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Adaptation Potential of Three Psychrotolerant Aquatic Bacteria in the Pan-Okhotsk Region. WATER 2022. [DOI: 10.3390/w14071107] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
Abstract
The Pan-Okhotsk region, which is part of the western North Pacific Ocean, is famous for its active volcanoes, which are part of the Pacific Ring of Fire and that enrich the surrounding waters with essential chemicals. Therefore, this region, including the Sea of Okhotsk and the Sea of Japan, is characterized by rich biota. Bacterioplankton plays a significant part in biological communities and is an indicator of ecosystem function. Analyzing the adaptability of three representatives of the microbiota of the Pan-Okhotsk region was the goal of our investigation. Marinomonas primoryensis KMM3633T (MP), Yersinia ruckeri KMM821 (YR), and Yersinia pseudotuberculosis 598 (YP) from the G.B. Elyakov Pacific Institute of Bioorganic Chemistry were studied by means of genomic and bioinformatic methods. The list of membrane translocator proteins, metabolism pathways, and cold shock and antifreeze proteins that were revealed in the genome of MP characterized this bacterium as being adaptable to free living in marine conditions, even at winter temperatures. The genomic potential of YR and YP makes not only survival in the environment of the Pan-Okhotsk region but also pathogenesis in eukaryotic organisms possible. The data obtained will serve as a basis for further ecosystem monitoring with the help of microbiota research.
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Portnyagina O, Chistyulin D, Dyshlovoy S, Davidova V, Khomenko V, Shevchenko L, Novikova O. OmpF porin from Yersinia ruckeri as pathogenic factor: Surface antigenic sites and biological properties. Microb Pathog 2020; 150:104694. [PMID: 33359075 DOI: 10.1016/j.micpath.2020.104694] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2020] [Revised: 12/06/2020] [Accepted: 12/07/2020] [Indexed: 10/22/2022]
Abstract
Bacterium Yersinia ruckeri as a pathogen induces causative agent of intestinal fish disease called enteric redmouth disease (ERM) is known. In this study, outer membrane OmpF porin from the Y. ruckeri (YrOmpF) has been identified as a pathogenic factor which affects host macrophage activation and life cycle of eukaryotic cells. Using synthetic peptides corresponding to the sequences of the outer loops of YrOmpF L1 loop of the porin is most involved in the structure of B epitopes on the surface of the microbial cell it was found. T epitopes of the isolated YrOmpF trimer not only by linear, but also by discontinuous determinants, which is due to the secondary structure of the protein are represented. It was shown that YrOmpF was twice more cytotoxic to THP-1 cells (human monocytes, cancer cells) in comparison with CHH-1 cells (Oncorhynchus keta cardiac muscle cell, non-cancer cells). It was found YrOmpF induce cell cycle S-phase arrest in both normal CHH-1 and cancer THP-1 cells. In the cancer cells observed effect was most pronounce. In addition, we have observed an induction of apoptosis in THP-1 cell line treated with YrOmpF for 48 h at IC50 (48.6 μg/ml). Significant cytotoxic effect of YrOmpF on primary mouse peritoneal macrophages been detected as well. Of note, co-incubation of macrophages with anti-YrOmpF antibodies could decrease the amount of lactate dehydrogenase, while the number of living cells significantly increased. YrOmpF stimulates the activity of the phagocytic bactericidal systems especially of the oxygen-independent subsystem it was found. Antibodies against YrOmpF decreased MPO release and CP synthesis by peritoneal macrophages and increased their viability.
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Affiliation(s)
- Olga Portnyagina
- G.B Elyakov Pacific Institute of Bioorganic Chemistry, Far Eastern Branch of Russian Academy of Sciences, 159, Prosp. 100 Let Vladivostoku, Vladivostok, 690022, Russian Federation; School of Natural Sciences, Far Eastern Federal University, 8 Sukhanova St., Vladivostok, 690090, Russian Federation.
| | - Dmitry Chistyulin
- G.B Elyakov Pacific Institute of Bioorganic Chemistry, Far Eastern Branch of Russian Academy of Sciences, 159, Prosp. 100 Let Vladivostoku, Vladivostok, 690022, Russian Federation
| | - Sergey Dyshlovoy
- School of Natural Sciences, Far Eastern Federal University, 8 Sukhanova St., Vladivostok, 690090, Russian Federation; University Medical Center Hamburg-Eppendorf, 20251, Hamburg, Germany
| | - Viktoriya Davidova
- G.B Elyakov Pacific Institute of Bioorganic Chemistry, Far Eastern Branch of Russian Academy of Sciences, 159, Prosp. 100 Let Vladivostoku, Vladivostok, 690022, Russian Federation
| | - Valentina Khomenko
- G.B Elyakov Pacific Institute of Bioorganic Chemistry, Far Eastern Branch of Russian Academy of Sciences, 159, Prosp. 100 Let Vladivostoku, Vladivostok, 690022, Russian Federation
| | - Ludmila Shevchenko
- G.B Elyakov Pacific Institute of Bioorganic Chemistry, Far Eastern Branch of Russian Academy of Sciences, 159, Prosp. 100 Let Vladivostoku, Vladivostok, 690022, Russian Federation
| | - Olga Novikova
- G.B Elyakov Pacific Institute of Bioorganic Chemistry, Far Eastern Branch of Russian Academy of Sciences, 159, Prosp. 100 Let Vladivostoku, Vladivostok, 690022, Russian Federation
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Porin from Marine Bacterium Marinomonas primoryensis KMM 3633 T: Isolation, Physico-Chemical Properties, and Functional Activity. Molecules 2020; 25:molecules25143131. [PMID: 32650591 PMCID: PMC7397200 DOI: 10.3390/molecules25143131] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/26/2020] [Revised: 07/01/2020] [Accepted: 07/03/2020] [Indexed: 01/29/2023] Open
Abstract
Marinomonas primoryensis KMM 3633T, extreme living marine bacterium was isolated from a sample of coastal sea ice in the Amursky Bay near Vladivostok, Russia. The goal of our investigation is to study outer membrane channels determining cell permeability. Porin from M. primoryensis KMM 3633T (MpOmp) has been isolated and characterized. Amino acid analysis and whole genome sequencing were the sources of amino acid data of porin, identified as Porin_4 according to the conservative domain searching. The amino acid composition of MpOmp distinguished by high content of acidic amino acids and low content of sulfur-containing amino acids, but there are no tryptophan residues in its molecule. The native MpOmp existed as a trimer. The reconstitution of MpOmp into black lipid membranes demonstrated its ability to form ion channels whose conductivity depends on the electrolyte concentration. The spatial structure of MpOmp had features typical for the classical gram-negative porins. However, the oligomeric structure of isolated MpOmp was distinguished by very low stability: heat-modified monomer was already observed at 30 °C. The data obtained suggest the stabilizing role of lipids in the natural membrane of marine bacteria in the formation of the oligomeric structure of porin.
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Wang E, Qin Z, Yu Z, Ai X, Wang K, Yang Q, Liu T, Chen D, Geng Y, Huang X, Ouyang P, Lai W. Molecular Characterization, Phylogenetic, Expression, and Protective Immunity Analysis of OmpF, a Promising Candidate Immunogen Against Yersinia ruckeri Infection in Channel Catfish. Front Immunol 2018; 9:2003. [PMID: 30271401 PMCID: PMC6146100 DOI: 10.3389/fimmu.2018.02003] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2018] [Accepted: 08/14/2018] [Indexed: 11/23/2022] Open
Abstract
Outer membrane porins, as the major components of Gram-negative bacterial membrane proteins, have been proven to be involved in interactions with the host immune system and potent protective antigen candidates against bacterial infection in fish. Outer membrane porin F (OmpF) is one of the major porins of Yersinia ruckeri (Y. ruckeri), the causative agent of enteric red mouth disease of salmonid and non-salmonid fish. In the present study, the molecular characterization and phylogenetic analysis of OmpF gene was studied, heterogenous expression, immunogenicity and protective immunity of OmpF were systemically evaluated as a subunit vaccine for channel catfish against Y. ruckeri infection. The results showed that OmpF gene was highly conserved among 15 known Yersinia species based on the analysis of conserved motifs, sequences alignment and phylogenetic tree, and was subjected to negative/purifying selection with global dN/dS ratios value of 0.649 throughout the evolution. Besides, OmpF was also identified to have immunogenicity by western blotting and was verified to be located on the surface of Y. ruckeri using cell surface staining and indirect immunofluorescence assays. Moreover, recombinant OmpF (rtOmpF) as a subunit vaccine was injected with commercial adjuvant ISA763, significantly enhanced the immune response by increasing serum antibody levels, lysozyme activity, complement C3 activity, total protein content, SOD activity, immune-related genes expression in the head kidney and spleen, and survival percent of channel catfish against Y. ruckeri infection. Thus, our present results not only enriched the information of molecular characterization and phylogenetics of OmpF, but also demonstrated that OmpF holds promise to be used as a potential antigen against Y. ruckeri infection in fish.
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Affiliation(s)
- Erlong Wang
- Department of Basic Veterinary, College of Veterinary Medicine, Sichuan Agricultural University, Chengdu, China
| | - Zhenyang Qin
- Department of Basic Veterinary, College of Veterinary Medicine, Sichuan Agricultural University, Chengdu, China
| | - Zehui Yu
- Department of Basic Veterinary, College of Veterinary Medicine, Sichuan Agricultural University, Chengdu, China
| | - Xiaohui Ai
- Yangtze River Fisheries Research Institute, Chinese Academy of Fishery Sciences, Wuhan, China
| | - Kaiyu Wang
- Department of Basic Veterinary, College of Veterinary Medicine, Sichuan Agricultural University, Chengdu, China.,Key Laboratory of Animal Disease and Human Health of Sichuan Province, Sichuan Agricultural University, Chengdu, China
| | - Qian Yang
- Department of Basic Veterinary, College of Veterinary Medicine, Sichuan Agricultural University, Chengdu, China
| | - Tao Liu
- Department of Basic Veterinary, College of Veterinary Medicine, Sichuan Agricultural University, Chengdu, China
| | - Defang Chen
- Department of Aquaculture, College of Animal Science & Technology, Sichuan Agricultural University, Chengdu, China
| | - Yi Geng
- Department of Basic Veterinary, College of Veterinary Medicine, Sichuan Agricultural University, Chengdu, China.,Key Laboratory of Animal Disease and Human Health of Sichuan Province, Sichuan Agricultural University, Chengdu, China
| | - Xiaoli Huang
- Department of Aquaculture, College of Animal Science & Technology, Sichuan Agricultural University, Chengdu, China
| | - Ping Ouyang
- Department of Basic Veterinary, College of Veterinary Medicine, Sichuan Agricultural University, Chengdu, China
| | - Weimin Lai
- Department of Basic Veterinary, College of Veterinary Medicine, Sichuan Agricultural University, Chengdu, China
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Novikova OD, Chistyulin DK, Khomenko VA, Sidorin EV, Kim NY, Sanina NM, Portnyagina OY, Solov'eva TF, Uversky VN, Shnyrov VL. Peculiarities of thermal denaturation of OmpF porin from Yersinia ruckeri. MOLECULAR BIOSYSTEMS 2017; 13:1854-1862. [DOI: 10.1039/c7mb00239d] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Irreversible denaturation of membrane proteins in detergent solutions is similar to unfolding of water-soluble multidomain proteins and represents a complex, multistage process.
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Affiliation(s)
- Olga D. Novikova
- G.B. Elyakov Pacific Institute of Bioorganic Chemistry
- Far East Branch
- Russian Academy of Sciences
- Vladivostok
- Russia
| | - Dmitry K. Chistyulin
- G.B. Elyakov Pacific Institute of Bioorganic Chemistry
- Far East Branch
- Russian Academy of Sciences
- Vladivostok
- Russia
| | - Valentina A. Khomenko
- G.B. Elyakov Pacific Institute of Bioorganic Chemistry
- Far East Branch
- Russian Academy of Sciences
- Vladivostok
- Russia
| | - Evgeny V. Sidorin
- G.B. Elyakov Pacific Institute of Bioorganic Chemistry
- Far East Branch
- Russian Academy of Sciences
- Vladivostok
- Russia
| | - Natalya Yu. Kim
- G.B. Elyakov Pacific Institute of Bioorganic Chemistry
- Far East Branch
- Russian Academy of Sciences
- Vladivostok
- Russia
| | | | - Olga Yu. Portnyagina
- G.B. Elyakov Pacific Institute of Bioorganic Chemistry
- Far East Branch
- Russian Academy of Sciences
- Vladivostok
- Russia
| | - Tamara F. Solov'eva
- G.B. Elyakov Pacific Institute of Bioorganic Chemistry
- Far East Branch
- Russian Academy of Sciences
- Vladivostok
- Russia
| | - Vladimir N. Uversky
- Department of Molecular Medicine
- Morsani College of Medicine
- University of South Florida
- Tampa
- USA
| | - Valery L. Shnyrov
- Departamento de Bioquimica y Biologia Molecular
- Universidad de Salamanca
- 37007 Salamanca
- Spain
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