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Monserrat M, Asnaghi V, Verdura J, Meroni L, Lemée R, Rossi AM, Romero G, Priouzeau F, Chiantore M, Mangialajo L. From micro to mesoscale: Understanding the influence of macroalgal communities on Ostreopsis Schmidt blooms. HARMFUL ALGAE 2024; 136:102650. [PMID: 38876526 DOI: 10.1016/j.hal.2024.102650] [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: 08/05/2023] [Revised: 05/08/2024] [Accepted: 05/19/2024] [Indexed: 06/16/2024]
Abstract
Harmful Algal Blooms (HABs) are increasing in temperate areas, and the growth rates of benthic harmful dinoflagellates may be favoured in the context of global climate change. Benthic dinoflagellates, including species belonging to the Ostreopsis Schmidt genus, are known to develop on the surface of macroalgae and different macroalgal morphotypes and communities could host higher or lower cell abundances. The physical structure of the macroalgal substrate at the small scale (cm, microhabitat scale) and the structural complexity of the macroalgal community at the medium scale (few m, mesohabitat scale) could play a relevant role in bloom facilitation: the hypothesis that Ostreopsis species could be associated with macroalgal turfs and shrubs, structurally less complex communities than canopy-forming macroalgae, is especially under discussion and, if confirmed, could link bloom occurrence to regime shifts in temperate ecosystems. The present study, performed in two locations of the Ligurian Sea (Rochambeau, France and Vernazzola, Italy) aimed at understanding marine vegetation's role at the micro and mesohabitat scales in controlling the distribution and abundance of Ostreopsis. The abundance of the microalgal cells was quantified at different spatial scales, from cm to a few m, on different macroalgal species and communities, including artificial substrates, to tease apart the micro and mesohabitat effects. The results obtained show a high spatio-temporal variability, potentially hiding habitat-related patterns. The substrate's preferences diminish when cell abundances are very high, as in the case of Rochambeau, while in presence of moderate cell abundances as in Vernazzola or the first phases of blooms, it is possible to appreciate differences in abundances among substrates (in our study, Dictyota fasciola (Roth) Lamouroux supporting higher abundances). Our results open new research topics such as the study of blooms at a larger scale (macrohabitat) and testing different sampling methods to standardise the cells' abundances independently on the substrate.
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Affiliation(s)
- M Monserrat
- Université Côte d'Azur, CNRS, ECOSEAS, France; CoNISMa, Piazzale Flaminio 9, Roma Italy.
| | - V Asnaghi
- CoNISMa, Piazzale Flaminio 9, Roma Italy; DiSTAV, Università di Genova, C. so Europa 26, 16132 Genoa, Italy; National Biodiversity Future Center, 90133 Palermo, Italy
| | - J Verdura
- Université Côte d'Azur, CNRS, ECOSEAS, France; Departament de Biologia Marina, Institut de Ciències del Mar (CSIC), Barcelona, Spain
| | - L Meroni
- CoNISMa, Piazzale Flaminio 9, Roma Italy; DiSTAV, Università di Genova, C. so Europa 26, 16132 Genoa, Italy; National Biodiversity Future Center, 90133 Palermo, Italy
| | - R Lemée
- Sorbonne Université, CNRS, Laboratoire d'Océanographie de Villefranche, France
| | - A M Rossi
- DiSTAV, Università di Genova, C. so Europa 26, 16132 Genoa, Italy
| | - G Romero
- Université Côte d'Azur, CNRS, ECOSEAS, France
| | - F Priouzeau
- Université Côte d'Azur, CNRS, ECOSEAS, France
| | - M Chiantore
- CoNISMa, Piazzale Flaminio 9, Roma Italy; DiSTAV, Università di Genova, C. so Europa 26, 16132 Genoa, Italy; National Biodiversity Future Center, 90133 Palermo, Italy
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2
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Macdonald JFH, Pérez-García P, Schneider YKH, Blümke P, Indenbirken D, Andersen JH, Krohn I, Streit WR. Community dynamics and metagenomic analyses reveal Bacteroidota's role in widespread enzymatic Fucus vesiculosus cell wall degradation. Sci Rep 2024; 14:10237. [PMID: 38702505 PMCID: PMC11068906 DOI: 10.1038/s41598-024-60978-8] [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: 11/13/2023] [Accepted: 04/29/2024] [Indexed: 05/06/2024] Open
Abstract
Enzymatic degradation of algae cell wall carbohydrates by microorganisms is under increasing investigation as marine organic matter gains more value as a sustainable resource. The fate of carbon in the marine ecosystem is in part driven by these degradation processes. In this study, we observe the microbiome dynamics of the macroalga Fucus vesiculosus in 25-day-enrichment cultures resulting in partial degradation of the brown algae. Microbial community analyses revealed the phylum Pseudomonadota as the main bacterial fraction dominated by the genera Marinomonas and Vibrio. More importantly, a metagenome-based Hidden Markov model for specific glycosyl hydrolyses and sulphatases identified Bacteroidota as the phylum with the highest potential for cell wall degradation, contrary to their low abundance. For experimental verification, we cloned, expressed, and biochemically characterised two α-L-fucosidases, FUJM18 and FUJM20. While protein structure predictions suggest the highest similarity to a Bacillota origin, protein-protein blasts solely showed weak similarities to defined Bacteroidota proteins. Both enzymes were remarkably active at elevated temperatures and are the basis for a potential synthetic enzyme cocktail for large-scale algal destruction.
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Affiliation(s)
- Jascha F H Macdonald
- Department of Microbiology and Biotechnology, Biocenter Klein Flottbek, Institute of Plant Science and Microbiology, University of Hamburg, Ohnhorststr.18, 22609, Hamburg, Germany
| | - Pablo Pérez-García
- Institute for General Microbiology, Molecular Microbiology, Kiel University, Kiel, Germany
| | - Yannik K-H Schneider
- Marbio, Faculty of Biosciences, Fisheries and Economics, UiT - The Arctic University of Norway, Tromsø, Norway
| | - Patrick Blümke
- Technology Platform Next Generation Sequencing, Leibniz Institute of Virology, Hamburg, Germany
| | - Daniela Indenbirken
- Technology Platform Next Generation Sequencing, Leibniz Institute of Virology, Hamburg, Germany
| | - Jeanette H Andersen
- Marbio, Faculty of Biosciences, Fisheries and Economics, UiT - The Arctic University of Norway, Tromsø, Norway
| | - Ines Krohn
- Department of Microbiology and Biotechnology, Biocenter Klein Flottbek, Institute of Plant Science and Microbiology, University of Hamburg, Ohnhorststr.18, 22609, Hamburg, Germany.
| | - Wolfgang R Streit
- Department of Microbiology and Biotechnology, Biocenter Klein Flottbek, Institute of Plant Science and Microbiology, University of Hamburg, Ohnhorststr.18, 22609, Hamburg, Germany
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Li Y, Wang J, Sun T, Yu X, Yang Z, Zhao Y, Tang X, Xiao H. Community structure of endophytic bacteria of Sargassum thubergii in the intertidal zone of Qingdao in China. AMB Express 2024; 14:35. [PMID: 38615116 PMCID: PMC11016019 DOI: 10.1186/s13568-024-01688-2] [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: 10/25/2023] [Accepted: 03/12/2024] [Indexed: 04/15/2024] Open
Abstract
Endophytic bacteria are one of the symbiotic microbial groups closely related to host algae. However, less research on the endophytic bacteria of marine algae. In this study, the endophytic bacterial community of Sargassum thunbergii was investigated using the culture method and high-throughput sequencing. Thirty-nine endophytic bacterial strains, belonging to two phyla, five genera and sixteen species, were isolated, and Firmicutes, Bacillus and Metabacillus indicus were the dominant taxa at the phylum, genus and species level, respectively. High-throughput sequencing revealed 39 phyla and 574 genera of endophytic bacteria, and the dominant phylum was Proteobacteria, while the dominant genus was Ralstonia. The results also indicated that the endophytic bacteria of S. thunbergii included various groups with nitrogen fixation, salt tolerance, pollutant degradation, and antibacterial properties but also contained some pathogenic bacteria. Additionally, the endophytic bacterial community shared a large number of groups with the epiphytic bacteria and bacteria in the surrounding seawater, but the three groups of samples could be clustered separately. In conclusion, there are a variety of functional endophytic bacteria living in S. thunbergii, and the internal condition of algae is a selective factor for the formation of endophytic bacterial communities. This study enriched the database of endophytic bacteria in marine macroalgae, paving the way for further understanding of the interrelationships between endophytic bacteria, macroalgae, and the environment.
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Affiliation(s)
- Yang Li
- College of Marine Life Sciences, Ocean University of China, Qingdao, 266003, China
| | - Jing Wang
- College of Marine Life Sciences, Ocean University of China, Qingdao, 266003, China
| | - Tao Sun
- College of Marine Life Sciences, Ocean University of China, Qingdao, 266003, China
| | - Xinlong Yu
- College of Marine Life Sciences, Ocean University of China, Qingdao, 266003, China
| | - Zhibo Yang
- College of Marine Life Sciences, Ocean University of China, Qingdao, 266003, China
| | - Yayun Zhao
- College of Marine Life Sciences, Ocean University of China, Qingdao, 266003, China
| | - Xuexi Tang
- College of Marine Life Sciences, Ocean University of China, Qingdao, 266003, China.
- Laboratory for Marine Ecology and Environmental Science, Qingdao Marine Science and Technology Center, Qingdao, 266000, China.
| | - Hui Xiao
- College of Marine Life Sciences, Ocean University of China, Qingdao, 266003, China.
- Laboratory for Marine Ecology and Environmental Science, Qingdao Marine Science and Technology Center, Qingdao, 266000, China.
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4
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Xie X, He Z, Wang Q, Yang Y. Diversity, composition and ecological networks of bacterial communities in response to a full cultivation cycle of the seaweed, Gracilariopsis lemaneiformis. ENVIRONMENTAL RESEARCH 2024; 240:117453. [PMID: 37863165 DOI: 10.1016/j.envres.2023.117453] [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: 08/07/2023] [Revised: 10/17/2023] [Accepted: 10/17/2023] [Indexed: 10/22/2023]
Abstract
Cultivation of the seaweed, Gracilariopsis lemaneiformis, supports environmental bioremediation and the aquaculture economy in coastal ecosystems, and microorganisms play important roles during the cultivation process. In this study, we aimed to understand the response of bacterial communities through a full cultivation cycle of G. lemaneiformis. We analyzed the bacterial communities using 16S rRNA gene amplicon sequencing and defined the environmental factors of 144 water samples from the Nan'ao Island, South China Sea. Community diversity, keystone species and ecological networks of bacterial communities shifted markedly in the cultivation zone largely due to changes in the environmental factors, seaweed biomass and cultivation stages. The bacterial communities at the seaweed zone have lower species richness, more seaweed-associated taxa and simpler but more stable co-occurrence networks compared to the control zone. Persistent microbial groups such as Aquimarina, Formosa, Glaciecola and Marinobacter exhibited a strong association with seaweed during the growth and maturity stages. We describe a conceptual model to summarize the changes in the bacterial community composition, its diversity and the ecological networks in seaweed cultivation zone. Overall, this study provides new perspectives on the dynamic interaction of seaweed cultivation, bacterial communities and environment factors and their potential ecosystem services as observed in the example of the G. lemaneiformis cultivation ecosystem.
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Affiliation(s)
- Xinfei Xie
- School of Life Science, Huizhou University, Huizhou, 516007, China; Institute of Hydrobiology, Key Laboratory of Philosophy and Social Science in Guangdong Province, Jinan University, Guangzhou, 510632, China
| | - Zhili He
- Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Zhuhai, 519080, China.
| | - Qing Wang
- Institute of Hydrobiology, Key Laboratory of Philosophy and Social Science in Guangdong Province, Jinan University, Guangzhou, 510632, China
| | - Yufeng Yang
- Institute of Hydrobiology, Key Laboratory of Philosophy and Social Science in Guangdong Province, Jinan University, Guangzhou, 510632, China; Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Zhuhai, 519080, China.
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5
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Khan T, Song W, Nappi J, Marzinelli EM, Egan S, Thomas T. Functional guilds and drivers of diversity in seaweed-associated bacteria. FEMS MICROBES 2023; 5:xtad023. [PMID: 38213395 PMCID: PMC10781435 DOI: 10.1093/femsmc/xtad023] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/10/2023] [Revised: 11/21/2023] [Accepted: 12/12/2023] [Indexed: 01/13/2024] Open
Abstract
Comparisons of functional and taxonomic profiles from bacterial communities in different habitats have suggested the existence of functional guilds composed of taxonomically or phylogenetically distinct members. Such guild membership is, however, rarely defined and the factors that drive functional diversity in bacteria remain poorly understood. We used seaweed-associated bacteria as a model to shed light on these important aspects of community ecology. Using a large dataset of over 1300 metagenome-assembled genomes from 13 seaweed species we found substantial overlap in the functionality of bacteria coming from distinct taxa, thus supporting the existence of functional guilds. This functional equivalence between different taxa was particularly pronounced when only functions involved in carbohydrate degradation were considered. We further found that bacterial taxonomy is the dominant driver of functional differences between bacteria and that seaweed species or seaweed type (i.e. brown, red and green) had relatively stronger impacts on genome functionality for carbohydrate-degradation functions when compared to all other cellular functions. This study provides new insight into the factors underpinning the functional diversity of bacteria and contributes to our understanding how community function is generated from individual members.
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Affiliation(s)
- Tahsin Khan
- Centre for Marine Science and Innovation & School of Biological, Earth and Environmental Sciences, The University of New South Wales, Sydney, NSW 2052, Australia
| | - Weizhi Song
- Centre for Marine Science and Innovation & School of Biological, Earth and Environmental Sciences, The University of New South Wales, Sydney, NSW 2052, Australia
| | - Jadranka Nappi
- Centre for Marine Science and Innovation & School of Biological, Earth and Environmental Sciences, The University of New South Wales, Sydney, NSW 2052, Australia
| | - Ezequiel M Marzinelli
- School of Life and Environmental Sciences, The University of Sydney, Sydney, NSW 2006, Australia
| | - Suhelen Egan
- Centre for Marine Science and Innovation & School of Biological, Earth and Environmental Sciences, The University of New South Wales, Sydney, NSW 2052, Australia
| | - Torsten Thomas
- Centre for Marine Science and Innovation & School of Biological, Earth and Environmental Sciences, The University of New South Wales, Sydney, NSW 2052, Australia
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Liu W, Zou H, Wu S, Li N, Pang Q, Yan X. Growth promotion of Sargassum fusiforme by epiphytic microbes is dependent on the extent of interspecific interactions of the microbial community. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 897:165449. [PMID: 37437642 DOI: 10.1016/j.scitotenv.2023.165449] [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: 04/29/2023] [Revised: 07/01/2023] [Accepted: 07/08/2023] [Indexed: 07/14/2023]
Abstract
Profound growth differences such as seedling length and biomass are often observed during the cultivation of Sargassum fusiforme despite the absence of detectable variance in abiotic factors that could have affected this process. This highlights the importance of biotic factors such as epiphytic microbiota in controlling seedling growth. Yet, how, and to what extent microbial activities can affect host growth in the presence of seawater flow and continuous erosion remains debatable. Particularly, the contribution of microbial network interactions to the growth of macroalgae remains poorly understood. This study aimed to compare the physicochemical properties of S. fusiforme seedlings via 16S rRNA gene Illumina sequencing-based profiling of the epiphytic microbial communities of seedlings with different lengths. Significantly different epiphytic bacterial communities were observed among S. fusiforme seedlings of different lengths. The result showed that community from longer seedlings maintained higher bacterial diversity with the taxa Gammaproteobacteria, Burkholderiales, Alteromonadales, Vibrionaceae, Ralstonia, Colwelliaceae, and Thalassotalea being selectively enriched. More importantly, microbial interspecific interactions, which were predominantly positive, were enhanced consistently in communities of the longer seedlings, indicative of reinforced prevalent and mutually cooperative relationships among the microorganisms associated with S. fusiforme seedlings of greater length. Furthermore, longer seedlings also displayed up-regulation of microbial functional potentials involved in N fixation and mineralization, P mineralization and transportation, and ion transportation compared with shorter ones. Lastly, stochastic processes dominated the community assembly of the epiphytic microorganisms. These findings could provide new insights into the relationship between microbial communities and growth in S. fusiforme seedlings and enable us to predict the community diversity and assembly of macroalgae-associated microbial communities. This could have important implications for linking microbial community diversity and network interactions to their host productivity.
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Affiliation(s)
- Wen Liu
- National and Local Joint Engineering Research Center of Ecological Treatment Technology for Urban Water Pollution, Zhejiang Provincial Key Laboratory for Water Environment and Marine Biological Resources Protection, College of Life and Environmental Science, Wenzhou University, Zhong-Xin Street, Wenzhou, 325035, China; Institute for Eco-environmental Research of Sanyang Wetland, Wenzhou University, Ouhai Avenue, Wenzhou 325014, China
| | - Huixi Zou
- National and Local Joint Engineering Research Center of Ecological Treatment Technology for Urban Water Pollution, Zhejiang Provincial Key Laboratory for Water Environment and Marine Biological Resources Protection, College of Life and Environmental Science, Wenzhou University, Zhong-Xin Street, Wenzhou, 325035, China; Institute for Eco-environmental Research of Sanyang Wetland, Wenzhou University, Ouhai Avenue, Wenzhou 325014, China
| | - Shengwei Wu
- National and Local Joint Engineering Research Center of Ecological Treatment Technology for Urban Water Pollution, Zhejiang Provincial Key Laboratory for Water Environment and Marine Biological Resources Protection, College of Life and Environmental Science, Wenzhou University, Zhong-Xin Street, Wenzhou, 325035, China
| | - Nan Li
- National and Local Joint Engineering Research Center of Ecological Treatment Technology for Urban Water Pollution, Zhejiang Provincial Key Laboratory for Water Environment and Marine Biological Resources Protection, College of Life and Environmental Science, Wenzhou University, Zhong-Xin Street, Wenzhou, 325035, China
| | - Qiuying Pang
- Key Laboratory of Saline-alkali Vegetation Ecology Restoration, Ministry of Education, College of Life Sciences, Northeast Forestry University, Harbin 150040, China
| | - Xiufeng Yan
- National and Local Joint Engineering Research Center of Ecological Treatment Technology for Urban Water Pollution, Zhejiang Provincial Key Laboratory for Water Environment and Marine Biological Resources Protection, College of Life and Environmental Science, Wenzhou University, Zhong-Xin Street, Wenzhou, 325035, China; Institute for Eco-environmental Research of Sanyang Wetland, Wenzhou University, Ouhai Avenue, Wenzhou 325014, China.
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7
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Mancuso FP, Morrissey KL, De Clerck O, Airoldi L. Warming and nutrient enrichment can trigger seaweed loss by dysregulation of the microbiome structure and predicted function. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 879:162919. [PMID: 36958561 DOI: 10.1016/j.scitotenv.2023.162919] [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: 12/09/2022] [Revised: 03/05/2023] [Accepted: 03/13/2023] [Indexed: 05/17/2023]
Abstract
Warming and nutrient enrichment are key pervasive drivers of ecological shifts in both aquatic and terrestrial ecosystems, impairing the physiology and survival of a wide range of foundation species. But the underlying mechanisms often remain unclear, and experiments have overlooked the potential effects mediated by changes in the microbial communities. We experimentally tested in the field orthogonal stress combinations from simulated air warming and nutrient enrichment on the intertidal foundation seaweed Cystoseira compressa, and its associated bacterial communities. A total of 523 Amplicon Sequence Variance (ASVs) formed the bacterial community on C. compressa, with 222 ASVs assigned to 69 taxa at the genus level. Most bacteria taxa experienced changes in abundance as a result of additive (65 %) and antagonistic (30 %) interactions between the two stressors, with synergies (5 %) occurring less frequently. The analysis of the predicted bacterial functional profile identified 160 metabolic pathways, and showed that these were mostly affected by additive interactions (74 %) between air warming and nutrient enrichment, while antagonisms (20 %) and synergisms (6 %) were less frequent. Overall, the two stressors combined increased functions associated with seaweed disease or degradation of major cell-wall polymers and other algicidal processes, and decreased functions associated with Quorum Quenching and photosynthetic response. We conclude that warming and nutrient enrichment can dysregulate the microbiome of seaweeds, providing a plausible mechanism for their ongoing loss, and encourage more research into the effects of human impacts on crucial but yet largely unstudied host-microbiome relationships in different aquatic and terrestrial species.
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Affiliation(s)
- Francesco Paolo Mancuso
- Department of Earth and Marine Sciences (DiSTeM), University of Palermo, viale delle Scienze Ed. 16, 90128 Palermo, Italy; Department of Biological, Geological, and Environmental Sciences, University of Bologna, Ravenna, Italy; NBFC, National Biodiversity Future Center, Palermo 90133, Italy.
| | - Kathryn Lee Morrissey
- Phycology Research Group and Center for Molecular Phylogenetics and Evolution, Ghent University, Ghent, Belgium
| | - Olivier De Clerck
- Phycology Research Group and Center for Molecular Phylogenetics and Evolution, Ghent University, Ghent, Belgium
| | - Laura Airoldi
- NBFC, National Biodiversity Future Center, Palermo 90133, Italy; Chioggia Hydrobiological Station "Umberto D'Ancona", Department of Biology, UO CoNISMa, University of Padova, Chioggia, Italy.
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8
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Delva S, De Baets B, Baetens JM, De Clerck O, Stock W. No bacterial-mediated alleviation of thermal stress in a brown seaweed suggests the absence of ecological bacterial rescue effects. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 876:162532. [PMID: 36870499 DOI: 10.1016/j.scitotenv.2023.162532] [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: 10/21/2022] [Revised: 02/24/2023] [Accepted: 02/25/2023] [Indexed: 06/18/2023]
Abstract
While microbiome alterations are increasingly proposed as a rapid mechanism to buffer organisms under changing environmental conditions, studies of these processes in the marine realm are lagging far behind their terrestrial counterparts. Here, we used a controlled laboratory experiment to examine whether the thermal tolerance of the brown seaweed Dictyota dichotoma, a common species in European coastal ecosystems, could be enhanced by the repeated addition of bacteria from its natural environment. Juvenile algae from three genotypes were subjected for two weeks to a temperature gradient, spanning almost the entire thermal range that can be tolerated by the species (11-30 °C). At the start of the experiment and again in the middle of the experiment, the algae were inoculated with bacteria from their natural environment or left untouched as a control. Relative growth rate was measured over the two-week period, and we assessed bacterial community composition prior to and at the end of the experiment. Since the growth of D. dichotoma over the full thermal gradient was not affected by supplementing bacteria, our results indicate no scope for bacterial-mediated stress alleviation. The minimal changes in the bacterial communities linked to bacterial addition, particularly at temperatures above the thermal optimum (22-23 °C), suggest the existence of a barrier to bacterial recruitment. These findings indicate that ecological bacterial rescue is unlikely to play a role in mitigating the effects of ocean warming on this brown seaweed.
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Affiliation(s)
- Soria Delva
- Phycology Research Group, Department of Biology, Ghent University, Krijgslaan 281-S8, 9000 Ghent, Belgium; Research Unit Knowledge-Based Systems (KERMIT), Department of Data Analysis and Mathematical Modelling, Ghent University, Coupure links 653, 9000 Ghent, Belgium.
| | - Bernard De Baets
- Research Unit Knowledge-Based Systems (KERMIT), Department of Data Analysis and Mathematical Modelling, Ghent University, Coupure links 653, 9000 Ghent, Belgium.
| | - Jan M Baetens
- Research Unit Knowledge-Based Systems (KERMIT), Department of Data Analysis and Mathematical Modelling, Ghent University, Coupure links 653, 9000 Ghent, Belgium.
| | - Olivier De Clerck
- Phycology Research Group, Department of Biology, Ghent University, Krijgslaan 281-S8, 9000 Ghent, Belgium.
| | - Willem Stock
- Phycology Research Group, Department of Biology, Ghent University, Krijgslaan 281-S8, 9000 Ghent, Belgium.
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Cai G, Yu X, Cai R, Wang H. Eliminating the ecological hazards of Heterosigma akashiwo bloom by a microbial algicide: removal of nitrite contamination, redirection of carbon flow and restoration of metabolic generalists. FEMS Microbiol Ecol 2022; 99:6955817. [PMID: 36546573 DOI: 10.1093/femsec/fiac154] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/08/2022] [Revised: 12/13/2022] [Accepted: 12/17/2022] [Indexed: 12/24/2022] Open
Abstract
Harmful algal blooms (HABs) attracted much attention due to their extensive ecological hazards and the increasing influences on global biogeochemical cycles with the intensification of human impact and global warming. Lysing algal cells with species-specific microbial algicide seemed to be promising to eliminate HABs, but the potential ecotoxicity was rarely studied. In this study, microcosms simulating Heterosigma akashiwo blooms were established to reveal the influences of a microbial algicide from Streptomyces sp. U3 on the biological, physicochemical parameters and bacterial community. The results showed that H. akashiwo bloom accumulated nitrite to a lethal dose, produced bio-labile DOM with widespread influences and enriched pathogenic Coxiella to a high abundance. Lysing H. akashiwo cells by microbial algicide induced a bacterial bloom, eliminated nitrite contamination, enhanced the recalcitrance of DOM, and restored bacterial population from a Gammaproteobacteria-dominant community during bloom back to an Alphaproteobacteria-dominant community similar to the non-bloom seawater. Succession of bacterial genera further suggested that the variation from algal exudates to lysates promoted the restoration of metabolic generalists, which redirected the carbon flow to a less ecologically impactive path. This study revealed the benefits of using microbial algicide to remediate the ecological hazards of HABs, which provided references for future application.
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Affiliation(s)
- Guanjing Cai
- Biology Department and Institute of Marine Sciences, College of Science, and Guangdong Provincial Key Laboratory of Marine Biotechnology, Shantou University, Shantou 515063, China.,State Key Laboratory of Marine Environmental Science and Key Laboratory of the Ministry of Education for Coastal and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen 361005, China
| | - Xiaoqi Yu
- State Key Laboratory of Marine Environmental Science and Key Laboratory of the Ministry of Education for Coastal and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen 361005, China
| | - Runlin Cai
- Biology Department and Institute of Marine Sciences, College of Science, and Guangdong Provincial Key Laboratory of Marine Biotechnology, Shantou University, Shantou 515063, China
| | - Hui Wang
- Biology Department and Institute of Marine Sciences, College of Science, and Guangdong Provincial Key Laboratory of Marine Biotechnology, Shantou University, Shantou 515063, China
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10
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Monserrat M, Comeau S, Verdura J, Alliouane S, Spennato G, Priouzeau F, Romero G, Mangialajo L. Climate change and species facilitation affect the recruitment of macroalgal marine forests. Sci Rep 2022; 12:18103. [PMID: 36302874 PMCID: PMC9613703 DOI: 10.1038/s41598-022-22845-2] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2022] [Accepted: 10/20/2022] [Indexed: 12/30/2022] Open
Abstract
Marine forests are shrinking globally due to several anthropogenic impacts including climate change. Forest-forming macroalgae, such as Cystoseira s.l. species, can be particularly sensitive to environmental conditions (e.g. temperature increase, pollution or sedimentation), especially during early life stages. However, not much is known about their response to the interactive effects of ocean warming (OW) and acidification (OA). These drivers can also affect the performance and survival of crustose coralline algae, which are associated understory species likely playing a role in the recruitment of later successional species such as forest-forming macroalgae. We tested the interactive effects of elevated temperature, low pH and species facilitation on the recruitment of Cystoseira compressa. We demonstrate that the interactive effects of OW and OA negatively affect the recruitment of C. compressa and its associated coralline algae Neogoniolithon brassica-florida. The density of recruits was lower under the combinations OW and OA, while the size was negatively affected by the temperature increase but positively affected by the low pH. The results from this study show that the interactive effects of climate change and the presence of crustose coralline algae can have a negative impact on the recruitment of Cystoseira s.l. species. While new restoration techniques recently opened the door to marine forest restoration, our results show that the interactions of multiple drivers and species interactions have to be considered to achieve long-term population sustainability.
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Affiliation(s)
- Margalida Monserrat
- grid.4444.00000 0001 2112 9282Université Côte d’Azur, CNRS, ECOSEAS, Nice, France ,grid.4444.00000 0001 2112 9282Sorbonne Université, CNRS, Laboratoire d’Océanographie de Villefranche, Villefranche-sur-Mer, France
| | - Steeve Comeau
- grid.4444.00000 0001 2112 9282Sorbonne Université, CNRS, Laboratoire d’Océanographie de Villefranche, Villefranche-sur-Mer, France
| | - Jana Verdura
- grid.4444.00000 0001 2112 9282Université Côte d’Azur, CNRS, ECOSEAS, Nice, France
| | - Samir Alliouane
- grid.4444.00000 0001 2112 9282Sorbonne Université, CNRS, Laboratoire d’Océanographie de Villefranche, Villefranche-sur-Mer, France
| | - Guillaume Spennato
- grid.4444.00000 0001 2112 9282Université Côte d’Azur, CNRS, ECOSEAS, Nice, France
| | - Fabrice Priouzeau
- grid.4444.00000 0001 2112 9282Université Côte d’Azur, CNRS, ECOSEAS, Nice, France
| | - Gilbers Romero
- grid.4444.00000 0001 2112 9282Université Côte d’Azur, CNRS, ECOSEAS, Nice, France
| | - Luisa Mangialajo
- grid.4444.00000 0001 2112 9282Université Côte d’Azur, CNRS, ECOSEAS, Nice, France
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11
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Sun T, Yang Z, Chen J, Li Y, Wang J, Wang X, Tang X, Xiao H. Effects of Water Loss Stress under Tidal Effects on the Epiphytic Bacterial Community of Sargassum thunbergii in the Intertidal Zone. mSphere 2022; 7:e0030722. [PMID: 36173121 PMCID: PMC9599519 DOI: 10.1128/msphere.00307-22] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2022] [Accepted: 09/14/2022] [Indexed: 11/20/2022] Open
Abstract
Intertidal macroalgae face periodic water loss and rehydration caused by daily tidal changes. However, the effect of water loss stress on algal epiphytic bacteria has not yet been reported. In this study, the effects of water loss stress on the epiphytic bacteria community of Sargassum thunbergii were analyzed, and the different responses of epiphytic bacteria to water loss stress were compared between male and female algae. The results showed that after water loss stress, the diversity of the epiphytic bacterial community of S. thunbergii first decreased and then increased. Among the dominant taxa, the abundance of Cyanobacteria decreased significantly, whereas the abundance of Portibacter and Aquimarina first increased and then decreased. Additionally, the indicator species and the abundance of predicted functional genes related to carbon, nitrogen, and sulfur metabolism both changed significantly. More importantly, when the epiphytic bacteria were analyzed separately according to the algal sex, the changes in algal epiphytic bacterial community structure and indicator species were more significant, and there were sexual differences. Therefore, it was concluded that water loss stress has a significant effect on the community structure and function of the epiphytic bacteria on S. thunbergii. Meanwhile, the epiphytic bacteria community of two sexes of S. thunbergii differed in the response to water loss stress. IMPORTANCE Periodic water loss caused by the tide is an important environmental factor that is faced by intertidal macroalgae, but the impact of periodic water loss on the epiphytic bacterial communities associated with macroalgae is still unknown. Through this study, we found that the diversity, the relative abundance of dominant taxa, the indicator species, and the abundance of the predicted functional genes in the epiphytic bacteria on S. thunbergii changed with the time of water loss. Moreover, male and female S. thunbergii exhibited different responses to water loss stress. This study not only paves the way for the delineation of the interactions between S. thunbergii and its epiphytic bacteria but also provides new insights for the mechanisms of the adaptation and evolution of macroalgae in the intertidal zone.
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Affiliation(s)
- Tao Sun
- College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Zhibo Yang
- College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Jun Chen
- College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Yang Li
- College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Jing Wang
- College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Xiya Wang
- College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Xuexi Tang
- College of Marine Life Sciences, Ocean University of China, Qingdao, China
- Laboratory for Marine Ecology and Environmental Science, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China
| | - Hui Xiao
- College of Marine Life Sciences, Ocean University of China, Qingdao, China
- Laboratory for Marine Ecology and Environmental Science, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China
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12
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Li Y, Yang L, Ma F, Yu H, Liu C, Yu D. Differential responses of dominant and rare epiphytic bacteria from a submerged macrophyte to elevated CO 2. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2022; 29:63005-63016. [PMID: 35449324 DOI: 10.1007/s11356-022-20266-2] [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: 12/17/2021] [Accepted: 04/11/2022] [Indexed: 06/14/2023]
Abstract
Epiphytic bacteria develop complex interactions with their host macrophytes and play an important role in the ecological processes in freshwater habitats. However, how dominant and rare taxa respond to elevated atmospheric CO2 remains unclear. A manipulated experiment was carried out to explore the effects of elevated CO2 on the diversity or functional characteristics of leaf epiphytic dominant and rare bacteria from a submerged macrophyte. Three levels (high, medium, normal) of dissolved inorganic carbon (DIC) were applied to the overlying water. The physicochemical properties of the overlying water were measured. Elevated atmospheric CO2 significantly decreased the pH and dissolved oxygen (DO) of overlying water. Proteobacteria, Cyanobacteria, Bacteroidetes, Planctomycetes, and Actinobacteria are the dominant phyla of leaf epiphytic bacteria from Myriophyllum spicatum, occupying over 90% of the accumulated relative abundances. The aquatic DIC level and further pH significantly drove the epiphytic community composition differences among the three DIC levels. For dominant epiphytic bacteria, the functional potential of nutrient processes and mutualistic relationships were strongly affected by a high DIC level, while responses of rare epiphytic bacteria were more related to trace element processes, pathogens, and defense strategies under a high DIC level. Our results showed the responses of epiphytic bacteria to elevated CO2 varied across dominant and rare taxa.
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Affiliation(s)
- Yang Li
- The National Field Station of Freshwater Ecosystem of Liangzi Lake, College of Life Science, Wuhan University, Wuhan, People's Republic of China
| | - Lei Yang
- The National Field Station of Freshwater Ecosystem of Liangzi Lake, College of Life Science, Wuhan University, Wuhan, People's Republic of China
| | - Fei Ma
- The National Field Station of Freshwater Ecosystem of Liangzi Lake, College of Life Science, Wuhan University, Wuhan, People's Republic of China
| | - Hongwei Yu
- The National Field Station of Freshwater Ecosystem of Liangzi Lake, College of Life Science, Wuhan University, Wuhan, People's Republic of China
| | - Chunhua Liu
- The National Field Station of Freshwater Ecosystem of Liangzi Lake, College of Life Science, Wuhan University, Wuhan, People's Republic of China.
| | - Dan Yu
- The National Field Station of Freshwater Ecosystem of Liangzi Lake, College of Life Science, Wuhan University, Wuhan, People's Republic of China
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13
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Adamczyk EM, O’Connor MI, Wegener Parfrey L. Seagrass (
Zostera marina
) transplant experiment reveals core microbiome and resistance to environmental change. Mol Ecol 2022; 31:5107-5123. [DOI: 10.1111/mec.16641] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/27/2020] [Revised: 07/20/2022] [Accepted: 07/28/2022] [Indexed: 11/29/2022]
Affiliation(s)
- Emily M. Adamczyk
- Department of Zoology and Biodiversity Research Centre University of British Columbia, Unceded xʷməθkʷəy̓əm (Musqueam) Territory, 4200 ‐ 600 University Blvd Vancouver British Columbia Canada
| | - Mary I. O’Connor
- Department of Zoology and Biodiversity Research Centre University of British Columbia, Unceded xʷməθkʷəy̓əm (Musqueam) Territory, 4200 ‐ 600 University Blvd Vancouver British Columbia Canada
| | - Laura Wegener Parfrey
- Department of Zoology and Biodiversity Research Centre University of British Columbia, Unceded xʷməθkʷəy̓əm (Musqueam) Territory, 4200 ‐ 600 University Blvd Vancouver British Columbia Canada
- Department of Botany and Biodiversity Research Centre University of British Columbia, Unceded xʷməθkʷəy̓əm (Musqueam) Territory, 3156 ‐ 6270 University Blvd Vancouver British Columbia Canada
- Hakai Institute, PO Box 25039 Campbell River British Columbia
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14
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Wang J, Li Y, Yang Z, Sun T, Yu X, Zhao Y, Tang X, Xiao H. Sex plays a role in the construction of epiphytic bacterial communities on the algal bodies and receptacles of Sargassum thunbergii. Front Microbiol 2022; 13:935222. [PMID: 35958132 PMCID: PMC9360977 DOI: 10.3389/fmicb.2022.935222] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2022] [Accepted: 07/01/2022] [Indexed: 11/21/2022] Open
Abstract
The community structures of epiphytic bacteria on the surface of macroalgae are closely related to their host algae, but there is a lack of research on the differences between the epiphytic bacterial communities of male and female algae and their reproductive tissues. In this study, high-throughput sequencing was used to compare epiphytic bacterial community structures on the intertidal macroalgae Sargassum thunbergii and their receptacles between male and female samples. The epiphytic bacteria on the male and female algal bodies and receptacles had similar community structures with a large number of shared bacteria, but the samples clearly clustered separately, and the abundances of dominant taxa, specific bacteria, and indicator species differed, indicating that epiphytic bacterial communities differed significantly between the male and female S. thunbergii and their receptacles. In addition, the abundance of many predicted functional genes was significantly different between epiphytic bacteria on male and female algal bodies and receptacles, especially metabolism-related genes, and the abundances of predicted functional genes of epiphytic bacteria were significantly higher on both types of male samples than on female samples. Our study confirmed that the sex of the host algae influenced the epiphytic bacterial community structures on algae and algal reproductive tissues, and this role was mainly related to the host metabolism. The results reveal the role of host plant sex in the formation of epiphytic bacterial communities. These findings are helpful for obtaining an in-depth understanding of the construction mechanism of algae-associated bacteria.
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Affiliation(s)
- Jing Wang
- College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Yang Li
- College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Zhibo Yang
- College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Tao Sun
- College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Xinlong Yu
- College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Yayun Zhao
- College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Xuexi Tang
- College of Marine Life Sciences, Ocean University of China, Qingdao, China
- Laboratory for Marine Ecology and Environmental Science, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China
- *Correspondence: Xuexi Tang,
| | - Hui Xiao
- College of Marine Life Sciences, Ocean University of China, Qingdao, China
- Laboratory for Marine Ecology and Environmental Science, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China
- Hui Xiao,
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15
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Abstract
Marine biofilms are ubiquitous in the marine environment. These complex microbial communities rapidly respond to environmental changes and encompass hugely diverse microbial structures, functions and metabolisms. Nevertheless, knowledge is limited on the microbial community structures and functions of natural marine biofilms and their influence on global geochemical cycles. Microbial cues, including secondary metabolites and microbial structures, regulate interactions between microorganisms, with their environment and with other benthic organisms, which affects their community succession and metamorphosis. Furthermore, marine biofilms are key mediators of marine biofouling, which greatly affect marine industries. In this Review, we discuss marine biofilm dynamics, including their diversity, abundance and functions. We also highlight knowledge gaps, areas for future research and potential biotechnological applications of marine biofilms.
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16
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Yang Z, Chen J, Shang S, Wang J, Xue S, Tang X, Xiao H. Diversity of epiphytic bacterial communities on male and female Porphyra haitanensis. ANN MICROBIOL 2022. [DOI: 10.1186/s13213-022-01675-7] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022] Open
Abstract
Abstract
Purpose
To study the structure of the epiphytic bacterial community of the male and female Porphyra haitanensis, in order to explore the similarities and differences of epiphytic bacterial community structure between dioecious macroalgae.
Methods
Collection of male and female Porphyra haitanensis from the intertidal zone of Niushan Island, Fujian, China. Epiphytic bacteria were collected and studied, and the community composition and diversity of epiphytic bacteria were explored using high-throughput sequencing technology.
Results
There was no significant difference between male and female Porphyra haitanensis on α-diversity and β-diversity. Proteobacteria and Bacteroidetes were the core microbiota in male and female Porphyra haitanensis. Bacteria from the Maribacter (male 14.87%, female 1.66%) and the Tenacibaculum (male 1.44%, female 25.78%) were the most indicative epiphytic bacterial taxa on male and female Porphyra haitanensis.
Conclusions
Sex differences have some influence on the construction of epiphytic bacterial communities in Porphyra haitanensis, but they are not the decisive factors affecting the construction of epiphytic bacterial communities in Porphyra haitanensis.
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17
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Lian J, Steinert G, de Vree J, Meijer S, Heryanto C, Bosma R, Wijffels RH, Barbosa MJ, Smidt H, Sipkema D. Bacterial diversity in different outdoor pilot plant photobioreactor types during production of the microalga Nannochloropsis sp. CCAP211/78. Appl Microbiol Biotechnol 2022; 106:2235-2248. [PMID: 35166894 PMCID: PMC8930801 DOI: 10.1007/s00253-022-11815-3] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/02/2021] [Revised: 12/22/2021] [Accepted: 01/29/2022] [Indexed: 11/25/2022]
Abstract
As large-scale outdoor production cannot be done in complete containment, cultures are (more) open for bacteria, which may affect the productivity and stability of the algae production process. We investigated the bacterial diversity in two indoor reactors and four pilot-scale outdoor reactors for the production of Nannochloropsis sp. CCAP211/78 spanning four months of operation from July to October. Illumina sequencing of 16S rRNA gene amplicons demonstrated that a wide variety of bacteria were present in all reactor types, with predominance of Bacteroidetes and Alphaproteobacteria. Bacterial communities were significantly different between all reactor types (except between the horizontal tubular reactor and the vertical tubular reactor) and also between runs in each reactor. Bacteria common to the majority of samples included one member of the Saprospiraceae family and one of the NS11-12_marine group (both Bacteroidetes). Hierarchical clustering analysis revealed two phases during the cultivation period separated by a major shift in bacterial community composition in the horizontal tubular reactor, the vertical tubular reactor and the raceway pond with a strong decrease of the Saprospiraceae and NS11-12_marine group that initially dominated the bacterial communities. Furthermore, we observed a less consistent pattern of bacterial taxa appearing in different reactors and runs, most of which belonging to the classes Deltaproteobacteria and Flavobacteriia. In addition, canonical correspondence analysis showed that the bacterial community composition was significantly correlated with the nitrate concentration. This study contributes to our understanding of bacterial diversity and composition in different types of outdoor reactors exposed to a range of dynamic biotic and abiotic factors. Key points • Reactor types had significantly different bacterial communities except HT and VT • The inoculum source and physiochemical factors together affect bacterial community • The bacterial family Saprospiraceae is positively correlated to microalgal growth.
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Affiliation(s)
- Jie Lian
- Laboratory of Microbiology, Wageningen University & Research, Stippeneng 4, 6708 WE, Wageningen, The Netherlands
| | - Georg Steinert
- Laboratory of Microbiology, Wageningen University & Research, Stippeneng 4, 6708 WE, Wageningen, The Netherlands
| | - Jeroen de Vree
- Bioprocess Engineering, AlgaePARC, Wageningen University & Research, PO Box 16, 6700 AA, Wageningen, The Netherlands
| | - Sven Meijer
- Laboratory of Microbiology, Wageningen University & Research, Stippeneng 4, 6708 WE, Wageningen, The Netherlands
| | - Christa Heryanto
- Bioprocess Engineering, AlgaePARC, Wageningen University & Research, PO Box 16, 6700 AA, Wageningen, The Netherlands
| | - Rouke Bosma
- Bioprocess Engineering, AlgaePARC, Wageningen University & Research, PO Box 16, 6700 AA, Wageningen, The Netherlands
| | - René H Wijffels
- Bioprocess Engineering, AlgaePARC, Wageningen University & Research, PO Box 16, 6700 AA, Wageningen, The Netherlands
- Faculty of Biosciences and Aquaculture, Nord University, N8049, Bodø, Norway
| | - Maria J Barbosa
- Bioprocess Engineering, AlgaePARC, Wageningen University & Research, PO Box 16, 6700 AA, Wageningen, The Netherlands
| | - Hauke Smidt
- Laboratory of Microbiology, Wageningen University & Research, Stippeneng 4, 6708 WE, Wageningen, The Netherlands
| | - Detmer Sipkema
- Laboratory of Microbiology, Wageningen University & Research, Stippeneng 4, 6708 WE, Wageningen, The Netherlands.
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18
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Ren CG, Liu ZY, Wang XL, Qin S. The seaweed holobiont: from microecology to biotechnological applications. Microb Biotechnol 2022; 15:738-754. [PMID: 35137526 PMCID: PMC8913876 DOI: 10.1111/1751-7915.14014] [Citation(s) in RCA: 16] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/12/2021] [Revised: 01/25/2022] [Accepted: 01/27/2022] [Indexed: 01/17/2023] Open
Abstract
In the ocean, seaweed and microorganisms have coexisted since the earliest stages of evolution and formed an inextricable relationship. Recently, seaweed has attracted extensive attention worldwide for ecological and industrial purposes, but the function of its closely related microbes is often ignored. Microbes play an indispensable role in different stages of seaweed growth, development and maturity. A very diverse group of seaweed‐associated microbes have important functions and are dynamically reconstructed as the marine environment fluctuates, forming an inseparable ‘holobiont’ with their host. To further understand the function and significance of holobionts, this review first reports on recent advances in revealing seaweed‐associated microbe spatial and temporal distribution. Then, this review discusses the microbe and seaweed interactions and their ecological significance, and summarizes the current applications of the seaweed–microbe relationship in various environmental and biological technologies. Sustainable industries based on seaweed holobionts could become an integral part of the future bioeconomy because they can provide more resource‐efficient food, high‐value chemicals and medical materials. Moreover, holobionts may provide a new approach to marine environment restoration.
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Affiliation(s)
- Cheng-Gang Ren
- Key Laboratory of Biology and Utilization of Biological Resources of Coastal Zone, Yantai Institute of Coastal Zone Research, Chinese Academy of Sciences, Yantai, 264003, China.,Center for Ocean Mag-Science, Chinese Academy of Sciences, Qingdao, China
| | - Zheng-Yi Liu
- Key Laboratory of Biology and Utilization of Biological Resources of Coastal Zone, Yantai Institute of Coastal Zone Research, Chinese Academy of Sciences, Yantai, 264003, China.,Center for Ocean Mag-Science, Chinese Academy of Sciences, Qingdao, China
| | | | - Song Qin
- Key Laboratory of Biology and Utilization of Biological Resources of Coastal Zone, Yantai Institute of Coastal Zone Research, Chinese Academy of Sciences, Yantai, 264003, China.,Center for Ocean Mag-Science, Chinese Academy of Sciences, Qingdao, China
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19
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Tamburello L, Chiarore A, Fabbrizzi E, Colletti A, Franzitta G, Grech D, Rindi F, Rizzo L, Savinelli B, Fraschetti S. Can we preserve and restore overlooked macroalgal forests? THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 806:150855. [PMID: 34678362 DOI: 10.1016/j.scitotenv.2021.150855] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/22/2021] [Revised: 09/20/2021] [Accepted: 10/03/2021] [Indexed: 06/13/2023]
Abstract
Habitat degradation and loss are severely affecting macroalgal forests worldwide, and their successful mitigation depends on the identification of the drivers of loss and the implementation of effective conservation and restoration actions. We made an extensive literature review 1- to document the historical (1789-1999) and recent (2000-2020) occurrence of the genus Cystoseira, Ericaria and Gongolaria reported in the literature along the 8000 km of the coasts of Italy, 2- to assess their decline and patterns of extinction, 3- to ascertain the drivers responsible for these changes, 4- to highlight the existence of success stories in their conservation and natural recovery. In the last twenty years, overall information on the distribution of Cystoseira s.l. exponentially increased, although research focused almost exclusively on intertidal reefs. Despite the lack of systematic monitoring programs, the local extinction of 371 populations of 19 different species of Cystoseira s.l. was documented across several regions, since 2000. Coastal engineering and poor quality of waters due to urban, agricultural or industrial activities were often documented as leading causes of habitat loss. However, the drivers of extinction were actually unknown for the majority of the populations and cause-effects relationships are scarcely documented. Although the proportion of protected populations increased to 77.8%, Marine Protected Areas are unlikely to guarantee adequate conservation efficacy, possibly also for the widespread lack of management and monitoring plans dealing specifically with Cystoseira s.l. species, and few evidences of natural recovery were observed. Our review shows the dramatic lack of baseline information for macroalgal forests, highlighting the urgent need for the monitoring of less accessible habitats, the collection of long-term data to unveil drivers of loss, and an updated reporting about the conservation status of the species of interest to plan future interventions.
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Affiliation(s)
- Laura Tamburello
- Department of Integrative Marine Ecology (EMI), Ischia Marine Centre, Stazione Zoologica Anton Dohrn, Punta San Pietro, Ischia, NA, Italy.
| | - Antonia Chiarore
- Department of Biology, University of Naples Federico II, Naples, Italy
| | - Erika Fabbrizzi
- Department of Integrative Marine Ecology (EMI), Ischia Marine Centre, Stazione Zoologica Anton Dohrn, Punta San Pietro, Ischia, NA, Italy; Department of Biology, University of Naples Federico II, Naples, Italy
| | - Alberto Colletti
- Department of Biology, University of Naples Federico II, Naples, Italy
| | - Giulio Franzitta
- Department of Research Infrastructures for Marine Biological Resources (RIMAR), Stazione Zoologica Anton Dohrn, Villa Comunale, Napoli, Italy
| | - Daniele Grech
- IMC - International Marine Centre, Loc. Sa Mardini, Torre Grande, 09170 Oristano, Italy
| | - Fabio Rindi
- Department of Life and Environmental Sciences, Polytechnic University of Marche, 60131 Ancona, Italy
| | - Lucia Rizzo
- Department of Integrative Marine Ecology (EMI), Ischia Marine Centre, Stazione Zoologica Anton Dohrn, Punta San Pietro, Ischia, NA, Italy
| | | | - Simonetta Fraschetti
- Department of Integrative Marine Ecology (EMI), Ischia Marine Centre, Stazione Zoologica Anton Dohrn, Punta San Pietro, Ischia, NA, Italy; Department of Biology, University of Naples Federico II, Naples, Italy
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20
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Pang M, Huang Z, Lv L, Li X, Jin G. Seasonal succession of bacterial communities in cultured Caulerpa lentillifera detected by high-throughput sequencing. Open Life Sci 2022; 17:10-21. [PMID: 35128065 PMCID: PMC8800382 DOI: 10.1515/biol-2022-0001] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2021] [Revised: 10/18/2021] [Accepted: 10/19/2021] [Indexed: 11/30/2022] Open
Abstract
An increasing number of microorganisms are being identified as pathogens for diseases in macroalgae, but the species composition of bacteria related to Caulerpa lentillifera, fresh edible green macroalgae worldwide, remains largely unclear. The bacterial communities associated with C. lentillifera were investigated by high-throughput 16S rDNA sequencing, and the bacterial diversities in washed and control groups were compared in this study. A total of 4,388 operational taxonomic units were obtained from all the samples, and the predominant prokaryotic phyla were Proteobacteria, Bacteroidetes, Planctomycetes, Cyanobacteria, Actinobacteria, Verrucomicrobia, Chloroflexi, and Acidobacteria in C. lentillifera. The bacterial diversity changed with seasons and showed an increasing trend of diversity with the rising temperature in C. lentillifera. There were slight reductions in the abundance and diversity of bacteria after washing with tap water for 2 h, indicating that only parts of the bacterial groups could be washed out, and hidden dangers in C. lentillifera still exist. Although the reduction in the abundance of some bacteria revealed a positive significance of washing C. lentillifera with tap water on food safety, more effective cleaning methods still need to be explored.
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Affiliation(s)
- Meixia Pang
- Postdoctoral Innovation Practice Base, Shenzhen Polytechnic, Shenzhen 518055, China
- School of Applied Chemistry and Biological Technology, Shenzhen Polytechnic, Shenzhen 518055, China
| | - Zhili Huang
- School of Applied Chemistry and Biological Technology, Shenzhen Polytechnic, Shenzhen 518055, China
| | - Le Lv
- School of Applied Chemistry and Biological Technology, Shenzhen Polytechnic, Shenzhen 518055, China
| | - Xiaodong Li
- School of Applied Chemistry and Biological Technology, Shenzhen Polytechnic, Shenzhen 518055, China
| | - Gang Jin
- School of Applied Chemistry and Biological Technology, Shenzhen Polytechnic, Shenzhen 518055, China
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21
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Pathirana E, Whittington RJ, Hick PM. Impact of seawater temperature on the Pacific oyster (Crassostrea gigas) microbiome and susceptibility to disease associated with Ostreid herpesvirus-1 (OsHV-1). ANIMAL PRODUCTION SCIENCE 2022. [DOI: 10.1071/an21505] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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22
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Glasl B, Haskell JB, Aires T, Serrão EA, Bourne DG, Webster NS, Frade PR. Microbial Surface Biofilm Responds to the Growth-Reproduction-Senescence Cycle of the Dominant Coral Reef Macroalgae Sargassum spp. Life (Basel) 2021; 11:life11111199. [PMID: 34833075 PMCID: PMC8621314 DOI: 10.3390/life11111199] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/24/2021] [Revised: 11/01/2021] [Accepted: 11/02/2021] [Indexed: 11/16/2022] Open
Abstract
Macroalgae play an intricate role in microbial-mediated coral reef degradation processes due to the release of dissolved nutrients. However, temporal variabilities of macroalgal surface biofilms and their implication on the wider reef system remain poorly characterized. Here, we study the microbial biofilm of the dominant reef macroalgae Sargassum over a period of one year at an inshore Great Barrier Reef site (Magnetic Island, Australia). Monthly sampling of the Sargassum biofilm links the temporal taxonomic and putative functional metabolic microbiome changes, examined using 16S rRNA gene amplicon and metagenomic sequencing, to the pronounced growth-reproduction-senescence cycle of the host. Overall, the macroalgal biofilm was dominated by the heterotrophic phyla Firmicutes (35% ± 5.9% SD) and Bacteroidetes (12% ± 0.6% SD); their relative abundance ratio shifted significantly along the annual growth-reproduction-senescence cycle of Sargassum. For example, Firmicutes were 1.7 to 3.9 times more abundant during host growth and reproduction cycles than Bacteroidetes. Both phyla varied in their carbohydrate degradation capabilities; hence, temporal fluctuations in the carbohydrate availability are potentially linked to the observed shift. Dominant heterotrophic macroalgal biofilm members, such as Firmicutes and Bacteroidetes, are implicated in exacerbating or ameliorating the release of dissolved nutrients into the ambient environment, though their contribution to microbial-mediated reef degradation processes remains to be determined.
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Affiliation(s)
- Bettina Glasl
- Centre for Microbiology and Environmental Systems Science, Division of Microbial Ecology, University of Vienna, 1030 Vienna, Austria
- Correspondence:
| | - Jasmine B. Haskell
- CCMAR-Centre of Marine Sciences, CIMAR, University of Algarve, 8005-139 Faro, Portugal; (J.B.H.); (T.A.); (E.A.S.)
| | - Tania Aires
- CCMAR-Centre of Marine Sciences, CIMAR, University of Algarve, 8005-139 Faro, Portugal; (J.B.H.); (T.A.); (E.A.S.)
| | - Ester A. Serrão
- CCMAR-Centre of Marine Sciences, CIMAR, University of Algarve, 8005-139 Faro, Portugal; (J.B.H.); (T.A.); (E.A.S.)
| | - David G. Bourne
- Australian Institute of Marine Science, Townsville 4810, Australia
- College of Science and Engineering, James Cook University, Townsville 4811, Australia;
| | - Nicole S. Webster
- Australian Institute of Marine Science, Townsville 4810, Australia
- Australian Centre for Ecogenomics, University of Queensland, Brisbane 4072, Australia
- Australian Antarctic Division, Hobart 7050, Australia;
| | - Pedro R. Frade
- CCMAR-Centre of Marine Sciences, CIMAR, University of Algarve, 8005-139 Faro, Portugal; (J.B.H.); (T.A.); (E.A.S.)
- Zoological Department III, Natural History Museum Vienna, 1010 Vienna, Austria;
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23
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Morrissey KL, Iveša L, Delva S, D'Hondt S, Willems A, De Clerck O. Impacts of environmental stress on resistance and resilience of algal-associated bacterial communities. Ecol Evol 2021; 11:15004-15019. [PMID: 34765156 PMCID: PMC8571626 DOI: 10.1002/ece3.8184] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2021] [Revised: 08/10/2021] [Accepted: 08/11/2021] [Indexed: 11/18/2022] Open
Abstract
Algal-associated bacteria are fundamental to the ecological success of marine green macroalgae such as Caulerpa. The resistance and resilience of algal-associated microbiota to environmental stress can promote algal health and genetic adaptation to changing environments. The composition of bacterial communities has been shown to be unique to algal morphological niches. Therefore, the level of response to various environmental perturbations may in fact be different for each niche-specific community. Factorial in situ experiments were set up to investigate the effect of nutrient enrichment and temperature stress on the bacterial communities associated with Caulerpa cylindracea. Bacteria were characterized using the 16S rRNA gene, and the community compositions were compared between different parts of the algal thallus (endo-, epi-, and rhizomicrobiome). Resistance and resilience were calculated to further understand the changes of microbial composition in response to perturbations. The results of this study provide evidence that nutrient enrichment has a significant influence on the taxonomic and functional structure of the epimicrobiota, with a low community resistance index observed for both. Temperature and nutrient stress had a significant effect on the rhizomicrobiota taxonomic composition, exhibiting the lowest overall resistance to change. The functional performance of the rhizomicrobiota had low resilience to the combination of stressors, indicating potential additive effects. Interestingly, the endomicrobiota had the highest overall resistance, yet the lowest overall resilience to environmental stress. This further contributes to our understanding of algal microbiome dynamics in response to environmental changes.
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Affiliation(s)
| | - Ljiljana Iveša
- Center for Marine ResearchRuđer Bošković InstituteRovinjCroatia
| | - Soria Delva
- Phycology Research GroupDepartment of BiologyGhent UniversityGhentBelgium
| | - Sofie D'Hondt
- Phycology Research GroupDepartment of BiologyGhent UniversityGhentBelgium
| | - Anne Willems
- Laboratory of MicrobiologyDepartment of Biochemistry and MicrobiologyGhent UniversityGhentBelgium
| | - Olivier De Clerck
- Phycology Research GroupDepartment of BiologyGhent UniversityGhentBelgium
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24
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Paix B, Layglon N, Le Poupon C, D'Onofrio S, Misson B, Garnier C, Culioli G, Briand JF. Integration of spatio-temporal variations of surface metabolomes and epibacterial communities highlights the importance of copper stress as a major factor shaping host-microbiota interactions within a Mediterranean seaweed holobiont. MICROBIOME 2021; 9:201. [PMID: 34641951 PMCID: PMC8507236 DOI: 10.1186/s40168-021-01124-8] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/20/2021] [Accepted: 07/04/2021] [Indexed: 06/13/2023]
Abstract
BACKGROUND Although considered as holobionts, macroalgae and their surface microbiota share intimate interactions that are still poorly understood. Little is known on the effect of environmental parameters on the close relationships between the host and its surface-associated microbiota, and even more in a context of coastal pollutions. Therefore, the main objective of this study was to decipher the impact of local environmental parameters, especially trace metal concentrations, on an algal holobiont dynamics using the Phaeophyta Taonia atomaria as a model. Through a multidisciplinary multi-omics approach combining metabarcoding and untargeted LC-MS-based metabolomics, the epibacterial communities and the surface metabolome of T. atomaria were monitored along a spatio-temporal gradient in the bay of Toulon (Northwestern Mediterranean coast) and its surrounding. Indeed, this geographical area displays a well-described trace metal gradient particularly relevant to investigate the effect of such pollutants on marine organisms. RESULTS Epibacterial communities of T. atomaria exhibited a high specificity whatever the five environmentally contrasted collecting sites investigated on the NW Mediterranean coast. By integrating metabarcoding and metabolomics analyses, the holobiont dynamics varied as a whole. During the occurrence period of T. atomaria, epibacterial densities and α-diversity increased while the relative proportion of core communities decreased. Pioneer bacterial colonizers constituted a large part of the specific and core taxa, and their decrease might be linked to biofilm maturation through time. Then, the temporal increase of the Roseobacter was proposed to result from the higher temperature conditions, but also the increased production of dimethylsulfoniopropionate (DMSP) at the algal surface which could constitute of the source of carbon and sulfur for the catabolism pathways of these taxa. Finally, as a major result of this study, copper concentration constituted a key factor shaping the holobiont system. Thus, the higher expression of carotenoids suggested an oxidative stress which might result from an adaptation of the algal surface metabolome to high copper levels. In turn, this change in the surface metabolome composition could result in the selection of particular epibacterial taxa. CONCLUSION We showed that associated epibacterial communities were highly specific to the algal host and that the holobiont dynamics varied as a whole. While temperature increase was confirmed to be one of the main parameters associated to Taonia dynamics, the originality of this study was highlighting copper-stress as a major driver of seaweed-epibacterial interactions. In a context of global change, this study brought new insights on the dynamics of a Mediterranean algal holobiont submitted to heavy anthropic pressures. Video abstract.
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Affiliation(s)
- Benoît Paix
- Université de Toulon, Laboratoire MAPIEM, EA, 4323, Toulon, France
- Present adress: Marine Biodiversity, Naturalis Biodiversity Center, Leiden, The Netherlands
| | - Nicolas Layglon
- Université de Toulon, Aix Marseille Université, CNRS, IRD, Mediterranean Institute of Oceanography (MIO), UM, 110, Toulon, France
| | - Christophe Le Poupon
- Université de Toulon, Aix Marseille Université, CNRS, IRD, Mediterranean Institute of Oceanography (MIO), UM, 110, Toulon, France
| | - Sébastien D'Onofrio
- Université de Toulon, Aix Marseille Université, CNRS, IRD, Mediterranean Institute of Oceanography (MIO), UM, 110, Toulon, France
| | - Benjamin Misson
- Université de Toulon, Aix Marseille Université, CNRS, IRD, Mediterranean Institute of Oceanography (MIO), UM, 110, Toulon, France
| | - Cédric Garnier
- Université de Toulon, Aix Marseille Université, CNRS, IRD, Mediterranean Institute of Oceanography (MIO), UM, 110, Toulon, France
| | - Gérald Culioli
- Université de Toulon, Laboratoire MAPIEM, EA, 4323, Toulon, France.
- Present address: Institut Méditerranéen de Biodiversité et d'Ecologie marine et continentale (IMBE), UMR CNRS-IRD-Avignon Université-Aix-Marseille Université, Avignon, France.
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25
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Korlević M, Markovski M, Zhao Z, Herndl GJ, Najdek M. Seasonal Dynamics of Epiphytic Microbial Communities on Marine Macrophyte Surfaces. Front Microbiol 2021; 12:671342. [PMID: 34603223 PMCID: PMC8482799 DOI: 10.3389/fmicb.2021.671342] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2021] [Accepted: 08/10/2021] [Indexed: 11/13/2022] Open
Abstract
Surfaces of marine macrophytes are inhabited by diverse microbial communities. Most studies focusing on epiphytic communities of macrophytes did not take into account temporal changes or applied low sampling frequency approaches. The seasonal dynamics of epiphytic microbial communities was determined in a meadow of Cymodocea nodosa invaded by Caulerpa cylindracea and in a monospecific settlement of C. cylindracea at monthly intervals. For comparison the ambient prokaryotic picoplankton community was also characterized. At the OTU level, the microbial community composition differed between the ambient water and the epiphytic communities exhibiting host-specificity. Also, successional changes were observed connected to the macrophyte growth cycle. Taxonomic analysis, however, showed similar high rank taxa (phyla and classes) in the ambient water and the epiphytic communities, with the exception of Desulfobacterota, which were only found on C. cylindracea. Cyanobacteria showed seasonal changes while other high rank taxa were present throughout the year. In months of high Cyanobacteria presence the majority of cyanobacterial sequences were classified as Pleurocapsa. Phylogenetic groups present throughout the year (e.g., Saprospiraceae, Rhodobacteraceae, members without known relatives within Gammaproteobacteria, Desulfatitalea, and members without known relatives within Desulfocapsaceae) constituted most of the sequences, while less abundant taxa showed seasonal patterns connected to the macrophyte growth cycle. Taken together, epiphytic microbial communities of the seagrass C. nodosa and the macroalga C. cylindracea appear to be host-specific and contain taxa that undergo successional changes.
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Affiliation(s)
- Marino Korlević
- Center for Marine Research, Ruđer Bošković Institute, Rovinj, Croatia
| | - Marsej Markovski
- Center for Marine Research, Ruđer Bošković Institute, Rovinj, Croatia
| | - Zihao Zhao
- Department of Functional and Evolutionary Ecology, University of Vienna, Vienna, Austria
| | - Gerhard J Herndl
- Department of Functional and Evolutionary Ecology, University of Vienna, Vienna, Austria.,Department of Marine Microbiology and Biogeochemistry, Royal Netherlands Institute for Sea Research (NIOZ), Utrecht University, Den Burg, Netherlands
| | - Mirjana Najdek
- Center for Marine Research, Ruđer Bošković Institute, Rovinj, Croatia
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26
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Jorissen H, Galand PE, Bonnard I, Meiling S, Raviglione D, Meistertzheim AL, Hédouin L, Banaigs B, Payri CE, Nugues MM. Coral larval settlement preferences linked to crustose coralline algae with distinct chemical and microbial signatures. Sci Rep 2021; 11:14610. [PMID: 34272460 PMCID: PMC8285400 DOI: 10.1038/s41598-021-94096-6] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2021] [Accepted: 07/05/2021] [Indexed: 11/09/2022] Open
Abstract
The resilience of coral reefs is dependent on the ability of corals to settle after disturbances. While crustose coralline algae (CCA) are considered important substrates for coral settlement, it remains unclear whether coral larvae respond to CCA metabolites and microbial cues when selecting sites for attachment and metamorphosis. This study tested the settlement preferences of an abundant coral species (Acropora cytherea) against six different CCA species from three habitats (exposed, subcryptic and cryptic), and compared these preferences with the metabolome and microbiome characterizing the CCA. While all CCA species induced settlement, only one species (Titanoderma prototypum) significantly promoted settlement on the CCA surface, rather than on nearby dead coral or plastic surfaces. This species had a very distinct bacterial community and metabolomic fingerprint. Furthermore, coral settlement rates and the CCA microbiome and metabolome were specific to the CCA preferred habitat, suggesting that microbes and/or chemicals serve as environmental indicators for coral larvae. Several amplicon sequence variants and two lipid classes—glycoglycerolipids and betaine lipids—present in T. prototypum were identified as potential omic cues influencing coral settlement. These results support that the distinct microbiome and metabolome of T. prototypum may promote the settlement and attachment of coral larvae.
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Affiliation(s)
- Hendrikje Jorissen
- CRIOBE USR 3278, EPHE-UPVD-CNRS-PSL, 52 Avenue Paul Alduy, 66860, Perpignan Cedex, France.
| | - Pierre E Galand
- CNRS, Laboratoire d'Ecogéochimie des Environnements Benthiques, LECOB, Sorbonne Université, 66500, Banyuls-sur-Mer, France
| | - Isabelle Bonnard
- CRIOBE USR 3278, EPHE-UPVD-CNRS-PSL, 52 Avenue Paul Alduy, 66860, Perpignan Cedex, France.,Laboratoire d'Excellence « CORAIL», 98729, Papetoai, Moorea, French Polynesia
| | - Sonora Meiling
- CRIOBE USR 3278, EPHE-UPVD-CNRS-PSL, 52 Avenue Paul Alduy, 66860, Perpignan Cedex, France.,University of the Virgin Islands, St Thomas, 00802-6004, Virgin Islands (U.S.)
| | - Delphine Raviglione
- CRIOBE USR 3278, EPHE-UPVD-CNRS-PSL, 52 Avenue Paul Alduy, 66860, Perpignan Cedex, France
| | - Anne-Leila Meistertzheim
- CNRS, Laboratoire d'Ecogéochimie des Environnements Benthiques, LECOB, Sorbonne Université, 66500, Banyuls-sur-Mer, France.,Plastic@Sea, Observatoire Océanologique de Banyuls, 66650, Banyuls-sur-Mer, France
| | - Laetitia Hédouin
- CRIOBE USR 3278, EPHE-UPVD-CNRS-PSL, 52 Avenue Paul Alduy, 66860, Perpignan Cedex, France.,Laboratoire d'Excellence « CORAIL», 98729, Papetoai, Moorea, French Polynesia
| | - Bernard Banaigs
- CRIOBE USR 3278, EPHE-UPVD-CNRS-PSL, 52 Avenue Paul Alduy, 66860, Perpignan Cedex, France.,Laboratoire d'Excellence « CORAIL», 98729, Papetoai, Moorea, French Polynesia
| | | | - Maggy M Nugues
- CRIOBE USR 3278, EPHE-UPVD-CNRS-PSL, 52 Avenue Paul Alduy, 66860, Perpignan Cedex, France.,Laboratoire d'Excellence « CORAIL», 98729, Papetoai, Moorea, French Polynesia
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27
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Phelps CM, McMahon K, Bissett A, Bernasconi R, Steinberg PD, Thomas T, Marzinelli EM, Huggett MJ. The surface bacterial community of an Australian kelp shows cross-continental variation and relative stability within regions. FEMS Microbiol Ecol 2021; 97:fiab089. [PMID: 34156064 DOI: 10.1093/femsec/fiab089] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2020] [Accepted: 06/18/2021] [Indexed: 11/12/2022] Open
Abstract
Epiphytic microbial communities often have a close relationship with their eukaryotic host, assisting with defence, health, disease prevention and nutrient transfer. Shifts in the structure of microbial communities could therefore have negative effects on the individual host and indirectly impact the surrounding ecosystem, particularly for major habitat-forming hosts, such as kelps in temperate rocky shores. Thus, an understanding of the structure and dynamics of host-associated microbial communities is essential for monitoring and assessing ecosystem changes. Here, samples were taken from the ecologically important kelp, Ecklonia radiata, over a 17-month period, from six different sites in two distinct geographic regions (East and West coasts of Australia), separated by ∼3,300 kms, to understand variation in the kelp bacterial community and its potential environmental drivers. Differences were observed between kelp bacterial communities between the largely disconnected geographical regions. In contrast, within each region and over time the bacterial communities were considerably more stable, despite substantial seasonal changes in environmental conditions.
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Affiliation(s)
- Charlie M Phelps
- Centre for Marine Ecosystems Research, School of Science, Edith Cowan University, 270 Joondalup Drive, Joondalup, WA, 6027, Australia
| | - Kathryn McMahon
- Centre for Marine Ecosystems Research, School of Science, Edith Cowan University, 270 Joondalup Drive, Joondalup, WA, 6027, Australia
| | - Andrew Bissett
- CSIRO Oceans and Atmosphere, Castray Esp, Battery Point, Tas, 7004, Australia
| | - Rachele Bernasconi
- Centre for Marine Ecosystems Research, School of Science, Edith Cowan University, 270 Joondalup Drive, Joondalup, WA, 6027, Australia
| | - Peter D Steinberg
- Sydney Institute of Marine Science, 19 Chowder Bay Rd, Mosman, NSW, 2088, Australia
- Centre for Marine Science and Innovation, School of Biological, Earth and Environmental Sciences, University of New South Wales, High St, Kensington, NSW, 2052, Australia
- Singapore Centre for Environmental Life Sciences Engineering, Nanyang Technological University, 60 Nanyang Dr, Singapore 637551
| | - Torsten Thomas
- Centre for Marine Science and Innovation, School of Biological, Earth and Environmental Sciences, University of New South Wales, High St, Kensington, NSW, 2052, Australia
| | - Ezequiel M Marzinelli
- Sydney Institute of Marine Science, 19 Chowder Bay Rd, Mosman, NSW, 2088, Australia
- Singapore Centre for Environmental Life Sciences Engineering, Nanyang Technological University, 60 Nanyang Dr, Singapore 637551
- The University of Sydney, School of Life and Environmental Sciences, Coastal and Marine Ecosystems, City Rd, Camperdown, NSW, 2006, Australia
| | - Megan J Huggett
- Centre for Marine Ecosystems Research, School of Science, Edith Cowan University, 270 Joondalup Drive, Joondalup, WA, 6027, Australia
- School of Environmental and Life Sciences, University of Newcastle, 10 Chittaway Rd, Ourimbah, NSW, 2258, Australia
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28
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Weigel BL, Pfister CA. Oxygen metabolism shapes microbial settlement on photosynthetic kelp blades compared to artificial kelp substrates. ENVIRONMENTAL MICROBIOLOGY REPORTS 2021; 13:176-184. [PMID: 33372322 DOI: 10.1111/1758-2229.12923] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/20/2020] [Accepted: 12/16/2020] [Indexed: 06/12/2023]
Abstract
We examined factors shaping community assembly of the bull kelp (Nereocystis luetkeana) microbiome by comparing microbial biofilm formation on photosynthetic kelp blade tissues and artificial kelp substrates ('agar substrates') deployed into a kelp forest. New kelp blade tissues were colonized by markedly distinct microbial taxa relative to agar substrates during the same time interval, even when agar substrates were infused with N. luetkeana blades, suggesting that microbial settlement onto kelp surfaces is more than just attraction to a polysaccharide-rich surface. Further, common seawater taxa such as Colwellia sp. and Psychromonas sp. became abundant on agar substrates but avoided new kelp blade tissues, indicating that host-specific factors may deter certain surface-associated marine microbial taxa. Over two-thirds of the bacterial taxa in the kelp microbiome were associated with strictly aerobic metabolisms; thus, photosynthetic production of O2 may favour aerobic microbial metabolisms. While living kelp blades primarily recruited aerobic microbes, including the obligate aerobe Granulosicoccus sp., microbes that colonized agar substrates were predominantly facultative anaerobes. We also found that infusion of kelp tissues into agar substrates altered microbial community composition and lowered taxonomic diversity relative to control agar substrates, suggesting that non-living components of the kelp blade also impact microbial community assembly.
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Affiliation(s)
- Brooke L Weigel
- Committee on Evolutionary Biology, University of Chicago, Chicago, IL, USA
| | - Catherine A Pfister
- Committee on Evolutionary Biology, University of Chicago, Chicago, IL, USA
- Department of Ecology and Evolution, University of Chicago, Chicago, IL, USA
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29
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Abdul Malik SA, Bazire A, Gamboa-Muñoz A, Bedoux G, Robledo D, García-Maldonado JQ, Bourgougnon N. Screening of Surface-associated Bacteria from the Mexican Red Alga Halymenia floresii for Quorum Sensing Activity. Microbiology (Reading) 2020. [DOI: 10.1134/s0026261720060132] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022] Open
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30
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Diversity and Dynamics of Seaweed Associated Microbial Communities Inhabiting the Lagoon of Venice. Microorganisms 2020; 8:microorganisms8111657. [PMID: 33114532 PMCID: PMC7693704 DOI: 10.3390/microorganisms8111657] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/21/2020] [Revised: 10/22/2020] [Accepted: 10/23/2020] [Indexed: 01/03/2023] Open
Abstract
Seaweeds are a group of essential photosynthetic organisms that harbor a rich diversity of associated microbial communities with substantial functions related to host health and defense. Environmental and anthropogenic stressors may disrupt the microbial communities and their metabolic activity, leading to host physiological alterations that negatively affect seaweeds’ performance and survival. Here, the bacterial communities associated with one of the most common seaweed, Ulva laetevirens Areshough, were sampled over a year at three sites of the lagoon of Venice affected by different environmental and anthropogenic stressors. Bacterial communities were characterized through Illumina sequencing of the V4 hypervariable region of 16S rRNA genes. The study demonstrated that the seaweed associated bacterial communities at sites impacted by environmental stressors were host-specific and differed significantly from the less affected site. Furthermore, these communities were significantly distinct from those of the surrounding seawater. The bacterial communities’ composition was significantly correlated with environmental parameters (nutrient concentrations, dissolved oxygen saturation, and pH) across sites. This study showed that several more abundant bacteria on U. laetevirens at stressed sites belonged to taxa related to the host response to the stressors. Overall, environmental parameters and anthropogenic stressors were shown to substantially affect seaweed associated bacterial communities, which reflect the host response to environmental variations.
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31
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Antunes JT, Sousa AGG, Azevedo J, Rego A, Leão PN, Vasconcelos V. Distinct Temporal Succession of Bacterial Communities in Early Marine Biofilms in a Portuguese Atlantic Port. Front Microbiol 2020; 11:1938. [PMID: 32849482 PMCID: PMC7432428 DOI: 10.3389/fmicb.2020.01938] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/14/2019] [Accepted: 07/22/2020] [Indexed: 12/13/2022] Open
Abstract
Marine biofilms are known to influence the corrosion of metal surfaces in the marine environment. Despite some recent research, the succession of bacterial communities colonizing artificial surfaces remains uncharacterized in some temporal settings. More specifically, it is not fully known if bacterial colonizers of artificial surfaces are similar or distinct in the different seasons of the year. In particular the study of early biofilms, in which the bacterial cells communities first adhere to artificial surfaces, are crucial for the development of the subsequent biofilm communities. In this work, we used amplicon-based NGS (next-generation sequencing) and universal 16S rRNA bacterial primers to characterize the early biofilm bacterial communities growing on 316 L stainless steel surfaces in a Northern Portugal port. Sampling spanned 30-day periods in two distinct seasons (spring and winter). Biofilm communities growing in steel surfaces covered with an anti-corrosion paint and planktonic communities from the same location were also characterized. Our results demonstrated that distinct temporal patterns were observed in the sampled seasons. Specifically, a significantly higher abundance of Gammaproteobacteria and Mollicutes was found on the first days of biofilm growth in spring (day 1 to day 4) and a higher abundance of Alphaproteobacteria during the same days of biofilm growth in winter. In the last sampled day (day 30), the spring biofilms significantly shifted toward a dominance of photoautotrophic groups (mostly diatoms) and were also colonized by some macrofouling communities, something not observed during the winter sampling. Our results revealed that bacterial composition in the biofilms was particularly affected by the sampled day of the specific season, more so than the overall effect of the season or overall sampling day of both seasons. Additionally, the application of a non-fouling-release anti-corrosion paint in the steel plates resulted in a significantly lower diversity compared with plates without paint, but this was only observed during spring. We suggest that temporal succession of marine biofilm communities should be taken in consideration for future antifouling/anti-biofilm applications.
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Affiliation(s)
- Jorge T. Antunes
- Centro Interdisciplinar de Investigação Marinha e Ambiental, Universidade do Porto, Matosinhos, Portugal
- Departamento de Biologia, Faculdade de Ciências, Universidade do Porto, Porto, Portugal
| | - António G. G. Sousa
- Centro Interdisciplinar de Investigação Marinha e Ambiental, Universidade do Porto, Matosinhos, Portugal
| | - Joana Azevedo
- Centro Interdisciplinar de Investigação Marinha e Ambiental, Universidade do Porto, Matosinhos, Portugal
| | - Adriana Rego
- Centro Interdisciplinar de Investigação Marinha e Ambiental, Universidade do Porto, Matosinhos, Portugal
- Institute of Biomedical Sciences Abel Salazar, University of Porto, Porto, Portugal
| | - Pedro N. Leão
- Centro Interdisciplinar de Investigação Marinha e Ambiental, Universidade do Porto, Matosinhos, Portugal
| | - Vitor Vasconcelos
- Centro Interdisciplinar de Investigação Marinha e Ambiental, Universidade do Porto, Matosinhos, Portugal
- Departamento de Biologia, Faculdade de Ciências, Universidade do Porto, Porto, Portugal
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32
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Xia P, Yan D, Sun R, Song X, Lin T, Yi Y. Community composition and correlations between bacteria and algae within epiphytic biofilms on submerged macrophytes in a plateau lake, southwest China. THE SCIENCE OF THE TOTAL ENVIRONMENT 2020; 727:138398. [PMID: 32335447 DOI: 10.1016/j.scitotenv.2020.138398] [Citation(s) in RCA: 33] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/29/2020] [Revised: 03/27/2020] [Accepted: 03/31/2020] [Indexed: 06/11/2023]
Abstract
Epiphytic biofilms are complex matrix-enclosed communities comprising large numbers of bacteria and algae, which play an important role in the biogeochemical cycles in aquatic systems. However, little is known about the correlations that occur between these communities or the relative impact of environmental factors on their composition. In this study, epiphytic biofilms on three different aquatic plants were sampled in a typical plateau lake (Caohai, southwest China) in July and November of 2018. Bacterial diversity was assessed using Miseq sequencing approaches and algal communities were assessed using light microscopy. Gammaproteobacteria (54.64%), Bacteroidetes (17.50%) and Firmicutes (13.99%) were the dominant bacterial taxa and Chlorophyta (47.62%), Bacillariophyta (28.57%) and Euglenophyta (19.05%) were the dominant algae. The alpha diversity values of the epiphytic bacterial and algal communities were greater during the macrophyte decline period (November) than during the growth period (July). Microbial community composition was significantly affected by abiotic factors (water temperature, NH4+, pH or TP) and biotic factors (algae or bacteria). Interestingly, in July and November, the epiphytic algal community dissimilarity was stronger than that observed for bacterial community dissimilarity, suggesting that bacterial community dissimilarity may increase more slowly with environmental change than algal community dissimilarity. Furthermore, association network analysis revealed complex correlations between algal biomass and bacteria phylotype, and that 67.83% of correlations were positive and 32.17% were negative. This may indicate that facilitative correlations between algae and bacteria are predominant in epiphytic biofilms. These results provide new information on algal-bacterial correlations as well as the possible mechanisms that drive variations in the microbial community in epiphytic biofilms in freshwater lakes.
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Affiliation(s)
- Pinhua Xia
- Guizhou Key Laboratory for Mountainous Environmental Information and Ecological Protection, Guizhou Normal University, Guiyang 550001, PR China
| | - Dingbo Yan
- Guizhou Key Laboratory for Mountainous Environmental Information and Ecological Protection, Guizhou Normal University, Guiyang 550001, PR China
| | - Rongguo Sun
- College of Chemistry and Material, Guizhou Normal University, Guiyang, PR China
| | - Xu Song
- Guizhou Key Laboratory for Mountainous Environmental Information and Ecological Protection, Guizhou Normal University, Guiyang 550001, PR China
| | - Tao Lin
- Guizhou Key Laboratory for Mountainous Environmental Information and Ecological Protection, Guizhou Normal University, Guiyang 550001, PR China
| | - Yin Yi
- Guizhou Key Laboratory for Mountainous Environmental Information and Ecological Protection, Guizhou Normal University, Guiyang 550001, PR China; The State Key Laboratory of Southwest Karst Mountain Biodiversity Conservation of Forestry and Grassland Administration, Guizhou Normal University, Guiyang, 550001, PR China.
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Chase WR, Zhaxybayeva O, Rocha J, Cosgrove DJ, Shapiro LR. Global cellulose biomass, horizontal gene transfers and domain fusions drive microbial expansin evolution. THE NEW PHYTOLOGIST 2020; 226:921-938. [PMID: 31930503 DOI: 10.1111/nph.16428] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/21/2019] [Accepted: 12/19/2019] [Indexed: 05/23/2023]
Abstract
Plants must rearrange the network of complex carbohydrates in their cell walls during normal growth and development. To accomplish this, all plants depend on proteins called expansins that nonenzymatically loosen noncovalent bonding between cellulose microfibrils. Surprisingly, expansin genes have more recently been found in some bacteria and microbial eukaryotes, where their biological functions are largely unknown. Here, we reconstruct a comprehensive phylogeny of microbial expansin genes. We find these genes in all eukaryotic microorganisms that have structural cell wall cellulose, suggesting expansins evolved in ancient marine microorganisms long before the evolution of land plants. We also find expansins in an unexpectedly high diversity of bacteria and fungi that do not have cellulosic cell walls. These bacteria and fungi inhabit varied ecological contexts, mirroring the diversity of terrestrial and aquatic niches where plant and/or algal cellulosic cell walls are present. The microbial expansin phylogeny shows evidence of multiple horizontal gene transfer events within and between bacterial and eukaryotic microbial lineages, which may in part underlie their unusually broad phylogenetic distribution. Overall, expansins are unexpectedly widespread in bacteria and eukaryotes, and the contribution of these genes to microbial ecological interactions with plants and algae has probbaly been underappreciated.
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Affiliation(s)
- William R Chase
- Department of Biology, Pennsylvania State University, University Park, PA, 16801, USA
| | - Olga Zhaxybayeva
- Department of Biological Sciences, Dartmouth College, Hanover, NH, 03755, USA
- Department of Computer Science, Dartmouth College, Hanover, NH, 03755, USA
| | - Jorge Rocha
- Department of Microbiology and Immunology, Harvard Medical School, 77 Avenue Louis Pasteur, Boston, MA, 02115, USA
| | - Daniel J Cosgrove
- Department of Biology, Pennsylvania State University, University Park, PA, 16801, USA
| | - Lori R Shapiro
- Department of Microbiology and Immunology, Harvard Medical School, 77 Avenue Louis Pasteur, Boston, MA, 02115, USA
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Selvarajan R, Sibanda T, Venkatachalam S, Ogola HJO, Christopher Obieze C, Msagati TA. Distribution, Interaction and Functional Profiles of Epiphytic Bacterial Communities from the Rocky Intertidal Seaweeds, South Africa. Sci Rep 2019; 9:19835. [PMID: 31882618 PMCID: PMC6934600 DOI: 10.1038/s41598-019-56269-2] [Citation(s) in RCA: 43] [Impact Index Per Article: 8.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2019] [Accepted: 12/05/2019] [Indexed: 11/16/2022] Open
Abstract
Interrelations between epiphytic bacteria and macroalgae are multifaceted and complicated, though little is known about the community structure, interaction and functions of those epiphytic bacteria. This study comprehensively characterized the epiphytic bacterial communities associated with eight different common seaweeds collected from a rocky intertidal zone on the Indian Ocean at Cape Vidal, South Africa. High-throughput sequencing analyses indicated that seaweed-associated bacterial communities were dominated by the phyla Proteobacteria, Bacteroidetes, Firmicutes, Cyanobacteria, Planctomycetes, Actinobacteria and Verrucomicrobia. Energy-dispersive X-ray (EDX) analysis showed the presence of elemental composition in the surface of examined seaweeds, in varying concentrations. Cluster analysis showed that bacterial communities of brown seaweeds (SW2 and SW4) were closely resembled those of green seaweeds (SW1) and red seaweeds (SW7) while those of brown seaweeds formed a separate branch. Predicted functional capabilities of epiphytic bacteria using PICRUSt analysis revealed abundance of genes related to metabolic and biosynthetic activities. Further important identified functional interactions included genes for bacterial chemotaxis, which could be responsible for the observed association and network of elemental-microbes interaction. The study concludes that the diversity of epiphytic bacteria on seaweed surfaces is greatly influenced by algal organic exudates as well as elemental deposits on their surfaces, which triggers chemotaxis responses from epiphytic bacteria with the requisite genes to metabolise those substrates.
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Affiliation(s)
- Ramganesh Selvarajan
- Department of Environmental Sciences, College of Agricultural and Environmental Sciences, UNISA, Johannesburg, South Africa.
| | - Timothy Sibanda
- Department of Biological Sciences, University of Namibia, Mandume Ndemufayo Ave, Pionierspark, Windhoek, Namibia
| | | | - Henry J O Ogola
- Department of Environmental Sciences, College of Agricultural and Environmental Sciences, UNISA, Johannesburg, South Africa.,Centre for Research, Innovation and Technology, Jaramogi Oginga Odinga University of Science and Technology, Bondo, Kenya
| | | | - Titus A Msagati
- Nanotechnology and Water Sustainability Research Unit, College of Science, Engineering and Technology, University of South Africa-Science Campus, Florida, South Africa
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Galand PE, Remize M, Meistertzheim AL, Pruski AM, Peru E, Suhrhoff TJ, Le Bris N, Vétion G, Lartaud F. Diet shapes cold-water corals bacterial communities. Environ Microbiol 2019; 22:354-368. [PMID: 31696646 DOI: 10.1111/1462-2920.14852] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/09/2019] [Revised: 10/29/2019] [Accepted: 11/03/2019] [Indexed: 01/17/2023]
Abstract
Different cold-water coral (CWC) species harbour distinct microbial communities and the community composition is thought to be linked to the ecological strategies of the host. Here we test whether diet shapes the composition of bacterial communities associated with CWC. We compared the microbiomes of two common CWC species in aquaria, Lophelia pertusa and Madrepora oculata, when they were either starved, or fed respectively with a carnivorous diet, two different herbivorous diets, or a mix of the 3. We targeted both the standing stock (16S rDNA) and the active fraction (16S rRNA) of the bacterial communities and showed that in both species, the corals' microbiome was specific to the given diet. A part of the microbiome remained, however, species-specific, which indicates that the microbiome's plasticity is framed by the identity of the host. In addition, the storage lipid content of the coral tissue showed that different diets had different effects on the corals' metabolisms. The combined results suggest that L. pertusa may be preying preferentially on zooplankton while M. oculata may in addition use phytoplankton and detritus. The results cast a new light on coral microbiomes as they indicate that a portion of the CWC's bacterial community could represent a food influenced microbiome.
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Affiliation(s)
- Pierre E Galand
- Sorbonne Université, CNRS, Laboratoire d'Ecogéochimie des Environnements Benthiques, LECOB, Banyuls-sur-Mer, 66500, France
| | - Marine Remize
- Sorbonne Université, CNRS, Laboratoire d'Ecogéochimie des Environnements Benthiques, LECOB, Banyuls-sur-Mer, 66500, France
| | - Anne-Leila Meistertzheim
- Sorbonne Université, CNRS, Laboratoire d'Ecogéochimie des Environnements Benthiques, LECOB, Banyuls-sur-Mer, 66500, France
| | - Audrey M Pruski
- Sorbonne Université, CNRS, Laboratoire d'Ecogéochimie des Environnements Benthiques, LECOB, Banyuls-sur-Mer, 66500, France
| | - Erwan Peru
- Sorbonne Université, CNRS, Laboratoire d'Ecogéochimie des Environnements Benthiques, LECOB, Banyuls-sur-Mer, 66500, France
| | - Tim Jesper Suhrhoff
- Jacobs University, Campus Ring 1, 28759, Bremen, Germany.,Department of Earth Sciences, ETH Zürich, Institute of Geochemistry and Petrology, Clausiusstrasse 25, 8092, Zürich, Switzerland
| | - Nadine Le Bris
- Sorbonne Université, CNRS, Laboratoire d'Ecogéochimie des Environnements Benthiques, LECOB, Banyuls-sur-Mer, 66500, France
| | - Gilles Vétion
- Sorbonne Université, CNRS, Laboratoire d'Ecogéochimie des Environnements Benthiques, LECOB, Banyuls-sur-Mer, 66500, France
| | - Franck Lartaud
- Sorbonne Université, CNRS, Laboratoire d'Ecogéochimie des Environnements Benthiques, LECOB, Banyuls-sur-Mer, 66500, France
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Hurtado-McCormick V, Kahlke T, Petrou K, Jeffries T, Ralph PJ, Seymour JR. Regional and Microenvironmental Scale Characterization of the Zostera muelleri Seagrass Microbiome. Front Microbiol 2019; 10:1011. [PMID: 31139163 PMCID: PMC6527750 DOI: 10.3389/fmicb.2019.01011] [Citation(s) in RCA: 32] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/15/2019] [Accepted: 04/23/2019] [Indexed: 11/29/2022] Open
Abstract
Seagrasses are globally distributed marine plants that represent an extremely valuable component of coastal ecosystems. Like terrestrial plants, seagrass productivity and health are likely to be strongly governed by the structure and function of the seagrass microbiome, which will be distributed across a number of discrete microenvironments within the plant, including the phyllosphere, the endosphere and the rhizosphere, all different in physical and chemical conditions. Here we examined patterns in the composition of the microbiome of the seagrass Zostera muelleri, within six plant-associated microenvironments sampled across four different coastal locations in New South Wales, Australia. Amplicon sequencing approaches were used to characterize the diversity and composition of bacterial, microalgal, and fungal microbiomes and ultimately identify "core microbiome" members that were conserved across sampling microenvironments. Discrete populations of bacteria, microalgae and fungi were observed within specific seagrass microenvironments, including the leaves and roots and rhizomes, with "core" taxa found to persist within these microenvironments across geographically disparate sampling sites. Bacterial, microalgal and fungal community profiles were most strongly governed by intrinsic features of the different seagrass microenvironments, whereby microscale differences in community composition were greater than the differences observed between sampling regions. However, our results showed differing strengths of microbial preferences at the plant scale, since this microenvironmental variability was more pronounced for bacteria than it was for microalgae and fungi, suggesting more specific interactions between the bacterial consortia and the seagrass host, and potentially implying a highly specialized coupling between seagrass and bacterial metabolism and ecology. Due to their persistence within a given seagrass microenvironment, across geographically discrete sampling locations, we propose that the identified "core" microbiome members likely play key roles in seagrass physiology as well as the ecology and biogeochemistry of seagrass habitats.
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Affiliation(s)
| | - Tim Kahlke
- Climate Change Cluster, Faculty of Science, University of Technology Sydney, Ultimo, NSW, Australia
| | - Katherina Petrou
- School of Life Sciences, Faculty of Science, University of Technology Sydney, Ultimo, NSW, Australia
| | - Thomas Jeffries
- School of Science and Health, Western Sydney University, Penrith, NSW, Australia
| | - Peter J. Ralph
- Climate Change Cluster, Faculty of Science, University of Technology Sydney, Ultimo, NSW, Australia
| | - Justin Robert Seymour
- Climate Change Cluster, Faculty of Science, University of Technology Sydney, Ultimo, NSW, Australia
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Morrissey KL, Çavaş L, Willems A, De Clerck O. Disentangling the Influence of Environment, Host Specificity and Thallus Differentiation on Bacterial Communities in Siphonous Green Seaweeds. Front Microbiol 2019; 10:717. [PMID: 31024496 PMCID: PMC6460459 DOI: 10.3389/fmicb.2019.00717] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2018] [Accepted: 03/21/2019] [Indexed: 12/14/2022] Open
Abstract
Siphonous green seaweeds, such as Caulerpa, are among the most morphologically complex algae with differentiated algal structures (morphological niches). Caulerpa is also host to a rich diversity of bacterial endo- and epibionts. The degree to which these bacterial communities are species-, or even niche-specific remains largely unknown. To address this, we investigated the diversity of bacteria associated to different morphological niches of both native and invasive species of Caulerpa from different geographic locations along the Turkish coastline of the Aegean sea. Associated bacteria were identified using the 16S rDNA marker gene for three morphological niches, such as the endobiome, epibiome, and rhizobiome. Bacterial community structure was explored and deterministic factors behind bacterial variation were investigated. Of the total variation, only 21.5% could be explained. Pronounced differences in bacterial community composition were observed and variation was partly explained by a combination of host species, biogeography and nutrient levels. The majority of the explained bacterial variation within the algal holobiont was attributed to the micro-environments established by distinct morphological niches. This study further supports the hypothesis that the bacterial assembly is largely stochastic in nature and bacterial community structure is most likely linked to functional genes rather than taxonomy.
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Affiliation(s)
| | - Levent Çavaş
- Department of Chemistry, Biochemistry Division, Faculty of Science, Dokuz Eylül University, İzmir, Turkey
| | - Anne Willems
- Laboratory of Microbiology, Department of Biochemistry and Microbiology, Ghent University, Ghent, Belgium
| | - Olivier De Clerck
- Department of Biology, Phycology Research Group, Ghent University, Ghent, Belgium
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Weigel BL, Pfister CA. Successional Dynamics and Seascape-Level Patterns of Microbial Communities on the Canopy-Forming Kelps Nereocystis luetkeana and Macrocystis pyrifera. Front Microbiol 2019; 10:346. [PMID: 30863387 PMCID: PMC6399156 DOI: 10.3389/fmicb.2019.00346] [Citation(s) in RCA: 44] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/18/2018] [Accepted: 02/08/2019] [Indexed: 11/23/2022] Open
Abstract
Canopy-forming kelps create underwater forests that are among the most productive marine ecosystems. On the Pacific coast of North America, two canopy-forming kelps with contrasting life histories co-occur; Macrocystis pyrifera, a perennial species, and Nereocystis luetkeana, an annual species. Kelp blade-associated microbes were sampled from 12 locations across a spatial gradient in Washington, United States, from the outer Pacific Coast to Puget Sound. Microbial communities were characterized using next-generation Illumina sequencing of 16S rRNA genes. At higher taxonomic levels (bacterial phylum and class), canopy-forming kelps hosted remarkably similar microbial communities, but at the amplicon sequence variant level, microbial communities on M. pyrifera and N. luetkeana were host-specific and distinct from free-living bacteria in the surrounding seawater. Microbial communities associated with blades of each kelp species displayed significant geographic variation. The microbiome of N. luetkeana changed along the spatial gradient and was significantly correlated to salinity, with outer Pacific coast sites enriched in Bacteroidetes (family Saprospiraceae) and Gammaproteobacteria (Granulosicoccus sp.), and southern Puget Sound sites enriched in Alphaproteobacteria (family Hyphomonadaceae). We also examined microbial community development and succession on meristematic and apical N. luetkeana blade tissues throughout the summer growing season on Tatoosh Island, WA. Across all dates, microbial communities were less diverse on younger, meristematic blade tissue compared to the older, apical tissues. In addition, phylogenetic relatedness among microbial taxa increased from meristematic to apical blade tissues, suggesting that the addition of microbial taxa to the community was a non-random process that selected for certain phylogenetic groups of microbes. Microbial communities on older, apical tissues displayed significant temporal variation throughout the summer and microbial taxa that were differentially abundant over time displayed clear patterns of community succession. Overall, we report that host species identity, geographic location, and blade tissue age shape the microbial communities on canopy-forming kelps.
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Affiliation(s)
- Brooke L Weigel
- Committee on Evolutionary Biology, University of Chicago, Chicago, IL, United States
| | - Catherine A Pfister
- Department of Ecology and Evolution, University of Chicago, Chicago, IL, United States
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Parrot D, Blümel M, Utermann C, Chianese G, Krause S, Kovalev A, Gorb SN, Tasdemir D. Mapping the Surface Microbiome and Metabolome of Brown Seaweed Fucus vesiculosus by Amplicon Sequencing, Integrated Metabolomics and Imaging Techniques. Sci Rep 2019; 9:1061. [PMID: 30705420 PMCID: PMC6355876 DOI: 10.1038/s41598-018-37914-8] [Citation(s) in RCA: 28] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/21/2018] [Accepted: 12/17/2018] [Indexed: 02/05/2023] Open
Abstract
The brown alga Fucus vesiculosus is a keystone marine species, which is subject to heavy surface colonisation. This study was designed to analyse the surface epibiome of F. vesiculosus in conjunction with the composition and spatial distribution of its surface metabolome. The amplicon sequencing, SEM and CARD-FISH imaging studies showed Alphaproteobacteria to predominate the epibiotic bacteria. Fungi of the class Eurotiomycetes were visualised for the first time on an algal surface. An untargeted metabolomics approach using molecular networks, in silico prediction and manual dereplication showed the differential metabolome of the surface and the whole tissue extracts. In total, 50 compounds were putatively dereplicated by UPLC-MS/MS, 37 of which were previously reported from both seaweeds and microorganisms. Untargeted spatial metabolomics by DESI-Imaging MS identified the specific localisation and distribution of various primary and secondary metabolites on surface imprints and in algal cross sections. The UPLC-MS, DESI-IMS and NMR analyses failed to confirm the presence of any surface-associated metabolite, except for mannitol, which were previously reported from F. vesiculosus. This is the first study analysing the seaweed surface microbiome in conjunction with untargeted surface metabolomics and spatial metabolomics approaches.
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Affiliation(s)
- Delphine Parrot
- GEOMAR Centre for Marine Biotechnology, Research Unit Marine Natural Products Chemistry, GEOMAR Helmholtz Centre for Ocean Research Kiel, Am Kiel-Kanal 44, Kiel, 24106, Germany
| | - Martina Blümel
- GEOMAR Centre for Marine Biotechnology, Research Unit Marine Natural Products Chemistry, GEOMAR Helmholtz Centre for Ocean Research Kiel, Am Kiel-Kanal 44, Kiel, 24106, Germany
| | - Caroline Utermann
- GEOMAR Centre for Marine Biotechnology, Research Unit Marine Natural Products Chemistry, GEOMAR Helmholtz Centre for Ocean Research Kiel, Am Kiel-Kanal 44, Kiel, 24106, Germany
| | - Giuseppina Chianese
- GEOMAR Centre for Marine Biotechnology, Research Unit Marine Natural Products Chemistry, GEOMAR Helmholtz Centre for Ocean Research Kiel, Am Kiel-Kanal 44, Kiel, 24106, Germany
| | - Stefan Krause
- Research Unit Marine Geosystems, GEOMAR Helmholtz Centre for Ocean Research Kiel, Wischhofstrasse 1-3, Kiel, 24148, Germany
| | - Alexander Kovalev
- Department of Functional Morphology and Biomechanics, Institute of Zoology, Kiel University, Am Botanischen Garten 9, Kiel, 24118, Germany
| | - Stanislav N Gorb
- Department of Functional Morphology and Biomechanics, Institute of Zoology, Kiel University, Am Botanischen Garten 9, Kiel, 24118, Germany
| | - Deniz Tasdemir
- GEOMAR Centre for Marine Biotechnology, Research Unit Marine Natural Products Chemistry, GEOMAR Helmholtz Centre for Ocean Research Kiel, Am Kiel-Kanal 44, Kiel, 24106, Germany.
- Kiel University, Christian-Albrechts-Platz 4, Kiel, 24118, Germany.
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Serebryakova A, Aires T, Viard F, Serrão EA, Engelen AH. Summer shifts of bacterial communities associated with the invasive brown seaweed Sargassum muticum are location and tissue dependent. PLoS One 2018; 13:e0206734. [PMID: 30517113 PMCID: PMC6281184 DOI: 10.1371/journal.pone.0206734] [Citation(s) in RCA: 33] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2017] [Accepted: 10/18/2018] [Indexed: 02/05/2023] Open
Abstract
Seaweed-associated microbiota experience spatial and temporal shifts in response to changing environmental conditions and seaweed physiology. These shifts may result in structural, functional and behavioral changes in the host with potential consequences for its fitness. They, thus, may help the host to adapt to changing environmental conditions. The current knowledge of seasonal variation of seaweed-associated microbiota is however still limited. In this study, we explored temporal and spatial variation of microbial communities associated with the invasive brown seaweed S. muticum. We sampled in northern and southern Portugal, in September, March and July-August (summer). In addition, as (pseudo-)perennial seaweeds display seasonal reproductive phenology, we sampled various parts of the individuals to disentangle the effect of temporal changes from those due to structural development variations. The diversity and structure of associated microbial communities were determined using next generation sequencing of the variable regions V5-7 of the 16S rDNA. We expected to find differentiation in associated microbial communities between regions and sampling months, but with differences depending on the seaweed structure examined. As expected, the study revealed substantial temporal shifts in S. muticum microbiome, for instance with large abundance of Rhodobacteraceae and Loktanella in September-March but prevalence of Pirellulales during the summer months. Variations between regions and tissues were also observed: in northern Portugal and on basal structures, bacterial diversity was higher as compared to the South and apical parts. All examined seaweed structures showed temporal differences in associated microbial community structure over time, except for holdfasts between September and March. Bacteria contributing to these changes varied spatially. Conversely to all other structures, the holdfast also did not show differences in associated community structure between southern and northern regions. Our study highlights the importance of structural microscale differentiations within seaweeds hosts with regard to their associated microbial communities and their importance across temporal and spatial dimensions.
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Affiliation(s)
- Alexandra Serebryakova
- Center for Marine Sciences (CCMAR), F.C.T. University of Algarve, Faro, Portugal
- Sorbonne Université, CNRS, UMR 7144 AD2M, Station Biologique de Roscoff, UPMC Univ Paris, Roscoff, France
| | - Tania Aires
- Center for Marine Sciences (CCMAR), F.C.T. University of Algarve, Faro, Portugal
| | - Frédérique Viard
- Sorbonne Université, CNRS, UMR 7144 AD2M, Station Biologique de Roscoff, UPMC Univ Paris, Roscoff, France
| | - Ester A. Serrão
- Center for Marine Sciences (CCMAR), F.C.T. University of Algarve, Faro, Portugal
| | - Aschwin H. Engelen
- Center for Marine Sciences (CCMAR), F.C.T. University of Algarve, Faro, Portugal
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41
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Huggett MJ, McMahon K, Bernasconi R. Future warming and acidification result in multiple ecological impacts to a temperate coralline alga. Environ Microbiol 2018; 20:2769-2782. [DOI: 10.1111/1462-2920.14113] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2017] [Revised: 03/15/2018] [Accepted: 03/19/2018] [Indexed: 11/27/2022]
Affiliation(s)
- Megan J. Huggett
- Centre for Marine Ecosystems Research, School of Science; Edith Cowan University, 270 Joondalup Dr; Joondalup WA 6027 Australia
- Centre for Ecosystem Management, School of Science, Edith Cowan University, 270 Joondalup Dr; Joondalup WA 6027 Australia
- School of Environmental and Life Sciences; The University of Newcastle; Ourimbah NSW 2258 Australia
| | - Kathryn McMahon
- Centre for Marine Ecosystems Research, School of Science; Edith Cowan University, 270 Joondalup Dr; Joondalup WA 6027 Australia
| | - Rachele Bernasconi
- Centre for Marine Ecosystems Research, School of Science; Edith Cowan University, 270 Joondalup Dr; Joondalup WA 6027 Australia
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42
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Mancuso FP, Strain EMA, Piccioni E, De Clerck O, Sarà G, Airoldi L. Status of vulnerable Cystoseira populations along the Italian infralittoral fringe, and relationships with environmental and anthropogenic variables. MARINE POLLUTION BULLETIN 2018; 129:762-771. [PMID: 29108739 DOI: 10.1016/j.marpolbul.2017.10.068] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/18/2017] [Revised: 10/23/2017] [Accepted: 10/24/2017] [Indexed: 06/07/2023]
Abstract
We analyzed the occurrence and status of infralittoral fringe populations of Cystoseira spp. (Fucales) at thirteen rocky sites around the Italian coastline, and explored the relationships with relevant environmental and anthropogenic variables. We found Cystoseira populations at 11 sites: most were scattered and comprised monospecific stands of C. compressa, and only 6 sites also supported sparse specimens of either C. amentacea var. stricta or C. brachycarpa. Coastal human population density, Chlorophyll a seawater concentrations, sea surface temperature, annual range of sea surface temperature and wave fetch explained most of the variation of the status of C. compressa. We hypothesize a generally unhealthy state of the Italian Cystoseira infralittoral fringe populations and identify multiple co-occurring anthropogenic stressors as the likely drivers of these poor conditions. Extensive baseline monitoring is needed to describe how Cystoseira populations are changing, and implement a management framework for the conservation of these valuable but vulnerable habitats.
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Affiliation(s)
- F P Mancuso
- Alma Mater Studiorum - University of Bologna, Dipartimento di Scienze Biologiche, Geologiche ed Ambientali (BiGeA), & Centro Interdipartimentale di Ricerca per le Scienze Ambientali (CIRSA), UO CoNISMa, Italy; Phycology Research Group and Center for Molecular Phylogenetics and Evolution, Ghent University, Ghent, Belgium.
| | - E M A Strain
- Alma Mater Studiorum - University of Bologna, Dipartimento di Scienze Biologiche, Geologiche ed Ambientali (BiGeA), & Centro Interdipartimentale di Ricerca per le Scienze Ambientali (CIRSA), UO CoNISMa, Italy; Sydney Institute of Marine Science, Chowder Bay Road, Mosman, NSW 2061, Australia
| | - E Piccioni
- Alma Mater Studiorum - University of Bologna, Dipartimento di Scienze Biologiche, Geologiche ed Ambientali (BiGeA), & Centro Interdipartimentale di Ricerca per le Scienze Ambientali (CIRSA), UO CoNISMa, Italy
| | - O De Clerck
- Phycology Research Group and Center for Molecular Phylogenetics and Evolution, Ghent University, Ghent, Belgium
| | - G Sarà
- Dipartimento di Scienze della Terra e del Mare, University of Palermo, viale delle Scienze Ed. 16, Palermo, Italy
| | - L Airoldi
- Alma Mater Studiorum - University of Bologna, Dipartimento di Scienze Biologiche, Geologiche ed Ambientali (BiGeA), & Centro Interdipartimentale di Ricerca per le Scienze Ambientali (CIRSA), UO CoNISMa, Italy.
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Gu C, Yang Y, Xiang H, Li S, Liang L, Sui H, Zhan L, Lu X. Deciphering bacterial community changes in zucker diabetic fatty rats based on 16S rRNA gene sequences analysis. Oncotarget 2018; 7:48941-48952. [PMID: 27418144 PMCID: PMC5226482 DOI: 10.18632/oncotarget.10597] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2016] [Accepted: 06/17/2016] [Indexed: 12/25/2022] Open
Abstract
The aim of the present pilot study was deciphering bacterial community changes in Zucker diabetic fatty rats (ZDF rats), a model of type 2 diabetes. Recent studies unmasked that the status of gastrointestinal tract microbiota has a marked impact on nutrition-related syndromes such as obesity and type-2 diabetes (T2D). In this study, samples taken from the gastrointestinal tracts (GI tracts) of ZDF and their lean littermates (ZL rats) were subjected to 16S rRNA gene sequence-based analysis to examine the characteristic bacterial communities, including those located in the stomach, duodenum, jejunum, ileum, cecum and feces. Results revealed that the Firmicutes/Bacteroidetes ratio was increased and greater numbers of Lactobacillus were detected along GI tracts in ZDF rats compared to ZL rats. In conclusion, this work is the first study to systematically characterize bacterial communities along ZDF rat GI tract and provides substantial evidence supporting a prospective strategy to alter the GI microbial communities improving obesity and T2D.
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Affiliation(s)
- Chunyan Gu
- Basic Medical College, Nanjing University of Chinese Medicine, Nanjing, Jiangsu, China
| | - Ye Yang
- Basic Medical College, Nanjing University of Chinese Medicine, Nanjing, Jiangsu, China
| | - Hong Xiang
- The Second Affiliated Hospital of Dalian Medical University, Dalian, Liaoning, China
| | - Shu Li
- The Second Affiliated Hospital of Dalian Medical University, Dalian, Liaoning, China
| | - Lina Liang
- Institute of Integrative Medicine, Dalian Medical University, Dalian, Liaoning, China
| | - Hua Sui
- Institute of Integrative Medicine, Dalian Medical University, Dalian, Liaoning, China
| | - Libin Zhan
- Basic Medical College, Nanjing University of Chinese Medicine, Nanjing, Jiangsu, China.,The Second Affiliated Hospital of Dalian Medical University, Dalian, Liaoning, China
| | - Xiaoguang Lu
- Department of Emergency Medicine, Zhongshan Hospital, Dalian University, Dalian, Liaoning, China
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44
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Yang SH, Oh JH, Seo HS, Lee JH, Kwon KK. Marinirhabdus citrea sp. nov., a marine bacterium isolated from a seaweed. Int J Syst Evol Microbiol 2018; 68:547-551. [PMID: 29297847 DOI: 10.1099/ijsem.0.002539] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A gram-stain-negative, aerobic, rod-shaped (1.3-1.9×0.3-0.5 µm) and non-motile marine bacterium, designated MEBiC09412T, was isolated from seaweed collected at Yeonggwang County, South Korea. 16S rRNA gene sequence analysis demonstrated that strain MEBiC09412T shared high sequence similarity with Marinirhabdus gelatinilytica NH83T (95.4 %). Growth was observed at 17-38 °C (optimum 30 °C), at pH 4.0-8.5 (optimum pH 7.0) and with 0.5-6.0 % (w/v; optimum 2.5 %) NaCl. The predominant cellular fatty acids were iso-C15 : 0 (27.4 %), iso-C15 : 1 G (9.6 %), anteiso-C15 : 0 (14.6 %), iso-C16 : 0 (6.2 %), iso-C17 : 0 3OH (13.2 %) and summed feature 3 (comprising C16 : 1ω6c and/or C16 : 1ω7c; 7.4 %). The DNA G+C content was determined to be 43.1 mol%, while the major respiratory quinone was menaquinone-6. Several phenotypic characteristics such as indole production, the oxidizing patterns of several carbohydrtaes (of glucose, fructose, sucrose, maltose, mannose etc.) and organic acids, and the enzyme activities of α-chymotrypsin and α-glucosidase differentiated strain MEBiC09412T from M. gelatinilytica NH83T. On the basis of this polyphasic taxonomic data, strain MEBiC09412T should be classified as a novel species of the genus Marinirhabduswith the suggested name Marinirhabdus citrea sp. nov. The type strain is MEBiC09412T (=KCCM 43216T=JCM 31588T).
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Affiliation(s)
- Sung-Hyun Yang
- Marine Biotechnology Research Center, Korea Institute of Ocean Science and Technology, 385 Haeyang-ro, Busan 49111, Republic of Korea
| | - Ji Hye Oh
- Marine Biotechnology Research Center, Korea Institute of Ocean Science and Technology, 385 Haeyang-ro, Busan 49111, Republic of Korea
| | - Hyun-Seok Seo
- Marine Biotechnology Research Center, Korea Institute of Ocean Science and Technology, 385 Haeyang-ro, Busan 49111, Republic of Korea
| | - Jung-Hyun Lee
- Marine Biotechnology Research Center, Korea Institute of Ocean Science and Technology, 385 Haeyang-ro, Busan 49111, Republic of Korea
| | - Kae Kyoung Kwon
- Marine Biotechnology Research Center, Korea Institute of Ocean Science and Technology, 385 Haeyang-ro, Busan 49111, Republic of Korea
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45
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Florez JZ, Camus C, Hengst MB, Buschmann AH. A Functional Perspective Analysis of Macroalgae and Epiphytic Bacterial Community Interaction. Front Microbiol 2017; 8:2561. [PMID: 29312241 PMCID: PMC5743738 DOI: 10.3389/fmicb.2017.02561] [Citation(s) in RCA: 38] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2017] [Accepted: 12/11/2017] [Indexed: 11/13/2022] Open
Abstract
Macroalgae are photosynthetic, multicellular, sessile eukaryotic organisms that offer diverse habitats for the colonization of epiphytic bacteria, therefore establishing biological interactions of diverse complexity. This review focusses on the interactions between macroalgae and their Epiphytic Bacterial Community (EBC); the main aims are to ascertain whether (1) the epiphytic bacterial groups differ at the phylum and genus levels of the macroalgae; (2) the methodologies used so far to study these microorganisms are related in any way to eventual variations of the EBCs on macroalgae; and (3) the EBC of macroalgae has a functional means rather a simple taxonomic grouping. Results showed firstly the taxonomic grouping of macroalgae does not explain the composition and structure of the EBCs. Secondly, the methodology used is important for describing EBCs; and thirdly, multiple bacteria can have the same function and thus to describe the functionality of EBCs it is important to recognize host-specific and generalist bacteria. We recommend the incorporation of a complementary approach between the taxonomic composition and the functional composition analyzes of EBCs, as well as the use of methodological tools that allow analysis of interactions between the EBCs and their hosts, based on the "holobiont" concept.
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Affiliation(s)
- July Z Florez
- Programa de Doctorado en Ciencias mención Conservación y Manejo de Recursos Naturales, Universidad de Los Lagos, Puerto Montt, Chile.,Centro i~mar and CeBiB, Universidad de Los Lagos, Puerto Montt, Chile
| | - Carolina Camus
- Centro i~mar and CeBiB, Universidad de Los Lagos, Puerto Montt, Chile
| | - Martha B Hengst
- Departamento de Ciencias Farmacéuticas, Universidad Católica del Norte and CeBiB, Antofagasta, Chile
| | - Alejandro H Buschmann
- Programa de Doctorado en Ciencias mención Conservación y Manejo de Recursos Naturales, Universidad de Los Lagos, Puerto Montt, Chile.,Centro i~mar and CeBiB, Universidad de Los Lagos, Puerto Montt, Chile
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46
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KleinJan H, Jeanthon C, Boyen C, Dittami SM. Exploring the Cultivable Ectocarpus Microbiome. Front Microbiol 2017; 8:2456. [PMID: 29312170 PMCID: PMC5732352 DOI: 10.3389/fmicb.2017.02456] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/19/2017] [Accepted: 11/27/2017] [Indexed: 01/08/2023] Open
Abstract
Coastal areas form the major habitat of brown macroalgae, photosynthetic multicellular eukaryotes that have great ecological value and industrial potential. Macroalgal growth, development, and physiology are influenced by the microbial community they accommodate. Studying the algal microbiome should thus increase our fundamental understanding of algal biology and may help to improve culturing efforts. Currently, a freshwater strain of the brown macroalga Ectocarpus subulatus is being developed as a model organism for brown macroalgal physiology and algal microbiome studies. It can grow in high and low salinities depending on which microbes it hosts. However, the molecular mechanisms involved in this process are still unclear. Cultivation of Ectocarpus-associated bacteria is the first step toward the development of a model system for in vitro functional studies of brown macroalgal–bacterial interactions during abiotic stress. The main aim of the present study is thus to provide an extensive collection of cultivable E. subulatus-associated bacteria. To meet the variety of metabolic demands of Ectocarpus-associated bacteria, several isolation techniques were applied, i.e., direct plating and dilution-to-extinction cultivation techniques, each with chemically defined and undefined bacterial growth media. Algal tissue and algal growth media were directly used as inoculum, or they were pretreated with antibiotics, by filtration, or by digestion of algal cell walls. In total, 388 isolates were identified falling into 33 genera (46 distinct strains), of which Halomonas (Gammaproteobacteria), Bosea (Alphaproteobacteria), and Limnobacter (Betaproteobacteria) were the most abundant. Comparisons with 16S rRNA gene metabarcoding data showed that culturability in this study was remarkably high (∼50%), although several cultivable strains were not detected or only present in extremely low abundance in the libraries. These undetected bacteria could be considered as part of the rare biosphere and they may form the basis for the temporal changes in the Ectocarpus microbiome.
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Affiliation(s)
- Hetty KleinJan
- Sorbonne Universités, CNRS-UPMC, Station Biologique de Roscoff, UMR8227, Integrative Biology of Marine Models, Roscoff, France
| | - Christian Jeanthon
- CNRS, Station Biologique de Roscoff, UMR7144, Adaptation et Diversité en Milieu Marin, Roscoff, France.,Sorbonne Universités, UPMC Univ Paris 06, Station Biologique de Roscoff, UMR7144, Adaptation et Diversité en Milieu Marin, Roscoff, France
| | - Catherine Boyen
- Sorbonne Universités, CNRS-UPMC, Station Biologique de Roscoff, UMR8227, Integrative Biology of Marine Models, Roscoff, France
| | - Simon M Dittami
- Sorbonne Universités, CNRS-UPMC, Station Biologique de Roscoff, UMR8227, Integrative Biology of Marine Models, Roscoff, France
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47
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Xie X, He Z, Hu X, Yin H, Liu X, Yang Y. Large-scale seaweed cultivation diverges water and sediment microbial communities in the coast of Nan'ao Island, South China Sea. THE SCIENCE OF THE TOTAL ENVIRONMENT 2017; 598:97-108. [PMID: 28437776 DOI: 10.1016/j.scitotenv.2017.03.233] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/05/2016] [Revised: 03/25/2017] [Accepted: 03/25/2017] [Indexed: 06/07/2023]
Abstract
Seaweed cultivation not only provides economy benefits, but also remediates the environment contaminated by mariculture of animals (e.g., fish, shrimps). However, the response of microbial communities to seaweed cultivation is poorly understood. In this study, we analyzed the diversity, composition, and structure of water and sediment microbial communities at a seaweed, Gracilaria lemaneiformis, cultivation zone and a control zone near Nan'ao Island, South China Sea by MiSeq sequencing of 16S rRNA gene amplicons. We found that large-scale cultivation of G. lemaneiformis increased dissolved oxygen (DO) and pH but decreased inorganic nutrients, possibly due to nutrient uptake, photosynthesis and other physiological processes of G. lemaneiformis. These environmental changes significantly (adonis, P<0.05) shifted the microbial community composition and structure of both water column and sediment samples in the G. lemaneiformis cultivation zone, compared to the control zone. Also, certain microbial taxa associated with seaweed, such as Arenibacter, Croceitalea, Glaciecola, Leucothrix and Maribacter were enriched at the cultivation zone. In addition, we have proposed a conceptual model to summarize the results in this study and guide future studies on relationships among seaweed processes, microbial communities and their environments. Thus, this study not only provides new insights into our understanding the effect of G. lemaneiformis cultivation on microbial communities, but also guides future studies on coastal ecosystems.
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Affiliation(s)
- Xinfei Xie
- Institute of Hydrobiology, Department of Ecology, Jinan University, Guangzhou, China; Institute for Environmental Genomics, Department of Microbiology and Plant Biology, University of Oklahoma, Norman, OK, USA
| | - Zhili He
- Institute for Environmental Genomics, Department of Microbiology and Plant Biology, University of Oklahoma, Norman, OK, USA; School of Environmental Science and Engineering, Environmental Microbiome Research Center, Sun Yat-Sen University, Guangzhou, China.
| | - Xiaojuan Hu
- South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou, China
| | - Huaqun Yin
- School of Minerals Processing and Bioengineering, Central South University, Changsha, China
| | - Xueduan Liu
- School of Minerals Processing and Bioengineering, Central South University, Changsha, China
| | - Yufeng Yang
- Institute of Hydrobiology, Department of Ecology, Jinan University, Guangzhou, China.
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48
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Calvo AY, Manrique JM, Jones LR. Rare unclassified 16S rRNA operational taxonomic units from the uncharted Engaño Bay (Argentinean Patagonia). Can J Microbiol 2017; 64:91-96. [PMID: 29078061 DOI: 10.1139/cjm-2017-0342] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
Rare microbes make up most of the diversity of marine microbiomes, and recent works have highlighted their importance for microbial community dynamics and in fragmented habitats. Rare taxa have been infrequently studied in comparison with abundant groups, and rare unclassified sequences are common in culture-independent studies. Here, we describe a detailed analysis of nonclassifiable sequences from the Chubut river estuary at the Argentinean Patagonia. Standard taxonomic assignments of environmental 16S rRNA sequences resulted in about 13% unclassified operational taxonomic units (OTUs). The potential affiliations of these OTUs could be narrowed by mapping the classification software assignments on a phylogeny obtained directly from our environmental sequence data. Customized BLAST analyses were remarkably consistent with these phylogenetic assignments, especially when the unclassified OTUs were blasted against sequences from cultured and type microorganisms. In addition, our BLAST analyses revealed significant similarities between several unclassified OTUs and a plethora of unclassified sequences from around the world. Further phylogenetic comparisons with 6194 carefully selected reference sequences showed that these unclassified sequences may correspond to 5 unnamed groups, possibly encompassing ranks from subclass to family inside the Alphaproteobacteria, and to an unknown Gracilibacteria lineage. Overall, these results demonstrate the value of straight phylogenetic analysis, customized BLAST searches, and comparisons with sequences from type material, for the systematic study of rare unclassified sequences.
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Affiliation(s)
- Andrea Y Calvo
- Laboratorio de Virología y Genética Molecular, Facultad de Ciencias Naturales y Ciencias de la Salud (FCNyCS), Universidad Nacional de la Patagonia San Juan Bosco (UNPSJB), 9 de Julio y Belgrano s/n (9100), Trelew, Chubut, Argentina; Consejo Nacional de Investigaciones Científicas y Técnicas, Avenida Rivadavia 1917 (C1083ACA) Buenos Aires, Argentina.,Laboratorio de Virología y Genética Molecular, Facultad de Ciencias Naturales y Ciencias de la Salud (FCNyCS), Universidad Nacional de la Patagonia San Juan Bosco (UNPSJB), 9 de Julio y Belgrano s/n (9100), Trelew, Chubut, Argentina; Consejo Nacional de Investigaciones Científicas y Técnicas, Avenida Rivadavia 1917 (C1083ACA) Buenos Aires, Argentina
| | - Julieta M Manrique
- Laboratorio de Virología y Genética Molecular, Facultad de Ciencias Naturales y Ciencias de la Salud (FCNyCS), Universidad Nacional de la Patagonia San Juan Bosco (UNPSJB), 9 de Julio y Belgrano s/n (9100), Trelew, Chubut, Argentina; Consejo Nacional de Investigaciones Científicas y Técnicas, Avenida Rivadavia 1917 (C1083ACA) Buenos Aires, Argentina.,Laboratorio de Virología y Genética Molecular, Facultad de Ciencias Naturales y Ciencias de la Salud (FCNyCS), Universidad Nacional de la Patagonia San Juan Bosco (UNPSJB), 9 de Julio y Belgrano s/n (9100), Trelew, Chubut, Argentina; Consejo Nacional de Investigaciones Científicas y Técnicas, Avenida Rivadavia 1917 (C1083ACA) Buenos Aires, Argentina
| | - Leandro R Jones
- Laboratorio de Virología y Genética Molecular, Facultad de Ciencias Naturales y Ciencias de la Salud (FCNyCS), Universidad Nacional de la Patagonia San Juan Bosco (UNPSJB), 9 de Julio y Belgrano s/n (9100), Trelew, Chubut, Argentina; Consejo Nacional de Investigaciones Científicas y Técnicas, Avenida Rivadavia 1917 (C1083ACA) Buenos Aires, Argentina.,Laboratorio de Virología y Genética Molecular, Facultad de Ciencias Naturales y Ciencias de la Salud (FCNyCS), Universidad Nacional de la Patagonia San Juan Bosco (UNPSJB), 9 de Julio y Belgrano s/n (9100), Trelew, Chubut, Argentina; Consejo Nacional de Investigaciones Científicas y Técnicas, Avenida Rivadavia 1917 (C1083ACA) Buenos Aires, Argentina
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49
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Tao JH, Duan JA, Jiang S, Feng NN, Qiu WQ, Ling Y. Polysaccharides from Chrysanthemum morifolium Ramat ameliorate colitis rats by modulating the intestinal microbiota community. Oncotarget 2017; 8:80790-80803. [PMID: 29113344 PMCID: PMC5655239 DOI: 10.18632/oncotarget.20477] [Citation(s) in RCA: 60] [Impact Index Per Article: 8.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/13/2017] [Accepted: 07/26/2017] [Indexed: 02/06/2023] Open
Abstract
The gut microflora dysbiosis has been closely related with the inflammatory bowel disease (IBD). In this study, the effect of polysaccharides from Chrysanthemum morifolium Ramat on the gut microbiota was evaluated by ulcerative colitis (UC) rat model. Physiological and pathological analyses suggested that Chrysanthemum polysaccharides possessed notably protective effects on UC in vivo. Based on the Illumina MiSeq platform, 16S rRNA sequencing of the rat colonic contents indicated that the intestinal flora structure remarkably changed in the model rats and the tendency was alleviated to a certain degree by treatment with different dosages of Chrysanthemum polysaccharides. In normal groups, there were more Firmicutes than Bacteroidetes, but this change lost at the pathological state. Following Chrysanthemum polysaccharides, rising Firmicutes/Bacteroidetes ratio was validated. Besides the microbial diversity and the community richness of the UC rats were improved by Chrysanthemum polysaccharides, the composition of intestinal microflora in the model group were also restored after oral administration of Chrysanthemum polysaccharides. The abundance of opportunistic pathogens was decreased (Escherichia, Enterococcus and Prevotella), while the levels of protective bacteria such as Butyricicoccus and Clostridium (butyrate-producing bacteria), Lactobacillus and Bifidobacterium (probiotics), Lachnospiraceae and Rikenellaceae elevated in various degrees. Correlation analysis between intestinal flora and biochemical factors suggested that the relative abundance of protective bacteria was positively correlated with the levels of anti-inflammatory cytokines such as IL-4, IL-10 and IL-11, while aggressive bacteria were positively correlated with proinflammatory cytokine such as IL-23、IL-6、 IF-17、TNF-α、IL-1β and IFN-γ. The above results showed that the intestinal flora were closely related to the secretion and expression of cytokines in the body, and they interacted with each other to regulate immune function. Thus, Chrysanthemum polysaccharides could ameliorate ulcerative colitis by fostering beneficial intestinal flora growth, modulating the balance of intestinal microecology and restoring the immune system.
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Affiliation(s)
- Jin-Hua Tao
- School of Pharmacy, Nantong University, Nantong 226001, PR China
| | - Jin-Ao Duan
- Jiangsu Collaborative Innovation Center of Chinese Medicinal Resources Industrialization, Nanjing University of Chinese Medicine, Nanjing 210023, PR China
| | - Shu Jiang
- Jiangsu Collaborative Innovation Center of Chinese Medicinal Resources Industrialization, Nanjing University of Chinese Medicine, Nanjing 210023, PR China
| | - Nan-Nan Feng
- School of Pharmacy, Nantong University, Nantong 226001, PR China
| | - Wen-Qian Qiu
- School of Pharmacy, Nantong University, Nantong 226001, PR China
| | - Yong Ling
- School of Pharmacy, Nantong University, Nantong 226001, PR China
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50
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Li X, Duan J, Xiao H, Li Y, Liu H, Guan F, Zhai X. Analysis of Bacterial Community Composition of Corroded Steel Immersed in Sanya and Xiamen Seawaters in China via Method of Illumina MiSeq Sequencing. Front Microbiol 2017; 8:1737. [PMID: 28955315 PMCID: PMC5601074 DOI: 10.3389/fmicb.2017.01737] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/22/2017] [Accepted: 08/25/2017] [Indexed: 11/23/2022] Open
Abstract
Metal corrosion is of worldwide concern because it is the cause of major economic losses, and because it creates significant safety issues. The mechanism of the corrosion process, as influenced by bacteria, has been studied extensively. However, the bacterial communities that create the biofilms that form on metals are complicated, and have not been well studied. This is why we sought to analyze the composition of bacterial communities living on steel structures, together with the influence of ecological factors on these communities. The corrosion samples were collected from rust layers on steel plates that were immersed in seawater for two different periods at Sanya and Xiamen, China. We analyzed the bacterial communities on the samples by targeted 16S rRNA gene (V3–V4 region) sequencing using the Illumina MiSeq. Phylogenetic analysis revealed that the bacteria fell into 13 phylotypes (similarity level = 97%). Proteobacteria, Firmicutes and Bacteroidetes were the dominant phyla, accounting for 88.84% of the total. Deltaproteobacteria, Clostridia and Gammaproteobacteria were the dominant classes, and accounted for 70.90% of the total. Desulfovibrio spp., Desulfobacter spp. and Desulfotomaculum spp. were the dominant genera and accounted for 45.87% of the total. These genera are sulfate-reducing bacteria that are known to corrode steel. Bacterial diversity on the 6 months immersion samples was much higher than that of the samples that had been immersed for 8 years (P < 0.001, Student’s t-test). The average complexity of the biofilms from the 8-years immersion samples from Sanya was greater than those from Xiamen, but not significantly so (P > 0.05, Student’s t-test). Overall, the data showed that the rust layers on the steel plates carried many bacterial species. The bacterial community composition was influenced by the immersion time. The results of our study will be of benefit to the further studies of bacterial corrosion mechanisms and corrosion resistance.
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Affiliation(s)
- Xiaohong Li
- Key Laboratory of Marine Environmental Corrosion and Biofouling, Institute of Oceanology, Chinese Academy of SciencesQingdao, China.,College of Marine Life Sciences, Ocean University of ChinaQingdao, China
| | - Jizhou Duan
- Key Laboratory of Marine Environmental Corrosion and Biofouling, Institute of Oceanology, Chinese Academy of SciencesQingdao, China
| | - Hui Xiao
- College of Marine Life Sciences, Ocean University of ChinaQingdao, China
| | - Yongqian Li
- Key Laboratory of Marine Environmental Corrosion and Biofouling, Institute of Oceanology, Chinese Academy of SciencesQingdao, China.,College of Marine Life Sciences, Ocean University of ChinaQingdao, China
| | - Haixia Liu
- Key Laboratory of Marine Environmental Corrosion and Biofouling, Institute of Oceanology, Chinese Academy of SciencesQingdao, China
| | - Fang Guan
- Key Laboratory of Marine Environmental Corrosion and Biofouling, Institute of Oceanology, Chinese Academy of SciencesQingdao, China
| | - Xiaofan Zhai
- Key Laboratory of Marine Environmental Corrosion and Biofouling, Institute of Oceanology, Chinese Academy of SciencesQingdao, China
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