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Hao L, Shi X, Qin S, Dong J, Shi H, Wang Y, Zhang Y. Genome-wide identification, characterization and transcriptional profile of the SWEET gene family in Dendrobium officinale. BMC Genomics 2023; 24:378. [PMID: 37415124 DOI: 10.1186/s12864-023-09419-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2022] [Accepted: 05/31/2023] [Indexed: 07/08/2023] Open
Abstract
BACKGROUND Dendrobium officinale Kimura et Migo (D. officinale) is a well-known traditional Chinese medicine with high content polysaccharides in stems. The SWEET (Sugars Will Eventually be Exported Transporters) family is a novel class of sugar transporters mediating sugar translocation among adjacent cells of plants. The expression patterns of SWEETs and whether they are associated with stress response in D. officinale remains uncovered. RESULTS Here, 25 SWEET genes were screened out from D. officinale genome, most of which typically contained seven transmembrane domains (TMs) and harbored two conserved MtN3/saliva domains. Using multi-omics data and bioinformatic approaches, the evolutionary relationship, conserved motifs, chromosomal location, expression patterns, correlationship and interaction network were further analyzed. DoSWEETs were intensively located in nine chromosomes. Phylogenetic analysis revealed that DoSWEETs were divided into four clades, and conserved motif 3 specifically existed in DoSWEETs from clade II. Different tissue-specific expression patterns of DoSWEETs suggested the division of their roles in sugar transport. In particular, DoSWEET5b, 5c, and 7d displayed relatively high expression levels in stems. DoSWEET2b and 16 were significantly regulated under cold, drought, and MeJA treatment, which were further verified using RT-qPCR. Correlation analysis and interaction network prediction discovered the internal relationship of DoSWEET family. CONCLUSIONS Taken together, the identification and analysis of the 25 DoSWEETs in this study provide basic information for further functional verification in D. officinale.
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Affiliation(s)
- Li Hao
- College of Food and Biological Engineering, Chengdu University, Chengdu, 610106, PR China
| | - Xin Shi
- College of Food and Biological Engineering, Chengdu University, Chengdu, 610106, PR China
| | - Shunwang Qin
- College of Food and Biological Engineering, Chengdu University, Chengdu, 610106, PR China
| | - Jiahong Dong
- College of Food and Biological Engineering, Chengdu University, Chengdu, 610106, PR China
| | - Huan Shi
- College of Food and Biological Engineering, Chengdu University, Chengdu, 610106, PR China
| | - Yuehua Wang
- College of Food and Biological Engineering, Chengdu University, Chengdu, 610106, PR China.
| | - Yi Zhang
- China-Croatia 'Belt and Road' Joint Laboratory on Biodiversity and Ecosystem Services, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, 610041, PR China.
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Prasad D, Jung WJ, Seo YW. Identification and molecular characterization of novel sucrose transporters in the hexaploid wheat (Triticum aestivum L.). Gene 2023; 860:147245. [PMID: 36736505 DOI: 10.1016/j.gene.2023.147245] [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: 09/13/2022] [Revised: 01/02/2023] [Accepted: 01/27/2023] [Indexed: 02/04/2023]
Abstract
Common wheat (Triticum aestivum) is a major cereal crop grown and consumed globally. Recent advances in sequencing technology have facilitated the exploration of large and repetitive genomes. Plant sucrose transporter (SUT) genes are vital components of energy transport systems that play prominent roles in various plant functions, such as signaling and stress regulation. In this study, we identified and analyzed five novel sucrose transporter genes in wheat. The wheat sucrose transporter genes were divided into five clades based on their phylogenetic relationships. Synteny analysis revealed that synteny in the genome is highly conserved between wheat and rye, barley, and Brachypodium. Furthermore, the cis-element analysis indicated that sucrose transporter genes might be regulated by light and some phytohormone-related transcriptional factors. Overall, plant tissue-specific gene expression revealed enhanced expression of the transporter genes in the root and stem, whereas they were differentially expressed under abiotic stress treatments (cold, heat, NaCl, PEG-6000, and sucrose). These results indicate that each TaSUT gene may play a crucial role in stabilizing plants under stress by actively regulating the energy demands of cells. The findings of this study may provide a basis for further research on sucrose transporters and their significant roles in plant energy metabolism as well as in abiotic stress response, signaling, and regulation.
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Affiliation(s)
- Depika Prasad
- Department of Plant Biotechnology, Korea University, Seoul 02841, South Korea
| | - Woo Joo Jung
- Institute of Life Science and Natural Resources, Korea University, Seoul 02841, South Korea
| | - Yong Weon Seo
- Department of Plant Biotechnology, Korea University, Seoul 02841, South Korea.
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Deng B, Gu X, Chen S, Zhang M, Hao S, Wei L, Cao Y, Hu S. Genome-wide analysis and characterization of Dendrocalamus farinosus SUT gene family reveal DfSUT4 involvement in sucrose transportation in plants. FRONTIERS IN PLANT SCIENCE 2023; 13:1118398. [PMID: 36743582 PMCID: PMC9895956 DOI: 10.3389/fpls.2022.1118398] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/07/2022] [Accepted: 12/23/2022] [Indexed: 06/18/2023]
Abstract
Sucrose is the main transported form of photosynthetic products. Sucrose transporter (SUT) participates in the translocation of sucrose from source to sink, which is important for the growth and development of plants. Dendrocalamus farinosus is an important economic crop in southwestern China because of its high growth rate, high fiber content, and dual usage for food and timber, but the mechanism of sucrose transportation in D. farinosus is unclear. In this study, a total of 12 SUT transporter genes were determined in D. farinosus by whole-genome identification. DfSUT2, DfSUT7, and DfSUT11 were homologs of rice OsSUT2, while DfSUT4 was a homolog of OsSUT4, and these four DfSUT genes were expressed in the leaf, internode, node, and bamboo shoots of D. farinosus. In addition, DfSUT family genes were involved in photosynthetic product distribution, ABA/MeJA responses, and drought resistance, especially DfSUT4. The function of DfSUT4 was then verified in Nicotiana tabacum. DfSUT4 was localized mainly in the leaf mesophyll and stem phloem of pDfSUT4::GUS transgenic plant. The overexpression of DfSUT4 gene in transgenic plant showed increases of photosynthetic rate, above-ground biomass, thousand grain weight, and cellulose content. Our findings altogether indicate that DfSUT4 can be a candidate gene that can be involved in phloem sucrose transportation from the source leaves to the sink organs, phytohormone responses, abiotic stress, and fiber formation in plants, which is very important in the genetic improvement of D. farinosus and other crops.
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Affiliation(s)
- Bin Deng
- Lab of Plant Cell Engineering, Southwest University of Science and Technology, Mianyang, Sichuan, China
- Engineering Research Center for Biomass Resource Utilizaiton and Modification of Sichuan Province, Mianyang, Sichuan, China
| | - Xiaoyan Gu
- Lab of Plant Cell Engineering, Southwest University of Science and Technology, Mianyang, Sichuan, China
- Engineering Research Center for Biomass Resource Utilizaiton and Modification of Sichuan Province, Mianyang, Sichuan, China
| | - Sen Chen
- Lab of Plant Cell Engineering, Southwest University of Science and Technology, Mianyang, Sichuan, China
- Engineering Research Center for Biomass Resource Utilizaiton and Modification of Sichuan Province, Mianyang, Sichuan, China
| | - Meng Zhang
- Lab of Plant Cell Engineering, Southwest University of Science and Technology, Mianyang, Sichuan, China
- Engineering Research Center for Biomass Resource Utilizaiton and Modification of Sichuan Province, Mianyang, Sichuan, China
| | - Suwei Hao
- Lab of Plant Cell Engineering, Southwest University of Science and Technology, Mianyang, Sichuan, China
- Engineering Research Center for Biomass Resource Utilizaiton and Modification of Sichuan Province, Mianyang, Sichuan, China
| | - Lixian Wei
- Lab of Plant Cell Engineering, Southwest University of Science and Technology, Mianyang, Sichuan, China
- Engineering Research Center for Biomass Resource Utilizaiton and Modification of Sichuan Province, Mianyang, Sichuan, China
| | - Ying Cao
- Lab of Plant Cell Engineering, Southwest University of Science and Technology, Mianyang, Sichuan, China
- Engineering Research Center for Biomass Resource Utilizaiton and Modification of Sichuan Province, Mianyang, Sichuan, China
| | - Shanglian Hu
- Lab of Plant Cell Engineering, Southwest University of Science and Technology, Mianyang, Sichuan, China
- Engineering Research Center for Biomass Resource Utilizaiton and Modification of Sichuan Province, Mianyang, Sichuan, China
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Identification of Two GDSL-Type Esterase/Lipase Genes Related to Tissue-Specific Lipolysis in Dendrobium catenatum by Multi-Omics Analysis. LIFE (BASEL, SWITZERLAND) 2022; 12:life12101563. [PMID: 36294998 PMCID: PMC9604673 DOI: 10.3390/life12101563] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/24/2022] [Revised: 10/04/2022] [Accepted: 10/07/2022] [Indexed: 11/04/2022]
Abstract
Dendrobium catenatum is an important herb and widely cultivated in China. GDSL-Type Esterase/Lipase proteins (GELPs) are widely distributed in plants and play crucial roles in stress responses, plant growth, and development. However, no identification or functional analysis of GELPs was reported in D. catenatum. This study identifies 52 GELPs in D. catenatum genome, which is classified into four groups by phylogenetic analysis. Four conservative blocks (Ser-Gly-Asn-His) are found in most GELP domains. Transcriptome analysis reveals the expression profiles of GELPs in different organs and flowering phases. Co-expression analysis of the transcriptome and lipidome identifies a GELP gene, Dca016600, that positively correlates with 23 lipids. The purified Dca016600 protein shows the optimum pH is active from 8.0 to 8.5, and the optimum temperature is active from 30 °C to 40 °C. The kinetic study provides Vmax (233.43 μmol·min-1·mg-1) and Km (1.49 mM) for substrate p-nitrophenyl palmitate (p-NPP). Integrated analysis of the transcriptome and proteome identifies a GELP gene, Dca005399, which is specially induced by freezing. Interestingly, Dca005399 shows high expression in symbiotic germination seeds and sepals. This study provides new insights into the function of D. catenatum GELPs in plant development and stress tolerance.
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Zhan X, Qian Y, Mao B. Metabolic Profiling of Terpene Diversity and the Response of Prenylsynthase-Terpene Synthase Genes during Biotic and Abiotic Stresses in Dendrobium catenatum. Int J Mol Sci 2022; 23:ijms23126398. [PMID: 35742843 PMCID: PMC9223610 DOI: 10.3390/ijms23126398] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2022] [Revised: 06/06/2022] [Accepted: 06/06/2022] [Indexed: 12/07/2022] Open
Abstract
Dendrobium catenatum is a widely cultivated Chinese orchid herb rich in abundant secondary metabolites, such as terpenes. However, terpene distribution and characterization of terpene biosynthesis-related genes remain unknown in D. catenatum. In this study, metabolic profiling was performed to analyze terpene distribution in the root, stem, leaf, and flower of D. catenatum. A total of 74 terpene compounds were identified and classified. Clustering analysis revealed that terpene compounds exhibited a tissue-specific accumulation, including monoterpenes in the flowers, sesquiterpenes in the stems, and triterpenes in the roots. Transcriptome analysis revealed that the ‘terpenoid backbone biosynthesis’ pathway was only significantly enriched in root vs. flower. The expression of terpene biosynthesis-related genes was spatiotemporal in the flowers. Prenylsynthase-terpene synthases (PS-TPSs) are the largest and core enzymes for generating terpene diversity. By systematic sequence analysis of six species, 318 PS-TPSs were classified into 10 groups and 51 DcaPS-TPSs were found in eight of them. Eighteen DcaPS-TPSs were regulated by circadian rhythm under drought stress. Most of the DcaPS-TPSs were influenced by cold stress and fungi infection. The cis-element of the majority of the DcaPS-TPS promoters was related to abiotic stress and plant development. Methyl jasmonate levels were significantly associated with DcaTPSs expression and terpene biosynthesis. These results provide insight into further functional investigation of DcaPS-TPSs and the regulation of terpene biosynthesis in Dendrobium.
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Affiliation(s)
- Xinqiao Zhan
- Institute of Biopharmaceuticals, Taizhou University, Taizhou 318000, China
- Institute of Biotechnology, Zhejiang University, Hangzhou 310000, China;
- Correspondence: (X.Z.); (B.M.)
| | - Yichun Qian
- Institute of Biotechnology, Zhejiang University, Hangzhou 310000, China;
| | - Bizeng Mao
- Institute of Biotechnology, Zhejiang University, Hangzhou 310000, China;
- Ministry of Agriculture Key Lab of Molecular Biology of Crop Pathogens and Insects, Hangzhou 310000, China
- Key Laboratory of Biology of Crop Pathogens and Insects of Zhejiang Province, Hangzhou 310000, China
- Correspondence: (X.Z.); (B.M.)
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Wang Y, Zhao K, Chen Y, Wei Q, Chen X, Wan H, Sun C. Species-Specific Gene Expansion of the Cellulose synthase Gene Superfamily in the Orchidaceae Family and Functional Divergence of Mannan Synthesis-Related Genes in Dendrobium officinale. FRONTIERS IN PLANT SCIENCE 2022; 13:777332. [PMID: 35720557 PMCID: PMC9204230 DOI: 10.3389/fpls.2022.777332] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/15/2021] [Accepted: 05/02/2022] [Indexed: 06/15/2023]
Abstract
Plant Cellulose synthase genes constitute a supergene family that includes the Cellulose synthase (CesA) family and nine Cellulose synthase-like (Csl) families, the members of which are widely involved in the biosynthesis of cellulose and hemicellulose. However, little is known about the Cellulose synthase superfamily in the family Orchidaceae, one of the largest families of angiosperms. In the present study, we identified and systematically analyzed the CesA/Csl family members in three fully sequenced Orchidaceae species, i.e., Dendrobium officinale, Phalaenopsis equestris, and Apostasia shenzhenica. A total of 125 Cellulose synthase superfamily genes were identified in the three orchid species and classified into one CesA family and six Csl families: CslA, CslC, CslD, CslE, CslG, and CslH according to phylogenetic analysis involving nine representative plant species. We found species-specific expansion of certain gene families, such as the CslAs in D. officinale (19 members). The CesA/Csl families exhibited sequence divergence and conservation in terms of gene structure, phylogeny, and deduced protein sequence, indicating multiple origins via different evolutionary processes. The distribution of the DofCesA/DofCsl genes was investigated, and 14 tandemly duplicated genes were detected, implying that the expansion of DofCesA/DofCsl genes may have originated via gene duplication. Furthermore, the expression profiles of the DofCesA/DofCsl genes were investigated using transcriptome sequencing and quantitative Real-time PCR (qRT-PCR) analysis, which revealed functional divergence in different tissues and during different developmental stages of D. officinale. Three DofCesAs were highly expressed in the flower, whereas DofCslD and DofCslC family genes exhibited low expression levels in all tissues and at all developmental stages. The 19 DofCslAs were differentially expressed in the D. officinale stems at different developmental stages, among which six DofCslAs were expressed at low levels or not at all. Notably, two DofCslAs (DofCslA14 and DofCslA15) showed significantly high expression in the stems of D. officinale, indicating a vital role in mannan synthesis. These results indicate the functional redundancy and specialization of DofCslAs with respect to polysaccharide accumulation. In conclusion, our results provide insights into the evolution, structure, and expression patterns of CesA/Csl genes and provide a foundation for further gene functional analysis in Orchidaceae and other plant species.
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Affiliation(s)
- Yunzhu Wang
- Institute of Horticulture Research, Zhejiang Academy of Agricultural Sciences, Hangzhou, China
| | - Kunkun Zhao
- Institute of Horticulture Research, Zhejiang Academy of Agricultural Sciences, Hangzhou, China
| | - Yue Chen
- Institute of Horticulture Research, Zhejiang Academy of Agricultural Sciences, Hangzhou, China
| | - Qingzhen Wei
- Institute of Vegetable Research, Zhejiang Academy of Agricultural Sciences, Hangzhou, China
| | - Xiaoyang Chen
- Seed Management Terminal of Zhejiang, Hangzhou, China
| | - Hongjian Wan
- Institute of Vegetable Research, Zhejiang Academy of Agricultural Sciences, Hangzhou, China
| | - Chongbo Sun
- Institute of Horticulture Research, Zhejiang Academy of Agricultural Sciences, Hangzhou, China
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Ku YS, Cheng SS, Ng MS, Chung G, Lam HM. The Tiny Companion Matters: The Important Role of Protons in Active Transports in Plants. Int J Mol Sci 2022; 23:ijms23052824. [PMID: 35269965 PMCID: PMC8911182 DOI: 10.3390/ijms23052824] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2021] [Revised: 02/26/2022] [Accepted: 03/02/2022] [Indexed: 12/07/2022] Open
Abstract
In plants, the translocation of molecules, such as ions, metabolites, and hormones, between different subcellular compartments or different cells is achieved by transmembrane transporters, which play important roles in growth, development, and adaptation to the environment. To facilitate transport in a specific direction, active transporters that can translocate their substrates against the concentration gradient are needed. Examples of major active transporters in plants include ATP-binding cassette (ABC) transporters, multidrug and toxic compound extrusion (MATE) transporters, monosaccharide transporters (MSTs), sucrose transporters (SUTs), and amino acid transporters. Transport via ABC transporters is driven by ATP. The electrochemical gradient across the membrane energizes these secondary transporters. The pH in each cell and subcellular compartment is tightly regulated and yet highly dynamic, especially when under stress. Here, the effects of cellular and subcellular pH on the activities of ABC transporters, MATE transporters, MSTs, SUTs, and amino acid transporters will be discussed to enhance our understanding of their mechanics. The relation of the altered transporter activities to various biological processes of plants will also be addressed. Although most molecular transport research has focused on the substrate, the role of protons, the tiny counterparts of the substrate, should also not be ignored.
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Affiliation(s)
- Yee-Shan Ku
- Centre for Soybean Research of the State Key Laboratory of Agrobiotechnology and School of Life Sciences, The Chinese University of Hong Kong, Hong Kong, China; (S.-S.C.); (M.-S.N.)
- Correspondence: (Y.-S.K.); (H.-M.L.); Tel.: +852-3943-8132 (Y.-S.K.); +852-3943-6336 (H.-M.L.)
| | - Sau-Shan Cheng
- Centre for Soybean Research of the State Key Laboratory of Agrobiotechnology and School of Life Sciences, The Chinese University of Hong Kong, Hong Kong, China; (S.-S.C.); (M.-S.N.)
| | - Ming-Sin Ng
- Centre for Soybean Research of the State Key Laboratory of Agrobiotechnology and School of Life Sciences, The Chinese University of Hong Kong, Hong Kong, China; (S.-S.C.); (M.-S.N.)
| | - Gyuhwa Chung
- Department of Biotechnology, Chonnam National University, Yeosu 59626, Korea;
| | - Hon-Ming Lam
- Centre for Soybean Research of the State Key Laboratory of Agrobiotechnology and School of Life Sciences, The Chinese University of Hong Kong, Hong Kong, China; (S.-S.C.); (M.-S.N.)
- Correspondence: (Y.-S.K.); (H.-M.L.); Tel.: +852-3943-8132 (Y.-S.K.); +852-3943-6336 (H.-M.L.)
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