Genome-Wide Identification of GmSPS Gene Family in Soybean and Expression Analysis in Response to Cold Stress
Sucrose metabolism plays a critical role in development, stress response, and yield formation of plants. Sucrose phosphate synthase (SPS) is the key rate-limiting enzyme in the sucrose synthesis pathway. To date, genome-wide survey and comprehensive analysis of the gene family in soybean ( ) have ye...
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| Veröffentlicht in: | International journal of molecular sciences 2023-08, Vol.24 (16), p.12878 |
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| creator | Shen, Jiafang Xu, Yiran Yuan, Songli Jin, Fuxiao Huang, Yi Chen, Haifeng Shan, Zhihui Yang, Zhonglu Chen, Shuilian Zhou, Xinan Zhang, Chanjuan |
| description | Sucrose metabolism plays a critical role in development, stress response, and yield formation of plants. Sucrose phosphate synthase (SPS) is the key rate-limiting enzyme in the sucrose synthesis pathway. To date, genome-wide survey and comprehensive analysis of the
gene family in soybean (
) have yet to be performed. In this study, seven genes encoding SPS were identified in soybean genome. The structural characteristics, phylogenetics, tissue expression patterns, and cold stress response of these
were investigated. A comparative phylogenetic analysis of SPS proteins in soybean,
,
,
, Arabidopsis, and rice revealed four families. GmSPSs were clustered into three families from A to C, and have undergone five segmental duplication events under purifying selection. All
genes had various expression patterns in different tissues, and family A members
/
were highly expressed in nodules. Remarkably, all
promoters contain multiple low-temperature-responsive elements such as potential binding sites of inducer of CBF expression 1 (ICE1), the central regulator in cold response. qRT-PCR proved that these
genes, especially
/
, were induced by cold treatment in soybean leaves, and the expression pattern of
under cold treatment was similar to that of
/
. Further transient expression analysis in
and electrophoretic mobility shift assay (EMSA) indicated that
and
transcriptions were directly activated by GmICE1. Taken together, our findings may aid in future efforts to clarify the potential roles of
genes in response to cold stress in soybean. |
| doi_str_mv | 10.3390/ijms241612878 |
| format | Article |
| fullrecord | <record><control><sourceid>proquest_pubme</sourceid><recordid>TN_cdi_pubmedcentral_primary_oai_pubmedcentral_nih_gov_10454306</recordid><sourceformat>XML</sourceformat><sourcesystem>PC</sourcesystem><sourcerecordid>2857083810</sourcerecordid><originalsourceid>FETCH-LOGICAL-c416t-b6cb2113bd81a55951df1ad6b4bf1ef625b38a618082ab56e1135516bb7e2e463</originalsourceid><addsrcrecordid>eNpd0c1LwzAYBvAgivPr6FUCXrxU89Gk2UnG2KYwUJziMSTtW81ok9l04v57W6ainhLIj4c874vQKSWXnA_JlVvWkaVUUqYytYMOaMpYQojMdn_dB-gwxiUhjDMx3EcDnkk2JEIdoHoGPtSQPLsC8G0BvnWly03rgsehxLN6cb_AnQE8NbWrNth5vAgbC8Zj4ws8-Vg1EGPPR95Um-hiTx4groKPgNuAx6Eq8KLt2THaK00V4eTrPEJP08nj-CaZ381ux6N5kndN2sTK3DJKuS0UNUIMBS1KagppU1tSKCUTlisjqSKKGSskdFYIKq3NgEEq-RG63uau1raGIu9qNabSq8bVptnoYJz---Ldq34J75qSVKSc9AkXXwlNeFtDbHXtYg5VZTyEddRMiUylnAre0fN_dBnWTTeMrSKKK0o6lWxV3oQYGyh_fkOJ7jep_2yy82e_K_zo79XxT3O5mhQ</addsrcrecordid><sourcetype>Open Access Repository</sourcetype><iscdi>true</iscdi><recordtype>article</recordtype><pqid>2857083810</pqid></control><display><type>article</type><title>Genome-Wide Identification of GmSPS Gene Family in Soybean and Expression Analysis in Response to Cold Stress</title><source>MDPI - Multidisciplinary Digital Publishing Institute</source><source>MEDLINE</source><source>Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals</source><source>PubMed Central</source><creator>Shen, Jiafang ; Xu, Yiran ; Yuan, Songli ; Jin, Fuxiao ; Huang, Yi ; Chen, Haifeng ; Shan, Zhihui ; Yang, Zhonglu ; Chen, Shuilian ; Zhou, Xinan ; Zhang, Chanjuan</creator><creatorcontrib>Shen, Jiafang ; Xu, Yiran ; Yuan, Songli ; Jin, Fuxiao ; Huang, Yi ; Chen, Haifeng ; Shan, Zhihui ; Yang, Zhonglu ; Chen, Shuilian ; Zhou, Xinan ; Zhang, Chanjuan</creatorcontrib><description>Sucrose metabolism plays a critical role in development, stress response, and yield formation of plants. Sucrose phosphate synthase (SPS) is the key rate-limiting enzyme in the sucrose synthesis pathway. To date, genome-wide survey and comprehensive analysis of the
gene family in soybean (
) have yet to be performed. In this study, seven genes encoding SPS were identified in soybean genome. The structural characteristics, phylogenetics, tissue expression patterns, and cold stress response of these
were investigated. A comparative phylogenetic analysis of SPS proteins in soybean,
,
,
, Arabidopsis, and rice revealed four families. GmSPSs were clustered into three families from A to C, and have undergone five segmental duplication events under purifying selection. All
genes had various expression patterns in different tissues, and family A members
/
were highly expressed in nodules. Remarkably, all
promoters contain multiple low-temperature-responsive elements such as potential binding sites of inducer of CBF expression 1 (ICE1), the central regulator in cold response. qRT-PCR proved that these
genes, especially
/
, were induced by cold treatment in soybean leaves, and the expression pattern of
under cold treatment was similar to that of
/
. Further transient expression analysis in
and electrophoretic mobility shift assay (EMSA) indicated that
and
transcriptions were directly activated by GmICE1. Taken together, our findings may aid in future efforts to clarify the potential roles of
genes in response to cold stress in soybean.</description><identifier>ISSN: 1422-0067</identifier><identifier>ISSN: 1661-6596</identifier><identifier>EISSN: 1422-0067</identifier><identifier>DOI: 10.3390/ijms241612878</identifier><identifier>PMID: 37629058</identifier><language>eng</language><publisher>Switzerland: MDPI AG</publisher><subject>Arabidopsis ; Binding Sites ; Chromosomes ; Cold ; Cold-Shock Response - genetics ; Gene expression ; Genomes ; Glycine max - genetics ; Phylogenetics ; Phylogeny ; Plant growth ; Plant resistance ; Proteins ; Rice ; Soybeans ; Sucrose ; Sugar</subject><ispartof>International journal of molecular sciences, 2023-08, Vol.24 (16), p.12878</ispartof><rights>2023 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 (https://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>2023 by the authors. 2023</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c416t-b6cb2113bd81a55951df1ad6b4bf1ef625b38a618082ab56e1135516bb7e2e463</citedby><cites>FETCH-LOGICAL-c416t-b6cb2113bd81a55951df1ad6b4bf1ef625b38a618082ab56e1135516bb7e2e463</cites><orcidid>0000-0001-8558-1454 ; 0000-0001-6000-1521 ; 0000-0001-6896-8470 ; 0009-0007-6432-3756</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/PMC10454306/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC10454306/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,723,776,780,881,27901,27902,53766,53768</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/37629058$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Shen, Jiafang</creatorcontrib><creatorcontrib>Xu, Yiran</creatorcontrib><creatorcontrib>Yuan, Songli</creatorcontrib><creatorcontrib>Jin, Fuxiao</creatorcontrib><creatorcontrib>Huang, Yi</creatorcontrib><creatorcontrib>Chen, Haifeng</creatorcontrib><creatorcontrib>Shan, Zhihui</creatorcontrib><creatorcontrib>Yang, Zhonglu</creatorcontrib><creatorcontrib>Chen, Shuilian</creatorcontrib><creatorcontrib>Zhou, Xinan</creatorcontrib><creatorcontrib>Zhang, Chanjuan</creatorcontrib><title>Genome-Wide Identification of GmSPS Gene Family in Soybean and Expression Analysis in Response to Cold Stress</title><title>International journal of molecular sciences</title><addtitle>Int J Mol Sci</addtitle><description>Sucrose metabolism plays a critical role in development, stress response, and yield formation of plants. Sucrose phosphate synthase (SPS) is the key rate-limiting enzyme in the sucrose synthesis pathway. To date, genome-wide survey and comprehensive analysis of the
gene family in soybean (
) have yet to be performed. In this study, seven genes encoding SPS were identified in soybean genome. The structural characteristics, phylogenetics, tissue expression patterns, and cold stress response of these
were investigated. A comparative phylogenetic analysis of SPS proteins in soybean,
,
,
, Arabidopsis, and rice revealed four families. GmSPSs were clustered into three families from A to C, and have undergone five segmental duplication events under purifying selection. All
genes had various expression patterns in different tissues, and family A members
/
were highly expressed in nodules. Remarkably, all
promoters contain multiple low-temperature-responsive elements such as potential binding sites of inducer of CBF expression 1 (ICE1), the central regulator in cold response. qRT-PCR proved that these
genes, especially
/
, were induced by cold treatment in soybean leaves, and the expression pattern of
under cold treatment was similar to that of
/
. Further transient expression analysis in
and electrophoretic mobility shift assay (EMSA) indicated that
and
transcriptions were directly activated by GmICE1. Taken together, our findings may aid in future efforts to clarify the potential roles of
genes in response to cold stress in soybean.</description><subject>Arabidopsis</subject><subject>Binding Sites</subject><subject>Chromosomes</subject><subject>Cold</subject><subject>Cold-Shock Response - genetics</subject><subject>Gene expression</subject><subject>Genomes</subject><subject>Glycine max - genetics</subject><subject>Phylogenetics</subject><subject>Phylogeny</subject><subject>Plant growth</subject><subject>Plant resistance</subject><subject>Proteins</subject><subject>Rice</subject><subject>Soybeans</subject><subject>Sucrose</subject><subject>Sugar</subject><issn>1422-0067</issn><issn>1661-6596</issn><issn>1422-0067</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2023</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>8G5</sourceid><sourceid>BENPR</sourceid><sourceid>GUQSH</sourceid><sourceid>M2O</sourceid><recordid>eNpd0c1LwzAYBvAgivPr6FUCXrxU89Gk2UnG2KYwUJziMSTtW81ok9l04v57W6ainhLIj4c874vQKSWXnA_JlVvWkaVUUqYytYMOaMpYQojMdn_dB-gwxiUhjDMx3EcDnkk2JEIdoHoGPtSQPLsC8G0BvnWly03rgsehxLN6cb_AnQE8NbWrNth5vAgbC8Zj4ws8-Vg1EGPPR95Um-hiTx4groKPgNuAx6Eq8KLt2THaK00V4eTrPEJP08nj-CaZ381ux6N5kndN2sTK3DJKuS0UNUIMBS1KagppU1tSKCUTlisjqSKKGSskdFYIKq3NgEEq-RG63uau1raGIu9qNabSq8bVptnoYJz---Ldq34J75qSVKSc9AkXXwlNeFtDbHXtYg5VZTyEddRMiUylnAre0fN_dBnWTTeMrSKKK0o6lWxV3oQYGyh_fkOJ7jep_2yy82e_K_zo79XxT3O5mhQ</recordid><startdate>20230817</startdate><enddate>20230817</enddate><creator>Shen, Jiafang</creator><creator>Xu, Yiran</creator><creator>Yuan, Songli</creator><creator>Jin, Fuxiao</creator><creator>Huang, Yi</creator><creator>Chen, Haifeng</creator><creator>Shan, Zhihui</creator><creator>Yang, Zhonglu</creator><creator>Chen, Shuilian</creator><creator>Zhou, Xinan</creator><creator>Zhang, Chanjuan</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>Q9U</scope><scope>7X8</scope><scope>5PM</scope><orcidid>https://orcid.org/0000-0001-8558-1454</orcidid><orcidid>https://orcid.org/0000-0001-6000-1521</orcidid><orcidid>https://orcid.org/0000-0001-6896-8470</orcidid><orcidid>https://orcid.org/0009-0007-6432-3756</orcidid></search><sort><creationdate>20230817</creationdate><title>Genome-Wide Identification of GmSPS Gene Family in Soybean and Expression Analysis in Response to Cold Stress</title><author>Shen, Jiafang ; 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Sucrose phosphate synthase (SPS) is the key rate-limiting enzyme in the sucrose synthesis pathway. To date, genome-wide survey and comprehensive analysis of the
gene family in soybean (
) have yet to be performed. In this study, seven genes encoding SPS were identified in soybean genome. The structural characteristics, phylogenetics, tissue expression patterns, and cold stress response of these
were investigated. A comparative phylogenetic analysis of SPS proteins in soybean,
,
,
, Arabidopsis, and rice revealed four families. GmSPSs were clustered into three families from A to C, and have undergone five segmental duplication events under purifying selection. All
genes had various expression patterns in different tissues, and family A members
/
were highly expressed in nodules. Remarkably, all
promoters contain multiple low-temperature-responsive elements such as potential binding sites of inducer of CBF expression 1 (ICE1), the central regulator in cold response. qRT-PCR proved that these
genes, especially
/
, were induced by cold treatment in soybean leaves, and the expression pattern of
under cold treatment was similar to that of
/
. Further transient expression analysis in
and electrophoretic mobility shift assay (EMSA) indicated that
and
transcriptions were directly activated by GmICE1. Taken together, our findings may aid in future efforts to clarify the potential roles of
genes in response to cold stress in soybean.</abstract><cop>Switzerland</cop><pub>MDPI AG</pub><pmid>37629058</pmid><doi>10.3390/ijms241612878</doi><orcidid>https://orcid.org/0000-0001-8558-1454</orcidid><orcidid>https://orcid.org/0000-0001-6000-1521</orcidid><orcidid>https://orcid.org/0000-0001-6896-8470</orcidid><orcidid>https://orcid.org/0009-0007-6432-3756</orcidid><oa>free_for_read</oa></addata></record> |
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| source | MDPI - Multidisciplinary Digital Publishing Institute; MEDLINE; Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals; PubMed Central |
| subjects | Arabidopsis Binding Sites Chromosomes Cold Cold-Shock Response - genetics Gene expression Genomes Glycine max - genetics Phylogenetics Phylogeny Plant growth Plant resistance Proteins Rice Soybeans Sucrose Sugar |
| title | Genome-Wide Identification of GmSPS Gene Family in Soybean and Expression Analysis in Response to Cold Stress |
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