Unveiling Key Genes and Unique Transcription Factors Involved in Secondary Cell Wall Formation in Pinus taeda
is a key timber species, and extensive research has been conducted on its wood formation. However, a comprehensive investigation into the biosynthetic pathways of lignin, cellulose, and hemicellulose in is lacking, resulting in an incomplete understanding of secondary cell wall (SCW) formation in th...
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| Veröffentlicht in: | International journal of molecular sciences 2024-11, Vol.25 (21), p.11805 |
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| creator | Ding, Wei Tu, Zhonghua Gong, Bin Deng, Zhaolei Liu, Qian Gu, Zhenjun Yang, Chunxia |
| description | is a key timber species, and extensive research has been conducted on its wood formation. However, a comprehensive investigation into the biosynthetic pathways of lignin, cellulose, and hemicellulose in
is lacking, resulting in an incomplete understanding of secondary cell wall (SCW) formation in this species. In this study, we systematically analyzed transcriptomic data from previously published sources and constructed detailed pathways for lignin, cellulose, and hemicellulose biosynthesis. We identified 188 lignin-related genes and 78 genes associated with cellulose and hemicellulose biosynthesis. An RT-qPCR highlighted 15 key lignin biosynthesis genes and 13 crucial genes for cellulose and hemicellulose biosynthesis. A STEM analysis showed that most essential enzyme-coding genes clustered into Profile 14, suggesting their significant role in SCW formation. Additionally, we identified seven NAC and six MYB transcription factors (TFs) from atypical evolutionary clades, with distinct expression patterns from those of the previously characterized
and
genes, indicating potentially unique functions in SCW formation. This research provides the first comprehensive overview of lignin, cellulose, and hemicellulose biosynthetic genes in
and underscores the importance of non-canonical NAC and MYB TFs, laying a genetic foundation for future studies on SCW regulatory mechanisms. |
| doi_str_mv | 10.3390/ijms252111805 |
| format | Article |
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is lacking, resulting in an incomplete understanding of secondary cell wall (SCW) formation in this species. In this study, we systematically analyzed transcriptomic data from previously published sources and constructed detailed pathways for lignin, cellulose, and hemicellulose biosynthesis. We identified 188 lignin-related genes and 78 genes associated with cellulose and hemicellulose biosynthesis. An RT-qPCR highlighted 15 key lignin biosynthesis genes and 13 crucial genes for cellulose and hemicellulose biosynthesis. A STEM analysis showed that most essential enzyme-coding genes clustered into Profile 14, suggesting their significant role in SCW formation. Additionally, we identified seven NAC and six MYB transcription factors (TFs) from atypical evolutionary clades, with distinct expression patterns from those of the previously characterized
and
genes, indicating potentially unique functions in SCW formation. This research provides the first comprehensive overview of lignin, cellulose, and hemicellulose biosynthetic genes in
and underscores the importance of non-canonical NAC and MYB TFs, laying a genetic foundation for future studies on SCW regulatory mechanisms.</description><identifier>ISSN: 1422-0067</identifier><identifier>ISSN: 1661-6596</identifier><identifier>EISSN: 1422-0067</identifier><identifier>DOI: 10.3390/ijms252111805</identifier><identifier>PMID: 39519356</identifier><language>eng</language><publisher>Switzerland: MDPI AG</publisher><subject>Alcohol ; Biosynthesis ; Cell Wall - genetics ; Cell Wall - metabolism ; Cellulose ; Cellulose - biosynthesis ; Cellulose - metabolism ; Dehydrogenases ; Development ; Enzymes ; Gene Expression Profiling - methods ; Gene Expression Regulation, Plant ; Genes ; Genetic aspects ; Glucose ; Identification and classification ; Lignin ; Lignin - biosynthesis ; Lignin - genetics ; Lignin - metabolism ; Loblolly-pine ; Phylogeny ; Physiological aspects ; Pinus taeda - genetics ; Pinus taeda - metabolism ; Plant Proteins - genetics ; Plant Proteins - metabolism ; Plants ; Polysaccharides - biosynthesis ; Polysaccharides - metabolism ; Transcription factors ; Transcription Factors - genetics ; Transcription Factors - metabolism ; Transcriptome</subject><ispartof>International journal of molecular sciences, 2024-11, Vol.25 (21), p.11805</ispartof><rights>COPYRIGHT 2024 MDPI AG</rights><rights>2024 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>2024 by the authors. 2024</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><cites>FETCH-LOGICAL-c369t-2bdbbde010a18ec6550e5a14a82cf8dbf7fc146edf63c41c3bf10280b903133e3</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/PMC11545933/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC11545933/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,315,728,781,785,886,27928,27929,53795,53797</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/39519356$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Ding, Wei</creatorcontrib><creatorcontrib>Tu, Zhonghua</creatorcontrib><creatorcontrib>Gong, Bin</creatorcontrib><creatorcontrib>Deng, Zhaolei</creatorcontrib><creatorcontrib>Liu, Qian</creatorcontrib><creatorcontrib>Gu, Zhenjun</creatorcontrib><creatorcontrib>Yang, Chunxia</creatorcontrib><title>Unveiling Key Genes and Unique Transcription Factors Involved in Secondary Cell Wall Formation in Pinus taeda</title><title>International journal of molecular sciences</title><addtitle>Int J Mol Sci</addtitle><description>is a key timber species, and extensive research has been conducted on its wood formation. However, a comprehensive investigation into the biosynthetic pathways of lignin, cellulose, and hemicellulose in
is lacking, resulting in an incomplete understanding of secondary cell wall (SCW) formation in this species. In this study, we systematically analyzed transcriptomic data from previously published sources and constructed detailed pathways for lignin, cellulose, and hemicellulose biosynthesis. We identified 188 lignin-related genes and 78 genes associated with cellulose and hemicellulose biosynthesis. An RT-qPCR highlighted 15 key lignin biosynthesis genes and 13 crucial genes for cellulose and hemicellulose biosynthesis. A STEM analysis showed that most essential enzyme-coding genes clustered into Profile 14, suggesting their significant role in SCW formation. Additionally, we identified seven NAC and six MYB transcription factors (TFs) from atypical evolutionary clades, with distinct expression patterns from those of the previously characterized
and
genes, indicating potentially unique functions in SCW formation. This research provides the first comprehensive overview of lignin, cellulose, and hemicellulose biosynthetic genes in
and underscores the importance of non-canonical NAC and MYB TFs, laying a genetic foundation for future studies on SCW regulatory mechanisms.</description><subject>Alcohol</subject><subject>Biosynthesis</subject><subject>Cell Wall - genetics</subject><subject>Cell Wall - metabolism</subject><subject>Cellulose</subject><subject>Cellulose - biosynthesis</subject><subject>Cellulose - metabolism</subject><subject>Dehydrogenases</subject><subject>Development</subject><subject>Enzymes</subject><subject>Gene Expression Profiling - methods</subject><subject>Gene Expression Regulation, Plant</subject><subject>Genes</subject><subject>Genetic aspects</subject><subject>Glucose</subject><subject>Identification and classification</subject><subject>Lignin</subject><subject>Lignin - biosynthesis</subject><subject>Lignin - genetics</subject><subject>Lignin - metabolism</subject><subject>Loblolly-pine</subject><subject>Phylogeny</subject><subject>Physiological aspects</subject><subject>Pinus taeda - genetics</subject><subject>Pinus taeda - metabolism</subject><subject>Plant Proteins - genetics</subject><subject>Plant Proteins - metabolism</subject><subject>Plants</subject><subject>Polysaccharides - biosynthesis</subject><subject>Polysaccharides - metabolism</subject><subject>Transcription factors</subject><subject>Transcription Factors - genetics</subject><subject>Transcription Factors - metabolism</subject><subject>Transcriptome</subject><issn>1422-0067</issn><issn>1661-6596</issn><issn>1422-0067</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2024</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>eNptkt1rFDEUxYMotlYffZWAL75MzedM5knK0q2lBQW7-BgyyZ01y0yyJjML_e_N2g92RQJJSH73JPdwEHpPyTnnLfnsN2NmklFKFZEv0CkVjFWE1M3Lg_0JepPzhhDGmWxfoxPeStpyWZ-icRV24Acf1vgG7vEVBMjYBIdXwf-eAd8lE7JNfjv5GPDS2CmmjK_DLg47cNgH_ANsDM6ke7yAYcA_TZmWMY3mb0UBvvswZzwZcOYtetWbIcO7x_UMrZaXd4uv1e23q-vFxW1led1OFetc1zkglBiqwNZSEpCGCqOY7ZXr-qa3VNTg-ppbQS3vekqYIl1LOOUc-Bn68qC7nbsRnIUwJTPobfJj-aiOxuvjm-B_6XXcaUqlkC3nReHTo0KKxYc86dFnWxo0AeKcNadMNULIpinox3_QTZxTKP3tqZoIVasDam0G0D70sTxs96L6QlHJhazbPXX-H6oMB6MvPkPvy_lRQfVQYFPMOUH_3CQleh8QfRSQwn84dOaZfkoE_wMJJ7a2</recordid><startdate>20241103</startdate><enddate>20241103</enddate><creator>Ding, Wei</creator><creator>Tu, Zhonghua</creator><creator>Gong, Bin</creator><creator>Deng, Zhaolei</creator><creator>Liu, Qian</creator><creator>Gu, Zhenjun</creator><creator>Yang, Chunxia</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>20241103</creationdate><title>Unveiling Key Genes and Unique Transcription Factors Involved in Secondary Cell Wall Formation in Pinus taeda</title><author>Ding, Wei ; 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However, a comprehensive investigation into the biosynthetic pathways of lignin, cellulose, and hemicellulose in
is lacking, resulting in an incomplete understanding of secondary cell wall (SCW) formation in this species. In this study, we systematically analyzed transcriptomic data from previously published sources and constructed detailed pathways for lignin, cellulose, and hemicellulose biosynthesis. We identified 188 lignin-related genes and 78 genes associated with cellulose and hemicellulose biosynthesis. An RT-qPCR highlighted 15 key lignin biosynthesis genes and 13 crucial genes for cellulose and hemicellulose biosynthesis. A STEM analysis showed that most essential enzyme-coding genes clustered into Profile 14, suggesting their significant role in SCW formation. Additionally, we identified seven NAC and six MYB transcription factors (TFs) from atypical evolutionary clades, with distinct expression patterns from those of the previously characterized
and
genes, indicating potentially unique functions in SCW formation. This research provides the first comprehensive overview of lignin, cellulose, and hemicellulose biosynthetic genes in
and underscores the importance of non-canonical NAC and MYB TFs, laying a genetic foundation for future studies on SCW regulatory mechanisms.</abstract><cop>Switzerland</cop><pub>MDPI AG</pub><pmid>39519356</pmid><doi>10.3390/ijms252111805</doi><oa>free_for_read</oa></addata></record> |
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| subjects | Alcohol Biosynthesis Cell Wall - genetics Cell Wall - metabolism Cellulose Cellulose - biosynthesis Cellulose - metabolism Dehydrogenases Development Enzymes Gene Expression Profiling - methods Gene Expression Regulation, Plant Genes Genetic aspects Glucose Identification and classification Lignin Lignin - biosynthesis Lignin - genetics Lignin - metabolism Loblolly-pine Phylogeny Physiological aspects Pinus taeda - genetics Pinus taeda - metabolism Plant Proteins - genetics Plant Proteins - metabolism Plants Polysaccharides - biosynthesis Polysaccharides - metabolism Transcription factors Transcription Factors - genetics Transcription Factors - metabolism Transcriptome |
| title | Unveiling Key Genes and Unique Transcription Factors Involved in Secondary Cell Wall Formation in Pinus taeda |
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