Systematic analysis of HD-ZIP transcription factors in sesame genome and gene expression profiling of SiHD-ZIP class I entailing drought stress responses at early seedling stage
Background Sesame is an ancient oilseed crop, known for its high oil content and quality. Its sensitivity to drought at early seedling stage is one of the limiting factors affecting its world-wide growth and productivity. Among plant specific transcription factors, the association of HD-ZIPs with se...
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| Veröffentlicht in: | Molecular biology reports 2022-03, Vol.49 (3), p.2059-2071 |
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| creator | Mehmood, Maryam Khan, Muhammad Jadoon Khan, Muhammad Jawad Akhtar, Nadeem Mughal, Fizza Shah, Syed Tahir Abbas Hyder, Muhammad Zeeshan Farrakh, Sumaira Sadiq, Irfan |
| description | Background
Sesame is an ancient oilseed crop, known for its high oil content and quality. Its sensitivity to drought at early seedling stage is one of the limiting factors affecting its world-wide growth and productivity. Among plant specific transcription factors, the association of HD-ZIPs with sesame drought responses at early seedling stage is not well-established yet and is very important to develop our molecular understanding on sesame drought tolerance.
Methods and results
In this study, total 61 sesame HD-ZIP proteins were identified, based on their protein sequence homology with Arabidopsis and protein domain(s) architecture prediction, followed by their phylogenetic, conserved domain(s) motifs and gene structure analyses to classify them into four classes (HD-ZIP Class I-IV). HD-ZIP Class I was also subdivided into four subgroups: α (SiHZ25, SiHZ43, SiHZ9 and SiHZ16), β1 (SiHZ10, SiHZ30, SiHZ32 and SiHZ26), β2 (SiHZ42 and SiHZ45) and γ (SiHZ17, SiHZ7 and SiHZ35) by a comparative phylogenetic analysis of sesame with Arabidopsis and maize. Afterwards, twenty-one days old sesame seedlings were exposed to drought stress by withholding water for 7 days (when soil moisture content reduced to ~16%) and gene expression of HD-ZIP Class I (13 members) was performed in well- watered (control) and drought stressed seedlings. The gene expression analysis showed that the expressions of
SiHZ7
(6.8 fold) and
SiHZ35
(2.6 fold) from γ subgroup were significantly high in drought seedlings.
Conclusions
This study is useful in demonstrating the role of SiHD-ZIP Class I in sesame drought responses at early seedling stage and to develop its novel drought tolerant varieties |
| doi_str_mv | 10.1007/s11033-021-07024-2 |
| format | Article |
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Sesame is an ancient oilseed crop, known for its high oil content and quality. Its sensitivity to drought at early seedling stage is one of the limiting factors affecting its world-wide growth and productivity. Among plant specific transcription factors, the association of HD-ZIPs with sesame drought responses at early seedling stage is not well-established yet and is very important to develop our molecular understanding on sesame drought tolerance.
Methods and results
In this study, total 61 sesame HD-ZIP proteins were identified, based on their protein sequence homology with Arabidopsis and protein domain(s) architecture prediction, followed by their phylogenetic, conserved domain(s) motifs and gene structure analyses to classify them into four classes (HD-ZIP Class I-IV). HD-ZIP Class I was also subdivided into four subgroups: α (SiHZ25, SiHZ43, SiHZ9 and SiHZ16), β1 (SiHZ10, SiHZ30, SiHZ32 and SiHZ26), β2 (SiHZ42 and SiHZ45) and γ (SiHZ17, SiHZ7 and SiHZ35) by a comparative phylogenetic analysis of sesame with Arabidopsis and maize. Afterwards, twenty-one days old sesame seedlings were exposed to drought stress by withholding water for 7 days (when soil moisture content reduced to ~16%) and gene expression of HD-ZIP Class I (13 members) was performed in well- watered (control) and drought stressed seedlings. The gene expression analysis showed that the expressions of
SiHZ7
(6.8 fold) and
SiHZ35
(2.6 fold) from γ subgroup were significantly high in drought seedlings.
Conclusions
This study is useful in demonstrating the role of SiHD-ZIP Class I in sesame drought responses at early seedling stage and to develop its novel drought tolerant varieties</description><identifier>ISSN: 0301-4851</identifier><identifier>EISSN: 1573-4978</identifier><identifier>DOI: 10.1007/s11033-021-07024-2</identifier><identifier>PMID: 34993726</identifier><language>eng</language><publisher>Dordrecht: Springer Netherlands</publisher><subject>Amino acid sequence ; Animal Anatomy ; Animal Biochemistry ; Arabidopsis ; Biomedical and Life Sciences ; Dehydration - genetics ; Dehydration - metabolism ; Drought ; Drought resistance ; Gene expression ; Gene Expression Profiling ; Gene Expression Regulation, Plant - genetics ; Genome, Plant ; Genomes ; Histology ; Homology ; Life Sciences ; Morphology ; Oilseeds ; Original Article ; Phylogenetics ; Phylogeny ; Plant Proteins - genetics ; Plant Proteins - metabolism ; Seedlings ; Seedlings - genetics ; Seedlings - metabolism ; Sesamum ; Sesamum - genetics ; Sesamum - metabolism ; Soil moisture ; Transcription factors ; Transcription Factors - genetics ; Transcription Factors - metabolism ; Water content</subject><ispartof>Molecular biology reports, 2022-03, Vol.49 (3), p.2059-2071</ispartof><rights>The Author(s), under exclusive licence to Springer Nature B.V. 2021</rights><rights>2021. The Author(s), under exclusive licence to Springer Nature B.V.</rights><rights>The Author(s), under exclusive licence to Springer Nature B.V. 2021.</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c419t-b51dfa82cbfe5d6a27967b44e7be597370b920bd31f5ee439477a30d793817e03</citedby><cites>FETCH-LOGICAL-c419t-b51dfa82cbfe5d6a27967b44e7be597370b920bd31f5ee439477a30d793817e03</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1007/s11033-021-07024-2$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s11033-021-07024-2$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>314,777,781,27905,27906,41469,42538,51300</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/34993726$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Mehmood, Maryam</creatorcontrib><creatorcontrib>Khan, Muhammad Jadoon</creatorcontrib><creatorcontrib>Khan, Muhammad Jawad</creatorcontrib><creatorcontrib>Akhtar, Nadeem</creatorcontrib><creatorcontrib>Mughal, Fizza</creatorcontrib><creatorcontrib>Shah, Syed Tahir Abbas</creatorcontrib><creatorcontrib>Hyder, Muhammad Zeeshan</creatorcontrib><creatorcontrib>Farrakh, Sumaira</creatorcontrib><creatorcontrib>Sadiq, Irfan</creatorcontrib><title>Systematic analysis of HD-ZIP transcription factors in sesame genome and gene expression profiling of SiHD-ZIP class I entailing drought stress responses at early seedling stage</title><title>Molecular biology reports</title><addtitle>Mol Biol Rep</addtitle><addtitle>Mol Biol Rep</addtitle><description>Background
Sesame is an ancient oilseed crop, known for its high oil content and quality. Its sensitivity to drought at early seedling stage is one of the limiting factors affecting its world-wide growth and productivity. Among plant specific transcription factors, the association of HD-ZIPs with sesame drought responses at early seedling stage is not well-established yet and is very important to develop our molecular understanding on sesame drought tolerance.
Methods and results
In this study, total 61 sesame HD-ZIP proteins were identified, based on their protein sequence homology with Arabidopsis and protein domain(s) architecture prediction, followed by their phylogenetic, conserved domain(s) motifs and gene structure analyses to classify them into four classes (HD-ZIP Class I-IV). HD-ZIP Class I was also subdivided into four subgroups: α (SiHZ25, SiHZ43, SiHZ9 and SiHZ16), β1 (SiHZ10, SiHZ30, SiHZ32 and SiHZ26), β2 (SiHZ42 and SiHZ45) and γ (SiHZ17, SiHZ7 and SiHZ35) by a comparative phylogenetic analysis of sesame with Arabidopsis and maize. Afterwards, twenty-one days old sesame seedlings were exposed to drought stress by withholding water for 7 days (when soil moisture content reduced to ~16%) and gene expression of HD-ZIP Class I (13 members) was performed in well- watered (control) and drought stressed seedlings. The gene expression analysis showed that the expressions of
SiHZ7
(6.8 fold) and
SiHZ35
(2.6 fold) from γ subgroup were significantly high in drought seedlings.
Conclusions
This study is useful in demonstrating the role of SiHD-ZIP Class I in sesame drought responses at early seedling stage and to develop its novel drought tolerant varieties</description><subject>Amino acid sequence</subject><subject>Animal Anatomy</subject><subject>Animal Biochemistry</subject><subject>Arabidopsis</subject><subject>Biomedical and Life Sciences</subject><subject>Dehydration - genetics</subject><subject>Dehydration - metabolism</subject><subject>Drought</subject><subject>Drought resistance</subject><subject>Gene expression</subject><subject>Gene Expression Profiling</subject><subject>Gene Expression Regulation, Plant - genetics</subject><subject>Genome, Plant</subject><subject>Genomes</subject><subject>Histology</subject><subject>Homology</subject><subject>Life Sciences</subject><subject>Morphology</subject><subject>Oilseeds</subject><subject>Original Article</subject><subject>Phylogenetics</subject><subject>Phylogeny</subject><subject>Plant Proteins - genetics</subject><subject>Plant Proteins - metabolism</subject><subject>Seedlings</subject><subject>Seedlings - genetics</subject><subject>Seedlings - metabolism</subject><subject>Sesamum</subject><subject>Sesamum - genetics</subject><subject>Sesamum - metabolism</subject><subject>Soil moisture</subject><subject>Transcription factors</subject><subject>Transcription Factors - genetics</subject><subject>Transcription Factors - metabolism</subject><subject>Water content</subject><issn>0301-4851</issn><issn>1573-4978</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2022</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>ABUWG</sourceid><sourceid>AFKRA</sourceid><sourceid>AZQEC</sourceid><sourceid>BENPR</sourceid><sourceid>CCPQU</sourceid><sourceid>DWQXO</sourceid><sourceid>GNUQQ</sourceid><recordid>eNp9kc1u1TAQRi0EoreFF2CBLLFhE_Bf4mSJWmivVAmkths2kZNMgqvEDh5H4j4Wb1inuYDEohuPpTlzRvZHyBvOPnDG9EfknEmZMcEzpplQmXhGdjzXMlOVLp-THZOMZ6rM-Qk5RbxnjCmu85fkRKqqkloUO_L75oARJhNtS40z4wEtUt_Tq4vs-_4bjcE4bIOdo_WO9qaNPiC1jiKgmYAO4HwqxnXrFSj8mgMgrvAcfG9H64ZVd2OPwnY0iHRPwUWzdbvgl-FHpBjXSZqO2bukpyZSMGE8pF3QPaIYzQCvyIvejAivj_WM3H35fHt-lV1_vdyff7rOWsWrmDU573pTirbpIe8KI3RV6EYp0A3klZaaNZVgTSd5nwMoWSmtjWSdrmTJNTB5Rt5v3vSQnwtgrCeLLYyjceAXrEXBSyELzVf03X_ovV9C-s2VklzpXHGZKLFRbfCIAfp6DnYy4VBzVq-B1lugdQq0fgy0Fmno7VG9NBN0f0f-JJgAuQGYWm6A8G_3E9oH3vittQ</recordid><startdate>20220301</startdate><enddate>20220301</enddate><creator>Mehmood, Maryam</creator><creator>Khan, Muhammad Jadoon</creator><creator>Khan, Muhammad Jawad</creator><creator>Akhtar, Nadeem</creator><creator>Mughal, Fizza</creator><creator>Shah, Syed Tahir Abbas</creator><creator>Hyder, Muhammad Zeeshan</creator><creator>Farrakh, Sumaira</creator><creator>Sadiq, Irfan</creator><general>Springer Netherlands</general><general>Springer Nature B.V</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>7TK</scope><scope>7TM</scope><scope>7X7</scope><scope>7XB</scope><scope>88A</scope><scope>88E</scope><scope>88I</scope><scope>8AO</scope><scope>8FD</scope><scope>8FE</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABUWG</scope><scope>AFKRA</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FR3</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>P64</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PRINS</scope><scope>Q9U</scope><scope>RC3</scope><scope>7X8</scope></search><sort><creationdate>20220301</creationdate><title>Systematic analysis of HD-ZIP transcription factors in sesame genome and gene expression profiling of SiHD-ZIP class I entailing drought stress responses at early seedling stage</title><author>Mehmood, Maryam ; Khan, Muhammad Jadoon ; Khan, Muhammad Jawad ; Akhtar, Nadeem ; Mughal, Fizza ; Shah, Syed Tahir Abbas ; Hyder, Muhammad Zeeshan ; Farrakh, Sumaira ; Sadiq, Irfan</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c419t-b51dfa82cbfe5d6a27967b44e7be597370b920bd31f5ee439477a30d793817e03</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2022</creationdate><topic>Amino acid sequence</topic><topic>Animal Anatomy</topic><topic>Animal Biochemistry</topic><topic>Arabidopsis</topic><topic>Biomedical and Life Sciences</topic><topic>Dehydration - genetics</topic><topic>Dehydration - metabolism</topic><topic>Drought</topic><topic>Drought resistance</topic><topic>Gene expression</topic><topic>Gene Expression Profiling</topic><topic>Gene Expression Regulation, Plant - genetics</topic><topic>Genome, Plant</topic><topic>Genomes</topic><topic>Histology</topic><topic>Homology</topic><topic>Life Sciences</topic><topic>Morphology</topic><topic>Oilseeds</topic><topic>Original Article</topic><topic>Phylogenetics</topic><topic>Phylogeny</topic><topic>Plant Proteins - genetics</topic><topic>Plant Proteins - metabolism</topic><topic>Seedlings</topic><topic>Seedlings - genetics</topic><topic>Seedlings - metabolism</topic><topic>Sesamum</topic><topic>Sesamum - genetics</topic><topic>Sesamum - metabolism</topic><topic>Soil moisture</topic><topic>Transcription factors</topic><topic>Transcription Factors - genetics</topic><topic>Transcription Factors - metabolism</topic><topic>Water content</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Mehmood, Maryam</creatorcontrib><creatorcontrib>Khan, Muhammad Jadoon</creatorcontrib><creatorcontrib>Khan, Muhammad Jawad</creatorcontrib><creatorcontrib>Akhtar, Nadeem</creatorcontrib><creatorcontrib>Mughal, Fizza</creatorcontrib><creatorcontrib>Shah, Syed Tahir Abbas</creatorcontrib><creatorcontrib>Hyder, Muhammad Zeeshan</creatorcontrib><creatorcontrib>Farrakh, Sumaira</creatorcontrib><creatorcontrib>Sadiq, Irfan</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>Neurosciences Abstracts</collection><collection>Nucleic Acids Abstracts</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 Pharma Collection</collection><collection>Technology Research Database</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 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>Engineering Research Database</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>Biotechnology and BioEngineering Abstracts</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>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><jtitle>Molecular biology reports</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Mehmood, Maryam</au><au>Khan, Muhammad Jadoon</au><au>Khan, Muhammad Jawad</au><au>Akhtar, Nadeem</au><au>Mughal, Fizza</au><au>Shah, Syed Tahir Abbas</au><au>Hyder, Muhammad Zeeshan</au><au>Farrakh, Sumaira</au><au>Sadiq, Irfan</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Systematic analysis of HD-ZIP transcription factors in sesame genome and gene expression profiling of SiHD-ZIP class I entailing drought stress responses at early seedling stage</atitle><jtitle>Molecular biology reports</jtitle><stitle>Mol Biol Rep</stitle><addtitle>Mol Biol Rep</addtitle><date>2022-03-01</date><risdate>2022</risdate><volume>49</volume><issue>3</issue><spage>2059</spage><epage>2071</epage><pages>2059-2071</pages><issn>0301-4851</issn><eissn>1573-4978</eissn><abstract>Background
Sesame is an ancient oilseed crop, known for its high oil content and quality. Its sensitivity to drought at early seedling stage is one of the limiting factors affecting its world-wide growth and productivity. Among plant specific transcription factors, the association of HD-ZIPs with sesame drought responses at early seedling stage is not well-established yet and is very important to develop our molecular understanding on sesame drought tolerance.
Methods and results
In this study, total 61 sesame HD-ZIP proteins were identified, based on their protein sequence homology with Arabidopsis and protein domain(s) architecture prediction, followed by their phylogenetic, conserved domain(s) motifs and gene structure analyses to classify them into four classes (HD-ZIP Class I-IV). HD-ZIP Class I was also subdivided into four subgroups: α (SiHZ25, SiHZ43, SiHZ9 and SiHZ16), β1 (SiHZ10, SiHZ30, SiHZ32 and SiHZ26), β2 (SiHZ42 and SiHZ45) and γ (SiHZ17, SiHZ7 and SiHZ35) by a comparative phylogenetic analysis of sesame with Arabidopsis and maize. Afterwards, twenty-one days old sesame seedlings were exposed to drought stress by withholding water for 7 days (when soil moisture content reduced to ~16%) and gene expression of HD-ZIP Class I (13 members) was performed in well- watered (control) and drought stressed seedlings. The gene expression analysis showed that the expressions of
SiHZ7
(6.8 fold) and
SiHZ35
(2.6 fold) from γ subgroup were significantly high in drought seedlings.
Conclusions
This study is useful in demonstrating the role of SiHD-ZIP Class I in sesame drought responses at early seedling stage and to develop its novel drought tolerant varieties</abstract><cop>Dordrecht</cop><pub>Springer Netherlands</pub><pmid>34993726</pmid><doi>10.1007/s11033-021-07024-2</doi><tpages>13</tpages><oa>free_for_read</oa></addata></record> |
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| subjects | Amino acid sequence Animal Anatomy Animal Biochemistry Arabidopsis Biomedical and Life Sciences Dehydration - genetics Dehydration - metabolism Drought Drought resistance Gene expression Gene Expression Profiling Gene Expression Regulation, Plant - genetics Genome, Plant Genomes Histology Homology Life Sciences Morphology Oilseeds Original Article Phylogenetics Phylogeny Plant Proteins - genetics Plant Proteins - metabolism Seedlings Seedlings - genetics Seedlings - metabolism Sesamum Sesamum - genetics Sesamum - metabolism Soil moisture Transcription factors Transcription Factors - genetics Transcription Factors - metabolism Water content |
| title | Systematic analysis of HD-ZIP transcription factors in sesame genome and gene expression profiling of SiHD-ZIP class I entailing drought stress responses at early seedling stage |
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