Identification and characterization of known and novel microRNAs in strawberry fruits induced by Botrytis cinerea
MicroRNAs are endogenous small non-coding RNAs that negatively regulate mRNAs, mainly at the post-transcriptional level, and play an important role in resistance response of plants. To date, there are few reports on resistance response of strawberry miRNAs to pathogens. In this study, using high-thr...
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| Veröffentlicht in: | Scientific reports 2018-07, Vol.8 (1), p.10921-17, Article 10921 |
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| creator | Liang, Yaoxin Guan, Yuhan Wang, Shaoxi Li, Yanjun Zhang, Zhihong Li, He |
| description | MicroRNAs are endogenous small non-coding RNAs that negatively regulate mRNAs, mainly at the post-transcriptional level, and play an important role in resistance response of plants. To date, there are few reports on resistance response of strawberry miRNAs to pathogens. In this study, using high-throughput sequencing, 134 conserved and 35 novel miRNAs were identified in six libraries within the treatment of
Botrytis cinerea
. A total 497 potential target genes were predicted using
Fragaria vesca
genome. Most of the differential expressed miRNAs in strawberry fruits were up-regulated in early libraries and down-regulated in late libraries.
PIRL
, the target gene of miR5290a, showed the opposite expressed trend compared with miR5290 from T1 to T3 libraries, and functional analysis of the
PIRL
gene shows that it has obvious resistance to
B
.
cinerea
in the strawberry fruits with overexpressed
PIRL
gene. We speculate that miR5290a negatively regulates its target gene
PIRL
to increase resistance to pathogen infection, and further analysis of
PIRL
function is meaningful for studying the plant-pathogen relationship and improving strawberry fruit quality and yield. |
| doi_str_mv | 10.1038/s41598-018-29289-7 |
| format | Article |
| fullrecord | <record><control><sourceid>proquest_pubme</sourceid><recordid>TN_cdi_pubmedcentral_primary_oai_pubmedcentral_nih_gov_6053406</recordid><sourceformat>XML</sourceformat><sourcesystem>PC</sourcesystem><sourcerecordid>2072260528</sourcerecordid><originalsourceid>FETCH-LOGICAL-c511t-4ffd0f63b1a16ae72af7e67939064a71e8047c04930847eecc32b5acbdfebcc63</originalsourceid><addsrcrecordid>eNp9kU9PFjEQxhsjAQJ8AQ6miRcvq_232-7FBAkiCZHE6LnpdqdQ3LeFtgt5_fT0ZRHRg720mfnNM515EDqk5D0lXH3Igra9aghVDeuZ6hv5Cu0yItqGccZev3jvoIOcr0k9LesF7bfRDieEdULRXXR7NkIo3nlrio8BmzBie2WSsQWS_7UEo8M_Q7xfsiHewYRX3qb47etRxj7gXJK5HyClNXZp9mUTHGcLIx7W-FMsaV18xtYHSGD20ZYzU4aDp3sP_fh88v34S3N-cXp2fHTe2JbS0gjnRuI6PlBDOwOSGSehkz3vSSeMpKCIkJaInhMlJIC1nA2tscPoYLC243vo46J7Mw8rGG0dM5lJ3yS_Mmmto_H670zwV_oy3umOtFyQjcC7J4EUb2fIRa98tjBNJkCcs2ZE8rpepURF3_6DXsc5hTrehmKsSjJVKbZQdXU5J3DPn6FEb0zVi6m6mqofTdWyFr15OcZzyW8LK8AXINdUuIT0p_d_ZB8A3XGv3w</addsrcrecordid><sourcetype>Open Access Repository</sourcetype><iscdi>true</iscdi><recordtype>article</recordtype><pqid>2072260528</pqid></control><display><type>article</type><title>Identification and characterization of known and novel microRNAs in strawberry fruits induced by Botrytis cinerea</title><source>Nature Free</source><source>DOAJ Directory of Open Access Journals</source><source>Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals</source><source>PubMed Central</source><source>Alma/SFX Local Collection</source><source>Free Full-Text Journals in Chemistry</source><source>Springer Nature OA Free Journals</source><creator>Liang, Yaoxin ; Guan, Yuhan ; Wang, Shaoxi ; Li, Yanjun ; Zhang, Zhihong ; Li, He</creator><creatorcontrib>Liang, Yaoxin ; Guan, Yuhan ; Wang, Shaoxi ; Li, Yanjun ; Zhang, Zhihong ; Li, He</creatorcontrib><description>MicroRNAs are endogenous small non-coding RNAs that negatively regulate mRNAs, mainly at the post-transcriptional level, and play an important role in resistance response of plants. To date, there are few reports on resistance response of strawberry miRNAs to pathogens. In this study, using high-throughput sequencing, 134 conserved and 35 novel miRNAs were identified in six libraries within the treatment of
Botrytis cinerea
. A total 497 potential target genes were predicted using
Fragaria vesca
genome. Most of the differential expressed miRNAs in strawberry fruits were up-regulated in early libraries and down-regulated in late libraries.
PIRL
, the target gene of miR5290a, showed the opposite expressed trend compared with miR5290 from T1 to T3 libraries, and functional analysis of the
PIRL
gene shows that it has obvious resistance to
B
.
cinerea
in the strawberry fruits with overexpressed
PIRL
gene. We speculate that miR5290a negatively regulates its target gene
PIRL
to increase resistance to pathogen infection, and further analysis of
PIRL
function is meaningful for studying the plant-pathogen relationship and improving strawberry fruit quality and yield.</description><identifier>ISSN: 2045-2322</identifier><identifier>EISSN: 2045-2322</identifier><identifier>DOI: 10.1038/s41598-018-29289-7</identifier><identifier>PMID: 30026481</identifier><language>eng</language><publisher>London: Nature Publishing Group UK</publisher><subject>38 ; 38/39 ; 38/47 ; 38/90 ; 38/91 ; 631/337/384/331 ; 631/449/1659 ; Botrytis cinerea ; Fragaria vesca ; Fruits ; Genomes ; Humanities and Social Sciences ; MicroRNAs ; miRNA ; multidisciplinary ; Next-generation sequencing ; Pathogens ; Post-transcription ; Science ; Science (multidisciplinary)</subject><ispartof>Scientific reports, 2018-07, Vol.8 (1), p.10921-17, Article 10921</ispartof><rights>The Author(s) 2018</rights><rights>2018. This work is published under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c511t-4ffd0f63b1a16ae72af7e67939064a71e8047c04930847eecc32b5acbdfebcc63</citedby><cites>FETCH-LOGICAL-c511t-4ffd0f63b1a16ae72af7e67939064a71e8047c04930847eecc32b5acbdfebcc63</cites><orcidid>0000-0001-5935-1567</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC6053406/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC6053406/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,723,776,780,860,881,27901,27902,41096,42165,51551,53766,53768</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/30026481$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Liang, Yaoxin</creatorcontrib><creatorcontrib>Guan, Yuhan</creatorcontrib><creatorcontrib>Wang, Shaoxi</creatorcontrib><creatorcontrib>Li, Yanjun</creatorcontrib><creatorcontrib>Zhang, Zhihong</creatorcontrib><creatorcontrib>Li, He</creatorcontrib><title>Identification and characterization of known and novel microRNAs in strawberry fruits induced by Botrytis cinerea</title><title>Scientific reports</title><addtitle>Sci Rep</addtitle><addtitle>Sci Rep</addtitle><description>MicroRNAs are endogenous small non-coding RNAs that negatively regulate mRNAs, mainly at the post-transcriptional level, and play an important role in resistance response of plants. To date, there are few reports on resistance response of strawberry miRNAs to pathogens. In this study, using high-throughput sequencing, 134 conserved and 35 novel miRNAs were identified in six libraries within the treatment of
Botrytis cinerea
. A total 497 potential target genes were predicted using
Fragaria vesca
genome. Most of the differential expressed miRNAs in strawberry fruits were up-regulated in early libraries and down-regulated in late libraries.
PIRL
, the target gene of miR5290a, showed the opposite expressed trend compared with miR5290 from T1 to T3 libraries, and functional analysis of the
PIRL
gene shows that it has obvious resistance to
B
.
cinerea
in the strawberry fruits with overexpressed
PIRL
gene. We speculate that miR5290a negatively regulates its target gene
PIRL
to increase resistance to pathogen infection, and further analysis of
PIRL
function is meaningful for studying the plant-pathogen relationship and improving strawberry fruit quality and yield.</description><subject>38</subject><subject>38/39</subject><subject>38/47</subject><subject>38/90</subject><subject>38/91</subject><subject>631/337/384/331</subject><subject>631/449/1659</subject><subject>Botrytis cinerea</subject><subject>Fragaria vesca</subject><subject>Fruits</subject><subject>Genomes</subject><subject>Humanities and Social Sciences</subject><subject>MicroRNAs</subject><subject>miRNA</subject><subject>multidisciplinary</subject><subject>Next-generation sequencing</subject><subject>Pathogens</subject><subject>Post-transcription</subject><subject>Science</subject><subject>Science (multidisciplinary)</subject><issn>2045-2322</issn><issn>2045-2322</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2018</creationdate><recordtype>article</recordtype><sourceid>C6C</sourceid><sourceid>BENPR</sourceid><recordid>eNp9kU9PFjEQxhsjAQJ8AQ6miRcvq_232-7FBAkiCZHE6LnpdqdQ3LeFtgt5_fT0ZRHRg720mfnNM515EDqk5D0lXH3Igra9aghVDeuZ6hv5Cu0yItqGccZev3jvoIOcr0k9LesF7bfRDieEdULRXXR7NkIo3nlrio8BmzBie2WSsQWS_7UEo8M_Q7xfsiHewYRX3qb47etRxj7gXJK5HyClNXZp9mUTHGcLIx7W-FMsaV18xtYHSGD20ZYzU4aDp3sP_fh88v34S3N-cXp2fHTe2JbS0gjnRuI6PlBDOwOSGSehkz3vSSeMpKCIkJaInhMlJIC1nA2tscPoYLC243vo46J7Mw8rGG0dM5lJ3yS_Mmmto_H670zwV_oy3umOtFyQjcC7J4EUb2fIRa98tjBNJkCcs2ZE8rpepURF3_6DXsc5hTrehmKsSjJVKbZQdXU5J3DPn6FEb0zVi6m6mqofTdWyFr15OcZzyW8LK8AXINdUuIT0p_d_ZB8A3XGv3w</recordid><startdate>20180719</startdate><enddate>20180719</enddate><creator>Liang, Yaoxin</creator><creator>Guan, Yuhan</creator><creator>Wang, Shaoxi</creator><creator>Li, Yanjun</creator><creator>Zhang, Zhihong</creator><creator>Li, He</creator><general>Nature Publishing Group UK</general><general>Nature Publishing Group</general><scope>C6C</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>3V.</scope><scope>7X7</scope><scope>7XB</scope><scope>88A</scope><scope>88E</scope><scope>88I</scope><scope>8FE</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABUWG</scope><scope>AEUYN</scope><scope>AFKRA</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>LK8</scope><scope>M0S</scope><scope>M1P</scope><scope>M2P</scope><scope>M7P</scope><scope>PIMPY</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>Q9U</scope><scope>7X8</scope><scope>5PM</scope><orcidid>https://orcid.org/0000-0001-5935-1567</orcidid></search><sort><creationdate>20180719</creationdate><title>Identification and characterization of known and novel microRNAs in strawberry fruits induced by Botrytis cinerea</title><author>Liang, Yaoxin ; Guan, Yuhan ; Wang, Shaoxi ; Li, Yanjun ; Zhang, Zhihong ; Li, He</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c511t-4ffd0f63b1a16ae72af7e67939064a71e8047c04930847eecc32b5acbdfebcc63</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2018</creationdate><topic>38</topic><topic>38/39</topic><topic>38/47</topic><topic>38/90</topic><topic>38/91</topic><topic>631/337/384/331</topic><topic>631/449/1659</topic><topic>Botrytis cinerea</topic><topic>Fragaria vesca</topic><topic>Fruits</topic><topic>Genomes</topic><topic>Humanities and Social Sciences</topic><topic>MicroRNAs</topic><topic>miRNA</topic><topic>multidisciplinary</topic><topic>Next-generation sequencing</topic><topic>Pathogens</topic><topic>Post-transcription</topic><topic>Science</topic><topic>Science (multidisciplinary)</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Liang, Yaoxin</creatorcontrib><creatorcontrib>Guan, Yuhan</creatorcontrib><creatorcontrib>Wang, Shaoxi</creatorcontrib><creatorcontrib>Li, Yanjun</creatorcontrib><creatorcontrib>Zhang, Zhihong</creatorcontrib><creatorcontrib>Li, He</creatorcontrib><collection>Springer Nature OA Free Journals</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>ProQuest Central (Corporate)</collection><collection>Health & Medical Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>Biology Database (Alumni Edition)</collection><collection>Medical Database (Alumni Edition)</collection><collection>Science Database (Alumni Edition)</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>Hospital Premium Collection</collection><collection>Hospital Premium Collection (Alumni Edition)</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>ProQuest Central (Alumni Edition)</collection><collection>ProQuest One Sustainability</collection><collection>ProQuest Central UK/Ireland</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>ProQuest Central</collection><collection>Natural Science Collection</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central Korea</collection><collection>Health Research Premium Collection</collection><collection>Health Research Premium Collection (Alumni)</collection><collection>ProQuest Central Student</collection><collection>SciTech Premium Collection</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>ProQuest Biological Science Collection</collection><collection>Health & Medical Collection (Alumni Edition)</collection><collection>Medical Database</collection><collection>Science Database</collection><collection>Biological Science Database</collection><collection>Publicly Available Content Database</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>ProQuest Central Basic</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>Scientific reports</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Liang, Yaoxin</au><au>Guan, Yuhan</au><au>Wang, Shaoxi</au><au>Li, Yanjun</au><au>Zhang, Zhihong</au><au>Li, He</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Identification and characterization of known and novel microRNAs in strawberry fruits induced by Botrytis cinerea</atitle><jtitle>Scientific reports</jtitle><stitle>Sci Rep</stitle><addtitle>Sci Rep</addtitle><date>2018-07-19</date><risdate>2018</risdate><volume>8</volume><issue>1</issue><spage>10921</spage><epage>17</epage><pages>10921-17</pages><artnum>10921</artnum><issn>2045-2322</issn><eissn>2045-2322</eissn><abstract>MicroRNAs are endogenous small non-coding RNAs that negatively regulate mRNAs, mainly at the post-transcriptional level, and play an important role in resistance response of plants. To date, there are few reports on resistance response of strawberry miRNAs to pathogens. In this study, using high-throughput sequencing, 134 conserved and 35 novel miRNAs were identified in six libraries within the treatment of
Botrytis cinerea
. A total 497 potential target genes were predicted using
Fragaria vesca
genome. Most of the differential expressed miRNAs in strawberry fruits were up-regulated in early libraries and down-regulated in late libraries.
PIRL
, the target gene of miR5290a, showed the opposite expressed trend compared with miR5290 from T1 to T3 libraries, and functional analysis of the
PIRL
gene shows that it has obvious resistance to
B
.
cinerea
in the strawberry fruits with overexpressed
PIRL
gene. We speculate that miR5290a negatively regulates its target gene
PIRL
to increase resistance to pathogen infection, and further analysis of
PIRL
function is meaningful for studying the plant-pathogen relationship and improving strawberry fruit quality and yield.</abstract><cop>London</cop><pub>Nature Publishing Group UK</pub><pmid>30026481</pmid><doi>10.1038/s41598-018-29289-7</doi><tpages>17</tpages><orcidid>https://orcid.org/0000-0001-5935-1567</orcidid><oa>free_for_read</oa></addata></record> |
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| subjects | 38 38/39 38/47 38/90 38/91 631/337/384/331 631/449/1659 Botrytis cinerea Fragaria vesca Fruits Genomes Humanities and Social Sciences MicroRNAs miRNA multidisciplinary Next-generation sequencing Pathogens Post-transcription Science Science (multidisciplinary) |
| title | Identification and characterization of known and novel microRNAs in strawberry fruits induced by Botrytis cinerea |
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