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Wang SQ, Zhou XL, Jin YS, Jeppesen E, Yang L, Shen SK. Gene co-expression networks unravel the molecular responses of freshwater hydrophytes to combined stress of salinity and cadmium. CHEMOSPHERE 2023; 340:139933. [PMID: 37625492 DOI: 10.1016/j.chemosphere.2023.139933] [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: 05/15/2023] [Revised: 08/13/2023] [Accepted: 08/21/2023] [Indexed: 08/27/2023]
Abstract
Salinization in freshwater lakes is becoming a serious global environmental problem, especially in lakes of plateaus such as south-western plateau of China. However, limited information is available about the molecular response of freshwater hydrophytes to salinity under multiple stress. In the present study, a weighted gene co-expression network (WGCNA) was used to identify the modules of co-expressed genes in the physiological and biochemical indicators of Pistia stratiotes to determine its molecular response to salinity (NaCl) alone and when combined with cadmium (Cd). The physiological and biochemical indicators showed that P. stratiotes improved its salt tolerance by enhancing photosynthetic abilities, reducing oxidative stress, and inducing osmoprotectant generation. Morever, addition of NaCl reduced the Cd accumulation in P. stratiotes. Transcriptome and WGCNA analysis revealed that the pathways of alpha-linolenic acid metabolism, ribosomal, flavonoid biosynthesis, and phenylpropanoid biosynthesis were significantly enriched in both treatments. Genes associated with photosynthesis-antenna proteins, nitrogen metabolism, and the acid cycle pathways were only expressed under salinity stress alone, while the proteasome pathway was only significantly enriched in the combined salinity and Cd treatment. Our findings provide novel insights into the effects of salinization on aquatic plants in freshwater ecosystems and the management of aquatic ecosystems under global change.
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Affiliation(s)
- Si-Qi Wang
- Yunnan Key Laboratory of Plant Reproductive Adaptation and Evolutionary Ecology, Ministry of Education Key Laboratory for Transboundary Ecosecurity of Southwest China, Institute of Biodiversity, School of Ecology and Environmental Science, Yunnan University, Kunming, 650504, Yunnan, China
| | - Xiong-Li Zhou
- Yunnan Key Laboratory of Plant Reproductive Adaptation and Evolutionary Ecology, Ministry of Education Key Laboratory for Transboundary Ecosecurity of Southwest China, Institute of Biodiversity, School of Ecology and Environmental Science, Yunnan University, Kunming, 650504, Yunnan, China
| | - Yan-Shan Jin
- Yunnan Key Laboratory of Plant Reproductive Adaptation and Evolutionary Ecology, Ministry of Education Key Laboratory for Transboundary Ecosecurity of Southwest China, Institute of Biodiversity, School of Ecology and Environmental Science, Yunnan University, Kunming, 650504, Yunnan, China
| | - Erik Jeppesen
- Department of Ecoscience, Aarhus University, Aarhus C, 8000, Denmark; Sino-Danish Centre for Education and Research, Beijing, 100049, China; Limnology Laboratory, Department of Biological Sciences and Centre for Ecosystem Research and Implementation, Middle East Technical University, Ankara, 06800, Turkey; Institute of Marine Sciences, Middle East Technical University, Mersin, 33731, Turkey; Institute for Ecological Research and Pollution Control of Plateau Lakes, School of Ecology and Environmental Sciences, Yunnan University, Kunming, 650500, China
| | - Liu Yang
- Yunnan Key Laboratory of Plant Reproductive Adaptation and Evolutionary Ecology, Ministry of Education Key Laboratory for Transboundary Ecosecurity of Southwest China, Institute of Biodiversity, School of Ecology and Environmental Science, Yunnan University, Kunming, 650504, Yunnan, China
| | - Shi-Kang Shen
- Yunnan Key Laboratory of Plant Reproductive Adaptation and Evolutionary Ecology, Ministry of Education Key Laboratory for Transboundary Ecosecurity of Southwest China, Institute of Biodiversity, School of Ecology and Environmental Science, Yunnan University, Kunming, 650504, Yunnan, China.
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Liu B, Jin X, Zhang K, Liu Y, Wang S, Chen S, Zhang S, Yin X. Transcriptomic Analysis of Liver Tissue of Black Sea Bass ( Centropristis striata) Exposed to High Nitrogen Environment. Genes (Basel) 2023; 14:1440. [PMID: 37510344 PMCID: PMC10378819 DOI: 10.3390/genes14071440] [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: 06/12/2023] [Revised: 07/04/2023] [Accepted: 07/10/2023] [Indexed: 07/30/2023] Open
Abstract
The black sea bass, Centropristis striata, is a potential candidate for commercial aquaculture. Due to inadequate removal of nitrogen in its breeding environment, C. striata exhibits increased nitrate concentration, which can cause acute toxicity, including energy metabolism damage and tissue damage. Therefore, RNA-seq technology was applied to characterize genes associated with toxicity tolerance under nitrate stress. The nitrate treatment caused significant changes in a total of 8920 genes, of which 2949 genes were up-regulated and 5971 genes were down-regulated. It was found that significantly enriched GO terms and KEGG were associated with blood microparticles, inhibitors of enzyme activity, and complement and coagulation cascade pathways. Furthermore, through bioinformatics analysis, it was found that these different pathways obtained in GO and KEGG enrichment analysis were mostly related to the immune and inflammatory response of fish. This study expands our understanding of the mechanism of nitrate stress affecting the liver function of C. striata.
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Affiliation(s)
- Bingjian Liu
- Marine Science and Technology College, Zhejiang Ocean University, Zhoushan 316021, China
| | - Xun Jin
- Marine Science and Technology College, Zhejiang Ocean University, Zhoushan 316021, China
| | - Kun Zhang
- Marine Science and Technology College, Zhejiang Ocean University, Zhoushan 316021, China
| | - Yifan Liu
- Marine Science and Technology College, Zhejiang Ocean University, Zhoushan 316021, China
| | - Shaowen Wang
- College of Marine Sciences, South China Agricultural University, Guangzhou 510642, China
| | - Shiyi Chen
- Marine Science and Technology College, Zhejiang Ocean University, Zhoushan 316021, China
| | - Shufei Zhang
- Guangdong Provincial Key Laboratory of Fishery Ecology and Environment, South China Sea Fisheries Research Institute, Chinese Academy of Fisheries Sciences, Guangzhou 510300, China
| | - Xiaolong Yin
- Zhoushan Fisheries Research Institute of Zhejiang Province, Zhoushan 316021, China
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Liu X, Li A, Wang S, Lan C, Wang Y, Li J, Zhu J. Overexpression of Pyrus sinkiangensis HAT5 enhances drought and salt tolerance, and low-temperature sensitivity in transgenic tomato. FRONTIERS IN PLANT SCIENCE 2022; 13:1036254. [PMID: 36420018 PMCID: PMC9676457 DOI: 10.3389/fpls.2022.1036254] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/04/2022] [Accepted: 10/07/2022] [Indexed: 06/16/2023]
Abstract
The homeodomain-leucine zipper protein HAT belongs to the homeodomain leucine zipper subfamily (HD-Zip) and is important for regulating plant growth and development and stress tolerance. To investigate the role of HAT5 in tolerance to drought, salt, and low temperature stress, we selected a HAT gene from Pyrus sinkiangensis Yü (Pyrus sinkiangensis T.T. Yu). The sequences were analyzed using ioinformatics, and the overexpressed tomato lines were obtained using molecular biology techniques. The phenotypes, physiological, and biochemical indexes of the wild-type and transgenic tomato lines were observed under different stress conditions. We found that the gene had the highest homology with PbrHAT5. Under drought and NaCl stress, osmotic regulatory substances (especially proline) were significantly accumulated, and antioxidant enzyme activities were enhanced. The malondialdehyde level and relative electrical conductivity of transgenic tomatoes under low temperature (freezing) stress were significantly higher than those of wild-type tomatoes. The reactive oxygen species scavenging system was unbalanced. This study found that PsHAT5 improved the tolerance of tomatoes to drought and salt stress by regulating proline metabolism and oxidative stress ability, reducing the production of reactive oxygen species, and maintaining normal cell metabolism. In conclusion, the PsHAT5 transcription factor has great potential in crop resistance breeding, which lays a theoretical foundation for future excavation of effective resistance genes of the HD-Zip family and experimental field studies.
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Affiliation(s)
| | | | | | | | | | - Jin Li
- *Correspondence: Jianbo Zhu, ; Jin Li,
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Liu X, Yang X, Zhang B. Transcriptome analysis and functional identification of GmMYB46 in soybean seedlings under salt stress. PeerJ 2021; 9:e12492. [PMID: 34824922 PMCID: PMC8590805 DOI: 10.7717/peerj.12492] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2021] [Accepted: 10/25/2021] [Indexed: 01/19/2023] Open
Abstract
Salinity is one of the major abiotic stress that limits crop growth and productivity. We investigated the transcriptomes of salt-treated soybean seedlings versus a control using RNA-seq to better understand the molecular mechanisms of the soybean (Glycine max L.) response to salt stress. Transcriptome analysis revealed 1,235 differentially expressed genes (DEGs) under salt stress. Several important pathways and key candidate genes were identified by KEGG enrichment. A total of 116 differentially expressed transcription factors (TFs) were identified, and 17 TFs were found to belong to MYB families. Phylogenetic analysis revealed that these TFs may be involved in salt stress adaptation. Further analysis revealed that GmMYB46 was up-regulated by salt and mannitol and was localized in the nucleus. The salt tolerance of transgenic Arabidopsis overexpressing GmMYB46 was significantly enhanced compared to wild-type (WT). GmMYB46 activates the expression of salt stress response genes (P5CS1, SOD, POD, NCED3) in Arabidopsis under salt stress, indicating that the GmMYB46 protein mediates the salt stress response through complex regulatory mechanisms. This study provides information with which to better understand the molecular mechanism of salt tolerance in soybeans and to genetically improve the crop.
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Affiliation(s)
- Xun Liu
- College of Chemistry and Bioengineering, Hunan University of Science and Engineering, Yongzhou, China.,College of Life Sciences, Nanjing Agricultural University, Nanjing, China
| | - Xinxia Yang
- Department of Logistics, Hunan University of Science and Engineering, Yongzhou, China
| | - Bin Zhang
- College of Chemistry and Bioengineering, Hunan University of Science and Engineering, Yongzhou, China
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Zhao Y, Jiao F, Tang H, Xu H, Zhang L, Wu H. Genome-wide characterization, evolution, and expression profiling of FBA gene family in response to light treatments and abiotic stress in Nicotiana tabacum. PLANT SIGNALING & BEHAVIOR 2021; 16:1938442. [PMID: 34120568 PMCID: PMC8331045 DOI: 10.1080/15592324.2021.1938442] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/02/2021] [Revised: 05/30/2021] [Accepted: 05/31/2021] [Indexed: 05/26/2023]
Abstract
Fructose 1,6-bisphosphate aldolase (FBA) as a key enzyme play crucial roles in glycolysis, gluconeogenesis and Calvin cycle processes in plants. However, limited information is known regarding FBA genes in Nicotiana tabacum. In this study, 16 FBAs were identified and characterized in Nicotiana tabacum. Phylogenetic analysis revealed that these genes can be categorized as type I (NtFBA1-10 located in chloroplast) and type II (NtFBA11-16 located in cytoplasm) subfamilies. According to the conserved motifs and gene structure analysis, NtFBA protein sequences had the highly homologous to FBAs in other species. Most members of the NtFBA gene family responded positively to NaHCO3 stress, especially the expression of NtFBA13/14 increased by 642%. In addition, the expression results of NtFBAs under five abiotic stress (light, NaCl, NaHCO3, drought, and cold) conditions were showed that NtFBA13/14 were highly up-regulated. qRT-PCR results showed that most of the NtFBAs expressed higher in leaves. NtFBA7/8 and NtFBA13/14 have important significance in photosynthesis and abiotic stress, respectively. This study provides a basis foundation for further elucidating the function of NtFBAs and the N. tabacum mechanism of resistance under abiotic stress.
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Affiliation(s)
- Ying Zhao
- Yunnan Academy of Tobacco Agricultural Sciences, Kunming, China
- Agricultural Big-Data Research Center and College of Plant Protection, Shandong Agricultural University, Taian, China
| | - Fangchan Jiao
- Yunnan Academy of Tobacco Agricultural Sciences, Kunming, China
| | - Heng Tang
- Agricultural Big-Data Research Center and College of Plant Protection, Shandong Agricultural University, Taian, China
| | - Houjuan Xu
- Agricultural Big-Data Research Center and College of Plant Protection, Shandong Agricultural University, Taian, China
| | - Li Zhang
- Agricultural Big-Data Research Center and College of Plant Protection, Shandong Agricultural University, Taian, China
| | - Hui Wu
- Agricultural Big-Data Research Center and College of Plant Protection, Shandong Agricultural University, Taian, China
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