, analysis of upstream sequence indicated the presence of stress-related cis-elements in its promoter regions, and further analysis of qRT-PCR confirmed that miR172 participated in various stress responses. Our research provided a paradigm for further in-depth investigation of the functional characteristics of miRNAs in tomato.</description><identifier>ISSN: 1006-8104</identifier><identifier>DOI: 10.1016/S1006-8104(14)60042-8</identifier><language>eng</language><publisher>Elsevier (Singapore) Pte Ltd</publisher><subject>bioinformatics ; miRNA ; qRT-PCR ; stress response ; target prediction ; tomato ; 功能特性 ; 学分 ; 定量RT-PCR ; 家族 ; 小分子RNA ; 生物信息学 ; 番茄</subject><ispartof>The journal of Northeast Agricultural University, 2013-12, Vol.20 (4), p.19-27</ispartof><rights>2013 Asian Pacific Tropical Medicine Press</rights><rights>Copyright © Wanfang Data Co. Ltd. All Rights Reserved.</rights><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c2163-31125d9ba642c872665882bb1c201458a82de9ef2bdbf6b2d7916b846616424b3</citedby><cites>FETCH-LOGICAL-c2163-31125d9ba642c872665882bb1c201458a82de9ef2bdbf6b2d7916b846616424b3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Uhttp://image.cqvip.com/vip1000/qk/85645X/85645X.jpg</thumbnail><link.rule.ids>315,781,785,27929,27930</link.rule.ids></links><search><creatorcontrib>Li, Jie</creatorcontrib><creatorcontrib>Luan, Yu-shi</creatorcontrib><creatorcontrib>Zhai, Jun-miao</creatorcontrib><creatorcontrib>Liu, Ping</creatorcontrib><creatorcontrib>Xia, Xiu-ying</creatorcontrib><title>Bioinformatic Analysis of Functional Characteristics of miR172 Family in Tomato</title><title>The journal of Northeast Agricultural University</title><addtitle>Journal of Northeast Agricultural University</addtitle><description>MicroRNAs, a class of endogenous non-coding small RNAs about 21 nucleotides in length, play pivotal roles in plant physiological and biochemical processes. Tomato is important economic crop throughout the world. Recently, involvement of miRNAs in tomato has received significant attention. MiR172 is one of the conserved miRNAs in tomato. Investigation into the roles and the target genes of this small RNA molecular in Arabidopsis illustrated that miR172 functions in regulating the transitions between developmental stages and in specifying floral organ identify. Herein, we combined bioinformatics and molecular biology approaches to profile the functional characteristics of miR172 in tomato. The results of target prediction showed that AP2-like ethylene-responsive transcription factors were major targets of miR172, analysis of upstream sequence indicated the presence of stress-related cis-elements in its promoter regions, and further analysis of qRT-PCR confirmed that miR172 participated in various stress responses. Our research provided a paradigm for further in-depth investigation of the functional characteristics of miRNAs in tomato.</description><subject>bioinformatics</subject><subject>miRNA</subject><subject>qRT-PCR</subject><subject>stress response</subject><subject>target prediction</subject><subject>tomato</subject><subject>功能特性</subject><subject>学分</subject><subject>定量RT-PCR</subject><subject>家族</subject><subject>小分子RNA</subject><subject>生物信息学</subject><subject>番茄</subject><issn>1006-8104</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2013</creationdate><recordtype>article</recordtype><recordid>eNqFUEtLAzEQzkHBWv0JwnpTZDXJZrPZk9RiVSgUtJ5DXtumtIkmW-3-e9OHXj0NM_M9Zj4ALhC8RRDRuzcEIc0ZguQKkWsKIcE5OwK9v_EJOI1xkTpMK9gDkwfrrWt8WInWqmzgxLKLNma-yUZrp1rr0yQbzkUQqjXBxoTabVf2FVU4G4mVXXaZddnUJwl_Bo4bsYzm_FD74H30OB0-5-PJ08twMM4VRrTIC4RwqWspKMGKVZjSkjEsJVIYIlIywbA2tWmw1LKhEuuqRlQyQilKDCKLPrjZ634L1wg34wu_DunUyLV0nd5sJDdJqoAEwiKhyz1aBR9jMA3_CHYlQscR5Nvc-C43vg2II8J3uXGWePd7nkmvfFkTeFTWOGW0DUa1XHv7r8LlwXnu3ezTpkt_rQnDVV2VuPgB3TaAiA</recordid><startdate>201312</startdate><enddate>201312</enddate><creator>Li, Jie</creator><creator>Luan, Yu-shi</creator><creator>Zhai, Jun-miao</creator><creator>Liu, Ping</creator><creator>Xia, Xiu-ying</creator><general>Elsevier (Singapore) Pte Ltd</general><general>School of Life Science and Biotechnology, Dalian University of Technology, Dalian 116024, Liaoning, China</general><scope>2RA</scope><scope>92L</scope><scope>CQIGP</scope><scope>W95</scope><scope>~WA</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>2B.</scope><scope>4A8</scope><scope>92I</scope><scope>93N</scope><scope>PSX</scope><scope>TCJ</scope></search><sort><creationdate>201312</creationdate><title>Bioinformatic Analysis of Functional Characteristics of miR172 Family in Tomato</title><author>Li, Jie ; Luan, Yu-shi ; Zhai, Jun-miao ; Liu, Ping ; Xia, Xiu-ying</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c2163-31125d9ba642c872665882bb1c201458a82de9ef2bdbf6b2d7916b846616424b3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2013</creationdate><topic>bioinformatics</topic><topic>miRNA</topic><topic>qRT-PCR</topic><topic>stress response</topic><topic>target prediction</topic><topic>tomato</topic><topic>功能特性</topic><topic>学分</topic><topic>定量RT-PCR</topic><topic>家族</topic><topic>小分子RNA</topic><topic>生物信息学</topic><topic>番茄</topic><toplevel>online_resources</toplevel><creatorcontrib>Li, Jie</creatorcontrib><creatorcontrib>Luan, Yu-shi</creatorcontrib><creatorcontrib>Zhai, Jun-miao</creatorcontrib><creatorcontrib>Liu, Ping</creatorcontrib><creatorcontrib>Xia, Xiu-ying</creatorcontrib><collection>中文科技期刊数据库</collection><collection>中文科技期刊数据库-CALIS站点</collection><collection>中文科技期刊数据库-7.0平台</collection><collection>中文科技期刊数据库-农业科学</collection><collection>中文科技期刊数据库- 镜像站点</collection><collection>CrossRef</collection><collection>Wanfang Data Journals - Hong Kong</collection><collection>WANFANG Data Centre</collection><collection>Wanfang Data Journals</collection><collection>万方数据期刊 - 香港版</collection><collection>China Online Journals (COJ)</collection><collection>China Online Journals (COJ)</collection><jtitle>The journal of Northeast Agricultural University</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Li, Jie</au><au>Luan, Yu-shi</au><au>Zhai, Jun-miao</au><au>Liu, Ping</au><au>Xia, Xiu-ying</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Bioinformatic Analysis of Functional Characteristics of miR172 Family in Tomato</atitle><jtitle>The journal of Northeast Agricultural University</jtitle><addtitle>Journal of Northeast Agricultural University</addtitle><date>2013-12</date><risdate>2013</risdate><volume>20</volume><issue>4</issue><spage>19</spage><epage>27</epage><pages>19-27</pages><issn>1006-8104</issn><abstract>MicroRNAs, a class of endogenous non-coding small RNAs about 21 nucleotides in length, play pivotal roles in plant physiological and biochemical processes. Tomato is important economic crop throughout the world. Recently, involvement of miRNAs in tomato has received significant attention. MiR172 is one of the conserved miRNAs in tomato. Investigation into the roles and the target genes of this small RNA molecular in Arabidopsis illustrated that miR172 functions in regulating the transitions between developmental stages and in specifying floral organ identify. Herein, we combined bioinformatics and molecular biology approaches to profile the functional characteristics of miR172 in tomato. The results of target prediction showed that AP2-like ethylene-responsive transcription factors were major targets of miR172, analysis of upstream sequence indicated the presence of stress-related cis-elements in its promoter regions, and further analysis of qRT-PCR confirmed that miR172 participated in various stress responses. 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| language | eng |
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| source | Alma/SFX Local Collection |
| subjects | bioinformatics miRNA qRT-PCR stress response target prediction tomato 功能特性 学分 定量RT-PCR 家族 小分子RNA 生物信息学 番茄 |
| title | Bioinformatic Analysis of Functional Characteristics of miR172 Family in Tomato |
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