Genome-Wide Characterization of the <i>R2R3-MYB</i> Gene Family in <i>Diospyros oleifera</i>
The <i>MYB</i> gene family is one of the largest transcription factor families, which is clustered into four subfamilies according to the number of imperfect amino acid sequences repeats in their conserved MYB domain. <i>R2R3-MYB</i> is the largest subfamily that plays a dive...
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MDPI AG
2023-04-01
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| Series: | Agriculture |
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| Online Access: | https://www.mdpi.com/2077-0472/13/5/955 |
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| author | Kang Ji Cuiyu Liu Kaiyun Wu Zhihui Yue Yi Dong Bangchu Gong Yang Xu |
| author_facet | Kang Ji Cuiyu Liu Kaiyun Wu Zhihui Yue Yi Dong Bangchu Gong Yang Xu |
| author_sort | Kang Ji |
| collection | DOAJ |
| description | The <i>MYB</i> gene family is one of the largest transcription factor families, which is clustered into four subfamilies according to the number of imperfect amino acid sequences repeats in their conserved MYB domain. <i>R2R3-MYB</i> is the largest subfamily that plays a diverse role in plant growth and development as well as adversity stresses. <i>Diospyros</i> has a wide range of applications in biomedical science and the food, wood, and chemical industries. Among these species, <i>Diospyros oleifera</i> can be used as a model plant for the <i>Diospyros</i> genus and the Ebenaceae family. Although the genome sequence of <i>Diospyros oleifera</i> was recently published in our previous work, bioinformatics and expression pattern analysis of the <i>MYB</i> gene family are limited. Here, we present the findings of a genome-wide analysis and the expression profiles of the R2R3-MYB transcription factor in <i>Diospyros oleifera</i>. A total of 129 <i>R2R3-MYB</i> genes were identified and classified into 28 groups (C1–C28) which had conserved motifs. The subfamily genes were unevenly distributed in 15 chromosomes; chromosome 6 and 7 have the most <i>DoMYB</i> genes. A total of 44 fragment replication events containing 57 <i>DoMYB</i> genes were identified using synteny analysis. In addition, collinear analysis revealed that 70 (54%) pairs of <i>R2R3-MYB</i> genes of <i>Diospyros oleifera</i> were collinear with <i>Arabidopsis thaliana</i>. Upon combining the data from RNA-seq and qRT-PCR, four key genes were screened and identified to correlate with the soluble tannin content during fruit development. <i>DoMYB22</i> may be related to the synthesis of soluble tannin in persimmon. These results lay an important foundation for further studies on the <i>R2R3-MYB</i> gene function in persimmon fruit development. |
| first_indexed | 2024-03-11T04:02:13Z |
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| id | doaj.art-0485c7a64b1b45a5ac3fa9cc68e9b32b |
| institution | Directory Open Access Journal |
| issn | 2077-0472 |
| language | English |
| last_indexed | 2024-03-11T04:02:13Z |
| publishDate | 2023-04-01 |
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| series | Agriculture |
| spelling | doaj.art-0485c7a64b1b45a5ac3fa9cc68e9b32b2023-11-18T00:01:41ZengMDPI AGAgriculture2077-04722023-04-0113595510.3390/agriculture13050955Genome-Wide Characterization of the <i>R2R3-MYB</i> Gene Family in <i>Diospyros oleifera</i>Kang Ji0Cuiyu Liu1Kaiyun Wu2Zhihui Yue3Yi Dong4Bangchu Gong5Yang Xu6Research Institute of Subtropical Forestry, Chinese Academy of Forestry, Hangzhou 311400, ChinaResearch Institute of Subtropical Forestry, Chinese Academy of Forestry, Hangzhou 311400, ChinaResearch Institute of Subtropical Forestry, Chinese Academy of Forestry, Hangzhou 311400, ChinaResearch Institute of Subtropical Forestry, Chinese Academy of Forestry, Hangzhou 311400, ChinaResearch Institute of Subtropical Forestry, Chinese Academy of Forestry, Hangzhou 311400, ChinaResearch Institute of Subtropical Forestry, Chinese Academy of Forestry, Hangzhou 311400, ChinaResearch Institute of Subtropical Forestry, Chinese Academy of Forestry, Hangzhou 311400, ChinaThe <i>MYB</i> gene family is one of the largest transcription factor families, which is clustered into four subfamilies according to the number of imperfect amino acid sequences repeats in their conserved MYB domain. <i>R2R3-MYB</i> is the largest subfamily that plays a diverse role in plant growth and development as well as adversity stresses. <i>Diospyros</i> has a wide range of applications in biomedical science and the food, wood, and chemical industries. Among these species, <i>Diospyros oleifera</i> can be used as a model plant for the <i>Diospyros</i> genus and the Ebenaceae family. Although the genome sequence of <i>Diospyros oleifera</i> was recently published in our previous work, bioinformatics and expression pattern analysis of the <i>MYB</i> gene family are limited. Here, we present the findings of a genome-wide analysis and the expression profiles of the R2R3-MYB transcription factor in <i>Diospyros oleifera</i>. A total of 129 <i>R2R3-MYB</i> genes were identified and classified into 28 groups (C1–C28) which had conserved motifs. The subfamily genes were unevenly distributed in 15 chromosomes; chromosome 6 and 7 have the most <i>DoMYB</i> genes. A total of 44 fragment replication events containing 57 <i>DoMYB</i> genes were identified using synteny analysis. In addition, collinear analysis revealed that 70 (54%) pairs of <i>R2R3-MYB</i> genes of <i>Diospyros oleifera</i> were collinear with <i>Arabidopsis thaliana</i>. Upon combining the data from RNA-seq and qRT-PCR, four key genes were screened and identified to correlate with the soluble tannin content during fruit development. <i>DoMYB22</i> may be related to the synthesis of soluble tannin in persimmon. These results lay an important foundation for further studies on the <i>R2R3-MYB</i> gene function in persimmon fruit development.https://www.mdpi.com/2077-0472/13/5/955<i>D. oleifera</i><i>MYB</i> gene family analysis<i>R2R3-MYB</i> subfamilytannin |
| spellingShingle | Kang Ji Cuiyu Liu Kaiyun Wu Zhihui Yue Yi Dong Bangchu Gong Yang Xu Genome-Wide Characterization of the <i>R2R3-MYB</i> Gene Family in <i>Diospyros oleifera</i> Agriculture <i>D. oleifera</i> <i>MYB</i> gene family analysis <i>R2R3-MYB</i> subfamily tannin |
| title | Genome-Wide Characterization of the <i>R2R3-MYB</i> Gene Family in <i>Diospyros oleifera</i> |
| title_full | Genome-Wide Characterization of the <i>R2R3-MYB</i> Gene Family in <i>Diospyros oleifera</i> |
| title_fullStr | Genome-Wide Characterization of the <i>R2R3-MYB</i> Gene Family in <i>Diospyros oleifera</i> |
| title_full_unstemmed | Genome-Wide Characterization of the <i>R2R3-MYB</i> Gene Family in <i>Diospyros oleifera</i> |
| title_short | Genome-Wide Characterization of the <i>R2R3-MYB</i> Gene Family in <i>Diospyros oleifera</i> |
| title_sort | genome wide characterization of the i r2r3 myb i gene family in i diospyros oleifera i |
| topic | <i>D. oleifera</i> <i>MYB</i> gene family analysis <i>R2R3-MYB</i> subfamily tannin |
| url | https://www.mdpi.com/2077-0472/13/5/955 |
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