Structural and functional characterization of genes PYL-PP2C-SnRK2s in the ABA signalling pathway of Cucurbita pepo
Abstract Background The core regulation of the abscisic acid (ABA) signalling pathway comprises the multigenic families PYL, PP2C, and SnRK2. In this work, we conducted a genome-wide study of the components of these families in Cucurbita pepo. Results The bioinformatic analysis of the C. pepo genome...
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| Format: | Article |
| Language: | English |
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BMC
2024-03-01
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| Series: | BMC Genomics |
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| Online Access: | https://doi.org/10.1186/s12864-024-10158-9 |
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| author | Jessica Iglesias-Moya Álvaro Benítez María Segura Sonsoles Alonso Dolores Garrido Cecilia Martínez Manuel Jamilena |
| author_facet | Jessica Iglesias-Moya Álvaro Benítez María Segura Sonsoles Alonso Dolores Garrido Cecilia Martínez Manuel Jamilena |
| author_sort | Jessica Iglesias-Moya |
| collection | DOAJ |
| description | Abstract Background The core regulation of the abscisic acid (ABA) signalling pathway comprises the multigenic families PYL, PP2C, and SnRK2. In this work, we conducted a genome-wide study of the components of these families in Cucurbita pepo. Results The bioinformatic analysis of the C. pepo genome resulted in the identification of 19 CpPYL, 102 CpPP2C and 10 CpSnRK2 genes. The investigation of gene structure and protein motifs allowed to define 4 PYL, 13 PP2C and 3 SnRK2 subfamilies. RNA-seq analysis was used to determine the expression of these gene families in different plant organs, as well as to detect their differential gene expression during germination, and in response to ABA and cold stress in leaves. The specific tissue expression of some gene members indicated the relevant role of some ABA signalling genes in plant development. Moreover, their differential expression under ABA treatment or cold stress revealed those ABA signalling genes that responded to ABA, and those that were up- or down-regulated in response to cold stress. A reduced number of genes responded to both treatments. Specific PYL-PP2C-SnRK2 genes that had potential roles in germination were also detected, including those regulated early during the imbibition phase, those regulated later during the embryo extension and radicle emergence phase, and those induced or repressed during the whole germination process. Conclusions The outcomes of this research open new research lines for agriculture and for assessing gene function in future studies. |
| first_indexed | 2024-04-24T23:11:03Z |
| format | Article |
| id | doaj.art-f7ba2e36179348bebec8995a29ceeed7 |
| institution | Directory Open Access Journal |
| issn | 1471-2164 |
| language | English |
| last_indexed | 2024-04-24T23:11:03Z |
| publishDate | 2024-03-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Genomics |
| spelling | doaj.art-f7ba2e36179348bebec8995a29ceeed72024-03-17T12:16:29ZengBMCBMC Genomics1471-21642024-03-0125111910.1186/s12864-024-10158-9Structural and functional characterization of genes PYL-PP2C-SnRK2s in the ABA signalling pathway of Cucurbita pepoJessica Iglesias-Moya0Álvaro Benítez1María Segura2Sonsoles Alonso3Dolores Garrido4Cecilia Martínez5Manuel Jamilena6Department of Biology and Geology. Agri-food Campus of International Excellence (CeiA3) and Research Center CIAIMBITAL, University of AlmeríaDepartment of Biology and Geology. Agri-food Campus of International Excellence (CeiA3) and Research Center CIAIMBITAL, University of AlmeríaDepartment of Biology and Geology. Agri-food Campus of International Excellence (CeiA3) and Research Center CIAIMBITAL, University of AlmeríaDepartment of Biology and Geology. Agri-food Campus of International Excellence (CeiA3) and Research Center CIAIMBITAL, University of AlmeríaDepartment of Plant Physiology. Faculty of Science, University of GranadaDepartment of Biology and Geology. Agri-food Campus of International Excellence (CeiA3) and Research Center CIAIMBITAL, University of AlmeríaDepartment of Biology and Geology. Agri-food Campus of International Excellence (CeiA3) and Research Center CIAIMBITAL, University of AlmeríaAbstract Background The core regulation of the abscisic acid (ABA) signalling pathway comprises the multigenic families PYL, PP2C, and SnRK2. In this work, we conducted a genome-wide study of the components of these families in Cucurbita pepo. Results The bioinformatic analysis of the C. pepo genome resulted in the identification of 19 CpPYL, 102 CpPP2C and 10 CpSnRK2 genes. The investigation of gene structure and protein motifs allowed to define 4 PYL, 13 PP2C and 3 SnRK2 subfamilies. RNA-seq analysis was used to determine the expression of these gene families in different plant organs, as well as to detect their differential gene expression during germination, and in response to ABA and cold stress in leaves. The specific tissue expression of some gene members indicated the relevant role of some ABA signalling genes in plant development. Moreover, their differential expression under ABA treatment or cold stress revealed those ABA signalling genes that responded to ABA, and those that were up- or down-regulated in response to cold stress. A reduced number of genes responded to both treatments. Specific PYL-PP2C-SnRK2 genes that had potential roles in germination were also detected, including those regulated early during the imbibition phase, those regulated later during the embryo extension and radicle emergence phase, and those induced or repressed during the whole germination process. Conclusions The outcomes of this research open new research lines for agriculture and for assessing gene function in future studies.https://doi.org/10.1186/s12864-024-10158-9Zucchini squashResponse to ABACold stress responseGerminationTissular expression |
| spellingShingle | Jessica Iglesias-Moya Álvaro Benítez María Segura Sonsoles Alonso Dolores Garrido Cecilia Martínez Manuel Jamilena Structural and functional characterization of genes PYL-PP2C-SnRK2s in the ABA signalling pathway of Cucurbita pepo BMC Genomics Zucchini squash Response to ABA Cold stress response Germination Tissular expression |
| title | Structural and functional characterization of genes PYL-PP2C-SnRK2s in the ABA signalling pathway of Cucurbita pepo |
| title_full | Structural and functional characterization of genes PYL-PP2C-SnRK2s in the ABA signalling pathway of Cucurbita pepo |
| title_fullStr | Structural and functional characterization of genes PYL-PP2C-SnRK2s in the ABA signalling pathway of Cucurbita pepo |
| title_full_unstemmed | Structural and functional characterization of genes PYL-PP2C-SnRK2s in the ABA signalling pathway of Cucurbita pepo |
| title_short | Structural and functional characterization of genes PYL-PP2C-SnRK2s in the ABA signalling pathway of Cucurbita pepo |
| title_sort | structural and functional characterization of genes pyl pp2c snrk2s in the aba signalling pathway of cucurbita pepo |
| topic | Zucchini squash Response to ABA Cold stress response Germination Tissular expression |
| url | https://doi.org/10.1186/s12864-024-10158-9 |
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