Genome-Wide Identification and Expression Analysis of the Xyloglucan Endotransglucosylase/Hydrolase Gene Family in Sweet Potato [<i>Ipomoea batatas</i> (L.) Lam]
The xyloglucan endotransglucosylase/hydrolase (XET/XEH, also named XTH) family is a multigene family, the function of which plays a significant role in cell-wall rebuilding and stress tolerance in plants. However, the specific traits of the <i>XTH</i> gene family members and their expres...
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| Format: | Article |
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MDPI AG
2023-01-01
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| Series: | International Journal of Molecular Sciences |
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| Online Access: | https://www.mdpi.com/1422-0067/24/1/775 |
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| author | Jing-Zhen Zhang Pei-Wen He Xi-Ming Xu Zun-Fu Lü Peng Cui Melvin Sidikie George Guo-Quan Lu |
| author_facet | Jing-Zhen Zhang Pei-Wen He Xi-Ming Xu Zun-Fu Lü Peng Cui Melvin Sidikie George Guo-Quan Lu |
| author_sort | Jing-Zhen Zhang |
| collection | DOAJ |
| description | The xyloglucan endotransglucosylase/hydrolase (XET/XEH, also named XTH) family is a multigene family, the function of which plays a significant role in cell-wall rebuilding and stress tolerance in plants. However, the specific traits of the <i>XTH</i> gene family members and their expression pattern in different tissues and under stress have not been carried out in sweet potato. Thirty-six XTH genes were identified in <i>I. batatas,</i> all of which had conserved structures (Glyco_hydro_16). Based on Neighbor-Joining phylogenetic analysis the <i>IbXTHs</i> can be divided into three subfamilies—the I/II, IIIA, and IIIB subfamilies, which were unevenly distributed on 13 chromosomes, with the exception of Chr9 and Chr15. Multiple cis-acting regions related to growth and development, as well as stress responses, may be found in the <i>IbXTH</i> gene promoters. The segmental duplication occurrences greatly aided the evolution of <i>IbXTHs</i>. The results of a collinearity analysis showed that the <i>XTH</i> genes of sweet potato shared evolutionary history with three additional species, including <i>A. thaliana</i>, <i>G. max</i>, and <i>O. sativa</i>. Additionally, based on the transcriptome sequencing data, the results revealed that the <i>IbXTHs</i> have different expression patterns in leaves, stems, the root body (RB), the distal end (DE), the root stock (RS), the proximal end (PE), the initiative storage root (ISR), and the fibrous root (FR), and many of them are well expressed in the roots. Differentially expressed gene (DEG) analysis of FRs after hormone treatment of the roots indicated that IbXTH28 and IbXTH30 are up-regulated under salicylic acid (SA) treatment but down-regulated under methyl jasmonate (MeJA) treatment. Attentionally, there were only two genes showing down-regulation under the cold and drought treatment. Collectively, all of the findings suggested that genes from the XTH family are crucial for root specificity. This study could provide a theoretical basis for further research on the molecular function of sweet potato <i>XTH</i> genes. |
| first_indexed | 2024-03-11T09:57:38Z |
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| id | doaj.art-20137d4f1ec747d3b29aa1ac07eb0a3d |
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| issn | 1661-6596 1422-0067 |
| language | English |
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| spelling | doaj.art-20137d4f1ec747d3b29aa1ac07eb0a3d2023-11-16T15:38:18ZengMDPI AGInternational Journal of Molecular Sciences1661-65961422-00672023-01-0124177510.3390/ijms24010775Genome-Wide Identification and Expression Analysis of the Xyloglucan Endotransglucosylase/Hydrolase Gene Family in Sweet Potato [<i>Ipomoea batatas</i> (L.) Lam]Jing-Zhen Zhang0Pei-Wen He1Xi-Ming Xu2Zun-Fu Lü3Peng Cui4Melvin Sidikie George5Guo-Quan Lu6College of Advanced Agricultural Sciences, Zhejiang A&F University, Hangzhou 311300, ChinaCollege of Advanced Agricultural Sciences, Zhejiang A&F University, Hangzhou 311300, ChinaCollege of Advanced Agricultural Sciences, Zhejiang A&F University, Hangzhou 311300, ChinaCollege of Advanced Agricultural Sciences, Zhejiang A&F University, Hangzhou 311300, ChinaCollege of Advanced Agricultural Sciences, Zhejiang A&F University, Hangzhou 311300, ChinaCrop Science Department, Njala University, Njala Campus, Private Mail bag, Freetown 999127, Sierra LeoneCollege of Advanced Agricultural Sciences, Zhejiang A&F University, Hangzhou 311300, ChinaThe xyloglucan endotransglucosylase/hydrolase (XET/XEH, also named XTH) family is a multigene family, the function of which plays a significant role in cell-wall rebuilding and stress tolerance in plants. However, the specific traits of the <i>XTH</i> gene family members and their expression pattern in different tissues and under stress have not been carried out in sweet potato. Thirty-six XTH genes were identified in <i>I. batatas,</i> all of which had conserved structures (Glyco_hydro_16). Based on Neighbor-Joining phylogenetic analysis the <i>IbXTHs</i> can be divided into three subfamilies—the I/II, IIIA, and IIIB subfamilies, which were unevenly distributed on 13 chromosomes, with the exception of Chr9 and Chr15. Multiple cis-acting regions related to growth and development, as well as stress responses, may be found in the <i>IbXTH</i> gene promoters. The segmental duplication occurrences greatly aided the evolution of <i>IbXTHs</i>. The results of a collinearity analysis showed that the <i>XTH</i> genes of sweet potato shared evolutionary history with three additional species, including <i>A. thaliana</i>, <i>G. max</i>, and <i>O. sativa</i>. Additionally, based on the transcriptome sequencing data, the results revealed that the <i>IbXTHs</i> have different expression patterns in leaves, stems, the root body (RB), the distal end (DE), the root stock (RS), the proximal end (PE), the initiative storage root (ISR), and the fibrous root (FR), and many of them are well expressed in the roots. Differentially expressed gene (DEG) analysis of FRs after hormone treatment of the roots indicated that IbXTH28 and IbXTH30 are up-regulated under salicylic acid (SA) treatment but down-regulated under methyl jasmonate (MeJA) treatment. Attentionally, there were only two genes showing down-regulation under the cold and drought treatment. Collectively, all of the findings suggested that genes from the XTH family are crucial for root specificity. This study could provide a theoretical basis for further research on the molecular function of sweet potato <i>XTH</i> genes.https://www.mdpi.com/1422-0067/24/1/775<i>Ipomoea batatas</i>xyloglucan endotransglucosylases/hydrolases (<i>XTH</i>s) gene familygene-wide identification |
| spellingShingle | Jing-Zhen Zhang Pei-Wen He Xi-Ming Xu Zun-Fu Lü Peng Cui Melvin Sidikie George Guo-Quan Lu Genome-Wide Identification and Expression Analysis of the Xyloglucan Endotransglucosylase/Hydrolase Gene Family in Sweet Potato [<i>Ipomoea batatas</i> (L.) Lam] International Journal of Molecular Sciences <i>Ipomoea batatas</i> xyloglucan endotransglucosylases/hydrolases (<i>XTH</i>s) gene family gene-wide identification |
| title | Genome-Wide Identification and Expression Analysis of the Xyloglucan Endotransglucosylase/Hydrolase Gene Family in Sweet Potato [<i>Ipomoea batatas</i> (L.) Lam] |
| title_full | Genome-Wide Identification and Expression Analysis of the Xyloglucan Endotransglucosylase/Hydrolase Gene Family in Sweet Potato [<i>Ipomoea batatas</i> (L.) Lam] |
| title_fullStr | Genome-Wide Identification and Expression Analysis of the Xyloglucan Endotransglucosylase/Hydrolase Gene Family in Sweet Potato [<i>Ipomoea batatas</i> (L.) Lam] |
| title_full_unstemmed | Genome-Wide Identification and Expression Analysis of the Xyloglucan Endotransglucosylase/Hydrolase Gene Family in Sweet Potato [<i>Ipomoea batatas</i> (L.) Lam] |
| title_short | Genome-Wide Identification and Expression Analysis of the Xyloglucan Endotransglucosylase/Hydrolase Gene Family in Sweet Potato [<i>Ipomoea batatas</i> (L.) Lam] |
| title_sort | genome wide identification and expression analysis of the xyloglucan endotransglucosylase hydrolase gene family in sweet potato i ipomoea batatas i l lam |
| topic | <i>Ipomoea batatas</i> xyloglucan endotransglucosylases/hydrolases (<i>XTH</i>s) gene family gene-wide identification |
| url | https://www.mdpi.com/1422-0067/24/1/775 |
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