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Chu NTB, Le MT, La HV, Le QTN, Le TD, Tran HTT, Tran LTM, Le CT, Nguyen DV, Cao PB, Chu HD. Genome-wide identification, characterization, and expression analysis of the small auxin-up RNA gene family during zygotic and somatic embryo maturation of the cacao tree (Theobroma cacao). Genomics Inform 2024; 22:2. [PMID: 38907330 PMCID: PMC11184954 DOI: 10.1186/s44342-024-00003-6] [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: 09/18/2023] [Accepted: 12/12/2023] [Indexed: 06/23/2024] Open
Abstract
Small auxin-up RNA (SAUR) proteins were known as a large family that supposedly participated in various biological processes in higher plant species. However, the SAUR family has been still not explored in cacao (Theobroma cacao L.), one of the most important industrial trees. The present work, as an in silico study, revealed comprehensive aspects of the structure, phylogeny, and expression of TcSAUR gene family in cacao. A total of 90 members of the TcSAUR gene family have been identified and annotated in the cacao genome. According to the physic-chemical features analysis, all TcSAUR proteins exhibited slightly similar characteristics. Phylogenetic analysis showed that these TcSAUR proteins could be categorized into seven distinct groups, with 10 sub-groups. Our results suggested that tandemly duplication events, segmental duplication events, and whole genome duplication events might be important in the growth of the TcSAUR gene family in cacao. By re-analyzing the available transcriptome databases, we found that a number of TcSAUR genes were exclusively expressed during the zygotic embryogenesis and somatic embryogenesis. Taken together, our study will be valuable to further functional characterizations of candidate TcSAUR genes for the genetic engineering of cacao.
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Affiliation(s)
- Ngoc Thi Bich Chu
- Faculty of Natural Sciences, Hung Vuong University, Viet Tri City, Phu Tho Province, 35000, Vietnam
| | - Man Thi Le
- Faculty of Natural Sciences, Hung Vuong University, Viet Tri City, Phu Tho Province, 35000, Vietnam
| | - Hong Viet La
- Institute of Research and Application, Hanoi Pedagogical University 2, Phuc Yen City, Vinh Phuc Province, 280000, Vietnam
| | - Quynh Thi Ngoc Le
- Department of Biotechnology, Thuyloi University, Hanoi City, 116830, Vietnam
| | - Thao Duc Le
- Agricultural Genetics Institute, Vietnam Academy of Agricultural Sciences, Hanoi City, 143330, Vietnam
| | - Huyen Thi Thanh Tran
- Faculty of Biology, Hanoi National University of Education, Xuan Thuy Road, Cau Giay District, Hanoi City, 122300, Vietnam
| | - Lan Thi Mai Tran
- Faculty of Natural Sciences, Hung Vuong University, Viet Tri City, Phu Tho Province, 35000, Vietnam
| | - Chi Toan Le
- Faculty of Biology and Agricultural Engineering, Hanoi Pedagogical University 2, Phuc Yen City, Vinh Phuc Province, 280000, Vietnam
| | - Dung Viet Nguyen
- Faculty of Natural Sciences, Hung Vuong University, Viet Tri City, Phu Tho Province, 35000, Vietnam
- Thanh Thuy Junior High School, Thanh Thuy District, Phu Tho Province, 35850, Vietnam
| | - Phi Bang Cao
- Faculty of Natural Sciences, Hung Vuong University, Viet Tri City, Phu Tho Province, 35000, Vietnam.
| | - Ha Duc Chu
- Faculty of Agricultural Technology, University of Engineering and Technology, Vietnam National University Hanoi, Xuan Thuy Road, Cau Giay District, Hanoi City, 122300, Vietnam.
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Wang Q, Wu Y, Wu W, Lyu L, Li W. A review of changes at the phenotypic, physiological, biochemical, and molecular levels of plants due to high temperatures. PLANTA 2024; 259:57. [PMID: 38307982 DOI: 10.1007/s00425-023-04320-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/17/2023] [Accepted: 12/23/2023] [Indexed: 02/04/2024]
Abstract
MAIN CONCLUSION This review summarizes the physiological, biochemical, and molecular regulatory network changes in plants in response to high temperature. With the continuous rise in temperature, high temperature has become an important issue limiting global plant growth and development, affecting the phenotype and physiological and biochemical processes of plants and seriously restricting crop yield and tree growth speed. As sessile organisms, plants inevitably encounter high temperatures and improve their heat tolerance by activating molecular networks related to heat stress, such as signal transduction, synthesis of metabolites, and gene expression. Heat tolerance is a polygenic trait regulated by a variety of genes, transcription factors, proteins, and metabolites. Therefore, this review summarizes the changes in physiological, biochemical and molecular regulatory networks in plants under high-temperature conditions to lay a foundation for an in-depth understanding of the mechanisms involved in plant heat tolerance responses.
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Affiliation(s)
- Que Wang
- Co-Innovation Center for Sustainable Forestry in Southern China, College of Forestry, Nanjing Forestry University, 159 Longpan Road, Nanjing, 210037, China
| | - Yaqiong Wu
- Institute of Botany, Jiangsu Province and Chinese Academy of Sciences (Nanjing Botanical Garden Mem. Sun Yat-Sen), Jiangsu Key Laboratory for the Research and Utilization of Plant Resources, Qian Hu Hou Cun No. 1, Nanjing, 210014, China.
| | - Wenlong Wu
- Institute of Botany, Jiangsu Province and Chinese Academy of Sciences (Nanjing Botanical Garden Mem. Sun Yat-Sen), Jiangsu Key Laboratory for the Research and Utilization of Plant Resources, Qian Hu Hou Cun No. 1, Nanjing, 210014, China
| | - Lianfei Lyu
- Institute of Botany, Jiangsu Province and Chinese Academy of Sciences (Nanjing Botanical Garden Mem. Sun Yat-Sen), Jiangsu Key Laboratory for the Research and Utilization of Plant Resources, Qian Hu Hou Cun No. 1, Nanjing, 210014, China
| | - Weilin Li
- Co-Innovation Center for Sustainable Forestry in Southern China, College of Forestry, Nanjing Forestry University, 159 Longpan Road, Nanjing, 210037, China.
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