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Dusi V, Pennisi F, Fortini D, Atarés A, Wenkel S, Molesini B, Pandolfini T. Involvement of the tomato BBX16 and BBX17 microProteins in reproductive development. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2024; 213:108873. [PMID: 38914037 DOI: 10.1016/j.plaphy.2024.108873] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/20/2024] [Revised: 05/30/2024] [Accepted: 06/20/2024] [Indexed: 06/26/2024]
Abstract
BBXs are B-Box zinc finger proteins that can act as transcription factors and regulators of protein complexes. Several BBX proteins play important roles in plant development. Two Arabidopsis thaliana microProteins belonging to the BBX family, named miP1a and miP1b, homotypically interact with and modulate the activity of other BBX proteins, including CONSTANS, which transcriptionally activates the florigen, FLOWERING LOCUS T. Arabidopsis plants overexpressing miP1a and miP1b showed delayed flowering. In tomato, the closest homologs of miP1a and miP1b are the microProteins SlBBX16 and SlBBX17. This study was aimed at investigating whether the constitutive expression of SlBBX16/17 in Arabidopsis and tomato impacted reproductive development. The heterologous expression of the two tomato microProteins in Arabidopsis caused a delay in the flowering transition; however, the effect was weaker than that observed when the native miP1a/b were overexpressed. In tomato, overexpression of SlBBX17 prolonged the flowering period; this effect was accompanied by downregulation of the flowering inhibitors Self Pruning (SP) and SP5G. SlBBX16 and SlBBX17 can hetero-oligomerize with TCMP-2, a cystine-knot peptide involved in flowering pattern regulation and early fruit development in tomato. The increased expression of both microProteins also caused alterations in tomato fruit development: we observed in the case of SlBBX17 a decrease in the number and size of ripe fruits as compared to WT plants, while for SlBBX16, a delay in fruit production up to the breaker stage. These effects were associated with changes in the expression of GA-responsive genes.
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Affiliation(s)
- Valentina Dusi
- Department of Biotechnology, University of Verona, Strada Le Grazie, 15, 37134, Verona, Italy
| | - Federica Pennisi
- Department of Biotechnology, University of Verona, Strada Le Grazie, 15, 37134, Verona, Italy
| | - Daniela Fortini
- Department of Biotechnology, University of Verona, Strada Le Grazie, 15, 37134, Verona, Italy
| | - Alejandro Atarés
- Instituto de Biología Molecular y Celular de Plantas (UPV-CSIC), Universitat Politècnica de València, Ingeniero Fausto Elio s/n, 46011, Valencia, Spain
| | - Stephan Wenkel
- Department of Plant Physiology, Plant Science Centre, University of Umeå, Linnaeus väg 6, 907 36, Umeå, Sweden; NovoCrops Center, University of Copenhagen, Thorvaldsensvej 40, 1871, Frederiksberg, Denmark
| | - Barbara Molesini
- Department of Biotechnology, University of Verona, Strada Le Grazie, 15, 37134, Verona, Italy
| | - Tiziana Pandolfini
- Department of Biotechnology, University of Verona, Strada Le Grazie, 15, 37134, Verona, Italy.
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Ma H, Pei J, Zhuo J, Tang Q, Hou D, Lin X. The CONSTANS-LIKE gene PeCOL13 regulates flowering through intron-retained alternative splicing in Phyllostachys edulis. Int J Biol Macromol 2024; 274:133393. [PMID: 38917922 DOI: 10.1016/j.ijbiomac.2024.133393] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/07/2024] [Revised: 06/14/2024] [Accepted: 06/22/2024] [Indexed: 06/27/2024]
Abstract
Woody bamboo exhibits a unique flowering characteristic with a lengthy flowering cycle, often followed by death. In many plant species, alternative splicing (AS) is a common phenomenon involved in controlling flowering. In this study, a PeCOL13 gene in moso bamboo (Phyllostachys edulis) was characterized. It produced two isoforms: PeCOL13α and PeCOL13β, due to an intron-retained AS. The PeCOL13α expressed in the vegetative phase and the reproductive phase, but the PeCOL13β didn't express during the vegetative phase and showed only a weak expression from F1 to F3 during the reproductive phase. Overexpression of PeCOL13α in rice (Oryza sativa) resulted in a delayed heading time through inhibiting the expressions of Hd3a, OsFTL1, and Ehd1 and activating the expressions of Ghd7 and RCN1. However, the PeCOL13β-overexpressed rice didn't show any significant differences in flowering compared with wild-type (WT), and the expressions of downstream flowering genes had no notable changes. Further analysis revealed that both PeCOL13α and PeCOL13β can bind to the PeFT promoter. Meanwhile, PeCOL13α can inhibit the transcription of PeFT, but PeCOL13β showed no effect. When PeCOL13α and PeCOL13β coexist, the inhibitory effect of PeCOL13α on PeFT transcription was weakened by PeCOL13β. This study provides new insights into the mechanism of bamboo flowering research.
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Affiliation(s)
- Hongjia Ma
- State Key Laboratory of Subtropical Silviculture, Zhejiang A&F University, Lin' an 311300, China; Bamboo Industry Institute, Zhejiang A&F University, Lin' an 311300, China
| | - Jialong Pei
- State Key Laboratory of Subtropical Silviculture, Zhejiang A&F University, Lin' an 311300, China; Bamboo Industry Institute, Zhejiang A&F University, Lin' an 311300, China
| | - Juan Zhuo
- State Key Laboratory of Subtropical Silviculture, Zhejiang A&F University, Lin' an 311300, China; Bamboo Industry Institute, Zhejiang A&F University, Lin' an 311300, China
| | - Qingyun Tang
- State Key Laboratory of Subtropical Silviculture, Zhejiang A&F University, Lin' an 311300, China; Bamboo Industry Institute, Zhejiang A&F University, Lin' an 311300, China
| | - Dan Hou
- State Key Laboratory of Subtropical Silviculture, Zhejiang A&F University, Lin' an 311300, China; Bamboo Industry Institute, Zhejiang A&F University, Lin' an 311300, China.
| | - Xinchun Lin
- State Key Laboratory of Subtropical Silviculture, Zhejiang A&F University, Lin' an 311300, China; Bamboo Industry Institute, Zhejiang A&F University, Lin' an 311300, China.
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Romero JM, Serrano-Bueno G, Camacho-Fernández C, Vicente MH, Ruiz MT, Pérez-Castiñeira JR, Pérez-Hormaeche J, Nogueira FTS, Valverde F. CONSTANS, a HUB for all seasons: How photoperiod pervades plant physiology regulatory circuits. THE PLANT CELL 2024; 36:2086-2102. [PMID: 38513610 PMCID: PMC11132886 DOI: 10.1093/plcell/koae090] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/27/2023] [Revised: 02/07/2024] [Accepted: 02/28/2024] [Indexed: 03/23/2024]
Abstract
How does a plant detect the changing seasons and make important developmental decisions accordingly? How do they incorporate daylength information into their routine physiological processes? Photoperiodism, or the capacity to measure the daylength, is a crucial aspect of plant development that helps plants determine the best time of the year to make vital decisions, such as flowering. The protein CONSTANS (CO) constitutes the central regulator of this sensing mechanism, not only activating florigen production in the leaves but also participating in many physiological aspects in which seasonality is important. Recent discoveries place CO in the center of a gene network that can determine the length of the day and confer seasonal input to aspects of plant development and physiology as important as senescence, seed size, or circadian rhythms. In this review, we discuss the importance of CO protein structure, function, and evolutionary mechanisms that embryophytes have developed to incorporate annual information into their physiology.
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Affiliation(s)
- Jose M Romero
- Plant Development Group - Institute for Plant Biochemistry and Photosynthesis, Consejo Superior de Investigaciones Científicas, Universidad de Sevilla, 41092 Seville, Spain
- Department of Plant Biochemistry and Molecular Biology, Universidad de Sevilla, 41012 Seville, Spain
| | - Gloria Serrano-Bueno
- Plant Development Group - Institute for Plant Biochemistry and Photosynthesis, Consejo Superior de Investigaciones Científicas, Universidad de Sevilla, 41092 Seville, Spain
- Department of Plant Biochemistry and Molecular Biology, Universidad de Sevilla, 41012 Seville, Spain
| | - Carolina Camacho-Fernández
- Plant Development Group - Institute for Plant Biochemistry and Photosynthesis, Consejo Superior de Investigaciones Científicas, Universidad de Sevilla, 41092 Seville, Spain
- Department of Plant Biochemistry and Molecular Biology, Universidad de Sevilla, 41012 Seville, Spain
- Universidad Politécnica de Valencia, Vicerrectorado de Investigación, 46022 Valencia, Spain
| | - Mateus Henrique Vicente
- Plant Development Group - Institute for Plant Biochemistry and Photosynthesis, Consejo Superior de Investigaciones Científicas, Universidad de Sevilla, 41092 Seville, Spain
- Laboratory of Molecular Genetics of Plant Development, Escola Superior de Agricultura “Luiz de Queiroz” (ESALQ), University of São Paulo (USP), Piracicaba, 13418-900 São Paulo, Brazil
| | - M Teresa Ruiz
- Plant Development Group - Institute for Plant Biochemistry and Photosynthesis, Consejo Superior de Investigaciones Científicas, Universidad de Sevilla, 41092 Seville, Spain
| | - J Román Pérez-Castiñeira
- Plant Development Group - Institute for Plant Biochemistry and Photosynthesis, Consejo Superior de Investigaciones Científicas, Universidad de Sevilla, 41092 Seville, Spain
- Department of Plant Biochemistry and Molecular Biology, Universidad de Sevilla, 41012 Seville, Spain
| | - Javier Pérez-Hormaeche
- Plant Development Group - Institute for Plant Biochemistry and Photosynthesis, Consejo Superior de Investigaciones Científicas, Universidad de Sevilla, 41092 Seville, Spain
| | - Fabio T S Nogueira
- Laboratory of Molecular Genetics of Plant Development, Escola Superior de Agricultura “Luiz de Queiroz” (ESALQ), University of São Paulo (USP), Piracicaba, 13418-900 São Paulo, Brazil
| | - Federico Valverde
- Plant Development Group - Institute for Plant Biochemistry and Photosynthesis, Consejo Superior de Investigaciones Científicas, Universidad de Sevilla, 41092 Seville, Spain
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Mauceri A, Puccio G, Faddetta T, Abbate L, Polito G, Caldiero C, Renzone G, Lo Pinto M, Alibrandi P, Vaccaro E, Abenavoli MR, Scaloni A, Sunseri F, Cavalieri V, Palumbo Piccionello A, Gallo G, Mercati F. Integrated omics approach reveals the molecular pathways activated in tomato by Kocuria rhizophila, a soil plant growth-promoting bacterium. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2024; 210:108609. [PMID: 38615442 DOI: 10.1016/j.plaphy.2024.108609] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/17/2024] [Revised: 03/27/2024] [Accepted: 04/04/2024] [Indexed: 04/16/2024]
Abstract
Plant microbial biostimulants application has become a promising and eco-friendly agricultural strategy to improve crop yields, reducing chemical inputs for more sustainable cropping systems. The soil dwelling bacterium Kocuria rhizophila was previously characterized as Plant Growth Promoting Bacteria (PGPB) for its multiple PGP traits, such as indole-3-acetic acid production, phosphate solubilization capability and salt and drought stress tolerance. Here, we evaluated by a multi-omics approach, the PGP activity of K. rhizophila on tomato, revealing the molecular pathways by which it promotes plant growth. Transcriptomic analysis showed several up-regulated genes mainly related to amino acid metabolism, cell wall organization, lipid and secondary metabolism, together with a modulation in the DNA methylation profile, after PGPB inoculation. In agreement, proteins involved in photosynthesis, cell division, and plant growth were highly accumulated by K. rhizophila. Furthermore, "amino acid and peptides", "monosaccharides", and "TCA" classes of metabolites resulted the most affected by PGPB treatment, as well as dopamine, a catecholamine neurotransmitter mediating plant growth through S-adenosylmethionine decarboxylase (SAMDC), a gene enhancing the vegetative growth, up-regulated in tomato by K. rhizophila treatment. Interestingly, eight gene modules well correlated with differentially accumulated proteins (DAPs) and metabolites (DAMs), among which two modules showed the highest correlation with nine proteins, including a nucleoside diphosphate kinase, and cytosolic ascorbate peroxidase, as well as with several amino acids and metabolites involved in TCA cycle. Overall, our findings highlighted that sugars and amino acids, energy regulators, involved in tomato plant growth, were strongly modulated by the K. rhizophila-plant interaction.
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Affiliation(s)
- Antonio Mauceri
- University Mediterranea of Reggio Calabria, AGRARIA Department, Località Feo di Vito, 89122, Reggio Calabria, Italy
| | - Guglielmo Puccio
- National Research Council, Institute of Biosciences and Bioresources (IBBR), Via Ugo La Malfa 153, 90146, Palermo, Italy; University of Palermo, SAAF Department, Viale Delle Scienze, 90128, Palermo, Italy
| | - Teresa Faddetta
- University of Palermo, STEBICEF Department, Viale Delle Scienze, 90128, Palermo, Italy
| | - Loredana Abbate
- National Research Council, Institute of Biosciences and Bioresources (IBBR), Via Ugo La Malfa 153, 90146, Palermo, Italy
| | - Giulia Polito
- University of Palermo, STEBICEF Department, Viale Delle Scienze, 90128, Palermo, Italy
| | - Ciro Caldiero
- University Mediterranea of Reggio Calabria, AGRARIA Department, Località Feo di Vito, 89122, Reggio Calabria, Italy
| | - Giovanni Renzone
- National Research Council, Proteomics, Metabolomics and Mass Spectrometry Laboratory (ISPAAM), Piazzale E. Fermi 1, 80055, Portici, (Napoli), Italy
| | - Margot Lo Pinto
- University of Palermo, STEBICEF Department, Viale Delle Scienze, 90128, Palermo, Italy
| | - Pasquale Alibrandi
- Mugavero Teresa S.A.S., Corso Umberto e Margherita 1B, 90018, Termini Imerese, (Palermo), Italy
| | - Edoardo Vaccaro
- Mugavero Teresa S.A.S., Corso Umberto e Margherita 1B, 90018, Termini Imerese, (Palermo), Italy
| | - Maria Rosa Abenavoli
- University Mediterranea of Reggio Calabria, AGRARIA Department, Località Feo di Vito, 89122, Reggio Calabria, Italy
| | - Andrea Scaloni
- National Research Council, Proteomics, Metabolomics and Mass Spectrometry Laboratory (ISPAAM), Piazzale E. Fermi 1, 80055, Portici, (Napoli), Italy
| | - Francesco Sunseri
- University Mediterranea of Reggio Calabria, AGRARIA Department, Località Feo di Vito, 89122, Reggio Calabria, Italy
| | - Vincenzo Cavalieri
- University of Palermo, STEBICEF Department, Viale Delle Scienze, 90128, Palermo, Italy
| | | | - Giuseppe Gallo
- University of Palermo, STEBICEF Department, Viale Delle Scienze, 90128, Palermo, Italy; NBFC, National Biodiversity Future Center, Piazza Marina 61, 90133, Palermo, Italy
| | - Francesco Mercati
- National Research Council, Institute of Biosciences and Bioresources (IBBR), Via Ugo La Malfa 153, 90146, Palermo, Italy.
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5
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Baranov D, Dolgov S, Timerbaev V. New Advances in the Study of Regulation of Tomato Flowering-Related Genes Using Biotechnological Approaches. PLANTS (BASEL, SWITZERLAND) 2024; 13:359. [PMID: 38337892 PMCID: PMC10856997 DOI: 10.3390/plants13030359] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/20/2023] [Revised: 01/21/2024] [Accepted: 01/24/2024] [Indexed: 02/12/2024]
Abstract
The tomato is a convenient object for studying reproductive processes, which has become a classic. Such complex processes as flowering and fruit setting require an understanding of the fundamental principles of molecular interaction, the structures of genes and proteins, the construction of signaling pathways for transcription regulation, including the synchronous actions of cis-regulatory elements (promoter and enhancer), trans-regulatory elements (transcription factors and regulatory RNAs), and transposable elements and epigenetic regulators (DNA methylation and acetylation, chromatin structure). Here, we discuss the current state of research on tomatoes (2017-2023) devoted to studying the function of genes that regulate flowering and signal regulation systems using genome-editing technologies, RNA interference gene silencing, and gene overexpression, including heterologous expression. Although the central candidate genes for these regulatory components have been identified, a complete picture of their relationship has yet to be formed. Therefore, this review summarizes the latest achievements related to studying the processes of flowering and fruit set. This work attempts to display the gene interaction scheme to better understand the events under consideration.
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Affiliation(s)
- Denis Baranov
- Laboratory of Expression Systems and Plant Genome Modification, Branch of Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, 142290 Pushchino, Russia; (D.B.); (S.D.)
- Laboratory of Plant Genetic Engineering, All-Russia Research Institute of Agricultural Biotechnology, 127550 Moscow, Russia
| | - Sergey Dolgov
- Laboratory of Expression Systems and Plant Genome Modification, Branch of Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, 142290 Pushchino, Russia; (D.B.); (S.D.)
- Laboratory of Plant Genetic Engineering, All-Russia Research Institute of Agricultural Biotechnology, 127550 Moscow, Russia
| | - Vadim Timerbaev
- Laboratory of Expression Systems and Plant Genome Modification, Branch of Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, 142290 Pushchino, Russia; (D.B.); (S.D.)
- Laboratory of Plant Genetic Engineering, All-Russia Research Institute of Agricultural Biotechnology, 127550 Moscow, Russia
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Peng Z, Li H, Liu G, Jia W, Fu D. NAC transcription factor NOR-like1 regulates tomato fruit size. PLANTA 2023; 258:9. [PMID: 37256357 DOI: 10.1007/s00425-023-04166-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Subscribe] [Scholar Register] [Received: 02/07/2023] [Accepted: 05/24/2023] [Indexed: 06/01/2023]
Abstract
MAIN CONCLUSION NOR-like1 regulates tomato fruit size by targeting SlARF9, SlGRAS2, SlFW3.2, and SlFW11.3 genes involved in cell division and cell expansion. Fruit size is an important agricultural character that determines the yield of crops. Here, we found that NAC transcription factor NOR-like1 regulated fruit size by regulating cell layer number and cell area in tomato. Over-expressing NOR-like1 gene in tomato reduced fruit weight and size, whereas the knock-out of NOR-like1 increased fruit weight and size. At the molecular level, NOR-like1 binds to the promoter of SlGRAS2, SlFW3.2, and SlFW11.3 to repress their transcription, while it also binds to the promoter of ARF9 to activate its transcription. Overall, these results expand the biological function of NOR-like1 and deepen our understanding of the transcriptional network that regulates tomato fruit size.
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Affiliation(s)
- Zhenzhen Peng
- Laboratory of Fruit Biology, College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, 100083, China
| | - Hongli Li
- Laboratory of Fruit Biology, College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, 100083, China
| | - Gangshuai Liu
- Laboratory of Fruit Biology, College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, 100083, China
| | - Wen Jia
- Laboratory of Fruit Biology, College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, 100083, China
| | - Daqi Fu
- Laboratory of Fruit Biology, College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, 100083, China.
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Li R, Li T, Wu X, Yao X, Ai H, Zhang Y, Gan Z, Huang X. Genome-Wide Identification, Characterization and Expression Profiling of the CONSTANS-like Genes in Potato ( Solanum tuberosum L.). Genes (Basel) 2023; 14:1174. [PMID: 37372354 DOI: 10.3390/genes14061174] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/10/2023] [Revised: 04/12/2023] [Accepted: 05/27/2023] [Indexed: 06/29/2023] Open
Abstract
CONSTANS-like (COL) genes play important regulatory roles in flowering, tuber formation and the development of the potato (Solanum tuberosum L.). However, the COL gene family in S. tuberosum has not been systematically identified, restricting our knowledge of the function of these genes in S. tuberosum. In our study, we identified 14 COL genes, which were unequally distributed among eight chromosomes. These genes were classified into three groups based on differences in gene structure characteristics. The COL proteins of S. tuberosum and Solanum lycopersicum were closely related and showed high levels of similarity in a phylogenetic tree. Gene and protein structure analysis revealed similarities in the exon-intron structure and length, as well as the motif structure of COL proteins in the same subgroup. We identified 17 orthologous COL gene pairs between S. tuberosum and S. lycopersicum. Selection pressure analysis showed that the evolution rate of COL homologs is controlled by purification selection in Arabidopsis, S. tuberosum and S. lycopersicum. StCOL genes showed different tissue-specific expression patterns. StCOL5 and StCOL8 were highly expressed specifically in the leaves of plantlets. StCOL6, StCOL10 and StCOL14 were highly expressed in flowers. Tissue-specific expression characteristics suggest a functional differentiation of StCOL genes during evolution. Cis-element analysis revealed that the StCOL promoters contain several regulatory elements for hormone, light and stress signals. Our results provide a theoretical basis for the understanding of the in-depth mechanism of COL genes in regulating the flowering time and tuber development in S. tuberosum.
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Affiliation(s)
- Ruining Li
- Center for Crop Biotechnology, College of Agriculture, Anhui Science and Technology University, Chuzhou 233100, China
| | - Ting Li
- Center for Crop Biotechnology, College of Agriculture, Anhui Science and Technology University, Chuzhou 233100, China
| | - Xiang Wu
- Center for Crop Biotechnology, College of Agriculture, Anhui Science and Technology University, Chuzhou 233100, China
| | - Xuyang Yao
- Center for Crop Biotechnology, College of Agriculture, Anhui Science and Technology University, Chuzhou 233100, China
| | - Hao Ai
- Center for Crop Biotechnology, College of Agriculture, Anhui Science and Technology University, Chuzhou 233100, China
| | - Yingjie Zhang
- Center for Crop Biotechnology, College of Agriculture, Anhui Science and Technology University, Chuzhou 233100, China
- College of Life Sciences, Shihezi University, Shihezi 832003, China
| | - Zhicheng Gan
- Center for Crop Biotechnology, College of Agriculture, Anhui Science and Technology University, Chuzhou 233100, China
| | - Xianzhong Huang
- Center for Crop Biotechnology, College of Agriculture, Anhui Science and Technology University, Chuzhou 233100, China
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