1
|
Shi K, Zhao G, Li Z, Zhou J, Wu L, Tan X, Yuan J. Genome-Wide Identification of B-Box Gene Family and Candidate Light-Related Member Analysis of Tung Tree ( Vernicia fordii). Int J Mol Sci 2024; 25:1977. [PMID: 38396654 PMCID: PMC10888079 DOI: 10.3390/ijms25041977] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2023] [Revised: 01/22/2024] [Accepted: 01/27/2024] [Indexed: 02/25/2024] Open
Abstract
Light is one of the most important environmental factors for plant growth. In the production process of tung oil tree cultivation, due to the inappropriate growth of shading conditions, the lower branches are often dry and dead, which seriously affects the yield of tung oil trees. However, little is known about the key factors of light-induced tree photomorphogenesis. In this study, a total of 22 VfBBX family members were identified to provide a reference for candidate genes in tung tree seedlings. All members of the VfBBX family have different numbers of highly conserved B-box domains or CCT domains. Phylogenetic evolution clustered the VfBBX genes into four categories, and the highest density of members was on chromosome 6. Interspecific collinearity analysis suggested that there were six pairs of duplicate genes in VfBBX members, but the expression levels of all family members in different growth and development stages of the tung tree were significantly divergent. After different degrees of shading treatment and physiological data determination of tung tree seedlings, the differential expression level and chlorophyll synthesis genes correlation analysis revealed that VfBBX9 was a typical candidate nuclear localization transcription factor that was significantly differentially expressed in light response. This study systematically identified the VfBBX gene family and provided a reference for studying its molecular function, enhanced the theoretical basis for tung tree breeding, and identified excellent varieties.
Collapse
Affiliation(s)
- Kai Shi
- Key Laboratory of Cultivation and Protection for Non-Wood Forest Trees, Ministry of Education, Central South University of Forestry and Technology, Changsha 410004, China; (K.S.); (G.Z.); (Z.L.); (J.Z.); (L.W.)
| | - Guang Zhao
- Key Laboratory of Cultivation and Protection for Non-Wood Forest Trees, Ministry of Education, Central South University of Forestry and Technology, Changsha 410004, China; (K.S.); (G.Z.); (Z.L.); (J.Z.); (L.W.)
- Hunan Forestry Seedling Breeding Demonstration Center, The Forestry Department of Hunan Province, Changsha 410329, China
| | - Ze Li
- Key Laboratory of Cultivation and Protection for Non-Wood Forest Trees, Ministry of Education, Central South University of Forestry and Technology, Changsha 410004, China; (K.S.); (G.Z.); (Z.L.); (J.Z.); (L.W.)
| | - Junqin Zhou
- Key Laboratory of Cultivation and Protection for Non-Wood Forest Trees, Ministry of Education, Central South University of Forestry and Technology, Changsha 410004, China; (K.S.); (G.Z.); (Z.L.); (J.Z.); (L.W.)
| | - Lingli Wu
- Key Laboratory of Cultivation and Protection for Non-Wood Forest Trees, Ministry of Education, Central South University of Forestry and Technology, Changsha 410004, China; (K.S.); (G.Z.); (Z.L.); (J.Z.); (L.W.)
| | - Xiaofeng Tan
- Key Laboratory of Cultivation and Protection for Non-Wood Forest Trees, Ministry of Education, Central South University of Forestry and Technology, Changsha 410004, China; (K.S.); (G.Z.); (Z.L.); (J.Z.); (L.W.)
| | - Jun Yuan
- Key Laboratory of Cultivation and Protection for Non-Wood Forest Trees, Ministry of Education, Central South University of Forestry and Technology, Changsha 410004, China; (K.S.); (G.Z.); (Z.L.); (J.Z.); (L.W.)
| |
Collapse
|
2
|
Buelbuel S, Sakuraba Y, Sedaghatmehr M, Watanabe M, Hoefgen R, Balazadeh S, Mueller-Roeber B. Arabidopsis BBX14 negatively regulates nitrogen starvation- and dark-induced leaf senescence. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2023; 116:251-268. [PMID: 37382898 DOI: 10.1111/tpj.16374] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/06/2023] [Revised: 06/03/2023] [Accepted: 06/14/2023] [Indexed: 06/30/2023]
Abstract
Senescence is a highly regulated process driven by developmental age and environmental factors. Although leaf senescence is accelerated by nitrogen (N) deficiency, the underlying physiological and molecular mechanisms are largely unknown. Here, we reveal that BBX14, a previously uncharacterized BBX-type transcription factor in Arabidopsis, is crucial for N starvation-induced leaf senescence. We find that inhibiting BBX14 by artificial miRNA (amiRNA) accelerates senescence during N starvation and in darkness, while BBX14 overexpression (BBX14-OX) delays it, identifying BBX14 as a negative regulator of N starvation- and dark-induced senescence. During N starvation, nitrate and amino acids like glutamic acid, glutamine, aspartic acid, and asparagine were highly retained in BBX14-OX leaves compared to the wild type. Transcriptome analysis showed a large number of senescence-associated genes (SAGs) to be differentially expressed between BBX14-OX and wild-type plants, including ETHYLENE INSENSITIVE3 (EIN3) which regulates N signaling and leaf senescence. Chromatin immunoprecipitation (ChIP) showed that BBX14 directly regulates EIN3 transcription. Furthermore, we revealed the upstream transcriptional cascade of BBX14. By yeast one-hybrid screen and ChIP, we found that MYB44, a stress-responsive MYB transcription factor, directly binds to the promoter of BBX14 and activates its expression. In addition, Phytochrome Interacting Factor 4 (PIF4) binds to the promoter of BBX14 to repress BBX14 transcription. Thus, BBX14 functions as a negative regulator of N starvation-induced senescence through EIN3 and is directly regulated by PIF4 and MYB44.
Collapse
Affiliation(s)
- Selin Buelbuel
- Max-Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476, Potsdam, Germany
- University of Potsdam, Institute of Biochemistry and Biology, Karl-Liebknecht-Straße 24-25, Haus 20, 14476, Potsdam, Germany
| | - Yasuhito Sakuraba
- Graduate School of Agricultural and Life Sciences, Biotechnology Research Center, The University of Tokyo, Tokyo, 113-8657, Japan
| | - Mastoureh Sedaghatmehr
- Max-Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476, Potsdam, Germany
- University of Potsdam, Institute of Biochemistry and Biology, Karl-Liebknecht-Straße 24-25, Haus 20, 14476, Potsdam, Germany
| | - Mutsumi Watanabe
- Max-Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476, Potsdam, Germany
| | - Rainer Hoefgen
- Max-Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476, Potsdam, Germany
| | - Salma Balazadeh
- Max-Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476, Potsdam, Germany
- University of Potsdam, Institute of Biochemistry and Biology, Karl-Liebknecht-Straße 24-25, Haus 20, 14476, Potsdam, Germany
| | - Bernd Mueller-Roeber
- Max-Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476, Potsdam, Germany
- University of Potsdam, Institute of Biochemistry and Biology, Karl-Liebknecht-Straße 24-25, Haus 20, 14476, Potsdam, Germany
| |
Collapse
|
3
|
Wang X, Guo H, Jin Z, Ding Y, Guo M. Comprehensive Characterization of B-Box Zinc Finger Genes in Citrullus lanatus and Their Response to Hormone and Abiotic Stresses. PLANTS (BASEL, SWITZERLAND) 2023; 12:2634. [PMID: 37514248 PMCID: PMC10386417 DOI: 10.3390/plants12142634] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/13/2023] [Revised: 07/07/2023] [Accepted: 07/11/2023] [Indexed: 07/30/2023]
Abstract
Plant B-BOX (BBX) zinc finger transcription factors play crucial roles in growth and development and the stress response. Although the BBX family has been characterized in various plants, systematic analysis in watermelon is still lacking. In this study, 25 watermelon ClBBX genes were identified. ClBBXs were grouped into five clades (Clade I, II, III, IV, and V) based on their conserved domains and phylogenetic relationships. Most of the ClBBXs (84%) might be localized in the nuclei or cytoplasm. The classification of ClBBXs was consistent with their gene structures. They were unevenly distributed in nine chromosomes except for Chr4 and Chr10, with the largest number of six members in Chr2. Segmental duplications were the major factor in ClBBX family expansion. Some BBXs of watermelon and Arabidopsis evolved from a common ancestor. In total, 254 hormonal and stress-responsive cis elements were discovered in ClBBX promoters. ClBBXs were differentially expressed in tissues, and the expression levels of ClBBX15 and 16 were higher in aboveground tissues than in roots, while the patterns of ClBBX21a, 21b, 21c, 28 and 30b were the opposite. With salicylic acid, methyl jasmonate and salt stress conditions, 17, 18 and 18 ClBBXs exhibited significant expression changes, respectively. In addition, many ClBBXs, including ClBBX29b, 30a and 30b, were also responsive to cold and osmotic stress. In summary, the simultaneous response of multiple ClBBXs to hormonal or abiotic stress suggests that they may have functional interactions in the stress hormone network. Clarifying the roles of key ClBBXs in transcriptional regulation and mediating protein interactions will be an important task. Our comprehensive characterization of the watermelon ClBBX family provides vital clues for the in-depth analysis of their biological functions in stress and hormone signaling pathways.
Collapse
Affiliation(s)
- Xinsheng Wang
- School of Enology and Horticulture, Ningxia University, Yinchuan 750021, China
| | - Huidan Guo
- College of Horticulture and Landscape, Henan Institute of Science and Technology, Xinxiang 453003, China
| | - Zhi Jin
- School of Enology and Horticulture, Ningxia University, Yinchuan 750021, China
| | - Yina Ding
- School of Enology and Horticulture, Ningxia University, Yinchuan 750021, China
| | - Meng Guo
- School of Enology and Horticulture, Ningxia University, Yinchuan 750021, China
- Key Laboratory of Modern Molecular Breeding for Dominant and Special Crops in Ningxia, Yinchuan 750021, China
- Ningxia Modern Facility Horticulture Engineering Technology Research Center, Yinchuan 750021, China
- Ningxia Facility Horticulture Technology Innovation Center, Ningxia University, Yinchuan 750021, China
| |
Collapse
|
4
|
Islam K, Rawoof A, Kumar A, Momo J, Ahmed I, Dubey M, Ramchiary N. Genetic Regulation, Environmental Cues, and Extraction Methods for Higher Yield of Secondary Metabolites in Capsicum. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2023. [PMID: 37289974 DOI: 10.1021/acs.jafc.3c01901] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Capsicum (chili pepper) is a widely popular and highly consumed fruit crop with beneficial secondary metabolites such as capsaicinoids, carotenoids, flavonoids, and polyphenols, among others. Interestingly, the secondary metabolite profile is a dynamic function of biosynthetic enzymes, regulatory transcription factors, developmental stage, abiotic and biotic environment, and extraction methods. We propose active manipulable genetic, environmental, and extraction controls for the modulation of quality and quantity of desired secondary metabolites in Capsicum species. Specific biosynthetic genes such as Pun (AT3) and AMT in the capsaicinoids pathway and PSY, LCY, and CCS in the carotenoid pathway can be genetically engineered for enhanced production of capsaicinoids and carotenoids, respectively. Generally, secondary metabolites increase with the ripening of the fruit; however, transcriptional regulators such as MYB, bHLH, and ERF control the extent of accumulation in specific tissues. The precise tuning of biotic and abiotic factors such as light, temperature, and chemical elicitors can maximize the accumulation and retention of secondary metabolites in pre- and postharvest settings. Finally, optimized extraction methods such as ultrasonication and supercritical fluid method can lead to a higher yield of secondary metabolites. Together, the integrated understanding of the genetic regulation of biosynthesis, elicitation treatments, and optimization of extraction methods can maximize the industrial production of secondary metabolites in Capsicum.
Collapse
Affiliation(s)
- Khushbu Islam
- School of Life Sciences, Jawaharlal Nehru University, New Delhi 110067, India
| | - Abdul Rawoof
- School of Life Sciences, Jawaharlal Nehru University, New Delhi 110067, India
| | - Ajay Kumar
- Department of Plant Sciences, School of Biological Sciences, Central University of Kerala, Kasaragod 671316, Kerala, India
| | - John Momo
- School of Life Sciences, Jawaharlal Nehru University, New Delhi 110067, India
| | - Ilyas Ahmed
- School of Life Sciences, Jawaharlal Nehru University, New Delhi 110067, India
| | - Meenakshi Dubey
- Department of Biotechnology, Delhi Technological University, New Delhi 110042, India
| | - Nirala Ramchiary
- School of Life Sciences, Jawaharlal Nehru University, New Delhi 110067, India
| |
Collapse
|
5
|
Wu Z, Fu D, Gao X, Zeng Q, Chen X, Wu J, Zhang N. Characterization and expression profiles of the B-box gene family during plant growth and under low-nitrogen stress in Saccharum. BMC Genomics 2023; 24:79. [PMID: 36800937 PMCID: PMC9936747 DOI: 10.1186/s12864-023-09185-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/01/2022] [Accepted: 02/13/2023] [Indexed: 02/19/2023] Open
Abstract
BACKGROUND B-box (BBX) zinc-finger transcription factors play crucial roles in plant growth, development, and abiotic stress responses. Nevertheless, little information is available on sugarcane (Saccharum spp.) BBX genes and their expression profiles. RESULTS In the present study, we characterized 25 SsBBX genes in the Saccharum spontaneum genome database. The phylogenetic relationships, gene structures, and expression patterns of these genes during plant growth and under low-nitrogen conditions were systematically analyzed. The SsBBXs were divided into five groups based on phylogenetic analysis. The evolutionary analysis further revealed that whole-genome duplications or segmental duplications were the main driving force for the expansion of the SsBBX gene family. The expression data suggested that many BBX genes (e.g., SsBBX1 and SsBBX13) may be helpful in both plant growth and low-nitrogen stress tolerance. CONCLUSIONS The results of this study offer new evolutionary insight into the BBX family members in how sugarcane grows and responds to stress, which will facilitate their utilization in cultivated sugarcane breeding.
Collapse
Affiliation(s)
- Zilin Wu
- grid.464309.c0000 0004 6431 5677Guangdong Sugarcane Genetic Improvement Engineering Centre, Institute of Nanfan & Seed Industry, Guangdong Academy of Sciences, Guangzhou, 510316 Guangdong China
| | - Danwen Fu
- grid.464309.c0000 0004 6431 5677Guangdong Sugarcane Genetic Improvement Engineering Centre, Institute of Nanfan & Seed Industry, Guangdong Academy of Sciences, Guangzhou, 510316 Guangdong China
| | - Xiaoning Gao
- grid.464309.c0000 0004 6431 5677Guangdong Sugarcane Genetic Improvement Engineering Centre, Institute of Nanfan & Seed Industry, Guangdong Academy of Sciences, Guangzhou, 510316 Guangdong China ,grid.464309.c0000 0004 6431 5677Zhanjiang Research Center, Institute of Nanfan & Seed Industry, Guangdong Academy of Sciences, Zhanjiang, 524300 Guangdong China
| | - Qiaoying Zeng
- grid.464309.c0000 0004 6431 5677Guangdong Sugarcane Genetic Improvement Engineering Centre, Institute of Nanfan & Seed Industry, Guangdong Academy of Sciences, Guangzhou, 510316 Guangdong China
| | - Xinglong Chen
- grid.464309.c0000 0004 6431 5677Guangdong Sugarcane Genetic Improvement Engineering Centre, Institute of Nanfan & Seed Industry, Guangdong Academy of Sciences, Guangzhou, 510316 Guangdong China
| | - Jiayun Wu
- grid.464309.c0000 0004 6431 5677Guangdong Sugarcane Genetic Improvement Engineering Centre, Institute of Nanfan & Seed Industry, Guangdong Academy of Sciences, Guangzhou, 510316 Guangdong China
| | - Nannan Zhang
- Guangdong Sugarcane Genetic Improvement Engineering Centre, Institute of Nanfan & Seed Industry, Guangdong Academy of Sciences, Guangzhou, 510316, Guangdong, China.
| |
Collapse
|