Genome-Wide Analysis of SQUAMOSA-Promoter-Binding Protein-like Family in Flowering <i>Pleioblastus pygmaeus</i>
SQUAMOSA Promoter-Binding Protein-Like (SPL) family is well-known for playing an important role in plant growth and development, specifically in the reproductive process. Bamboo plants have special reproductive characteristics with a prolonged vegetative phase and uncertain flowering time. However,...
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MDPI AG
2022-11-01
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| Series: | International Journal of Molecular Sciences |
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| Online Access: | https://www.mdpi.com/1422-0067/23/22/14035 |
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| author | Wenjing Yao Chuanzhe Li Huajun Fu Meng Yang Hongyu Wu Yulong Ding Long Li Shuyan Lin |
| author_facet | Wenjing Yao Chuanzhe Li Huajun Fu Meng Yang Hongyu Wu Yulong Ding Long Li Shuyan Lin |
| author_sort | Wenjing Yao |
| collection | DOAJ |
| description | SQUAMOSA Promoter-Binding Protein-Like (SPL) family is well-known for playing an important role in plant growth and development, specifically in the reproductive process. Bamboo plants have special reproductive characteristics with a prolonged vegetative phase and uncertain flowering time. However, the underlying functions of SPL genes in reproductive growth are undisclosed in bamboo plants. In the study, a total of 28 SPLs were screened from an ornamental dwarf bamboo species, <i>Pleioblastus pygmaeus</i>. Phylogenetic analysis indicates that 183 SPLs from eight plant species can be classified into nine subfamilies, and the 28 <i>PpSPLs</i> are distributed among eight subfamilies. Homologous analysis shows that as many as 32 pairs of homologous genes were found between <i>P</i>. <i>pygmaeus</i> and rice, and 83 pairs were found between <i>P</i>. <i>pygmaeus</i> and Moso bamboo, whose Ka/Ks values are all <1. MiRNA target prediction reveals that 13 out of the 28 <i>PpSPLs</i> have recognition sites complementary to <i>miRNA156</i>. To screen the SPLs involved in the reproductive growth of bamboo plants, the mRNA abundance of the 28 <i>PpSPLs</i> was profiled in the different tissues of flowering <i>P</i>. <i>pygmaeus</i> and non-flowering plants by RNA-Seq. Moreover, the relative expression level of eight <i>PpSPLs</i> is significantly higher in flowering <i>P</i>. <i>pygmaeus</i> than that in non-flowering plants, which was also validated by RT-qPCR. Combined with phylogenetic analysis and homologous analysis, the eight significant, differentially expressed <i>PpSPLs</i> were identified to be associated with the reproductive process and flower organ development. Among them, there are four potential <i>miRNA156</i>-targeting <i>PpSPLs</i> involved in the flowering process. Of significant interest in the study is the identification of 28 SPLs and the exploration of four key flowering-related SPLs from <i>P</i>. <i>pygmaeus</i>, which provides a theoretic basis for revealing the underlying functions of SPLs in the reproductive growth of bamboo plants. |
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| last_indexed | 2024-03-09T18:17:33Z |
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| spelling | doaj.art-42fb1939a9ad40e9a820ac4e1f4c21a92023-11-24T08:37:29ZengMDPI AGInternational Journal of Molecular Sciences1661-65961422-00672022-11-0123221403510.3390/ijms232214035Genome-Wide Analysis of SQUAMOSA-Promoter-Binding Protein-like Family in Flowering <i>Pleioblastus pygmaeus</i>Wenjing Yao0Chuanzhe Li1Huajun Fu2Meng Yang3Hongyu Wu4Yulong Ding5Long Li6Shuyan Lin7Co-Innovation Center for Sustainable Forestry in Southern China/Bamboo Research Institute, Nanjing Forestry University, 159 Longpan Road, Nanjing 210037, ChinaHuaiyin Institute of Agricultural Sciences of Xuhuai Region, Jiangsu Academy of Agricultural Sciences, Huaian 223001, ChinaCo-Innovation Center for Sustainable Forestry in Southern China/Bamboo Research Institute, Nanjing Forestry University, 159 Longpan Road, Nanjing 210037, ChinaCo-Innovation Center for Sustainable Forestry in Southern China/Bamboo Research Institute, Nanjing Forestry University, 159 Longpan Road, Nanjing 210037, ChinaCo-Innovation Center for Sustainable Forestry in Southern China/Bamboo Research Institute, Nanjing Forestry University, 159 Longpan Road, Nanjing 210037, ChinaCo-Innovation Center for Sustainable Forestry in Southern China/Bamboo Research Institute, Nanjing Forestry University, 159 Longpan Road, Nanjing 210037, ChinaCo-Innovation Center for Sustainable Forestry in Southern China/Bamboo Research Institute, Nanjing Forestry University, 159 Longpan Road, Nanjing 210037, ChinaCo-Innovation Center for Sustainable Forestry in Southern China/Bamboo Research Institute, Nanjing Forestry University, 159 Longpan Road, Nanjing 210037, ChinaSQUAMOSA Promoter-Binding Protein-Like (SPL) family is well-known for playing an important role in plant growth and development, specifically in the reproductive process. Bamboo plants have special reproductive characteristics with a prolonged vegetative phase and uncertain flowering time. However, the underlying functions of SPL genes in reproductive growth are undisclosed in bamboo plants. In the study, a total of 28 SPLs were screened from an ornamental dwarf bamboo species, <i>Pleioblastus pygmaeus</i>. Phylogenetic analysis indicates that 183 SPLs from eight plant species can be classified into nine subfamilies, and the 28 <i>PpSPLs</i> are distributed among eight subfamilies. Homologous analysis shows that as many as 32 pairs of homologous genes were found between <i>P</i>. <i>pygmaeus</i> and rice, and 83 pairs were found between <i>P</i>. <i>pygmaeus</i> and Moso bamboo, whose Ka/Ks values are all <1. MiRNA target prediction reveals that 13 out of the 28 <i>PpSPLs</i> have recognition sites complementary to <i>miRNA156</i>. To screen the SPLs involved in the reproductive growth of bamboo plants, the mRNA abundance of the 28 <i>PpSPLs</i> was profiled in the different tissues of flowering <i>P</i>. <i>pygmaeus</i> and non-flowering plants by RNA-Seq. Moreover, the relative expression level of eight <i>PpSPLs</i> is significantly higher in flowering <i>P</i>. <i>pygmaeus</i> than that in non-flowering plants, which was also validated by RT-qPCR. Combined with phylogenetic analysis and homologous analysis, the eight significant, differentially expressed <i>PpSPLs</i> were identified to be associated with the reproductive process and flower organ development. Among them, there are four potential <i>miRNA156</i>-targeting <i>PpSPLs</i> involved in the flowering process. Of significant interest in the study is the identification of 28 SPLs and the exploration of four key flowering-related SPLs from <i>P</i>. <i>pygmaeus</i>, which provides a theoretic basis for revealing the underlying functions of SPLs in the reproductive growth of bamboo plants.https://www.mdpi.com/1422-0067/23/22/14035<i>Pleioblastus pygmaeus</i>SPLsreproductive growthflora transitionflower organ development<i>miRNA156</i> |
| spellingShingle | Wenjing Yao Chuanzhe Li Huajun Fu Meng Yang Hongyu Wu Yulong Ding Long Li Shuyan Lin Genome-Wide Analysis of SQUAMOSA-Promoter-Binding Protein-like Family in Flowering <i>Pleioblastus pygmaeus</i> International Journal of Molecular Sciences <i>Pleioblastus pygmaeus</i> SPLs reproductive growth flora transition flower organ development <i>miRNA156</i> |
| title | Genome-Wide Analysis of SQUAMOSA-Promoter-Binding Protein-like Family in Flowering <i>Pleioblastus pygmaeus</i> |
| title_full | Genome-Wide Analysis of SQUAMOSA-Promoter-Binding Protein-like Family in Flowering <i>Pleioblastus pygmaeus</i> |
| title_fullStr | Genome-Wide Analysis of SQUAMOSA-Promoter-Binding Protein-like Family in Flowering <i>Pleioblastus pygmaeus</i> |
| title_full_unstemmed | Genome-Wide Analysis of SQUAMOSA-Promoter-Binding Protein-like Family in Flowering <i>Pleioblastus pygmaeus</i> |
| title_short | Genome-Wide Analysis of SQUAMOSA-Promoter-Binding Protein-like Family in Flowering <i>Pleioblastus pygmaeus</i> |
| title_sort | genome wide analysis of squamosa promoter binding protein like family in flowering i pleioblastus pygmaeus i |
| topic | <i>Pleioblastus pygmaeus</i> SPLs reproductive growth flora transition flower organ development <i>miRNA156</i> |
| url | https://www.mdpi.com/1422-0067/23/22/14035 |
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