Genome-Wide Analysis of the Lateral Organ Boundaries Domain (LBD) Gene Family in Solanum tuberosum
Lateral organ boundaries domain ( ) proteins belong to a particular class of transcription factors of lateral organ boundary ( ) specific domains that play essential roles in plant growth and development. However, a potato phylogenetic analysis of the family has not been fully studied by scholars an...
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| Veröffentlicht in: | International journal of molecular sciences 2019-10, Vol.20 (21), p.5360 |
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| creator | Liu, Hengzhi Cao, Minxuan Chen, Xiaoli Ye, Minghui Zhao, Peng Nan, Yunyou Li, Wan Zhang, Chao Kong, Lingshuang Kong, Nana Yang, Chenghui Chen, Yue Wang, Dongdong Chen, Qin |
| description | Lateral organ boundaries domain (
) proteins belong to a particular class of transcription factors of lateral organ boundary (
) specific domains that play essential roles in plant growth and development. However, a potato phylogenetic analysis of the
family has not been fully studied by scholars and researchers. In this research, bioinformatics methods and the growth of potatoes were used to identify 43
proteins. We separated them into seven subfamilies: Ia, Ib, Ic, Id, Ie, IIa and IIb. The number of amino acids encoded by the potato LBD family ranged from 94 to 327. The theoretical isoelectric point distribution ranged from 4.16 to 9.12 Kda, and they were distributed among 10 chromosomes. The results of qRT-PCR showed that the expression levels of
and
were up-regulated under drought stress in the stem. The expression levels of
and
were down-regulated in leaves. We hypothesized that
was down-regulated under drought stress, and that
and
up-regulation might help to maintain the normal metabolism of potato and enhance the potatoes' resistance to drought. |
| doi_str_mv | 10.3390/ijms20215360 |
| format | Article |
| fullrecord | <record><control><sourceid>proquest_pubme</sourceid><recordid>TN_cdi_pubmedcentral_primary_oai_pubmedcentral_nih_gov_6861928</recordid><sourceformat>XML</sourceformat><sourcesystem>PC</sourcesystem><sourcerecordid>2310669061</sourcerecordid><originalsourceid>FETCH-LOGICAL-c521t-fc778988b5f0dab0eb25bb75d4dcf5e35ade8b0ee3f301cc2fe4301996aee3693</originalsourceid><addsrcrecordid>eNpdkd1LwzAUxYMofkzffJaALxOs5mPJ2hdhmzqFgg8qPoa0vdWMptGkFfbfG9mU6VMuJz8O956D0DElF5xn5NIsbGCEUcEl2UL7dMRYQogcb2_Me-gghAUhjDOR7aI9TqWkqZT7qJhD6ywkL6YCPGl1swwmYFfj7g1wrjvwusEP_lW3eOr6ttLeQMDXzmrT4mE-vT7D0QHwrbamWeIoPrpGt73FXV-Ad6G3h2in1k2Ao_U7QM-3N0-zuyR_mN_PJnlSCka7pC7H4zRL00LUpNIFgYKJohiLalSVtQAudAVplIHXnNCyZDWM4pBlUkdNZnyArla-731hoSqh7eLy6t0bq_1SOW3U35_WvKlX96lkKmnG0mgwXBt499FD6JQ1oYQm3gOuD4pxSqTMiKQRPf2HLlzvY3yREqOYrKRMROp8RZUxiOCh_l2GEvVdntosL-Inmwf8wj9t8S_Ro5YA</addsrcrecordid><sourcetype>Open Access Repository</sourcetype><iscdi>true</iscdi><recordtype>article</recordtype><pqid>2548666125</pqid></control><display><type>article</type><title>Genome-Wide Analysis of the Lateral Organ Boundaries Domain (LBD) Gene Family in Solanum tuberosum</title><source>MEDLINE</source><source>Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals</source><source>MDPI - Multidisciplinary Digital Publishing Institute</source><source>PubMed Central</source><creator>Liu, Hengzhi ; Cao, Minxuan ; Chen, Xiaoli ; Ye, Minghui ; Zhao, Peng ; Nan, Yunyou ; Li, Wan ; Zhang, Chao ; Kong, Lingshuang ; Kong, Nana ; Yang, Chenghui ; Chen, Yue ; Wang, Dongdong ; Chen, Qin</creator><creatorcontrib>Liu, Hengzhi ; Cao, Minxuan ; Chen, Xiaoli ; Ye, Minghui ; Zhao, Peng ; Nan, Yunyou ; Li, Wan ; Zhang, Chao ; Kong, Lingshuang ; Kong, Nana ; Yang, Chenghui ; Chen, Yue ; Wang, Dongdong ; Chen, Qin</creatorcontrib><description>Lateral organ boundaries domain (
) proteins belong to a particular class of transcription factors of lateral organ boundary (
) specific domains that play essential roles in plant growth and development. However, a potato phylogenetic analysis of the
family has not been fully studied by scholars and researchers. In this research, bioinformatics methods and the growth of potatoes were used to identify 43
proteins. We separated them into seven subfamilies: Ia, Ib, Ic, Id, Ie, IIa and IIb. The number of amino acids encoded by the potato LBD family ranged from 94 to 327. The theoretical isoelectric point distribution ranged from 4.16 to 9.12 Kda, and they were distributed among 10 chromosomes. The results of qRT-PCR showed that the expression levels of
and
were up-regulated under drought stress in the stem. The expression levels of
and
were down-regulated in leaves. We hypothesized that
was down-regulated under drought stress, and that
and
up-regulation might help to maintain the normal metabolism of potato and enhance the potatoes' resistance to drought.</description><identifier>ISSN: 1422-0067</identifier><identifier>ISSN: 1661-6596</identifier><identifier>EISSN: 1422-0067</identifier><identifier>DOI: 10.3390/ijms20215360</identifier><identifier>PMID: 31661866</identifier><language>eng</language><publisher>Switzerland: MDPI AG</publisher><subject>Arabidopsis Proteins - genetics ; Bioinformatics ; Boundaries ; Chromosome Mapping ; Chromosomes ; Cluster Analysis ; Drought ; Droughts ; Flowers & plants ; Gene Expression Profiling ; Gene Expression Regulation, Plant ; Genes ; Genome, Plant ; Genomes ; Localization ; Molecular weight ; Multigene Family - genetics ; Multigene Family - physiology ; Phylogenetics ; Phylogeny ; Plant Leaves - growth & development ; Plant Leaves - metabolism ; Plant Proteins - genetics ; Plant Proteins - metabolism ; Potatoes ; Protein Domains - genetics ; Proteins ; Rice ; RNA-Seq ; Solanum tuberosum - genetics ; Solanum tuberosum - growth & development ; Solanum tuberosum - metabolism ; Stress, Physiological ; Transcription factors ; Transcription Factors - genetics ; Transcription Factors - metabolism</subject><ispartof>International journal of molecular sciences, 2019-10, Vol.20 (21), p.5360</ispartof><rights>2019 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><rights>2019 by the authors. 2019</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c521t-fc778988b5f0dab0eb25bb75d4dcf5e35ade8b0ee3f301cc2fe4301996aee3693</citedby><cites>FETCH-LOGICAL-c521t-fc778988b5f0dab0eb25bb75d4dcf5e35ade8b0ee3f301cc2fe4301996aee3693</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC6861928/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC6861928/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,723,776,780,881,27903,27904,53769,53771</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/31661866$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Liu, Hengzhi</creatorcontrib><creatorcontrib>Cao, Minxuan</creatorcontrib><creatorcontrib>Chen, Xiaoli</creatorcontrib><creatorcontrib>Ye, Minghui</creatorcontrib><creatorcontrib>Zhao, Peng</creatorcontrib><creatorcontrib>Nan, Yunyou</creatorcontrib><creatorcontrib>Li, Wan</creatorcontrib><creatorcontrib>Zhang, Chao</creatorcontrib><creatorcontrib>Kong, Lingshuang</creatorcontrib><creatorcontrib>Kong, Nana</creatorcontrib><creatorcontrib>Yang, Chenghui</creatorcontrib><creatorcontrib>Chen, Yue</creatorcontrib><creatorcontrib>Wang, Dongdong</creatorcontrib><creatorcontrib>Chen, Qin</creatorcontrib><title>Genome-Wide Analysis of the Lateral Organ Boundaries Domain (LBD) Gene Family in Solanum tuberosum</title><title>International journal of molecular sciences</title><addtitle>Int J Mol Sci</addtitle><description>Lateral organ boundaries domain (
) proteins belong to a particular class of transcription factors of lateral organ boundary (
) specific domains that play essential roles in plant growth and development. However, a potato phylogenetic analysis of the
family has not been fully studied by scholars and researchers. In this research, bioinformatics methods and the growth of potatoes were used to identify 43
proteins. We separated them into seven subfamilies: Ia, Ib, Ic, Id, Ie, IIa and IIb. The number of amino acids encoded by the potato LBD family ranged from 94 to 327. The theoretical isoelectric point distribution ranged from 4.16 to 9.12 Kda, and they were distributed among 10 chromosomes. The results of qRT-PCR showed that the expression levels of
and
were up-regulated under drought stress in the stem. The expression levels of
and
were down-regulated in leaves. We hypothesized that
was down-regulated under drought stress, and that
and
up-regulation might help to maintain the normal metabolism of potato and enhance the potatoes' resistance to drought.</description><subject>Arabidopsis Proteins - genetics</subject><subject>Bioinformatics</subject><subject>Boundaries</subject><subject>Chromosome Mapping</subject><subject>Chromosomes</subject><subject>Cluster Analysis</subject><subject>Drought</subject><subject>Droughts</subject><subject>Flowers & plants</subject><subject>Gene Expression Profiling</subject><subject>Gene Expression Regulation, Plant</subject><subject>Genes</subject><subject>Genome, Plant</subject><subject>Genomes</subject><subject>Localization</subject><subject>Molecular weight</subject><subject>Multigene Family - genetics</subject><subject>Multigene Family - physiology</subject><subject>Phylogenetics</subject><subject>Phylogeny</subject><subject>Plant Leaves - growth & development</subject><subject>Plant Leaves - metabolism</subject><subject>Plant Proteins - genetics</subject><subject>Plant Proteins - metabolism</subject><subject>Potatoes</subject><subject>Protein Domains - genetics</subject><subject>Proteins</subject><subject>Rice</subject><subject>RNA-Seq</subject><subject>Solanum tuberosum - genetics</subject><subject>Solanum tuberosum - growth & development</subject><subject>Solanum tuberosum - metabolism</subject><subject>Stress, Physiological</subject><subject>Transcription factors</subject><subject>Transcription Factors - genetics</subject><subject>Transcription Factors - metabolism</subject><issn>1422-0067</issn><issn>1661-6596</issn><issn>1422-0067</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2019</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>8G5</sourceid><sourceid>ABUWG</sourceid><sourceid>AFKRA</sourceid><sourceid>AZQEC</sourceid><sourceid>BENPR</sourceid><sourceid>CCPQU</sourceid><sourceid>DWQXO</sourceid><sourceid>GNUQQ</sourceid><sourceid>GUQSH</sourceid><sourceid>M2O</sourceid><recordid>eNpdkd1LwzAUxYMofkzffJaALxOs5mPJ2hdhmzqFgg8qPoa0vdWMptGkFfbfG9mU6VMuJz8O956D0DElF5xn5NIsbGCEUcEl2UL7dMRYQogcb2_Me-gghAUhjDOR7aI9TqWkqZT7qJhD6ywkL6YCPGl1swwmYFfj7g1wrjvwusEP_lW3eOr6ttLeQMDXzmrT4mE-vT7D0QHwrbamWeIoPrpGt73FXV-Ad6G3h2in1k2Ao_U7QM-3N0-zuyR_mN_PJnlSCka7pC7H4zRL00LUpNIFgYKJohiLalSVtQAudAVplIHXnNCyZDWM4pBlUkdNZnyArla-731hoSqh7eLy6t0bq_1SOW3U35_WvKlX96lkKmnG0mgwXBt499FD6JQ1oYQm3gOuD4pxSqTMiKQRPf2HLlzvY3yREqOYrKRMROp8RZUxiOCh_l2GEvVdntosL-Inmwf8wj9t8S_Ro5YA</recordid><startdate>20191028</startdate><enddate>20191028</enddate><creator>Liu, Hengzhi</creator><creator>Cao, Minxuan</creator><creator>Chen, Xiaoli</creator><creator>Ye, Minghui</creator><creator>Zhao, Peng</creator><creator>Nan, Yunyou</creator><creator>Li, Wan</creator><creator>Zhang, Chao</creator><creator>Kong, Lingshuang</creator><creator>Kong, Nana</creator><creator>Yang, Chenghui</creator><creator>Chen, Yue</creator><creator>Wang, Dongdong</creator><creator>Chen, Qin</creator><general>MDPI AG</general><general>MDPI</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>3V.</scope><scope>7X7</scope><scope>7XB</scope><scope>88E</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>8G5</scope><scope>ABUWG</scope><scope>AFKRA</scope><scope>AZQEC</scope><scope>BENPR</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>GUQSH</scope><scope>K9.</scope><scope>M0S</scope><scope>M1P</scope><scope>M2O</scope><scope>MBDVC</scope><scope>PIMPY</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PRINS</scope><scope>Q9U</scope><scope>7X8</scope><scope>5PM</scope></search><sort><creationdate>20191028</creationdate><title>Genome-Wide Analysis of the Lateral Organ Boundaries Domain (LBD) Gene Family in Solanum tuberosum</title><author>Liu, Hengzhi ; Cao, Minxuan ; Chen, Xiaoli ; Ye, Minghui ; Zhao, Peng ; Nan, Yunyou ; Li, Wan ; Zhang, Chao ; Kong, Lingshuang ; Kong, Nana ; Yang, Chenghui ; Chen, Yue ; Wang, Dongdong ; Chen, Qin</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c521t-fc778988b5f0dab0eb25bb75d4dcf5e35ade8b0ee3f301cc2fe4301996aee3693</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2019</creationdate><topic>Arabidopsis Proteins - genetics</topic><topic>Bioinformatics</topic><topic>Boundaries</topic><topic>Chromosome Mapping</topic><topic>Chromosomes</topic><topic>Cluster Analysis</topic><topic>Drought</topic><topic>Droughts</topic><topic>Flowers & plants</topic><topic>Gene Expression Profiling</topic><topic>Gene Expression Regulation, Plant</topic><topic>Genes</topic><topic>Genome, Plant</topic><topic>Genomes</topic><topic>Localization</topic><topic>Molecular weight</topic><topic>Multigene Family - genetics</topic><topic>Multigene Family - physiology</topic><topic>Phylogenetics</topic><topic>Phylogeny</topic><topic>Plant Leaves - growth & development</topic><topic>Plant Leaves - metabolism</topic><topic>Plant Proteins - genetics</topic><topic>Plant Proteins - metabolism</topic><topic>Potatoes</topic><topic>Protein Domains - genetics</topic><topic>Proteins</topic><topic>Rice</topic><topic>RNA-Seq</topic><topic>Solanum tuberosum - genetics</topic><topic>Solanum tuberosum - growth & development</topic><topic>Solanum tuberosum - metabolism</topic><topic>Stress, Physiological</topic><topic>Transcription factors</topic><topic>Transcription Factors - genetics</topic><topic>Transcription Factors - metabolism</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Liu, Hengzhi</creatorcontrib><creatorcontrib>Cao, Minxuan</creatorcontrib><creatorcontrib>Chen, Xiaoli</creatorcontrib><creatorcontrib>Ye, Minghui</creatorcontrib><creatorcontrib>Zhao, Peng</creatorcontrib><creatorcontrib>Nan, Yunyou</creatorcontrib><creatorcontrib>Li, Wan</creatorcontrib><creatorcontrib>Zhang, Chao</creatorcontrib><creatorcontrib>Kong, Lingshuang</creatorcontrib><creatorcontrib>Kong, Nana</creatorcontrib><creatorcontrib>Yang, Chenghui</creatorcontrib><creatorcontrib>Chen, Yue</creatorcontrib><creatorcontrib>Wang, Dongdong</creatorcontrib><creatorcontrib>Chen, Qin</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</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>Medical Database (Alumni Edition)</collection><collection>Hospital Premium Collection</collection><collection>Hospital Premium Collection (Alumni Edition)</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>Research Library (Alumni Edition)</collection><collection>ProQuest Central (Alumni Edition)</collection><collection>ProQuest Central UK/Ireland</collection><collection>ProQuest Central Essentials</collection><collection>ProQuest Central</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>Research Library Prep</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>Health & Medical Collection (Alumni Edition)</collection><collection>Medical Database</collection><collection>Research Library</collection><collection>Research Library (Corporate)</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 China</collection><collection>ProQuest Central Basic</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>International journal of molecular sciences</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Liu, Hengzhi</au><au>Cao, Minxuan</au><au>Chen, Xiaoli</au><au>Ye, Minghui</au><au>Zhao, Peng</au><au>Nan, Yunyou</au><au>Li, Wan</au><au>Zhang, Chao</au><au>Kong, Lingshuang</au><au>Kong, Nana</au><au>Yang, Chenghui</au><au>Chen, Yue</au><au>Wang, Dongdong</au><au>Chen, Qin</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Genome-Wide Analysis of the Lateral Organ Boundaries Domain (LBD) Gene Family in Solanum tuberosum</atitle><jtitle>International journal of molecular sciences</jtitle><addtitle>Int J Mol Sci</addtitle><date>2019-10-28</date><risdate>2019</risdate><volume>20</volume><issue>21</issue><spage>5360</spage><pages>5360-</pages><issn>1422-0067</issn><issn>1661-6596</issn><eissn>1422-0067</eissn><abstract>Lateral organ boundaries domain (
) proteins belong to a particular class of transcription factors of lateral organ boundary (
) specific domains that play essential roles in plant growth and development. However, a potato phylogenetic analysis of the
family has not been fully studied by scholars and researchers. In this research, bioinformatics methods and the growth of potatoes were used to identify 43
proteins. We separated them into seven subfamilies: Ia, Ib, Ic, Id, Ie, IIa and IIb. The number of amino acids encoded by the potato LBD family ranged from 94 to 327. The theoretical isoelectric point distribution ranged from 4.16 to 9.12 Kda, and they were distributed among 10 chromosomes. The results of qRT-PCR showed that the expression levels of
and
were up-regulated under drought stress in the stem. The expression levels of
and
were down-regulated in leaves. We hypothesized that
was down-regulated under drought stress, and that
and
up-regulation might help to maintain the normal metabolism of potato and enhance the potatoes' resistance to drought.</abstract><cop>Switzerland</cop><pub>MDPI AG</pub><pmid>31661866</pmid><doi>10.3390/ijms20215360</doi><oa>free_for_read</oa></addata></record> |
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| ispartof | International journal of molecular sciences, 2019-10, Vol.20 (21), p.5360 |
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| source | MEDLINE; Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals; MDPI - Multidisciplinary Digital Publishing Institute; PubMed Central |
| subjects | Arabidopsis Proteins - genetics Bioinformatics Boundaries Chromosome Mapping Chromosomes Cluster Analysis Drought Droughts Flowers & plants Gene Expression Profiling Gene Expression Regulation, Plant Genes Genome, Plant Genomes Localization Molecular weight Multigene Family - genetics Multigene Family - physiology Phylogenetics Phylogeny Plant Leaves - growth & development Plant Leaves - metabolism Plant Proteins - genetics Plant Proteins - metabolism Potatoes Protein Domains - genetics Proteins Rice RNA-Seq Solanum tuberosum - genetics Solanum tuberosum - growth & development Solanum tuberosum - metabolism Stress, Physiological Transcription factors Transcription Factors - genetics Transcription Factors - metabolism |
| title | Genome-Wide Analysis of the Lateral Organ Boundaries Domain (LBD) Gene Family in Solanum tuberosum |
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