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Jannat MAH, Park SH, Hwang S. Modeling interactions of Clostridium cadaveris and Clostridium sporogenes in anaerobic acidogenesis of glucose and peptone. Bioresour Technol 2024; 393:130099. [PMID: 38013037 DOI: 10.1016/j.biortech.2023.130099] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/31/2023] [Revised: 11/22/2023] [Accepted: 11/22/2023] [Indexed: 11/29/2023]
Abstract
This study focuses on developing a mathematical model to assess interaction among acidogenic bacteria during the anaerobic degradation of two substrates. Clostridium cadaveris and Clostridium sporogenes were cultured in various combinations with glucose and peptone. Parameter estimates are given for both conventional Monod parameters from single substrate-single species cultures and sum kinetics with interaction parameters obtained from dual substrate-single species cultures. The presence of multiple substrates led to both inhibitory and enhancing effects on biodegradation rates for dual substrates compared to single substrate cultures. A new model of interspecies interaction was developed within the framework of Lotka-Volterra incorporating substrate interaction parameters, with a focus on accuracy, realism, simplicity, and biological significance. The model demonstrated competitive interaction for resource sharing and the additional non-linearity parameter eliminated the constraint of the linear relationship between growth rate and population density.
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Affiliation(s)
- Md Abu Hanifa Jannat
- Division of Environmental Science and Engineering, Pohang University of Science and Technology, 77 Cheongam-Ro, Nam-Gu, Pohang, Gyeongbuk, South Korea.
| | - Sang Hyeok Park
- Division of Environmental Science and Engineering, Pohang University of Science and Technology, 77 Cheongam-Ro, Nam-Gu, Pohang, Gyeongbuk, South Korea.
| | - Seokhwan Hwang
- Division of Environmental Science and Engineering, Pohang University of Science and Technology, 77 Cheongam-Ro, Nam-Gu, Pohang, Gyeongbuk, South Korea; Yonsei University Institute for Convergence Research and Education in Advanced Technology (I-CREATE), 85, Songdogwahak-ro, Yeonsu-gu, Incheon 21983, Republic of Korea.
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2
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Dai W, Zhang Z, Dong Y, He L, Xue Q, Lin Z. Acute Salinity Stress Disrupts Gut Microbiota Homeostasis and Reduces Network Connectivity and Cooperation in Razor Clam Sinonovacula constricta. Mar Biotechnol (NY) 2023; 25:1147-1157. [PMID: 37943354 DOI: 10.1007/s10126-023-10267-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/03/2023] [Accepted: 10/30/2023] [Indexed: 11/10/2023]
Abstract
Accumulating evidence demonstrates that it is of great importance to maintain a stable and functional gut microbial community for host's growth and health. However, gut microenvironment is constantly affected by diverse environmental factors. Salinity can cause stress, including hypersaline or hyposaline stress to aquatic species, thereby affecting their growth conditions. Razor clam (Sinonovacula constricta), an economically important bivalve species, inhabits in intertidal and estuarine zones and constantly experiences salinity stress. Yet little is known about how and to what extent clam gut microbiota is affected by salinity stress, while this knowledge is fundamental for clam aquaculture health management. To address this concern, this study compared the temporal differences of gut bacterial signatures and community assembly of S. constricta under normal salinity (NS), low salinity (LS), and high salinity (HS) conditions. Acute salinity stress affected the compositions, structures, and functional potentials of clam gut microbial community, of which salinity stress, hours post stress, and their interaction respectively constrained 7.6%, 16.4%, and 7.9% of community variation. Phylogenetic bin-based null model result revealed that the gut bacterial assembly of three salinity groups seemed to be largely driven by stochastic processes. Network analysis indicated that gut bacterial interspecies interaction exhibited less connected and lower cooperative activity under the conditions of LS and HS compared with NS. Notably, some pathogenic bacteria, including Vibrio and Pseudoalteromonas, were identified as keystone taxa of gut microbial networks in LS and HS groups. Above findings suggest that the clams under LS and HS conditions might be at a higher risk of developing disease. Our findings enhance the mechanism understanding of gut microbial assembly in S. constricta under abiotic factor challenge, which has important implications for clam health control from a microbial ecological perspective.
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Affiliation(s)
- Wenfang Dai
- Ninghai Institute of Mariculture Breeding and Seed Industry, Zhejiang Wanli University, Ningbo, China
- Zhejiang Key Laboratory of Aquatic Germplasm Resource, College of Biological and Environmental Sciences, Zhejiang Wanli University, Ningbo, China
| | - Zijuan Zhang
- Zhejiang Key Laboratory of Aquatic Germplasm Resource, College of Biological and Environmental Sciences, Zhejiang Wanli University, Ningbo, China
| | - Yinghui Dong
- Ninghai Institute of Mariculture Breeding and Seed Industry, Zhejiang Wanli University, Ningbo, China
- Zhejiang Key Laboratory of Aquatic Germplasm Resource, College of Biological and Environmental Sciences, Zhejiang Wanli University, Ningbo, China
| | - Lin He
- Zhejiang Key Laboratory of Aquatic Germplasm Resource, College of Biological and Environmental Sciences, Zhejiang Wanli University, Ningbo, China
| | - Qinggang Xue
- Ninghai Institute of Mariculture Breeding and Seed Industry, Zhejiang Wanli University, Ningbo, China.
- Zhejiang Key Laboratory of Aquatic Germplasm Resource, College of Biological and Environmental Sciences, Zhejiang Wanli University, Ningbo, China.
| | - Zhihua Lin
- Ninghai Institute of Mariculture Breeding and Seed Industry, Zhejiang Wanli University, Ningbo, China.
- Zhejiang Key Laboratory of Aquatic Germplasm Resource, College of Biological and Environmental Sciences, Zhejiang Wanli University, Ningbo, China.
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Sallam MF, Whitehead S, Barve N, Bauer A, Guralnick R, Allen J, Tavares Y, Gibson S, Linthicum KJ, Giordano BV, Campbell LP. Co-occurrence probabilities between mosquito vectors of West Nile and Eastern equine encephalitis viruses using Markov Random Fields (MRFcov). Parasit Vectors 2023; 16:10. [PMID: 36627717 PMCID: PMC9830877 DOI: 10.1186/s13071-022-05530-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/16/2022] [Accepted: 09/22/2022] [Indexed: 01/11/2023] Open
Abstract
Mosquito vectors of eastern equine encephalitis virus (EEEV) and West Nile virus (WNV) in the USA reside within broad multi-species assemblages that vary in spatial and temporal composition, relative abundances and vector competence. These variations impact the risk of pathogen transmission and the operational management of these species by local public health vector control districts. However, most models of mosquito vector dynamics focus on single species and do not account for co-occurrence probabilities between mosquito species pairs across environmental gradients. In this investigation, we use for the first time conditional Markov Random Fields (CRF) to evaluate spatial co-occurrence patterns between host-seeking mosquito vectors of EEEV and WNV around sampling sites in Manatee County, Florida. Specifically, we aimed to: (i) quantify correlations between mosquito vector species and other mosquito species; (ii) quantify correlations between mosquito vectors and landscape and climate variables; and (iii) investigate whether the strength of correlations between species pairs are conditional on landscape or climate variables. We hypothesized that either mosquito species pairs co-occur in patterns driven by the landscape and/or climate variables, or these vector species pairs are unconditionally dependent on each other regardless of the environmental variables. Our results indicated that landscape and bioclimatic covariates did not substantially improve the overall model performance and that the log abundances of the majority of WNV and EEEV vector species were positively dependent on other vector and non-vector mosquito species, unconditionally. Only five individual mosquito vectors were weakly dependent on environmental variables with one exception, Culiseta melanura, the primary vector for EEEV, which showed a strong correlation with woody wetland, precipitation seasonality and average temperature of driest quarter. Our analyses showed that majority of the studied mosquito species' abundance and distribution are insignificantly better predicted by the biotic correlations than by environmental variables. Additionally, these mosquito vector species may be habitat generalists, as indicated by the unconditional correlation matrices between species pairs, which could have confounded our analysis, but also indicated that the approach could be operationalized to leverage species co-occurrences as indicators of vector abundances in unsampled areas, or under scenarios where environmental variables are not informative.
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Affiliation(s)
- Mohamed F. Sallam
- grid.265436.00000 0001 0421 5525Preventive Medicine and Biostatistics Department, Uniformed Service University of the Health Sciences, Bethesda, MD 20814 USA ,grid.266818.30000 0004 1936 914XDepartment of Biology, University of Nevada, Reno, NV USA
| | - Shelley Whitehead
- Whitehead Entomology Consulting, Gainesville, FL USA ,Manatee County Mosquito Control District, Palmetto, FL USA
| | - Narayani Barve
- grid.15276.370000 0004 1936 8091Department of Natural Resources, University of Florida, Gainesville, FL USA
| | - Amely Bauer
- grid.15276.370000 0004 1936 8091Florida Medical Entomology Laboratory (FMEL), Department of Entomology and Nematology, University of Florida Institute of Food and Agricultural Sciences (UF/IFAS), Gainesville, FL USA
| | - Robert Guralnick
- grid.15276.370000 0004 1936 8091Department of Natural Resources, University of Florida, Gainesville, FL USA
| | - Julie Allen
- grid.265436.00000 0001 0421 5525Preventive Medicine and Biostatistics Department, Uniformed Service University of the Health Sciences, Bethesda, MD 20814 USA
| | - Yasmin Tavares
- grid.15276.370000 0004 1936 8091Florida Medical Entomology Laboratory (FMEL), Department of Entomology and Nematology, University of Florida Institute of Food and Agricultural Sciences (UF/IFAS), Gainesville, FL USA
| | - Seth Gibson
- grid.417548.b0000 0004 0478 6311U.S. Department of Agriculture, Gainesville, FL USA
| | - Kenneth J. Linthicum
- grid.417548.b0000 0004 0478 6311U.S. Department of Agriculture, Gainesville, FL USA
| | - Bryan V. Giordano
- grid.15276.370000 0004 1936 8091Florida Medical Entomology Laboratory (FMEL), Department of Entomology and Nematology, University of Florida Institute of Food and Agricultural Sciences (UF/IFAS), Gainesville, FL USA
| | - Lindsay P. Campbell
- grid.15276.370000 0004 1936 8091Florida Medical Entomology Laboratory (FMEL), Department of Entomology and Nematology, University of Florida Institute of Food and Agricultural Sciences (UF/IFAS), Gainesville, FL USA
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Zhang J, Li X, Klümper U, Lei H, Berendonk TU, Guo F, Yu K, Yang C, Li B. Deciphering chloramphenicol biotransformation mechanisms and microbial interactions via integrated multi-omics and cultivation-dependent approaches. Microbiome 2022; 10:180. [PMID: 36280854 PMCID: PMC9590159 DOI: 10.1186/s40168-022-01361-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/24/2022] [Accepted: 08/31/2022] [Indexed: 06/16/2023]
Abstract
BACKGROUND As a widely used broad-spectrum antibiotic, chloramphenicol is prone to be released into environments, thus resulting in the disturbance of ecosystem stability as well as the emergence of antibiotic resistance genes. Microbes play a vital role in the decomposition of chloramphenicol in the environment, and the biotransformation processes are especially dependent on synergistic interactions and metabolite exchanges among microbes. Herein, the comprehensive chloramphenicol biotransformation pathway, key metabolic enzymes, and interspecies interactions in an activated sludge-enriched consortium were elucidated using integrated multi-omics and cultivation-based approaches. RESULTS The initial biotransformation steps were the oxidization at the C1-OH and C3-OH groups, the isomerization at C2, and the acetylation at C3-OH of chloramphenicol. Among them, the isomerization is an entirely new biotransformation pathway of chloramphenicol discovered for the first time. Furthermore, we identified a novel glucose-methanol-choline oxidoreductase responsible for the oxidization of the C3-OH group in Sphingomonas sp. and Caballeronia sp. Moreover, the subsequent biotransformation steps, corresponding catalyzing enzymes, and the microbial players responsible for each step were deciphered. Synergistic interactions between Sphingomonas sp. and Caballeronia sp. or Cupriavidus sp. significantly promoted chloramphenicol mineralization, and the substrate exchange interaction network occurred actively among key microbes. CONCLUSION This study provides desirable strain and enzyme resources for enhanced bioremediation of chloramphenicol-contaminated hotspot sites such as pharmaceutical wastewater and livestock and poultry wastewater. The in-depth understanding of the chloramphenicol biotransformation mechanisms and microbial interactions will not only guide the bioremediation of organic pollutants but also provide valuable knowledge for environmental microbiology and biotechnological exploitation. Video Abstract.
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Affiliation(s)
- Jiayu Zhang
- State Environmental Protection Key Laboratory of Microorganism Application and Risk Control, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, China
- School of Environment, Tsinghua University, Beijing, China
| | - Xiaoyan Li
- State Environmental Protection Key Laboratory of Microorganism Application and Risk Control, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, China
| | - Uli Klümper
- Institute of Hydrobiology, Technische Universität Dresden, Dresden, Germany
| | - Huaxin Lei
- State Environmental Protection Key Laboratory of Microorganism Application and Risk Control, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, China
- School of Environment, Tsinghua University, Beijing, China
| | - Thomas U Berendonk
- Institute of Hydrobiology, Technische Universität Dresden, Dresden, Germany
| | - Fangliang Guo
- State Environmental Protection Key Laboratory of Microorganism Application and Risk Control, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, China
- School of Environment, Tsinghua University, Beijing, China
| | - Ke Yu
- School of Environment and Energy, Shenzhen Graduate School, Peking University, Shenzhen, China
| | - Chao Yang
- Key Laboratory of Molecular Microbiology and Technology for Ministry of Education, College of Life Sciences, Nankai University, Tianjin, China
| | - Bing Li
- State Environmental Protection Key Laboratory of Microorganism Application and Risk Control, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, China.
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Wang D, Huang K, He X, Zhang XX, Meng Y. Varied interspecies interactions between anammox and denitrifying bacteria enhanced nitrogen removal in a single-stage simultaneous anammox and denitrification system. Sci Total Environ 2022; 813:152519. [PMID: 34968587 DOI: 10.1016/j.scitotenv.2021.152519] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/14/2021] [Revised: 12/08/2021] [Accepted: 12/14/2021] [Indexed: 05/05/2023]
Abstract
The simultaneous anammox and denitrification (SAD) system has received growing interest for the enhanced nitrogen removal, while the ecological traits of microbial community including spatial distribution characteristics, assembly processes and interspecies interactions have not been fully unraveled. The present study applied metagenomics and ecological analysis methods to gain the ecological traits of microbial communities in the SAD system across different organic substrate loadings. Results showed that organic matter significantly affected the bioreactor performance, and the optimal total nitrogen removal efficiency reached 93.4 ± 0.7% under the COD concentrations of 180 ± 18.2 mg/L. Functional organisms including Candidatus Brocadia (3.9%), Denitratisoma (1.6%), Dokdonella (4.4%) and Thauera (4.6%) obviously enriched under the optimal organic loading conditions. Moreover, microbial communities were significantly governed by deterministic process under high organic concentrations, and the denitrifying organisms displayed important ecological roles in the communities. Although anammox bacteria obviously enriched at the middle of bioreactor, it possessed the highest expression activities at both bottom and middle sites. Denitrifying bacteria that enriched at the bottom sites strongly achieved nitrate reduction and provided nitrite for anammox bacteria, while these organisms trended to compete nitrite with anammox bacteria at the middle site. These findings highlight the importance of microbial ecology in the SAD systems, which may expand our understanding of the synergistic patterns between anammox and denitrifying bacteria.
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Affiliation(s)
- Depeng Wang
- School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou 510275, China; State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University, Nanjing 210023, China
| | - Kailong Huang
- State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University, Nanjing 210023, China; Nanjing Jiangdao Institute of Environmental Research Co., Ltd., Nanjing 210019, China
| | - Xiwei He
- State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University, Nanjing 210023, China
| | - Xu-Xiang Zhang
- State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University, Nanjing 210023, China
| | - Yabing Meng
- School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou 510275, China.
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Ma J, Wang K, Shi C, Liu Y, Yu C, Fang K, Fu X, Yuan Q, Zhou Y, Gong H. A novel anammox aggregate nourished sustainably internal heterotrophic nitrate removal pathway with endogenous carbon source. Bioresour Technol 2022; 346:126525. [PMID: 34896540 DOI: 10.1016/j.biortech.2021.126525] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/17/2021] [Revised: 12/01/2021] [Accepted: 12/03/2021] [Indexed: 06/14/2023]
Abstract
Anaerobic ammonium oxidation (anammox) is a cost-effective nitrogen removal pathway but instinctively generated nitrate limits its application. A novel anammox aggregate reduced the production of nitrate significantly with efficient removal of ammonia and nitrite in this work. The results demonstrated that the internal heterotrophic nitrate removal (IHNAR) pathway exists stably at inner of anammox aggregates, which eliminated 42.31 ± 3.85 % nitrate generated in anammox at without consuming external carbon source. The observed volatile fatty acids (VFAs) and adequate protein, polysaccharide and humic acids in the aggregates verified that the in-situ fermentation supplied sustainably endogenous carbon sources for the IHNAR. The efficient interspecies cooperation between anammox bacteria, heterotrophic denitrifiers and fermentative bacteria was identified, as the intrinsic justification for the obtained sustainability of IHNAR pathway. The findings were expected to provide theoretical guidance for promotions and applications of the anammox process with high-efficiency total nitrogen removal capabilities.
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Affiliation(s)
- Jinyuan Ma
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing 100084, PR China
| | - Kaijun Wang
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing 100084, PR China.
| | - Chuan Shi
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing 100084, PR China
| | - Yue Liu
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing 100084, PR China
| | - Cheng Yu
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing 100084, PR China
| | - Kuo Fang
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing 100084, PR China
| | - Xiangyun Fu
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing 100084, PR China
| | - Quan Yuan
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing 100084, PR China; Department of Environmental Science and Engineering, Beijing Technology and Business University, Beijing 100048, PR China
| | - Yuan Zhou
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing 100084, PR China; China Urban Construction Design & Research Institute Co. Ltd, Beijing 100120, PR China
| | - Hui Gong
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing 100084, PR China; School of Environment, Tongji University, Shanghai 200092, PR China
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Yan Y, Yan M, Ravenni G, Angelidaki I, Fu D, Fotidis IA. Novel bioaugmentation strategy boosted with biochar to alleviate ammonia toxicity in continuous biomethanation. Bioresour Technol 2022; 343:126146. [PMID: 34673199 DOI: 10.1016/j.biortech.2021.126146] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/23/2021] [Revised: 09/06/2021] [Accepted: 09/08/2021] [Indexed: 06/13/2023]
Abstract
This study investigated for the first time if ammonia tolerant methanogenic consortia can be stored in gel (biogel) and used in a later time on-demand as bioaugmentation inocula, to efficiently relieve ammonia inhibition in continuous biomethanation systems. Moreover, wood biochar was assessed as a potential enhancer of the novel biogel bioaugmentation process. Three thermophilic (55 °C), continuous stirred-tank reactors (RBgel, RChar and RMix), operated at 4.5 g NH4+-N L-1 were exposed to biogel, biochar and mixture of biogel and biochar, respectively, while a fourth reactor (RCtrl) was used as control. The results showed that the methane production yields of RMix, RChar and RBgel increased by 28.6%, 20.2% and 10.7%, respectively compared to RCtrl. The highest methane yield was achieved by the synergistic interaction between biogel and biochar. Additionally, biogel stimulated a rapid recovery of Methanoculleus thermophilus sp. and syntrophic acetate oxidising bacteria populations.
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Affiliation(s)
- Yixin Yan
- School of Civil Engineering Southeast University, 210096, Nanjing, China; Department of Environmental Engineering, Technical University of Denmark, Bygningstorvet Bygning 115, DK-2800, Kgs. Lyngby, Denmark
| | - Miao Yan
- Department of Environmental Engineering, Technical University of Denmark, Bygningstorvet Bygning 115, DK-2800, Kgs. Lyngby, Denmark; NUS Environmental Research Institute, National University of Singapore, 1 Create Way, 138602, Singapore
| | - Giulia Ravenni
- Department of Chemical and Biochemical Engineering, Technical University of Denmark, Building 313, 4000, Roskilde, Denmark
| | - Irini Angelidaki
- Department of Chemical and Biochemical Engineering, Technical University of Denmark, Kgs. Lyngby, Denmark
| | - Dafang Fu
- School of Civil Engineering Southeast University, 210096, Nanjing, China
| | - Ioannis A Fotidis
- School of Civil Engineering Southeast University, 210096, Nanjing, China; Faculty of Engineering and Natural Sciences, Tampere University, Tampere, Finland; Faculty of Environment, Ionian University, 29100, Zakynthos, Greece.
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Jeong SY, Kim TG. Spatial Variance of Species Distribution Predicts the Interspecies Interactions within a Microbial Metacommunity. Microb Ecol 2021; 81:549-552. [PMID: 32948906 DOI: 10.1007/s00248-020-01603-9] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/14/2020] [Accepted: 09/15/2020] [Indexed: 06/11/2023]
Abstract
Interspecies interactions have a profound influence on spatial distribution of coexisting microbial species. We explored whether spatial variance of species distribution (SVSD) predicts the degree of interspecies interactions within a microbial metacommunity. Simulations were used to determine the relationships from random, lake, soil, and biofilm metacommunity datasets (1,000 times). All of the bacterial datasets showed a negative correlation between the habitat breadth (inverse to SVSD) and the numbers of total, positive, and negative interspecies interactions (P < 0.05); the only exception was the relationship between habitat breadth and negative interactions in the biofilm dataset. The random dataset had no significant relationships (P > 0.05). We repeated the simulations to determine the degree of correlation and reproducibility (100 times). Habitat breadth was negatively correlated with the total and positive interactions in all of the real datasets (P < 0.05), and the negative relationships persisted across repetitions. Despite variability in the slope of total interactions, the slope values of positive interactions were similar for the real datasets (- 19.9, - 19.2, and - 25.8 for lake, soil, and biofilm, respectively). In conclusion, our results demonstrate the patterns of species interaction-distribution and show that interspecies interactions are positively correlated with the SVSD.
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Affiliation(s)
- So-Yeon Jeong
- Department of Microbiology, Pusan National University, Pusan, 46241, South Korea
| | - Tae Gwan Kim
- Department of Microbiology, Pusan National University, Pusan, 46241, South Korea.
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Wang C, Wang S, Jiao X, Yang B, Liang S, Luo Z, Mao L. Periodic density as an endpoint of customized plankton community responses to petroleum hydrocarbons: A level of toxic effect should be matched with a suitable time scale. Ecotoxicol Environ Saf 2020; 201:110723. [PMID: 32485490 DOI: 10.1016/j.ecoenv.2020.110723] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/12/2019] [Revised: 04/28/2020] [Accepted: 05/03/2020] [Indexed: 06/11/2023]
Abstract
As an endpoint of community response to contaminants, average periodic density of populations (APDP) has been introduced to model species interactions in a community with 4 planktonic species. An ecological model for the community was developed by means of interspecific relationship including competition and predation to calculate the APDP. As a case study, we reported here the ecotoxicological effects of petroleum hydrocarbons (PHC) collected from Bohai oil field on densities of two algae, Platymonas subcordiformis and Isochrysis galbana, a rotifer, Brachionus plicatilis, and of a cladocera, Penilia avirostris, in single species and a microcosm experiment. Time scales expressing toxic effect increased with increasing levels of toxic effect from molecule to community. Remarkable periodic changes in densities were found during the tests in microcosm experiment, revealing a strong species reaction. The minimum time scale characterizing toxic effect at a community level should be the common cycle of population densities of the microcosm. In addition, the cycles of plankton densities shortened in general with increasing PHC, showing an evident toxic effect on the microcosm. Using APDP as the endpoint, a threshold concentration for the modeled microcosm was calculated to be 0.404 mg-PHC L-1. The APDP was found to be more sensitive and reliable than the standing crops of populations as the endpoint. This indicated that the APDP, an endpoint at the community level, could be quantitatively related to the endpoints at the population level, and led to the quantitative concentration-toxic effect relationship at the community level.
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Affiliation(s)
- Changyou Wang
- School of Marine Sciences, Nanjing University of Information Science and Technology, Nanjing, 210044, China.
| | - Siwen Wang
- School of Marine Sciences, Nanjing University of Information Science and Technology, Nanjing, 210044, China
| | - Xinming Jiao
- Jiangsu Environmental Monitoring Center, Nanjing, 210036, China
| | - Bin Yang
- Guangxi Key Laboratory of Marine Disaster in the Beibu Gulf, Beibu Gulf University, Qinzhou, 535011, China
| | - Shengkang Liang
- Key Laboratory of Marine Chemistry Theory and Technology, Ministry of Education, Ocean University of China, Qingdao, 266100, China
| | - Zhuhua Luo
- School of Marine Sciences, Nanjing University of Information Science and Technology, Nanjing, 210044, China
| | - Longjiang Mao
- School of Marine Sciences, Nanjing University of Information Science and Technology, Nanjing, 210044, China
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Shao Q, Lin Z, Zhou C, Yan X. Bacterioplankton assembly and interspecies interactions follow trajectories of Gymnodinium-diatom bloom. Mar Environ Res 2020; 160:105010. [PMID: 32907730 DOI: 10.1016/j.marenvres.2020.105010] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/02/2019] [Revised: 05/02/2020] [Accepted: 05/03/2020] [Indexed: 06/11/2023]
Abstract
The underlying mechanisms of bacterioplankton community assembly and interspecies interactions during harmful algal blooms remain largely unclear. Using 16S rRNA gene amplicon sequencing, we analyzed the bacterioplankton communities over the continuous course of saxitoxin-producing Gymnodinium catenatum blooms and two diatom (i.e., Skeletonema costatum and Chaetoceros curvisetus) blooms in an anthropogenically controlled and eutrophic bay, East China Sea. The succession of bacterioplankton communities correlated with changes in the dynamics of algal species. Deterministic versus stochastic bacterioplankton community assemblage processes were quantified, demonstrating that stochastic processes increased when algal blooms happened. The occurrence of algal blooms caused weaker bacterioplankton interspecies interactions and higher degrees of cooperative activities, changed keystone taxa and diminished the stability of bacterial communities. These findings consequently have important implications for our understanding of bacterioplankton community ecology during algal blooms.
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Affiliation(s)
- Qianwen Shao
- Key Laboratory of Applied Marine Biotechnology, School of Marine Science, Ministry of Education, Ningbo University, Ningbo 315832, China; Ningbo Institute of Oceanography, Ningbo 315832, China
| | - Zhongzhou Lin
- Key Laboratory of Applied Marine Biotechnology, School of Marine Science, Ministry of Education, Ningbo University, Ningbo 315832, China; Ningbo Institute of Oceanography, Ningbo 315832, China
| | - Chengxu Zhou
- Key Laboratory of Applied Marine Biotechnology, School of Marine Science, Ministry of Education, Ningbo University, Ningbo 315832, China.
| | - Xiaojun Yan
- Key Laboratory of Applied Marine Biotechnology, School of Marine Science, Ministry of Education, Ningbo University, Ningbo 315832, China.
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11
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Torzewska A, Wiewiura P, Brodecka D, Szczerbiec D, Różalski A. Potentially Probiotic Lactobacillus Strains Derived from Food Intensify Crystallization Caused by Proteus mirabilis in Urine. Probiotics Antimicrob Proteins 2021; 13:441-52. [PMID: 32754854 DOI: 10.1007/s12602-020-09689-w] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/03/2022]
Abstract
Proteus mirabilis is a common cause of infectious urolithiasis. The first stage in the formation of urinary stones is the crystallization of mineral salts in the urine induced by urease activity of this microorganism. Lactobacillus spp. are an important component of the human microbiota and in large quantities occur in foods. Regardless of their origin, those with probiotic properties are proposed as an alternative to antibiotic therapy in the treatment of urinary tract infections. The aim of the study was to check the effect of selected Lactobacillus plantarum and Lactobacillus brevis strains on crystallization caused by P. mirabilis in an in vitro experiment. It has been confirmed that selected Lactobacillus strains have antibacterial properties and colonize the urinary tract epithelium. During 24-h incubation of bacterial cultures, containing P. mirabilis and individual Lactobacillus strains, in synthetic urine, bacterial viability (CFU/mL), pH, and crystallization were determined. Crystallization was assessed quantitatively and qualitatively using AAS and XRD techniques as well as phase-contrast microscopy. It has been shown that in the presence of selected Lactobacillus strains, the culture pH increases faster, especially after 8 h of incubation, compared with the pure P. mirabilis culture. An increase in pH reduces the viability of P. mirabilis; however, in the presence of some lactobacilli, the uropathogen grows more intensively. The presence of Lactobacillus also affected crystallization by increasing its intensity, and the resulting crystals were larger in size. Tested L. plantarum and L. brevis strains could therefore accelerate the formation of urinary stones and development of infection.
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12
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Abdallah DB, Krier F, Jacques P, Tounsi S, Frikha-Gargouri O. Agrobacterium tumefaciens C58 presence affects Bacillus velezensis 32a ecological fitness in the tomato rhizosphere. Environ Sci Pollut Res Int 2020; 27:28429-28437. [PMID: 32415456 DOI: 10.1007/s11356-020-09124-1] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/21/2019] [Accepted: 04/29/2020] [Indexed: 06/11/2023]
Abstract
The persistence of pathogenic Agrobacterium strains as soil-associated saprophytes may cause an inconsistency in the efficacy of the biocontrol inoculants under field condition. The study of the interaction occurring in the rhizosphere between the beneficial and the pathogenic microbes is thus interesting for the development of effective biopesticides for the management of crown gall disease. However, very little is still known about the influence of these complex interactions on the biocontrol determinants of beneficial bacteria, especially Bacillus strains. This study aimed to evaluate the effect of the soil borne pathogen Agrobacterium tumefaciens C58 on root colonization and lipopeptide production by Bacillus velezensis strain 32a during interaction with tomato plants. Results show that the presence of A. tumefaciens C58 positively impacted the root colonization level of the Bacillus strain. However, negative impact on surfactin production was observed in Agrobacterium-treated seedling, compared with control. Further investigation suggests that these modulations are due to a modified tomato root exudate composition during the tripartite interaction. Thus, this work contributes to enhance the knowledge on the impact of interspecies interaction on the ecological fitness of Bacillus cells living in the rhizosphere.
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Affiliation(s)
- Dorra Ben Abdallah
- Biopesticides Laboratory, Centre of Biotechnology of Sfax, Sfax University, P.O. Box 1177, 3018, Sfax, Tunisia
| | - François Krier
- Université de Lille, INRA, Université d'Artois, Université du Littoral-Côte d'Opale, EA 7394 - ICV-Institut Charles Viollette, F-59000, Lille, France
| | - Philippe Jacques
- Microbial Processes and Interactions (MiPI), TERRA Teaching and Research Centre, Gembloux Agro-Bio Tech University of Liege, B-5030, Gembloux, Belgium
| | - Slim Tounsi
- Biopesticides Laboratory, Centre of Biotechnology of Sfax, Sfax University, P.O. Box 1177, 3018, Sfax, Tunisia
| | - Olfa Frikha-Gargouri
- Biopesticides Laboratory, Centre of Biotechnology of Sfax, Sfax University, P.O. Box 1177, 3018, Sfax, Tunisia.
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13
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Haleva L, Lopes W, Barcellos VA, Schrank A, Vainstein MH. The contest of microbial pigeon neighbors: Interspecies competition between Serratia marcescens and the human pathogen Cryptococcus neoformans. Fungal Biol 2020; 124:629-38. [PMID: 32540186 DOI: 10.1016/j.funbio.2020.03.004] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2019] [Revised: 03/04/2020] [Accepted: 03/10/2020] [Indexed: 11/21/2022]
Abstract
In nature, microorganisms often exhibit competitive behavior for nutrients and limited space, allowing them to alter the virulence determinants of pathogens. The human pathogenic yeast Cryptococcus neoformans can be found organized in biofilms, a complex community composed of an extracellular matrix which confers protection against predation. The aim of this study was to evaluate and characterize antagonistic interactions between two cohabiting microorganisms: C. neoformans and the bacteria Serratia marcescens. The interaction of S. marcescens with C. neoformans expressed a negative effect on biofilm formation, polysaccharide capsule, production of urease, and melanization of the yeast. These findings evidence that competition in mixed communities can result in dominance by one species, with direct impact on the physiological modulation of virulence determinants. Such an approach is key for understating the response of communities to the presence of competitors and, ultimately, rationally designing communities to prevent and treat certain diseases.
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14
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Lukwambe B, Yang W, Zheng Y, Nicholaus R, Zhu J, Zheng Z. Bioturbation by the razor clam (Sinonovacula constricta) on the microbial community and enzymatic activities in the sediment of an ecological aquaculture wastewater treatment system. Sci Total Environ 2018; 643:1098-1107. [PMID: 30189527 DOI: 10.1016/j.scitotenv.2018.06.251] [Citation(s) in RCA: 27] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/17/2018] [Revised: 05/23/2018] [Accepted: 06/20/2018] [Indexed: 06/08/2023]
Abstract
Bioturbation by the razor clam, Sinonovacula constricta, influenced the redox conditions and changed the sedimentary environment, providing a suitable micro-environment for microbial growth. However, the mechanism of the integrated razor clam-microbial community in organic matter mineralization remains elusive. To study this mechanism, an in situ experiment was conducted to investigate the bioturbation effects of S. constricta on the microbial community and enzyme activities in the sediment of an ecological aquaculture wastewater treatment system. According to principal coordinate analysis (PCoA) and PERMANOVA, we found that the microbial community was significantly (P < 0.05) influenced by the bioturbation effect of S. constricta. Linear discriminant analysis effect size (LEfSe) showed that species involved in reduced effluent concentrations of TN and TP, such as Prolixibacteraceae, Nitrospira and Actinobacteria, were increased significantly (P < 0.05) by S. constricta. Molecular ecological network (MENs) analysis indicated that the bioturbation effect of S. constricta increased the complexity of interspecies interaction and changed the topological properties of individual OTUs. The results elucidated that S. constricta increased the microbial community network, as substantiated by a higher total number of nodes and a shorter geodesic distance. Zi < 2.5 and Pi <0.62 in MENs showed that the S. constricta treatment significantly increased (P < 0.05) the potential microbial community, with the keystone (OTU747049) Proteobacteria and (OTU74388) Bacteroidetes family Prolixibacteraceae, which connected different co-expressed OTUs. Furthermore, S. constricta significantly increased (P < 0.05) the enzymatic activities (alkaline phosphatase (APA), dehydrogenase and urease) of the substrate at different sampling depths. Overall, this study provides evidence that the bioturbation effect of S. constricta changes the microbial community structure, increases enzymatic activities and accelerates the degradation of organic matter in an aquaculture wastewater environment.
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Affiliation(s)
- Betina Lukwambe
- School of Marine sciences, Ningbo University, Ningbo 315211, China
| | - Wen Yang
- School of Marine sciences, Ningbo University, Ningbo 315211, China
| | - Yuqi Zheng
- School of Marine sciences, Ningbo University, Ningbo 315211, China
| | - Regan Nicholaus
- School of Marine sciences, Ningbo University, Ningbo 315211, China
| | - Jinyong Zhu
- School of Marine sciences, Ningbo University, Ningbo 315211, China; Collaborative Innovation Center for Zhejiang Marine High-efficiency and Healthy aquaculture, Ningbo 35211, China
| | - Zhongming Zheng
- School of Marine sciences, Ningbo University, Ningbo 315211, China; Collaborative Innovation Center for Zhejiang Marine High-efficiency and Healthy aquaculture, Ningbo 35211, China.
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15
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Dai WF, Zhang JJ, Qiu QF, Chen J, Yang W, Ni S, Xiong JB. Starvation stress affects the interplay among shrimp gut microbiota, digestion and immune activities. Fish Shellfish Immunol 2018; 80:191-199. [PMID: 29803665 DOI: 10.1016/j.fsi.2018.05.040] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/06/2018] [Revised: 05/16/2018] [Accepted: 05/23/2018] [Indexed: 06/08/2023]
Abstract
Aquatic animals are frequently suffered from starvation due to restricted food availability or deprivation. It is currently known that gut microbiota assists host in nutrient acquisition. Thus, exploring the gut microbiota responses would improve our understanding on physiological adaptation to starvation. To achieve this, we investigated how the gut microbiota and shrimp digestion and immune activities were affected under starvation stress. The results showed that the measured digestion activities in starved shrimp were significantly lower than in normal cohorts; while the measured immune activities exhibited an opposite trend. A structural equation modeling (SEM) revealed that changes in the gut bacterial community were directly related to digestive and immune enzyme activities, which in turn markedly affected shrimp growth traits. Notably, several gut bacterial indicators that characterized the shrimp nutrient status were identified, with more abundant opportunistic pathogens in starved shrimp, although there were no statistical differences in the overall diversity and the structures of gut bacterial communities between starved and normal shrimp. Starved shrimp exhibited less connected and cooperative interspecies interaction as compared with normal cohorts. Additionally, the functional pathways involved in carbohydrate and protein digestion, glycan biosynthesis, lipid and enzyme metabolism remarkably decreased in starved shrimp. These attenuations could increase the susceptibility of starved shrimp to pathogens infection. In summary, this study provides novel insights into the interplay among shrimp digestion, immune activities and gut microbiota in response to starvation stress.
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Affiliation(s)
- Wen-Fang Dai
- School of Marine Sciences, Ningbo University, Ningbo, 315211, China; Collaborative Innovation Center for Zhejiang Marine High-Efficiency and Healthy Aquaculture, Ningbo, 315211, China
| | - Jin-Jie Zhang
- School of Marine Sciences, Ningbo University, Ningbo, 315211, China
| | - Qiong-Fen Qiu
- School of Marine Sciences, Ningbo University, Ningbo, 315211, China
| | - Jiong Chen
- School of Marine Sciences, Ningbo University, Ningbo, 315211, China
| | - Wen Yang
- School of Marine Sciences, Ningbo University, Ningbo, 315211, China
| | - Sui Ni
- School of Marine Sciences, Ningbo University, Ningbo, 315211, China
| | - Jin-Bo Xiong
- School of Marine Sciences, Ningbo University, Ningbo, 315211, China; Collaborative Innovation Center for Zhejiang Marine High-Efficiency and Healthy Aquaculture, Ningbo, 315211, China.
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16
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Yang W, Zheng C, Zheng Z, Wei Y, Lu K, Zhu J. Nutrient enrichment during shrimp cultivation alters bacterioplankton assemblies and destroys community stability. Ecotoxicol Environ Saf 2018; 156:366-374. [PMID: 29574319 DOI: 10.1016/j.ecoenv.2018.03.043] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/18/2017] [Revised: 02/26/2018] [Accepted: 03/16/2018] [Indexed: 06/08/2023]
Abstract
Intensive shrimp farming is generally accompanied by nutrient enrichment and gradual eutrophication, which impose major threats to shrimp culture ecosystems. However, little is known about how the bacterioplankton community in a rearing environment responds to increased eutrophication during shrimp culture processes. In this study, we used the MiSeq sequencing technique to explore the impacts of nutrient enrichment on the assembly and stability of the bacterioplankton community. Our results showed that magnitudes of the changes in the bacterioplankton community compositions (BCCs) and diversity were closely associated with eutrophication level. Moreover, a phylogenetic-based mean nearest taxon distance (MNTD) analysis revealed that increased eutrophication significantly (P < 0.01) changed the bacterioplankton ecological processes from deterministic to stochastic. A structural equation model showed that eutrophication indicators affected the BCCs either directly by controlling resources or indirectly by modifying other environmental variables of the shrimp ponds in complex pathways. Furthermore, association network comparisons revealed that nutrient enrichment increased the complexity of interspecies interactions and the proportion of cooperative interactions and decreased the proportion of generalists, which suggest that nutrient enrichment destroyed the community stability. These findings suggest that minimizing nutrient pollution, especially at the end of cultivation, could be an important management tool for establishing a microbially mature water system.
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Affiliation(s)
- Wen Yang
- School of Marine Science, Ningbo University, Ningbo 315211, China
| | - Cheng Zheng
- School of Marine Science, Ningbo University, Ningbo 315211, China
| | - Zhongming Zheng
- School of Marine Science, Ningbo University, Ningbo 315211, China
| | - Yiming Wei
- School of Marine Science, Ningbo University, Ningbo 315211, China
| | - Kaihong Lu
- School of Marine Science, Ningbo University, Ningbo 315211, China; Ningbo Ocean & Fishery Bureau, Ningbo 315010, China
| | - Jinyong Zhu
- School of Marine Science, Ningbo University, Ningbo 315211, China.
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17
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Xiong J, Yu W, Dai W, Zhang J, Qiu Q, Ou C. Quantitative prediction of shrimp disease incidence via the profiles of gut eukaryotic microbiota. Appl Microbiol Biotechnol 2018; 102:3315-3326. [PMID: 29497796 DOI: 10.1007/s00253-018-8874-z] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2017] [Revised: 02/04/2018] [Accepted: 02/12/2018] [Indexed: 10/17/2022]
Abstract
One common notion is emerging that gut eukaryotes are commensal or beneficial, rather than detrimental. To date, however, surprisingly few studies have been taken to discern the factors that govern the assembly of gut eukaryotes, despite growing interest in the dysbiosis of gut microbiota-disease relationship. Herein, we firstly explored how the gut eukaryotic microbiotas were assembled over shrimp postlarval to adult stages and a disease progression. The gut eukaryotic communities changed markedly as healthy shrimp aged, and converged toward an adult-microbiota configuration. However, the adult-like stability was distorted by disease exacerbation. A null model untangled that the deterministic processes that governed the gut eukaryotic assembly tended to be more important over healthy shrimp development, whereas this trend was inverted as the disease progressed. After ruling out the baseline of gut eukaryotes over shrimp ages, we identified disease-discriminatory taxa (species level afforded the highest accuracy of prediction) that characteristic of shrimp health status. The profiles of these taxa contributed an overall 92.4% accuracy in predicting shrimp health status. Notably, this model can accurately diagnose the onset of shrimp disease. Interspecies interaction analysis depicted how the disease-discriminatory taxa interacted with one another in sustaining shrimp health. Taken together, our findings offer novel insights into the underlying ecological processes that govern the assembly of gut eukaryotes over shrimp postlarval to adult stages and a disease progression. Intriguingly, the established model can quantitatively and accurately predict the incidences of shrimp disease.
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Affiliation(s)
- Jinbo Xiong
- Faculty of Marine Science, Ningbo University, Ningbo, 315211, China. .,Collaborative Innovation Center for Zhejiang Marine High-Efficiency and Healthy Aquaculture, Ningbo, 315211, China.
| | - Weina Yu
- Faculty of Marine Science, Ningbo University, Ningbo, 315211, China.,Collaborative Innovation Center for Zhejiang Marine High-Efficiency and Healthy Aquaculture, Ningbo, 315211, China
| | - Wenfang Dai
- Faculty of Marine Science, Ningbo University, Ningbo, 315211, China.,Collaborative Innovation Center for Zhejiang Marine High-Efficiency and Healthy Aquaculture, Ningbo, 315211, China
| | - Jinjie Zhang
- Faculty of Marine Science, Ningbo University, Ningbo, 315211, China
| | - Qiongfen Qiu
- Faculty of Marine Science, Ningbo University, Ningbo, 315211, China
| | - Changrong Ou
- Faculty of Marine Science, Ningbo University, Ningbo, 315211, China
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18
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Nie L, Zhou QJ, Qiao Y, Chen J. Interplay between the gut microbiota and immune responses of ayu (Plecoglossus altivelis) during Vibrio anguillarum infection. Fish Shellfish Immunol 2017; 68:479-487. [PMID: 28756287 DOI: 10.1016/j.fsi.2017.07.054] [Citation(s) in RCA: 48] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/15/2017] [Revised: 07/21/2017] [Accepted: 07/25/2017] [Indexed: 06/07/2023]
Abstract
Gut microbiota plays fundamental roles in protection against pathogen invasion. However, the mechanism and extent of responses of gut microbiota to pathogenic infection are poorly understood. This study investigated the gut bacterial communities and immune responses of ayu (Plecoglossus altivelis) upon exposure to Vibrio anguillarum. The succession of V. anguillarum infection was evidenced by increased expression of immune genes and bacterial loads in ayu tissues, which in turn altered the composition and predicted functions of gut bacterial community. The dynamics of gut bacterial diversity and evenness were temporally stable in control ayu but were reduced in infected subjects, particularly at the late stages of infection. Variations in the gut microbiota were significantly associated with the expression levels of TNF-α (P = 0.019) and IL-1 β (P = 0.013). The profiles of certain gut bacterial taxa were indicative of V. anguillarum infection. Compared with healthy controls, the ayu infected with V. anguillarum possessed less complex, fewer connected, and lower cooperative gut bacterial interspecies interaction, coinciding with significant shifts in keystone species. These findings imply that V. anguillarum infection substantially disrupted the compositions and interspecies interaction of ayu gut bacterial community, thereby altering gut microbial-mediated functions and inducing host immune responses. This study provides an integrated overview on the interaction between the gut microbiota and host immune responses to pathogen infection from an ecological perspective.
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Affiliation(s)
- Li Nie
- Laboratory of Biochemistry and Molecular Biology, School of Marine Sciences, Ningbo University, Ningbo 315211, China
| | - Qian-Jin Zhou
- Laboratory of Biochemistry and Molecular Biology, School of Marine Sciences, Ningbo University, Ningbo 315211, China
| | - Yan Qiao
- Laboratory of Biochemistry and Molecular Biology, School of Marine Sciences, Ningbo University, Ningbo 315211, China
| | - Jiong Chen
- Laboratory of Biochemistry and Molecular Biology, School of Marine Sciences, Ningbo University, Ningbo 315211, China; Collaborative Innovation Center for Zhejiang Marine High-efficiency and Healthy Aquaculture, Ningbo University, Ningbo 315211, China.
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19
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Dai W, Yu W, Zhang J, Zhu J, Tao Z, Xiong J. The gut eukaryotic microbiota influences the growth performance among cohabitating shrimp. Appl Microbiol Biotechnol 2017; 101:6447-6457. [PMID: 28702793 DOI: 10.1007/s00253-017-8388-0] [Citation(s) in RCA: 36] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2017] [Revised: 06/07/2017] [Accepted: 06/10/2017] [Indexed: 02/07/2023]
Abstract
Increasing evidence has revealed a close interplay between the gut bacterial communities and host growth performance. However, until recently, studies generally ignored the contribution of eukaryotes, endobiotic organisms. To fill this gap, we used Illumina sequencing technology on eukaryotic 18S rRNA gene to compare the structures of gut eukaryotic communities among cohabitating retarded, overgrown, and normal shrimp obtained from identically managed ponds. Results showed that a significant difference between gut eukaryotic communities differed significantly between water and intestine and among three shrimp categories. Structural equation modeling revealed that changes in the gut eukaryotic community were positively related to digestive enzyme activities, which in turn influenced shrimp growth performance (λ = 0.97, P < 0.001). Overgrown shrimp exhibited a more complex and cooperative gut eukaryotic interspecies interaction than retarded and normal shrimp, which may facilitate their nutrient acquisition efficiency. Notably, the distribution of dominant eukaryotic genera and shifts in keystone species were closely concordant with shrimp growth performance. In summary, this study provides an integrated overview on direct roles of gut eukaryotic communities in shrimp growth performance instead of well-studied bacterial assembly.
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Affiliation(s)
- Wenfang Dai
- School of Marine Sciences, Ningbo University, Ningbo, 315211, China.,Collaborative Innovation Center for Zhejiang Marine High-Efficiency and Healthy Aquaculture, Ningbo, 315211, China
| | - Weina Yu
- School of Marine Sciences, Ningbo University, Ningbo, 315211, China.,Collaborative Innovation Center for Zhejiang Marine High-Efficiency and Healthy Aquaculture, Ningbo, 315211, China
| | - Jinjie Zhang
- School of Marine Sciences, Ningbo University, Ningbo, 315211, China
| | - Jinyong Zhu
- School of Marine Sciences, Ningbo University, Ningbo, 315211, China.
| | - Zhen Tao
- School of Marine Sciences, Ningbo University, Ningbo, 315211, China
| | - Jinbo Xiong
- School of Marine Sciences, Ningbo University, Ningbo, 315211, China. .,Collaborative Innovation Center for Zhejiang Marine High-Efficiency and Healthy Aquaculture, Ningbo, 315211, China.
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20
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Dai W, Zhang J, Tu Q, Deng Y, Qiu Q, Xiong J. Bacterioplankton assembly and interspecies interaction indicating increasing coastal eutrophication. Chemosphere 2017; 177:317-325. [PMID: 28319885 DOI: 10.1016/j.chemosphere.2017.03.034] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/09/2016] [Revised: 02/26/2017] [Accepted: 03/09/2017] [Indexed: 06/06/2023]
Abstract
Anthropogenic perturbations impose negative effects on coastal ecosystems, such as increasing levels of eutrophication. Given the biogeochemical significance of microorganisms, understanding the processes and mechanisms underlying their spatial distribution under changing environmental conditions is critical. To address this question, we examined how coastal bacterioplankton communities respond to increasing eutrophication levels created by anthropogenic perturbations. The results showed that the magnitude of changes in the bacterioplankton community compositions (BCCs) and the importance of deterministic processes that constrained bacterial assembly were closely associated with eutrophication levels. Moreover, increasing eutrophication significantly (P < 0.001) attenuated the distance decay rate, with a random spatial distribution of BCCs in the undisturbed location. In contrast, the complexity of interspecies interaction was enhanced under moderate eutrophication levels but declined under heavy eutrophication. Changes in the relative abundances of 27 bacterial families were significantly correlated with eutrophication levels. Notably, the pattern of enrichment or decrease for a given bacterial family was consistent with its known ecological functions. Our findings demonstrate that the magnitude of changes in BCCs and underlying determinism are dependent on eutrophication levels. However, the buffer capacity of bacterioplankton community is limited, with disrupted interspecies interaction occurring under heavy eutrophication. As such, bacterial assemblages are sensitive to changes in environmental conditions and could thus potentially serve as bio-indicators for increasing eutrophication.
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Affiliation(s)
- Wenfang Dai
- School of Marine Sciences, Ningbo University, Ningbo, 315211, China; Collaborative Innovation Center for Zhejiang Marine High-Efficiency and Healthy Aquaculture, Ningbo, 315211, China
| | - Jinjie Zhang
- School of Marine Sciences, Ningbo University, Ningbo, 315211, China
| | - Qichao Tu
- Department of Marine Sciences, Ocean College, Zhejiang University, Hangzhou, 310058, China
| | - Ye Deng
- Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, CAS, Beijing, 100085, China
| | - Qiongfen Qiu
- School of Marine Sciences, Ningbo University, Ningbo, 315211, China
| | - Jinbo Xiong
- School of Marine Sciences, Ningbo University, Ningbo, 315211, China; Collaborative Innovation Center for Zhejiang Marine High-Efficiency and Healthy Aquaculture, Ningbo, 315211, China.
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21
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Xiong J, Dai W, Zhu J, Liu K, Dong C, Qiu Q. The Underlying Ecological Processes of Gut Microbiota Among Cohabitating Retarded, Overgrown and Normal Shrimp. Microb Ecol 2017; 73:988-999. [PMID: 27966036 DOI: 10.1007/s00248-016-0910-x] [Citation(s) in RCA: 51] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/04/2016] [Accepted: 12/05/2016] [Indexed: 06/06/2023]
Abstract
Increasing evidence of tight links among the gut microbiota, obesity, and host health has emerged, but knowledge of the ecological processes that shape the variation in microbial assemblages across growth rates remains elusive. Moreover, inadequately control for differences in factors that profoundly affect the gut microbial community, hampers evaluation of the gut microbiota roles in regulating growth rates. To address this gap, we evaluated the composition and ecological processes of the gut bacterial community in cohabitating retarded, overgrown, and normal shrimps from identically managed ponds. Gut bacterial community structures were distinct (P = 0.0006) among the shrimp categories. Using a structural equation modeling (SEM), we found that changes in the gut bacterial community were positively related to digestive activities, which subsequently affected shrimp growth rate. This association was further supported by intensified interspecies interaction and enriched lineages with high nutrient intake efficiencies in overgrown shrimps. However, the less phylogenetic clustering of gut microbiota in overgrown and retarded subjects may offer empty niches for pathogens invasion, as evidenced by higher abundances of predicted functional pathways involved in disease infection. Given no differences in biotic and abiotic factors among the cohabitating shrimps, we speculated that the distinct gut community assembly could be attributed to random colonization in larval shrimp (e.g., priority effects) and that an altered microbiota could be a causative factor in overgrowth or retardation in shrimp. To our knowledge, this is the first study to provide an integrated overview of the direct roles of gut microbiota in shaping shrimp growth rate and the underlying ecological mechanisms.
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Affiliation(s)
- Jinbo Xiong
- School of Marine Sciences, Ningbo University, Ningbo, 315211, China.
- Collaborative Innovation Center for Zhejiang Marine High-Efficiency and Healthy Aquaculture, Ningbo, 315211, China.
| | - Wenfang Dai
- School of Marine Sciences, Ningbo University, Ningbo, 315211, China
- Collaborative Innovation Center for Zhejiang Marine High-Efficiency and Healthy Aquaculture, Ningbo, 315211, China
| | - Jinyong Zhu
- School of Marine Sciences, Ningbo University, Ningbo, 315211, China
| | - Keshao Liu
- Key Laboratory of Environment Changes and Land Surface Processes, Institute of Tibetan Plateau Research, Chinese Academy of Sciences, Beijing, 100085, China
| | - Chunming Dong
- Key Laboratory of Marine Biogenetic Resources, Third Institute of Oceanography, State of Oceanic Administration, Xiamen, 361006, China
| | - Qiongfen Qiu
- School of Marine Sciences, Ningbo University, Ningbo, 315211, China
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