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Zhong Z, Guo Y, Zhou L, Chen H, Lian C, Wang H, Zhang H, Cao L, Sun Y, Wang M, Li C. Transcriptomic responses and evolutionary insights of deep-sea and shallow-water mussels under high hydrostatic pressure condition. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 949:175185. [PMID: 39089385 DOI: 10.1016/j.scitotenv.2024.175185] [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: 05/14/2024] [Revised: 07/25/2024] [Accepted: 07/29/2024] [Indexed: 08/04/2024]
Abstract
Marine mussels inhabit a wide range of ocean depths, necessitating unique adaptations to cope with varying hydrostatic pressures. This study investigates the transcriptomic responses and evolutionary adaptations of the deep-sea mussel Gigantidas platifrons and the shallow-water mussel Mytilus galloprovincialis to high hydrostatic pressure (HHP) conditions. By exposing atmospheric pressure (AP) acclimated G. platifrons and M. galloprovincialis to HHP, we aim to simulate extreme environmental challenges and assess their adaptive mechanisms. Through comparative transcriptomic analysis, we identified both conserved and species-specific mechanisms of adaptation, with a notable change in gene expression associated with immune system, substance transport, protein ubiquitination, apoptosis, lipid metabolism and antioxidant processes in both species. G. platifrons demonstrated an augmented lipid metabolism, whereas M. galloprovincialis exhibited a dampened immune function. Additionally, the expressed pattern of deep-sea mussel G. platifrons were more consistent than shallow-water mussel M. galloprovincialis under hydrostatic pressures changed conditions which corresponding the long-term living stable deep-sea environment. Moreover, evolutionary analysis pinpointed positively selected genes in G. platifrons that are linked to transmembrane transporters, DNA repair and replication, apoptosis, ubiquitination which are important to cell structural integrity, substances transport, and cellular growth regulation. This indicates a specialized adaptation strategy in G. platifrons to cope with the persistent HHP conditions of the deep sea. These results offer significant insights into the molecular underpinnings of mussel adaptation to varied hydrostatic conditions and enhance our comprehension of the evolutionary forces driving their depth-specific adaptations.
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Affiliation(s)
- Zhaoshan Zhong
- Center of Deep-sea Research, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China
| | - Yang Guo
- Center of Deep-sea Research, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China; State Key Laboratory of Microbial Technology, Shandong University, Qingdao, Shandong 266237, China
| | - Li Zhou
- Center of Deep-sea Research, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China; University of Chinese Academy of Sciences, Beijing 10049, China
| | - Hao Chen
- Center of Deep-sea Research, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China
| | - Chao Lian
- Center of Deep-sea Research, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China
| | - Hao Wang
- Center of Deep-sea Research, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China
| | - Huan Zhang
- Center of Deep-sea Research, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China
| | - Lei Cao
- Center of Deep-sea Research, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China
| | - Yan Sun
- Center of Deep-sea Research, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China
| | - Minxiao Wang
- Center of Deep-sea Research, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China; University of Chinese Academy of Sciences, Beijing 10049, China.
| | - Chaolun Li
- Center of Deep-sea Research, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China; South China Sea Institute of Oceanology, Chinese Academy of Science, Guangzhou 510301, China; University of Chinese Academy of Sciences, Beijing 10049, China; Laoshan Laboratory, Qingdao 266237, China.
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Yin J, Li J, Xie H, Wang Y, Zhao J, Wang L, Wu L. Unveiling cold Code: Acinetobacter calcoaceticus TY1's adaptation strategies and applications in nitrogen treatment. BIORESOURCE TECHNOLOGY 2024; 413:131449. [PMID: 39244103 DOI: 10.1016/j.biortech.2024.131449] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/09/2024] [Revised: 09/01/2024] [Accepted: 09/04/2024] [Indexed: 09/09/2024]
Abstract
Overcoming low nitrogen removal efficiency at low temperatures is a challenge in biological treatment. This study investigated the cold-tolerant heterotrophic nitrification-aerobic denitrification by Acinetobacter calcoaceticus TY1. Transcriptomic and biochemical analyses indicated that strain TY1 upregulated genes for energy production, assimilation, cell motility, and antioxidant enzyme production under cold stress, maintaining functions such as energy supply, nitrogen utilization, and oxidative defense. Increasing the synthesis of extracellular polysaccharides, unsaturated fatty acids, and medium-chain fatty acids and secreting large amounts of antioxidant enzymes ensured cell membrane flexibility while enhancing the antioxidant system. Immobilization experiments showed that biofilms accelerated the removal of nitrogen pollutants and demonstrated good stability, with carriers being reusable to five times, maintaining high ammonia nitrogen (63.90 %) and total nitrogen (50.66 %) removal rates. These findings reveal the cold tolerance mechanisms of strain TY1 and its excellent practical potential as a candidate for wastewater treatment in cold regions.
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Affiliation(s)
- Jiahui Yin
- School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, PR China
| | - Junyi Li
- School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, PR China
| | - Hongliang Xie
- School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, PR China
| | - Yongman Wang
- School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, PR China
| | - Jialin Zhao
- School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, PR China
| | - Lixin Wang
- School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, PR China
| | - Linhui Wu
- School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, PR China; Inner Mongolia Key Laboratory of Environmental Pollution Prevention and Waste Resource Recycle, Hohhot 010021, PR China.
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Zhang X, Zhang Z, Yan Q, Du Z, Zhao L, Qin Y. Amino Acid-Induced Chemotaxis Plays a Key Role in the Adaptation of Vibrio harveyi from Seawater to the Muscle of the Host Fish. Microorganisms 2024; 12:1292. [PMID: 39065061 PMCID: PMC11278769 DOI: 10.3390/microorganisms12071292] [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: 05/11/2024] [Revised: 06/13/2024] [Accepted: 06/13/2024] [Indexed: 07/28/2024] Open
Abstract
Vibrio harveyi is a normal flora in natural marine habitats and a significant opportunistic pathogen in marine animals. This bacterium can cause a series of lesions after infecting marine animals, in which muscle necrosis and ulcers are the most common symptoms. This study explored the adaptation mechanisms of V. harveyi from the seawater environment to host fish muscle environment. The comprehensive transcriptome analysis revealed dramatic changes in the transcriptome of V. harveyi during its adaptation to the host fish muscle environment. Based on Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis, flagellar assembly, oxidative phosphorylation, bacterial chemotaxis, and two-component systems play crucial roles in V. harveyi's adaptation to host fish muscle. A comparison of biological phenotypes revealed that V. harveyi displayed a significant increase in flagellar length, swimming, twitching, chemotaxis, adhesion, and biofilm formation after induction by host fish muscle, and its dominant amino acids, especially bacterial chemotaxis induced by host muscle, Ala and Arg. It could be speculated that the enhancement of bacterial chemotaxis induced by amino acids plays a key role in the adaptation of V. harveyi from seawater to the muscle of the host fish.
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Affiliation(s)
- Xiaoxu Zhang
- State Key Laboratory of Mariculture Breeding, Fisheries College of Jimei University, Xiamen 361021, China; (X.Z.); (Z.Z.); (Q.Y.); (Z.D.); (L.Z.)
- Key Laboratory of Health Mariculture for the East China Sea, Ministry of Agriculture, Jimei University, Xiamen 361021, China
| | - Zhe Zhang
- State Key Laboratory of Mariculture Breeding, Fisheries College of Jimei University, Xiamen 361021, China; (X.Z.); (Z.Z.); (Q.Y.); (Z.D.); (L.Z.)
- Key Laboratory of Health Mariculture for the East China Sea, Ministry of Agriculture, Jimei University, Xiamen 361021, China
| | - Qingpi Yan
- State Key Laboratory of Mariculture Breeding, Fisheries College of Jimei University, Xiamen 361021, China; (X.Z.); (Z.Z.); (Q.Y.); (Z.D.); (L.Z.)
- Key Laboratory of Health Mariculture for the East China Sea, Ministry of Agriculture, Jimei University, Xiamen 361021, China
| | - Ziyan Du
- State Key Laboratory of Mariculture Breeding, Fisheries College of Jimei University, Xiamen 361021, China; (X.Z.); (Z.Z.); (Q.Y.); (Z.D.); (L.Z.)
- Key Laboratory of Health Mariculture for the East China Sea, Ministry of Agriculture, Jimei University, Xiamen 361021, China
| | - Lingmin Zhao
- State Key Laboratory of Mariculture Breeding, Fisheries College of Jimei University, Xiamen 361021, China; (X.Z.); (Z.Z.); (Q.Y.); (Z.D.); (L.Z.)
- Key Laboratory of Health Mariculture for the East China Sea, Ministry of Agriculture, Jimei University, Xiamen 361021, China
| | - Yingxue Qin
- State Key Laboratory of Mariculture Breeding, Fisheries College of Jimei University, Xiamen 361021, China; (X.Z.); (Z.Z.); (Q.Y.); (Z.D.); (L.Z.)
- Key Laboratory of Health Mariculture for the East China Sea, Ministry of Agriculture, Jimei University, Xiamen 361021, China
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Li X, Cui Y, Wu W, Zhang Z, Fang J, Yu X, Cao J. Characterization and Biosynthetic Regulation of Isoflavone Genistein in Deep-Sea Actinomycetes Microbacterium sp. B1075. Mar Drugs 2024; 22:276. [PMID: 38921587 PMCID: PMC11205022 DOI: 10.3390/md22060276] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/08/2024] [Revised: 06/07/2024] [Accepted: 06/11/2024] [Indexed: 06/27/2024] Open
Abstract
Deep-sea environments, as relatively unexplored extremes within the Earth's biosphere, exhibit notable distinctions from terrestrial habitats. To thrive in these extreme conditions, deep-sea actinomycetes have evolved unique biochemical metabolisms and physiological capabilities to ensure their survival in this niche. In this study, five actinomycetes strains were isolated and identified from the Mariana Trench via the culture-dependent method and 16S rRNA sequencing approach. The antimicrobial activity of Microbacterium sp. B1075 was found to be the most potent, and therefore, it was selected as the target strain. Molecular networking analysis via the Global Natural Products Social Molecular Networking (GNPS) platform identified 25 flavonoid compounds as flavonoid secondary metabolites. Among these, genistein was purified and identified as a bioactive compound with significant antibacterial activity. The complete synthesis pathway for genistein was proposed within strain B1075 based on whole-genome sequencing data, with the key gene being CHS (encoding chalcone synthase). The expression of the gene CHS was significantly regulated by high hydrostatic pressure, with a consequent impact on the production of flavonoid compounds in strain B1075, revealing the relationship between actinomycetes' synthesis of flavonoid-like secondary metabolites and their adaptation to high-pressure environments at the molecular level. These results not only expand our understanding of deep-sea microorganisms but also hold promise for providing valuable insights into the development of novel pharmaceuticals in the field of biopharmaceuticals.
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Affiliation(s)
- Xin Li
- College of Oceanography and Ecological Science, Shanghai Ocean University, Shanghai 201306, China; (X.L.); (Y.C.); (W.W.); (J.F.)
| | - Yukun Cui
- College of Oceanography and Ecological Science, Shanghai Ocean University, Shanghai 201306, China; (X.L.); (Y.C.); (W.W.); (J.F.)
| | - Weichao Wu
- College of Oceanography and Ecological Science, Shanghai Ocean University, Shanghai 201306, China; (X.L.); (Y.C.); (W.W.); (J.F.)
| | - Zhizhen Zhang
- Ocean College, Zhoushan Campus, Zhejiang University, Zhoushan 316021, China;
| | - Jiasong Fang
- College of Oceanography and Ecological Science, Shanghai Ocean University, Shanghai 201306, China; (X.L.); (Y.C.); (W.W.); (J.F.)
| | - Xi Yu
- College of Oceanography and Ecological Science, Shanghai Ocean University, Shanghai 201306, China; (X.L.); (Y.C.); (W.W.); (J.F.)
| | - Junwei Cao
- College of Oceanography and Ecological Science, Shanghai Ocean University, Shanghai 201306, China; (X.L.); (Y.C.); (W.W.); (J.F.)
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Qiu X, Hu XM, Tang XX, Huang CH, Jian HH, Lin DH. Metabolic adaptations of Microbacterium sediminis YLB-01 in deep-sea high-pressure environments. Appl Microbiol Biotechnol 2024; 108:170. [PMID: 38265689 DOI: 10.1007/s00253-023-12906-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/10/2023] [Revised: 10/30/2023] [Accepted: 11/07/2023] [Indexed: 01/25/2024]
Abstract
The deep-sea environment is an extremely difficult habitat for microorganisms to survive in due to its intense hydrostatic pressure. However, the mechanisms by which these organisms adapt to such extreme conditions remain poorly understood. In this study, we investigated the metabolic adaptations of Microbacterium sediminis YLB-01, a cold and stress-tolerant microorganism isolated from deep-sea sediments, in response to high-pressure conditions. YLB-01 cells were cultured at normal atmospheric pressure and 28 ℃ until they reached the stationary growth phase. Subsequently, the cells were exposed to either normal pressure or high pressure (30 MPa) at 4 ℃ for 7 days. Using NMR-based metabolomic and proteomic analyses of YLB-01 cells exposed to high-pressure conditions, we observed significant metabolic changes in several metabolic pathways, including amino acid, carbohydrate, and lipid metabolism. In particular, the high-pressure treatment stimulates cell division and triggers the accumulation of UDP-glucose, a critical factor in cell wall formation. This finding highlights the adaptive strategies used by YLB-01 cells to survive in the challenging high-pressure environments of the deep sea. Specifically, we discovered that YLB-01 cells regulate amino acid metabolism, promote carbohydrate metabolism, enhance cell wall synthesis, and improve cell membrane fluidity in response to high pressure. These adaptive mechanisms play essential roles in supporting the survival and growth of YLB-01 in high-pressure conditions. Our study offers valuable insights into the molecular mechanisms underlying the metabolic adaptation of deep-sea microorganisms to high-pressure environments. KEY POINTS: • NMR-based metabolomic and proteomic analyses were conducted on Microbacterium sediminis YLB-01 to investigate the significant alterations in several metabolic pathways in response to high-pressure treatment. • YLB-01 cells used adaptive strategies (such as regulated amino acid metabolism, promoted carbohydrate metabolism, enhanced cell wall synthesis, and improved cell membrane fluidity) to survive in the challenging high-pressure environment of the deep sea. • High-pressure treatment stimulated cell division and triggered the accumulation of UDP-glucose, a critical factor in cell wall formation, in Microbacterium sediminis YLB-01 cells.
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Affiliation(s)
- Xu Qiu
- Key Laboratory for Chemical Biology of Fujian Province, MOE Key Laboratory of Spectrochemical Analysis and Instrumentation, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, China
| | - Xiao-Min Hu
- Key Laboratory for Chemical Biology of Fujian Province, MOE Key Laboratory of Spectrochemical Analysis and Instrumentation, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, China
| | - Xi-Xiang Tang
- State Key Laboratory Breeding Base of Marine Genetic Resources, Key Laboratory of Marine Genetic Resources, Fujian Key Laboratory of Marine Genetic Resources, Third Institute of Oceanography, Ministry of Natural Resources, Xiamen, China.
| | - Cai-Hua Huang
- Research and Communication Center of Exercise and Health, Xiamen University of Technology, Xiamen, China
| | - Hua-Hua Jian
- State Key Laboratory of Microbial Metabolism, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai, China
| | - Dong-Hai Lin
- Key Laboratory for Chemical Biology of Fujian Province, MOE Key Laboratory of Spectrochemical Analysis and Instrumentation, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, China.
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