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Page CE, Anderson E, Ainsworth TD. Building living systematic reviews and reporting standards for comparative microscopic analysis of white diseases in hard corals. Ecol Evol 2024; 14:e11616. [PMID: 38975266 PMCID: PMC11224507 DOI: 10.1002/ece3.11616] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/24/2023] [Revised: 06/04/2024] [Accepted: 06/10/2024] [Indexed: 07/09/2024] Open
Abstract
Over the last 4 decades, coral disease research has continued to provide reports of diseases, the occurrence and severity of disease outbreaks and associated disease signs. Histology using systematic protocols is a gold standard for the microscopic assessment of diseases in veterinary and medical research, while also providing valuable information on host condition. However, uptake of histological analysis for coral disease remains limited. Increasing disease outbreaks on coral reefs as human impacts intensify highlights a need to understand the use of histology to date in coral disease research. Here, we apply a systematic approach to collating, mapping and reviewing histological methods used to study coral diseases with 'white' signs (i.e., white diseases) in hard coral taxa and map research effort in this field spanning study design, sample processing and analysis in the 33 publications identified between 1984 and 2022. We find that studies to date have not uniformly detailed methodologies, and terminology associated with reporting and disease description is inconsistent between studies. Combined these limitations reduce study repeatability, limiting the capacity for researchers to compare disease reports. A primary outcome of this study is the provision of transparent and repeatable protocols for systematically reviewing literature associated with white diseases of hard coral taxa, and development of recommendations for standardised reporting procedures with the aim of increasing uptake of histology in addition to allowing for ongoing comparative analysis through living systematic reviews for the coral disease field.
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Affiliation(s)
- C. E. Page
- School of Biological, Earth and Environmental Sciences (BEES)University of New South Wales (UNSW)KensingtonNew South WalesAustralia
| | - E. Anderson
- College of Science and EngineeringFlinders UniversityBedford ParkSouth AustraliaAustralia
| | - T. D. Ainsworth
- School of Biological, Earth and Environmental Sciences (BEES)University of New South Wales (UNSW)KensingtonNew South WalesAustralia
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Ashraf N, Anas A, Sukumaran V, Gopinath G, Idrees Babu KK, Dinesh Kumar PK. Recent advancements in coral health, microbiome interactions and climate change. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 878:163085. [PMID: 36996987 DOI: 10.1016/j.scitotenv.2023.163085] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/12/2022] [Revised: 03/21/2023] [Accepted: 03/22/2023] [Indexed: 05/13/2023]
Abstract
Corals are the visible indicators of the disasters induced by global climate change and anthropogenic activities and have become a highly vulnerable ecosystem on the verge of extinction. Multiple stressors could act individually or synergistically which results in small to large scale tissue degradation, reduced coral covers, and makes the corals vulnerable to various diseases. The coralline diseases are like the Chicken pox in humans because they spread hastily throughout the coral ecosystem and can devastate the coral cover formed over centuries in an abbreviated time. The extinction of the entire reef ecosystem will alter the ocean and earth's amalgam of biogeochemical cycles causing a threat to the entire planet. The current manuscript provides an overview of the recent advancement in coral health, microbiome interactions and climate change. Culture dependent and independent approaches in studying the microbiome of corals, the diseases caused by microorganisms, and the reservoirs of coral pathogens are also discussed. Finally, we discuss the possibilities of protecting the coral reefs from diseases through microbiome transplantation and the capabilities of remote sensing in monitoring their health status.
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Affiliation(s)
- Nizam Ashraf
- CSIR - National Institute of Oceanography, Regional Centre, Kochi 682018, India
| | - Abdulaziz Anas
- CSIR - National Institute of Oceanography, Regional Centre, Kochi 682018, India.
| | - Vrinda Sukumaran
- CSIR - National Institute of Oceanography, Regional Centre, Kochi 682018, India
| | - Girish Gopinath
- Department of Climate Variability and Aquatic Ecosystems, Kerala University of Fisheries and Ocean Studies (KUFOS), Puduvypu Campus, Kochi 682 508, India
| | - K K Idrees Babu
- Department of Science and Technology, Kavaratti, Lakshadweep 682555, India
| | - P K Dinesh Kumar
- CSIR - National Institute of Oceanography, Regional Centre, Kochi 682018, India
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3
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Hochart C, Paoli L, Ruscheweyh HJ, Salazar G, Boissin E, Romac S, Poulain J, Bourdin G, Iwankow G, Moulin C, Ziegler M, Porro B, Armstrong EJ, Hume BCC, Aury JM, Pogoreutz C, Paz-García DA, Nugues MM, Agostini S, Banaigs B, Boss E, Bowler C, de Vargas C, Douville E, Flores M, Forcioli D, Furla P, Gilson E, Lombard F, Pesant S, Reynaud S, Thomas OP, Troublé R, Wincker P, Zoccola D, Allemand D, Planes S, Thurber RV, Voolstra CR, Sunagawa S, Galand PE. Ecology of Endozoicomonadaceae in three coral genera across the Pacific Ocean. Nat Commun 2023; 14:3037. [PMID: 37264015 DOI: 10.1038/s41467-023-38502-9] [Citation(s) in RCA: 11] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/18/2022] [Accepted: 04/26/2023] [Indexed: 06/03/2023] Open
Abstract
Health and resilience of the coral holobiont depend on diverse bacterial communities often dominated by key marine symbionts of the Endozoicomonadaceae family. The factors controlling their distribution and their functional diversity remain, however, poorly known. Here, we study the ecology of Endozoicomonadaceae at an ocean basin-scale by sampling specimens from three coral genera (Pocillopora, Porites, Millepora) on 99 reefs from 32 islands across the Pacific Ocean. The analysis of 2447 metabarcoding and 270 metagenomic samples reveals that each coral genus harbored a distinct new species of Endozoicomonadaceae. These species are composed of nine lineages that have distinct biogeographic patterns. The most common one, found in Pocillopora, appears to be a globally distributed symbiont with distinct metabolic capabilities, including the synthesis of amino acids and vitamins not produced by the host. The other lineages are structured partly by the host genetic lineage in Pocillopora and mainly by the geographic location in Porites. Millepora is more rarely associated to Endozoicomonadaceae. Our results show that different coral genera exhibit distinct strategies of host-Endozoicomonadaceae associations that are defined at the bacteria lineage level.
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Affiliation(s)
- Corentin Hochart
- Sorbonne Université, CNRS, Laboratoire d'Ecogéochimie des Environnements Benthiques (LECOB), Observatoire Océanologique de Banyuls, 66650, Banyuls sur Mer, France
| | - Lucas Paoli
- Department of Biology, Institute of Microbiology and Swiss Institute of Bioinformatics, ETH Zürich, 8093, Zürich, Switzerland
| | - Hans-Joachim Ruscheweyh
- Department of Biology, Institute of Microbiology and Swiss Institute of Bioinformatics, ETH Zürich, 8093, Zürich, Switzerland
| | - Guillem Salazar
- Department of Biology, Institute of Microbiology and Swiss Institute of Bioinformatics, ETH Zürich, 8093, Zürich, Switzerland
| | - Emilie Boissin
- PSL Research University: EPHE-UPVD-CNRS, USR 3278 CRIOBE, Laboratoire d'Excellence CORAIL, Université de Perpignan, 52 Avenue Paul Alduy, 66860, Perpignan, Cedex, France
| | - Sarah Romac
- Sorbonne Université, CNRS, Station Biologique de Roscoff, AD2M, UMR 7144, ECOMAP, Roscoff, France
| | - Julie Poulain
- Génomique Métabolique, Genoscope, Institut François Jacob, CEA, CNRS, Univ Evry, Université Paris-Saclay, Evry, France
- Research Federation for the study of Global Ocean Systems Ecology and Evolution, FR2022/Tara GOSEE, 75000, Paris, France
| | | | - Guillaume Iwankow
- PSL Research University: EPHE-UPVD-CNRS, USR 3278 CRIOBE, Laboratoire d'Excellence CORAIL, Université de Perpignan, 52 Avenue Paul Alduy, 66860, Perpignan, Cedex, France
| | | | - Maren Ziegler
- Department of Animal Ecology & Systematics, Justus Liebig University Giessen, Heinrich-Buff-Ring 26-32 (IFZ), 35392, Giessen, Germany
| | - Barbara Porro
- CNRS, INSERM, Institute for Research on Cancer and Aging (IRCAN), Université Côte d'Azur, Nice, France
- Laboratoire International Associé Université Côte d'Azur-Centre Scientifique de Monaco (LIA ROPSE), Monaco, Principality of Monaco
| | - Eric J Armstrong
- PSL Research University: EPHE-UPVD-CNRS, USR 3278 CRIOBE, Laboratoire d'Excellence CORAIL, Université de Perpignan, 52 Avenue Paul Alduy, 66860, Perpignan, Cedex, France
| | - Benjamin C C Hume
- Department of Biology, University of Konstanz, 78457, Konstanz, Germany
| | - Jean-Marc Aury
- Génomique Métabolique, Genoscope, Institut François Jacob, CEA, CNRS, Univ Evry, Université Paris-Saclay, Evry, France
- Research Federation for the study of Global Ocean Systems Ecology and Evolution, FR2022/Tara GOSEE, 75000, Paris, France
| | - Claudia Pogoreutz
- PSL Research University: EPHE-UPVD-CNRS, USR 3278 CRIOBE, Laboratoire d'Excellence CORAIL, Université de Perpignan, 52 Avenue Paul Alduy, 66860, Perpignan, Cedex, France
- Department of Biology, University of Konstanz, 78457, Konstanz, Germany
| | - David A Paz-García
- Centro de Investigaciones Biológicas del Noroeste (CIBNOR), La Paz, Baja California Sur, 23096, México
| | - Maggy M Nugues
- PSL Research University: EPHE-UPVD-CNRS, USR 3278 CRIOBE, Laboratoire d'Excellence CORAIL, Université de Perpignan, 52 Avenue Paul Alduy, 66860, Perpignan, Cedex, France
| | - Sylvain Agostini
- Shimoda Marine Research Center, University of Tsukuba, 5-10-1, Shimoda, Shizuoka, Japan
| | - Bernard Banaigs
- PSL Research University: EPHE-UPVD-CNRS, USR 3278 CRIOBE, Laboratoire d'Excellence CORAIL, Université de Perpignan, 52 Avenue Paul Alduy, 66860, Perpignan, Cedex, France
| | - Emmanuel Boss
- School of Marine Sciences, University of Maine, Orono, ME, 04469, USA
| | - Chris Bowler
- Research Federation for the study of Global Ocean Systems Ecology and Evolution, FR2022/Tara GOSEE, 75000, Paris, France
- Institut de Biologie de l'Ecole Normale Supérieure (IBENS), Ecole normale supérieure, CNRS, INSERM, Université PSL, 75005, Paris, France
| | - Colomban de Vargas
- Sorbonne Université, CNRS, Station Biologique de Roscoff, AD2M, UMR 7144, ECOMAP, Roscoff, France
- Research Federation for the study of Global Ocean Systems Ecology and Evolution, FR2022/Tara GOSEE, 75000, Paris, France
| | - Eric Douville
- Laboratoire des Sciences du Climat et de l'Environnement, LSCE/IPSL, CEA-CNRS-UVSQ, Université Paris-Saclay, 91191, Gif-sur-Yvette, France
| | - Michel Flores
- Weizmann Institute of Science, Department of Earth and Planetary Sciences, 76100, Rehovot, Israel
| | - Didier Forcioli
- CNRS, INSERM, Institute for Research on Cancer and Aging (IRCAN), Université Côte d'Azur, Nice, France
- Laboratoire International Associé Université Côte d'Azur-Centre Scientifique de Monaco (LIA ROPSE), Monaco, Principality of Monaco
| | - Paola Furla
- CNRS, INSERM, Institute for Research on Cancer and Aging (IRCAN), Université Côte d'Azur, Nice, France
- Laboratoire International Associé Université Côte d'Azur-Centre Scientifique de Monaco (LIA ROPSE), Monaco, Principality of Monaco
| | - Eric Gilson
- CNRS, INSERM, Institute for Research on Cancer and Aging (IRCAN), Université Côte d'Azur, Nice, France
- Laboratoire International Associé Université Côte d'Azur-Centre Scientifique de Monaco (LIA ROPSE), Monaco, Principality of Monaco
- Department of Medical Genetics, CHU Nice, Nice, France
| | - Fabien Lombard
- Research Federation for the study of Global Ocean Systems Ecology and Evolution, FR2022/Tara GOSEE, 75000, Paris, France
- Sorbonne Université, Institut de la Mer de Villefranche sur mer, Laboratoire d'Océanographie de Villefranche, 06230, Villefranche-sur-Mer, France
- Institut Universitaire de France, 75231, Paris, France
| | - Stéphane Pesant
- European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK
| | - Stéphanie Reynaud
- Laboratoire International Associé Université Côte d'Azur-Centre Scientifique de Monaco (LIA ROPSE), Monaco, Principality of Monaco
- Centre Scientifique de Monaco, Monaco, Principality of Monaco
| | - Olivier P Thomas
- School of Biological and Chemical Sciences, Ryan Institute, University of Galway, Galway, Ireland
| | - Romain Troublé
- Fondation Tara Océan, 8 rue de Prague, 75012, Paris, France
| | - Patrick Wincker
- Génomique Métabolique, Genoscope, Institut François Jacob, CEA, CNRS, Univ Evry, Université Paris-Saclay, Evry, France
- Research Federation for the study of Global Ocean Systems Ecology and Evolution, FR2022/Tara GOSEE, 75000, Paris, France
| | - Didier Zoccola
- Laboratoire International Associé Université Côte d'Azur-Centre Scientifique de Monaco (LIA ROPSE), Monaco, Principality of Monaco
- Centre Scientifique de Monaco, Monaco, Principality of Monaco
| | - Denis Allemand
- Laboratoire International Associé Université Côte d'Azur-Centre Scientifique de Monaco (LIA ROPSE), Monaco, Principality of Monaco
- Centre Scientifique de Monaco, Monaco, Principality of Monaco
| | - Serge Planes
- PSL Research University: EPHE-UPVD-CNRS, USR 3278 CRIOBE, Laboratoire d'Excellence CORAIL, Université de Perpignan, 52 Avenue Paul Alduy, 66860, Perpignan, Cedex, France
- Research Federation for the study of Global Ocean Systems Ecology and Evolution, FR2022/Tara GOSEE, 75000, Paris, France
| | | | | | - Shinichi Sunagawa
- Department of Biology, Institute of Microbiology and Swiss Institute of Bioinformatics, ETH Zürich, 8093, Zürich, Switzerland
| | - Pierre E Galand
- Sorbonne Université, CNRS, Laboratoire d'Ecogéochimie des Environnements Benthiques (LECOB), Observatoire Océanologique de Banyuls, 66650, Banyuls sur Mer, France.
- Research Federation for the study of Global Ocean Systems Ecology and Evolution, FR2022/Tara GOSEE, 75000, Paris, France.
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4
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Sun X, Li Y, Yang Q, Zhang H, Xu N, Tang Z, Wu S, Jiang Y, Mohamed HF, Ou D, Zheng X. Identification of quorum sensing-regulated Vibrio fortis as potential pathogenic bacteria for coral bleaching and the effects on the microbial shift. Front Microbiol 2023; 14:1116737. [PMID: 36819038 PMCID: PMC9935839 DOI: 10.3389/fmicb.2023.1116737] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2022] [Accepted: 01/09/2023] [Indexed: 02/05/2023] Open
Abstract
Coastal pollution, global warming, ocean acidification, and other reasons lead to the imbalance of the coral reef ecosystem, resulting in the increasingly serious problem of coral degradation. Coral bleaching is often accompanied by structural abnormalities of coral symbiotic microbiota, among which Vibrio is highly concerned. In this study, Vibrio fortis S10-1 (MCCC 1H00104), isolated from sea cucumber, was used for the bacterial infection on coral Seriatopora guttatus and Pocillopora damicornis. The infection of S10-1 led to coral bleaching and a significant reduction of photosynthetic function in coral holobiont, and the pathogenicity of V. fortis was regulated by quorum sensing. Meanwhile, Vibrio infection also caused a shift of coral symbiotic microbial community, with significantly increased abundant Proteobacteria and Actinobacteria and significantly reduced abundant Firmicutes; on genus level, the abundance of Bacillus decreased significantly and the abundance of Rhodococcus, Ralstonia, and Burkholderia-Caballeronia-Paraburkholderia increased significantly; S10-1 infection also significantly impacted the water quality in the micro-ecosystem. In contrast, S10-1 infection showed less effect on the microbial community of the live stone, which reflected that the microbes in the epiphytic environment of the live stone might have a stronger ability of self-regulation; the algal symbionts mainly consisted of Cladocopium sp. and showed no significant effect by the Vibrio infection. This study verified that V. fortis is the primary pathogenic bacterium causing coral bleaching, revealed changes in the microbial community caused by its infection, provided strong evidence for the "bacterial bleaching" hypothesis, and provided an experimental experience for the exploration of the interaction mechanism among microbial communities, especially coral-associated Vibrio in the coral ecosystem, and potential probiotic strategy or QS regulation on further coral disease control.
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Affiliation(s)
- Xiaohui Sun
- College of Chemical Engineering, Huaqiao University, Xiamen, China,*Correspondence: Xiaohui Sun,
| | - Yan Li
- Third Institute of Oceanography, Ministry of Natural Resources, Xiamen, China
| | - Qian Yang
- College of Chemical Engineering, Huaqiao University, Xiamen, China
| | - Han Zhang
- Third Institute of Oceanography, Ministry of Natural Resources, Xiamen, China
| | - Nuo Xu
- College of Chemical Engineering, Huaqiao University, Xiamen, China
| | - Zheng Tang
- College of Chemical Engineering, Huaqiao University, Xiamen, China
| | - Shishi Wu
- College of Chemical Engineering, Huaqiao University, Xiamen, China
| | - Yusheng Jiang
- College of Chemical Engineering, Huaqiao University, Xiamen, China
| | - Hala F. Mohamed
- Third Institute of Oceanography, Ministry of Natural Resources, Xiamen, China,Botany and Microbiology Department (Girls Branch), Faculty of Science, Al-Azhar University, Cairo, Egypt
| | - Danyun Ou
- Third Institute of Oceanography, Ministry of Natural Resources, Xiamen, China,Key Laboratory of Marine Ecological Conservation and Restoration, Ministry of Natural Resources, Xiamen, China,Danyun Ou,
| | - Xinqing Zheng
- Third Institute of Oceanography, Ministry of Natural Resources, Xiamen, China,Key Laboratory of Marine Ecological Conservation and Restoration, Ministry of Natural Resources, Xiamen, China,Observation and Research Station of Coastal Wetland Ecosystem in Beibu Gulf, Ministry of Natural Resources, Xiamen, China,Xinqing Zheng,
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5
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Duan Y, Xing Y, Zeng S, Dan X, Mo Z, Zhang J, Li Y. Integration of metagenomic and metabolomic insights into the effects of microcystin-LR on intestinal microbiota of Litopenaeus vannamei. Front Microbiol 2022; 13:994188. [PMID: 36212851 PMCID: PMC9537473 DOI: 10.3389/fmicb.2022.994188] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2022] [Accepted: 09/05/2022] [Indexed: 12/04/2022] Open
Abstract
Microcystin-LR (MC-LR) is a hazardous substance that threaten the health of aquatic animals. Intestinal microbes and their metabolites can interact with hosts to influence physiological homeostasis. In this study, the shrimp Litopenaeus vannamei were exposed to 1.0 μg/l MC-LR for 72 h, and the toxic effects of MC-LR on the intestinal microbial metagenomic and metabolomic responses of the shrimp were investigated. The results showed that MC-LR stress altered the gene functions of intestinal microbial, including ABC transporter, sulfur metabolism and riboflavin (VB2) metabolism, and induced a significant increase of eight carbohydrate metabolism enzymes. Alternatively, intestinal metabolic phenotypes were also altered, especially ABC transporters, protein digestion and absorption, and the biosynthesis and metabolism of amino acid. Furthermore, based on the integration of intestinal microbial metagenomic and metabolome, four bacteria species (Demequina globuliformis, Demequina sp. NBRC 110055, Sphingomonas taxi and Sphingomonas sp. RIT328) and three metabolites (yangonin, α-hederin and soyasaponin ii) biomarkers were identified. Overall, our study provides new insights into the effects of MC-LR on the intestinal microbial functions of L. vannamei.
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Affiliation(s)
- Yafei Duan
- Key Laboratory of South China Sea Fishery Resources Exploitation and Utilization, Ministry of Agriculture and Rural Affairs, Guangdong Provincial Key Laboratory of Fishery Ecology and Environment, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou, China
- Key Laboratory of Efficient Utilization and Processing of Marine Fishery Resources of Hainan Province, Sanya Tropical Fisheries Research Institute, Sanya, China
- University Joint Laboratory of Guangdong Province, Hong Kong and Macao Region on Marine Bioresource Conservation and Exploitation, Guangdong Laboratory for Lingnan Modern Agriculture, College of Marine Sciences, South China Agricultural University, Guangzhou, China
| | - Yifu Xing
- Key Laboratory of South China Sea Fishery Resources Exploitation and Utilization, Ministry of Agriculture and Rural Affairs, Guangdong Provincial Key Laboratory of Fishery Ecology and Environment, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou, China
| | - Shimin Zeng
- University Joint Laboratory of Guangdong Province, Hong Kong and Macao Region on Marine Bioresource Conservation and Exploitation, Guangdong Laboratory for Lingnan Modern Agriculture, College of Marine Sciences, South China Agricultural University, Guangzhou, China
| | - Xueming Dan
- University Joint Laboratory of Guangdong Province, Hong Kong and Macao Region on Marine Bioresource Conservation and Exploitation, Guangdong Laboratory for Lingnan Modern Agriculture, College of Marine Sciences, South China Agricultural University, Guangzhou, China
| | - Zequan Mo
- University Joint Laboratory of Guangdong Province, Hong Kong and Macao Region on Marine Bioresource Conservation and Exploitation, Guangdong Laboratory for Lingnan Modern Agriculture, College of Marine Sciences, South China Agricultural University, Guangzhou, China
| | - Jiasong Zhang
- Key Laboratory of South China Sea Fishery Resources Exploitation and Utilization, Ministry of Agriculture and Rural Affairs, Guangdong Provincial Key Laboratory of Fishery Ecology and Environment, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou, China
- *Correspondence: Jiasong Zhang,
| | - Yanwei Li
- University Joint Laboratory of Guangdong Province, Hong Kong and Macao Region on Marine Bioresource Conservation and Exploitation, Guangdong Laboratory for Lingnan Modern Agriculture, College of Marine Sciences, South China Agricultural University, Guangzhou, China
- Yanwei Li,
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6
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The gut microbiome variability of a butterflyfish increases on severely degraded Caribbean reefs. Commun Biol 2022; 5:770. [PMID: 35908086 PMCID: PMC9338936 DOI: 10.1038/s42003-022-03679-0] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2021] [Accepted: 07/07/2022] [Indexed: 12/25/2022] Open
Abstract
Environmental degradation has the potential to alter key mutualisms that underlie the structure and function of ecological communities. How microbial communities associated with fishes vary across populations and in relation to habitat characteristics remains largely unknown despite their fundamental roles in host nutrition and immunity. We find significant differences in the gut microbiome composition of a facultative coral-feeding butterflyfish (Chaetodon capistratus) across Caribbean reefs that differ markedly in live coral cover (∼0–30%). Fish gut microbiomes were significantly more variable at degraded reefs, a pattern driven by changes in the relative abundance of the most common taxa potentially associated with stress. We also demonstrate that fish gut microbiomes on severely degraded reefs have a lower abundance of Endozoicomonas and a higher diversity of anaerobic fermentative bacteria, which may suggest a less coral dominated diet. The observed shifts in fish gut bacterial communities across the habitat gradient extend to a small set of potentially beneficial host associated bacteria (i.e., the core microbiome) suggesting essential fish-microbiome interactions may be vulnerable to severe coral degradation. The gut microbiome composition of the coral-feeding butterflyfish across Caribbean reefs is more variable at degraded reefs. These microbiomes have a lower abundance of Endozoicomonas and a higher diversity of anaerobic fermentative bacteria.
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7
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Ravindran C, Raveendran HP, Irudayarajan L. Ciliated protozoan occurrence and association in the pathogenesis of coral disease. Microb Pathog 2021; 162:105211. [PMID: 34582942 DOI: 10.1016/j.micpath.2021.105211] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/07/2021] [Revised: 09/17/2021] [Accepted: 09/22/2021] [Indexed: 10/20/2022]
Abstract
Various microbial infections have significantly contributed to disease progression leading to the mortality of corals. However, the holobiont and the external surfaces of coral, including the secreted mucus, provide a varied microenvironment that attracts ciliates based on their feeding preferences. Besides, some ciliates (e.g., Philasterine scuticociliate) may enter through the injuries or lesions on corals or through their indirect interactions with other types of microbes that influence coral health. Thus, ciliates occurrence and association are described with 12 different diseases worldwide. White syndrome disease lesions have diverse ciliate associations, and higher ciliate diversity was observed with diseased genera Acropora. Also, it was described, about sixteen ciliate species ingest coral Symbiodiniaceae and histophagous ciliates for coral tissue loss as secondary invaders. However, the ciliates nature of association with the coral disease remains unclear for primary or opportunistic secondary pathogenicity. Herein, we explore the urgent need to understand the complex interactions of ciliates in coral health.
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Affiliation(s)
- Chinnarajan Ravindran
- Biological Oceanography Division, CSIR - National Institute of Oceanography, Dona Paulo, 403004, Goa, India; AcSIR- Academy of Scientific and Innovative Research, CSIR- Human Resource Development Centre, (CSIR-HRDC) Campus, Ghaziabad, Uttar Pradesh, 201 002, India.
| | - Haritha P Raveendran
- Biological Oceanography Division, CSIR - National Institute of Oceanography, Dona Paulo, 403004, Goa, India
| | - Lawrance Irudayarajan
- Biological Oceanography Division, CSIR - National Institute of Oceanography, Dona Paulo, 403004, Goa, India; AcSIR- Academy of Scientific and Innovative Research, CSIR- Human Resource Development Centre, (CSIR-HRDC) Campus, Ghaziabad, Uttar Pradesh, 201 002, India
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8
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Silva DP, Villela HDM, Santos HF, Duarte GAS, Ribeiro JR, Ghizelini AM, Vilela CLS, Rosado PM, Fazolato CS, Santoro EP, Carmo FL, Ximenes DS, Soriano AU, Rachid CTCC, Vega Thurber RL, Peixoto RS. Multi-domain probiotic consortium as an alternative to chemical remediation of oil spills at coral reefs and adjacent sites. MICROBIOME 2021; 9:118. [PMID: 34020712 PMCID: PMC8138999 DOI: 10.1186/s40168-021-01041-w] [Citation(s) in RCA: 23] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/06/2021] [Accepted: 02/22/2021] [Indexed: 05/04/2023]
Abstract
BACKGROUND Beginning in the last century, coral reefs have suffered the consequences of anthropogenic activities, including oil contamination. Chemical remediation methods, such as dispersants, can cause substantial harm to corals and reduce their resilience to stressors. To evaluate the impacts of oil contamination and find potential alternative solutions to chemical dispersants, we conducted a mesocosm experiment with the fire coral Millepora alcicornis, which is sensitive to environmental changes. We exposed M. alcicornis to a realistic oil-spill scenario in which we applied an innovative multi-domain bioremediator consortium (bacteria, filamentous fungi, and yeast) and a chemical dispersant (Corexit® 9500, one of the most widely used dispersants), to assess the effects on host health and host-associated microbial communities. RESULTS The selected multi-domain microbial consortium helped to mitigate the impacts of the oil, substantially degrading the polycyclic aromatic and n-alkane fractions and maintaining the physiological integrity of the corals. Exposure to Corexit 9500 negatively impacted the host physiology and altered the coral-associated microbial community. After exposure, the abundances of certain bacterial genera such as Rugeria and Roseovarius increased, as previously reported in stressed or diseased corals. We also identified several bioindicators of Corexit 9500 in the microbiome. The impact of Corexit 9500 on the coral health and microbial community was far greater than oil alone, killing corals after only 4 days of exposure in the flow-through system. In the treatments with Corexit 9500, the action of the bioremediator consortium could not be observed directly because of the extreme toxicity of the dispersant to M. alcicornis and its associated microbiome. CONCLUSIONS Our results emphasize the importance of investigating the host-associated microbiome in order to detect and mitigate the effects of oil contamination on corals and the potential role of microbial mitigation and bioindicators as conservation tools. Chemical dispersants were far more damaging to corals and their associated microbiome than oil, and should not be used close to coral reefs. This study can aid in decision-making to minimize the negative effects of oil and dispersants on coral reefs. Video abstract.
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Affiliation(s)
- Denise P Silva
- LEMM, Laboratory of Molecular Microbial Ecology, Institute of Microbiology Paulo de Góes, Federal University of Rio de Janeiro (UFRJ), Rio de Janeiro, Brazil
| | - Helena D M Villela
- LEMM, Laboratory of Molecular Microbial Ecology, Institute of Microbiology Paulo de Góes, Federal University of Rio de Janeiro (UFRJ), Rio de Janeiro, Brazil
| | - Henrique F Santos
- Department of Marine Biology, Fluminense Federal University (UFF), Niterói, Brazil
| | - Gustavo A S Duarte
- LEMM, Laboratory of Molecular Microbial Ecology, Institute of Microbiology Paulo de Góes, Federal University of Rio de Janeiro (UFRJ), Rio de Janeiro, Brazil
| | - José Roberto Ribeiro
- LEMM, Laboratory of Molecular Microbial Ecology, Institute of Microbiology Paulo de Góes, Federal University of Rio de Janeiro (UFRJ), Rio de Janeiro, Brazil
| | - Angela M Ghizelini
- LEMM, Laboratory of Molecular Microbial Ecology, Institute of Microbiology Paulo de Góes, Federal University of Rio de Janeiro (UFRJ), Rio de Janeiro, Brazil
| | - Caren L S Vilela
- LEMM, Laboratory of Molecular Microbial Ecology, Institute of Microbiology Paulo de Góes, Federal University of Rio de Janeiro (UFRJ), Rio de Janeiro, Brazil
| | - Phillipe M Rosado
- LEMM, Laboratory of Molecular Microbial Ecology, Institute of Microbiology Paulo de Góes, Federal University of Rio de Janeiro (UFRJ), Rio de Janeiro, Brazil
| | - Carolline S Fazolato
- LEMM, Laboratory of Molecular Microbial Ecology, Institute of Microbiology Paulo de Góes, Federal University of Rio de Janeiro (UFRJ), Rio de Janeiro, Brazil
| | - Erika P Santoro
- LEMM, Laboratory of Molecular Microbial Ecology, Institute of Microbiology Paulo de Góes, Federal University of Rio de Janeiro (UFRJ), Rio de Janeiro, Brazil
| | - Flavia L Carmo
- LEMM, Laboratory of Molecular Microbial Ecology, Institute of Microbiology Paulo de Góes, Federal University of Rio de Janeiro (UFRJ), Rio de Janeiro, Brazil
| | - Dalton S Ximenes
- Processes Laboratory, Leopoldo Américo Miguez de Mello Research Center (CENPES), Petrobras, Rio de Janeiro, Brazil
| | - Adriana U Soriano
- Environmental Treatments, Wastes and Water Resources, Leopoldo Américo Miguez de Mello Research Center (CENPES), Petrobras, Rio de Janeiro, Brazil
| | - Caio T C C Rachid
- LABEM, Paulo de Góes Institute of Microbiology, Federal University of Rio de Janeiro (UFRJ), Rio de Janeiro, Brazil
| | - Rebecca L Vega Thurber
- Department of Microbiology, Oregon State University, Nash Hall 226, OSU, Corvallis, OR, 97331, USA.
| | - Raquel S Peixoto
- LEMM, Laboratory of Molecular Microbial Ecology, Institute of Microbiology Paulo de Góes, Federal University of Rio de Janeiro (UFRJ), Rio de Janeiro, Brazil.
- Division of Biological and Environmental Science and Engineering (BESE), Red Sea Research Center, King Abdullah University of Science and Technology (KAUST), Thuwal, 23955-6900, Kingdom of Saudi Arabia.
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9
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The microbial profile of a tissue necrosis affecting the Atlantic invasive coral Tubastraea tagusensis. Sci Rep 2021; 11:9828. [PMID: 33972618 PMCID: PMC8110780 DOI: 10.1038/s41598-021-89296-z] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/11/2021] [Accepted: 04/22/2021] [Indexed: 02/03/2023] Open
Abstract
The Southwestern Atlantic rocky reef ecosystems are undergoing significant changes due to sun-corals (Tubastraea tagusensis and T. coccinea) invasion. At Búzios Island, on the northern coast of São Paulo State, where the abundance of T. tagusensis is particularly high, some colonies are displaying tissue necrosis, a phenomenon never reported for this invasive nor any other azooxanthellate coral species. Using next-generation sequencing, we sought to understand the relationship between T. tagusensis tissue necrosis and its microbiota. Thus, through amplicon sequencing, we studied both healthy and diseased coral colonies. Results indicate a wide variety of bacteria associated with healthy colonies and an even higher diversity associated with those corals presenting tissue necrosis, which displayed nearly 25% more microorganisms. Also, as the microbial community associated with the seven healthy colonies did not alter composition significantly, it was possible to verify the microbial succession during different stages of tissue necrosis (i.e., initial, intermediate, and advanced). Comparing the microbiome from healthy corals to those in early tissue necrosis suggests 21 potential pathogens, which might act as the promoters of such disease.
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10
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Vega Thurber R, Mydlarz LD, Brandt M, Harvell D, Weil E, Raymundo L, Willis BL, Langevin S, Tracy AM, Littman R, Kemp KM, Dawkins P, Prager KC, Garren M, Lamb J. Deciphering Coral Disease Dynamics: Integrating Host, Microbiome, and the Changing Environment. Front Ecol Evol 2020. [DOI: 10.3389/fevo.2020.575927] [Citation(s) in RCA: 23] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023] Open
Abstract
Diseases of tropical reef organisms is an intensive area of study, but despite significant advances in methodology and the global knowledge base, identifying the proximate causes of disease outbreaks remains difficult. The dynamics of infectious wildlife diseases are known to be influenced by shifting interactions among the host, pathogen, and other members of the microbiome, and a collective body of work clearly demonstrates that this is also the case for the main foundation species on reefs, corals. Yet, among wildlife, outbreaks of coral diseases stand out as being driven largely by a changing environment. These outbreaks contributed not only to significant losses of coral species but also to whole ecosystem regime shifts. Here we suggest that to better decipher the disease dynamics of corals, we must integrate more holistic and modern paradigms that consider multiple and variable interactions among the three major players in epizootics: the host, its associated microbiome, and the environment. In this perspective, we discuss how expanding the pathogen component of the classic host-pathogen-environment disease triad to incorporate shifts in the microbiome leading to dysbiosis provides a better model for understanding coral disease dynamics. We outline and discuss issues arising when evaluating each component of this trio and make suggestions for bridging gaps between them. We further suggest that to best tackle these challenges, researchers must adjust standard paradigms, like the classic one pathogen-one disease model, that, to date, have been ineffectual at uncovering many of the emergent properties of coral reef disease dynamics. Lastly, we make recommendations for ways forward in the fields of marine disease ecology and the future of coral reef conservation and restoration given these observations.
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11
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Miller N, Maneval P, Manfrino C, Frazer TK, Meyer JL. Spatial distribution of microbial communities among colonies and genotypes in nursery-reared Acropora cervicornis. PeerJ 2020; 8:e9635. [PMID: 32913671 PMCID: PMC7456258 DOI: 10.7717/peerj.9635] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/05/2020] [Accepted: 07/09/2020] [Indexed: 12/13/2022] Open
Abstract
Background The architecturally important coral species Acropora cervicornis and A. palmata were historically common in the Caribbean, but have declined precipitously since the early 1980s. Substantial resources are currently being dedicated to coral gardening and the subsequent outplanting of asexually reproduced colonies of Acropora, activities that provide abundant biomass for both restoration efforts and for experimental studies to better understand the ecology of these critically endangered coral species. Methods We characterized the bacterial and archaeal community composition of A. cervicornis corals in a Caribbean nursery to determine the heterogeneity of the microbiome within and among colonies. Samples were taken from three distinct locations (basal branch, intermediate branch, and branch tip) from colonies of three different coral genotypes. Results Overall, microbial community composition was similar among colonies due to high relative abundances of the Rickettsiales genus MD3-55 (Candidatus Aquarickettsia) in nearly all samples. While microbial communities were not different among locations within the same colony, they were significantly different between coral genotypes. These findings suggest that sampling from any one location on a coral host is likely to provide a representative sample of the microbial community for the entire colony. Our results also suggest that subtle differences in microbiome composition may be influenced by the coral host, where different coral genotypes host slightly different microbiomes. Finally, this study provides baseline data for future studies seeking to understand the microbiome of nursery-reared A. cervicornis and its roles in coral health, adaptability, and resilience.
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Affiliation(s)
- Nicole Miller
- School of Natural Resources and Environment, University of Florida, Gainesville, FL, United States of America
| | - Paul Maneval
- School of Natural Resources and Environment, University of Florida, Gainesville, FL, United States of America.,Little Cayman Research Center, Central Caribbean Marine Institute, Little Cayman, Cayman Islands
| | - Carrie Manfrino
- Little Cayman Research Center, Central Caribbean Marine Institute, Little Cayman, Cayman Islands
| | - Thomas K Frazer
- School of Natural Resources and Environment, University of Florida, Gainesville, FL, United States of America
| | - Julie L Meyer
- Soil and Water Sciences Department, Genetics Institute, University of Florida, Gainesville, FL, United States of America
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12
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Zanotti AA, Gregoracci GB, Capel KCC, Kitahara MV. Microbiome of the Southwestern Atlantic invasive scleractinian coral, Tubastraea tagusensis. Anim Microbiome 2020; 2:29. [PMID: 33499978 PMCID: PMC7807860 DOI: 10.1186/s42523-020-00047-3] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/06/2020] [Accepted: 07/31/2020] [Indexed: 11/29/2022] Open
Abstract
Background Commonly known as sun-coral, Tubastraea tagusensis is an azooxanthellate scleractinian coral that successfully invaded the Southwestern Atlantic causing significant seascape changes. Today it is reported to over 3500 km along the Brazilian coast, with several rocky shores displaying high substrate coverage. Apart from its singular invasiveness capacity, the documentation and, therefore, understanding of the role of symbiotic microorganisms in the sun-coral invasion is still scarce. However, in general, the broad and constant relationship between corals and microorganisms led to the development of co-evolution hypotheses. As such, it has been shown that the microbial community responds to environmental factors, adjustment of the holobiont, adapting its microbiome, and improving the hosts’ fitness in a short space of time. Here we describe the microbial community (i.e. Bacteria) associated with sun-coral larvae and adult colonies from a locality displaying a high invasion development. Results The usage of high throughput sequencing indicates a great diversity of Bacteria associated with T. tagusensis, with Cyanobacteria, Proteobacteria, Bacteroidetes, Actinobacteria, Planctomycetes, and Firmicutes corresponding to the majority of the microbiome in all samples. However, T. tagusensis’ microbial core consists of only eight genera for colonies, and, within them, three are also present in the sequenced larvae. Overall, the microbiome from colonies sampled at different depths did not show significant differences. The microbiome of the larvae suggests a partial vertical transfer of the microbial core in this species. Conclusion Although diverse, the microbiome core of adult Tubastraea tagusensis is composed of only eight genera, of which three are transferred from the mother colony to their larvae. The remaining bacteria genera are acquired from the seawater, indicating that they might play a role in the host fitness and, therefore, facilitate the sun-coral invasion in the Southwestern Atlantic.
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Affiliation(s)
- Aline Aparecida Zanotti
- Programa de Pós Graduação em Sistemas Costeiros e Oceânicos (PGSISCO), Universidade Federal do Paraná (UFPR), Pontal do Paraná, Brazil. .,Centro de Biologia Marinha (CEBIMar), Universidade de São Paulo (USP), São Sebastião, Brazil.
| | - Gustavo Bueno Gregoracci
- Departamento de Ciências do Mar (DCMar), Universidade Federal de São Paulo (UNIFESP), Santos, Brazil
| | | | - Marcelo Visentini Kitahara
- Programa de Pós Graduação em Sistemas Costeiros e Oceânicos (PGSISCO), Universidade Federal do Paraná (UFPR), Pontal do Paraná, Brazil.,Centro de Biologia Marinha (CEBIMar), Universidade de São Paulo (USP), São Sebastião, Brazil.,Departamento de Ciências do Mar (DCMar), Universidade Federal de São Paulo (UNIFESP), Santos, Brazil
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13
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Sharma D, Ravindran C. Diseases and pathogens of marine invertebrate corals in Indian reefs. J Invertebr Pathol 2020; 173:107373. [PMID: 32272136 DOI: 10.1016/j.jip.2020.107373] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2019] [Revised: 03/28/2020] [Accepted: 03/30/2020] [Indexed: 11/16/2022]
Abstract
Diseases in marine invertebrate corals have been reported worldwide and have been associated with infection by various microbial pathogens that cause massive mortality. Several bacterial species, especially Vibrio species but also members of the cyanobacteria, fungi, viruses, and protists, are described as important pathogens associated with coral disease and mortality. The present work provides an updated overview of main diseases and implicated microbial species affecting corals in Indian reefs. Further study on pathogen diversity, classification, spread and environmental factors on pathogen-host interactions may contribute a better understanding of the coral diseases.
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Affiliation(s)
- Diksha Sharma
- Biological Oceanography Division, CSIR - National Institute of Oceanography, Dona Paula, 403004 Goa, India
| | - Chinnarajan Ravindran
- Biological Oceanography Division, CSIR - National Institute of Oceanography, Dona Paula, 403004 Goa, India.
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14
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Hewson I. Technical pitfalls that bias comparative microbial community analyses of aquatic disease Ian Hewson. DISEASES OF AQUATIC ORGANISMS 2019; 137:109-124. [PMID: 31854329 DOI: 10.3354/dao03432] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
The accessibility of high-throughput DNA sequencing technologies has attracted the application of comparative microbial analyses to study diseases. These studies present a window into host microbiome diversity and composition that can be used to address ecological theory in the context of host biology and behavior. Recently, comparative microbiome studies have been used to study non-vertebrate aquatic diseases to elucidate microorganisms potentially involved in disease processes or in disease prevention. These investigations suffer from many well-described biases, especially prior to sequence analyses, that could lead to misleading conclusions. Microbiome-focused studies of aquatic metazoan diseases provide valuable documentation of microbial ecology, although, they are only a starting point for establishing disease etiology, which demands quantitative validation through targeted approaches. The microbiome approach to understanding disease is most useful after laboratory diagnostics guided by pathology have failed to identify a causative agent. This opinion piece presents several technical pitfalls which may affect wider interpretation of microbe-host interactions through comparative microbial community analyses and provides recommendations, based on studies in non-aquatic systems, for incorporation into future aquatic disease research.
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Affiliation(s)
- Ian Hewson
- Department of Microbiology, Cornell University, Ithaca, NY 14853, USA
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15
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Quinlan ZA, Ritson-Williams R, Carroll BJ, Carlson CA, Nelson CE. Species-Specific Differences in the Microbiomes and Organic Exudates of Crustose Coralline Algae Influence Bacterioplankton Communities. Front Microbiol 2019; 10:2397. [PMID: 31781048 PMCID: PMC6857149 DOI: 10.3389/fmicb.2019.02397] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/14/2019] [Accepted: 10/03/2019] [Indexed: 12/25/2022] Open
Abstract
Crustose coralline algae (CCA) are critical members of the coral reef ecosystem, yet they remain poorly studied. Recent research on CCA has shown that only a few species play a significant role in the settlement of coral larvae through either the production of chemical settlement cues or the facilitation of specific microbial communities that are hypothesized to influence coral settlement. Thus, defining how DOM exudates differ between CCA species and the bacterioplankton communities these exudates facilitate is important for understanding the role of CCA in invertebrate settlement. We conducted single day exudation experiments on two species of CCA to compare tissue microbiome community structure, DOM production and the effect of DOM on the bacterioplankton community. We collected exudates from Hydrolithon reinboldii and Porolithon onkodes in both filter-sterilized seawater and unfiltered seawater from Kāne'ohe Bay, Hawai'i. Our results demonstrate that while both species exude equivalent quantities of dissolved organic carbon they differ in the composition of fluorescent DOM and fostered distinct microbial communities. P. onkodes exudates facilitate more microbial OTUs associated with coral disease, whereas H. reinboldii facilitated OTUs known to produce antimicrobial compounds. Our results highlight species-specific differences in the composition of fDOM exudates of CCA and the effect of those on microbial community structure.
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Affiliation(s)
- Zachary A Quinlan
- Department of Oceanography, Daniel K. Inouye Center for Microbial Oceanography: Research and Education, University of Hawai'i at Mānoa, Honolulu, HI, United States.,Department of Biology, San Diego State University, San Diego, CA, United States
| | - Raphael Ritson-Williams
- Hawai'i Institute of Marine Biology, University of Hawai'i at Mānoa, Honolulu, HI, United States
| | - Brenna J Carroll
- Department of Oceanography, Daniel K. Inouye Center for Microbial Oceanography: Research and Education, University of Hawai'i at Mānoa, Honolulu, HI, United States
| | - Craig A Carlson
- Department of Ecology, Evolution and Marine Biology, University of California, Santa Barbara, Santa Barbara, CA, United States
| | - Craig E Nelson
- Department of Oceanography, Daniel K. Inouye Center for Microbial Oceanography: Research and Education, University of Hawai'i at Mānoa, Honolulu, HI, United States.,Sea Grant College Program, University of Hawai'i at Mānoa, Honolulu, HI, United States
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16
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Pootakham W, Mhuantong W, Yoocha T, Putchim L, Jomchai N, Sonthirod C, Naktang C, Kongkachana W, Tangphatsornruang S. Heat-induced shift in coral microbiome reveals several members of the Rhodobacteraceae family as indicator species for thermal stress in Porites lutea. Microbiologyopen 2019; 8:e935. [PMID: 31544365 PMCID: PMC6925168 DOI: 10.1002/mbo3.935] [Citation(s) in RCA: 40] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/30/2019] [Revised: 08/25/2019] [Accepted: 08/28/2019] [Indexed: 02/01/2023] Open
Abstract
The coral holobiont is a complex ecosystem consisting of coral animals and a highly diverse consortium of associated microorganisms including algae, fungi, and bacteria. Several studies have highlighted the importance of coral‐associated bacteria and their potential roles in promoting the host fitness and survival. Recently, dynamics of coral‐associated microbiomes have been demonstrated to be linked to patterns of coral heat tolerance. Here, we examined the effect of elevated seawater temperature on the structure and diversity of bacterial populations associated with Porites lutea, using full‐length 16S rRNA sequences obtained from Pacific Biosciences circular consensus sequencing. We observed a significant increase in alpha diversity indices and a distinct shift in microbiome composition during thermal stress. There was a marked decline in the apparent relative abundance of Gammaproteobacteria family Endozoicomonadaceae after P. lutea had been exposed to elevated seawater temperature. Concomitantly, the bacterial community structure shifted toward the predominance of Alphaproteobacteria family Rhodobacteraceae. Interestingly, we did not observe an increase in relative abundance of Vibrio‐related sequences in our heat‐stressed samples even though the appearance of Vibrio spp. has often been detected in parallel with the increase in the relative abundance of Rhodobacteraceae during thermal bleaching in other coral species. The ability of full‐length 16S rRNA sequences in resolving taxonomic uncertainty of associated bacteria at a species level enabled us to identify 24 robust indicator bacterial species for thermally stressed corals. It is worth noting that the majority of those indicator species were members of the family Rhodobacteraceae. The comparison of bacterial community structure and diversity between corals in ambient water temperature and thermally stressed corals may provide a better understanding on how bacteria symbionts contribute to the resilience of their coral hosts to ocean warming.
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Affiliation(s)
- Wirulda Pootakham
- National Omics Center, National Center for Genetic Engineering and Biotechnology (BIOTEC), National Science and Technology Development Agency (NSTDA), Pathum Thani, Thailand
| | - Wuttichai Mhuantong
- Enzyme Technology Research Team, Biorefinery and Bioproduct Technology Research Group, National Center for Genetic Engineering and Biotechnology (BIOTEC), National Science and Technology Development Agency (NSTDA), Pathum Thani, Thailand
| | - Thippawan Yoocha
- National Omics Center, National Center for Genetic Engineering and Biotechnology (BIOTEC), National Science and Technology Development Agency (NSTDA), Pathum Thani, Thailand
| | | | - Nukoon Jomchai
- National Omics Center, National Center for Genetic Engineering and Biotechnology (BIOTEC), National Science and Technology Development Agency (NSTDA), Pathum Thani, Thailand
| | - Chutima Sonthirod
- National Omics Center, National Center for Genetic Engineering and Biotechnology (BIOTEC), National Science and Technology Development Agency (NSTDA), Pathum Thani, Thailand
| | - Chaiwat Naktang
- National Omics Center, National Center for Genetic Engineering and Biotechnology (BIOTEC), National Science and Technology Development Agency (NSTDA), Pathum Thani, Thailand
| | - Wasitthee Kongkachana
- National Omics Center, National Center for Genetic Engineering and Biotechnology (BIOTEC), National Science and Technology Development Agency (NSTDA), Pathum Thani, Thailand
| | - Sithichoke Tangphatsornruang
- National Omics Center, National Center for Genetic Engineering and Biotechnology (BIOTEC), National Science and Technology Development Agency (NSTDA), Pathum Thani, Thailand
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17
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Quéré G, Intertaglia L, Payri C, Galand PE. Disease Specific Bacterial Communities in a Coralline Algae of the Northwestern Mediterranean Sea: A Combined Culture Dependent and -Independent Approach. Front Microbiol 2019; 10:1850. [PMID: 31555220 PMCID: PMC6722220 DOI: 10.3389/fmicb.2019.01850] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2019] [Accepted: 07/26/2019] [Indexed: 12/02/2022] Open
Abstract
Crustose coralline red algae (CCA) are important components of marine ecosystems thriving from tropical waters and up to the poles. They fulfill important ecological services including framework building and induction of larval settlement. Like other marine organisms, CCAs have not been spared by the increase in marine disease outbreaks. The white-band syndrome has been recently observed in corallines from the Mediterranean Sea indicating that the disease threat has extended from tropical to temperate waters. Here, we examined the microbiome and the pathobiome of healthy and diseased Neogoniolithon brassica-florida coralline algae in the Mediterranean Sea by combining culture-dependent and -independent approaches. The coralline white-band syndrome was associated with a distinct pathobiome compared to healthy tissues and showed similarities with the white-band syndrome described in the Caribbean Sea. A sequence related to the genus Hoeflea, order Rhizobiales, characterized the white-band disease pathobiome described by amplicon sequencing. No representative of this genus was isolated by culture. We, however, successfully isolated an abundant member of the healthy CCA microbiome, an Alphaproteobateria of the family Rhodobacteraceae. In conclusion, we did not identify a potential causative agent of the disease, but through the complementarity of culture dependent and independent approaches we characterized the healthy microbiome of the coralline and the possible opportunistic bacteria colonizing diseased tissues.
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Affiliation(s)
- Gaëlle Quéré
- Sorbonne Université, CNRS, Laboratoire d'Ecogéochimie des Environnements Benthiques (LECOB), Observatoire Océanologique de Banyuls, Banyuls-sur-Mer, France.,UMR 9220 ENTROPIE, 'Ecologie Marine Tropicale des Océans Pacifique et Indien', IRD, CNRS, Université de La Réunion, Noumea, New Caledonia
| | - Laurent Intertaglia
- Plateforme Bio2Mar, CNRS, Observatoire Océanologique de Banyuls, Sorbonne Université, Banyuls-sur-Mer, France
| | - Claude Payri
- UMR 9220 ENTROPIE, 'Ecologie Marine Tropicale des Océans Pacifique et Indien', IRD, CNRS, Université de La Réunion, Noumea, New Caledonia
| | - Pierre E Galand
- Sorbonne Université, CNRS, Laboratoire d'Ecogéochimie des Environnements Benthiques (LECOB), Observatoire Océanologique de Banyuls, Banyuls-sur-Mer, France
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18
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Schleyer MH, Floros C, Laing SCS, Macdonald AHH, Montoya-Maya PH, Morris T, Porter SN, Seré MG. What can South African reefs tell us about the future of high-latitude coral systems? MARINE POLLUTION BULLETIN 2018; 136:491-507. [PMID: 30509834 DOI: 10.1016/j.marpolbul.2018.09.014] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/09/2018] [Revised: 09/05/2018] [Accepted: 09/09/2018] [Indexed: 06/09/2023]
Abstract
Coral communities are found at high latitude on the East Coast subtropical reefs of South Africa. They are biodiverse, economically important, and afforded World Heritage Site status in the iSimangaliso Wetland Park where some are subjected to recreational use. While the Park's unique coral reefs have, to date, suffered little bleaching from climate change, they are susceptible to the phenomenon and provide a natural laboratory for the study of its effects at high latitude. This review covers recent advances in the regional oceanography; coral community dynamics and the underpinning reef processes, including minor bleaching events; the incidence of coral disease; and coral genetic connectivity. The effects of human activity (SCUBA diving, recreational fishing, pesticide use) were assessed, as well as the nursery benefits of Acropora austera, a coral which provides the reefs with much structure and is vulnerable to damage and climate change. The reefs were valued in terms of human use as well as services such as sediment generation and retention. The results have provided valuable information on relatively pristine, high-latitude reefs, their socio-economic benefits, and the anticipated effects of climate change.
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Affiliation(s)
- Michael H Schleyer
- Oceanographic Research Institute, PO Box 10712, Marine Parade, 4056 Durban, South Africa.
| | - Camilla Floros
- Oceanographic Research Institute, PO Box 10712, Marine Parade, 4056 Durban, South Africa
| | - Stuart C S Laing
- Oceanographic Research Institute, PO Box 10712, Marine Parade, 4056 Durban, South Africa
| | - Angus H H Macdonald
- Oceanographic Research Institute, PO Box 10712, Marine Parade, 4056 Durban, South Africa
| | - Phanor H Montoya-Maya
- Oceanographic Research Institute, PO Box 10712, Marine Parade, 4056 Durban, South Africa
| | - Tamaryn Morris
- Oceanographic Research Institute, PO Box 10712, Marine Parade, 4056 Durban, South Africa; Bayworld Centre for Research and Education, PO Box 7296, Rogge Bay 8012, South Africa
| | - Sean N Porter
- Oceanographic Research Institute, PO Box 10712, Marine Parade, 4056 Durban, South Africa
| | - Mathieu G Seré
- Oceanographic Research Institute, PO Box 10712, Marine Parade, 4056 Durban, South Africa
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Zhang B, Lv Z, Li Z, Wang W, Li G, Guo Y. Dietary l-arginine Supplementation Alleviates the Intestinal Injury and Modulates the Gut Microbiota in Broiler Chickens Challenged by Clostridium perfringens. Front Microbiol 2018; 9:1716. [PMID: 30108569 PMCID: PMC6080643 DOI: 10.3389/fmicb.2018.01716] [Citation(s) in RCA: 66] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/08/2018] [Accepted: 07/10/2018] [Indexed: 12/19/2022] Open
Abstract
Our previous reports suggested that Dietary l-arginine supplementation attenuated gut injury of broiler chickens infected with Clostridium perfringens by enhancing intestinal immune responses, absorption and barrier function, but its effect on the gut microbiome of broiler chickens remains unclear. This experiment aimed at evaluating the effects of Dietary l-arginine supplementation on the gut bacterial community composition and function of broiler chickens challenged with C. perfringens. In total, 105 1-day-old male Arbor Acres broiler chickens were assigned to three groups: Control (CTL), C. perfringens-challenged (CP), and C. perfringens-challenged and fed diet supplemented with 0.3% l-arginine (ARGCP) groups. The challenge led to macroscopic and histomorphological gut lesions, decreased villus height and increased the number of Observed species, Shannon, Chao1 and ACE indices of ileal microbiota, whereas l-arginine addition reversed these changes. Moreover, the three treatments harbored distinct microbial communities (ANOSIM, P < 0.05). At the genus level, 24 taxa (e.g., Nitrosomonas spp., Coxiella spp., Ruegeria spp., and Thauera spp.) were significantly more abundant in CP group than in CTL group (P < 0.05), whereas the levels of 23 genera of them were significantly decreased by l-arginine supplementation (P < 0.05). The abundances of only 3 genera were different between CTL and ARGCP groups (P < 0.05). At the species level, the challenge promoted the relative abundance of Nitrospira sp. enrichment culture clone M1-9, Bradyrhizobium elkanii, Nitrospira bacterium SG8-3, and Pseudomonas veronii, which was reversed by l-arginine supplementation (P < 0.05). Furthermore, the challenge decreased the levels of Lactobacillus gasseri (P < 0.05). Predictive functional profiling of microbial communities by PICRUSt showed that compared with CP group, ARGCP group had enriched pathways relating to membrane transport, replication and repair, translation and nucleotide metabolism and suppressed functions corresponding to amino acid and lipid metabolisms (P < 0.05). The relative abundances of KEGG pathways in l-arginine-fed broilers were almost equal to those of the controls. In conclusion, l-arginine alleviated the gut injury and normalized the ileal microbiota of C. perfringens-challenged chickens to resemble that of unchallenged controls in terms of microbial composition and functionality.
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Affiliation(s)
- Beibei Zhang
- State Key Laboratory of Animal Nutrition, College of Animal Science and Technology, China Agricultural University, Beijing, China
| | - Zengpeng Lv
- State Key Laboratory of Animal Nutrition, College of Animal Science and Technology, China Agricultural University, Beijing, China
| | - Zhui Li
- State Key Laboratory of Animal Nutrition, College of Animal Science and Technology, China Agricultural University, Beijing, China
| | - Weiwei Wang
- State Key Laboratory of Animal Nutrition, College of Animal Science and Technology, China Agricultural University, Beijing, China
| | - Guang Li
- State Key Laboratory of Animal Nutrition, College of Animal Science and Technology, China Agricultural University, Beijing, China
| | - Yuming Guo
- State Key Laboratory of Animal Nutrition, College of Animal Science and Technology, China Agricultural University, Beijing, China
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Hadaidi G, Ziegler M, Shore-Maggio A, Jensen T, Aeby G, Voolstra CR. Ecological and molecular characterization of a coral black band disease outbreak in the Red Sea during a bleaching event. PeerJ 2018; 6:e5169. [PMID: 30013839 PMCID: PMC6046197 DOI: 10.7717/peerj.5169] [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: 03/27/2018] [Accepted: 06/16/2018] [Indexed: 11/20/2022] Open
Abstract
Black Band Disease (BBD) is a widely distributed and destructive coral disease that has been studied on a global scale, but baseline data on coral diseases is missing from many areas of the Arabian Seas. Here we report on the broad distribution and prevalence of BBD in the Red Sea in addition to documenting a bleaching-associated outbreak of BBD with subsequent microbial community characterization of BBD microbial mats at this reef site in the southern central Red Sea. Coral colonies with BBD were found at roughly a third of our 22 survey sites with an overall prevalence of 0.04%. Nine coral genera were infected including Astreopora, Coelastrea, Dipsastraea, Gardineroseris, Goniopora, Montipora, Pavona, Platygyra, and Psammocora. For a southern central Red Sea outbreak site, overall prevalence was 40 times higher than baseline (1.7%). Differential susceptibility to BBD was apparent among coral genera with Dipsastraea (prevalence 6.1%), having more diseased colonies than was expected based on its abundance within transects. Analysis of the microbial community associated with the BBD mat showed that it is dominated by a consortium of cyanobacteria and heterotrophic bacteria. We detected the three main indicators for BBD (filamentous cyanobacteria, sulfate-reducing bacteria (SRB), and sulfide-oxidizing bacteria (SOB)), with high similarity to BBD-associated microbes found worldwide. More specifically, the microbial consortium of BBD-diseased coral colonies in the Red Sea consisted of Oscillatoria sp. (cyanobacteria), Desulfovibrio sp. (SRB), and Arcobacter sp. (SOB). Given the similarity of associated bacteria worldwide, our data suggest that BBD represents a global coral disease with predictable etiology. Furthermore, we provide a baseline assessment of BBD disease prevalence in the Red Sea, a still understudied region.
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Affiliation(s)
- Ghaida Hadaidi
- Red Sea Research Center, Division of Biological and Environmental Science and Engineering (BESE), King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia
| | - Maren Ziegler
- Red Sea Research Center, Division of Biological and Environmental Science and Engineering (BESE), King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia
| | - Amanda Shore-Maggio
- Institute of Marine and Environmental Technology (IMET), University of Maryland, Baltimore County, Baltimore, MD, United States of America
| | - Thor Jensen
- Red Sea Research Center, Division of Biological and Environmental Science and Engineering (BESE), King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia
| | - Greta Aeby
- Hawai'i Institute of Marine Biology, Kāne'ohe, HI, United States of America
| | - Christian R Voolstra
- Red Sea Research Center, Division of Biological and Environmental Science and Engineering (BESE), King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia
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21
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Shiu JH, Ding JY, Tseng CH, Lou SP, Mezaki T, Wu YT, Wang HI, Tang SL. A Newly Designed Primer Revealed High Phylogenetic Diversity of Endozoicomonas in Coral Reefs. Microbes Environ 2018; 33:172-185. [PMID: 29760298 PMCID: PMC6031392 DOI: 10.1264/jsme2.me18054] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2017] [Accepted: 04/08/2018] [Indexed: 11/29/2022] Open
Abstract
Endozoicomonas bacteria are commonly regarded as having a potentially symbiotic relationship with their coral hosts. However, their diversity and phylogeny in samples collected from various sources remain unclear. Therefore, we designed an Endozoicomonas-specific primer paired with a bacterial universal primer to detect the 16S ribosomal RNA (rRNA) genes of this taxon and conducted an in-depth investigation of the Endozoicomonas community structure in reef-building corals. The primer had high specificity in the V3-V4 region (95.6%) and its sensitivity was high, particularly when Endozoicomonas was rare in samples (e.g., in seawater, which had a higher alpha diversity of Endozoicomonas than corals). In coral samples, predominant V3-V4 ribotypes had greater divergence than predominant V1-V2 ribotypes, and were grouped into at least 9 novel clades in a phylogenetic tree, indicating Endozoicomonas had high phylogenetic diversity. Divergence within this genus was potentially higher than that among 7 outgroup genera based on the phylogenetic distances of partial 16S rDNA sequences, suggesting that the taxonomy of this genus needs to be revised. In conclusion, dominant Endozoicomonas populations had variable phylogenies; furthermore, the newly designed primers may be useful molecular tools for the reliable detection of the Endozoicomonas community in marine environments.
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Affiliation(s)
- Jia-Ho Shiu
- Molecular and Biological Agricultural Sciences Program, Taiwan International Graduate Program, Academia SinicaTaipeiTaiwan
- Biodiversity Research Center, Academia SinicaTaipeiTaiwan
- Graduate Institute of Biotechnology, National Chung-Hsing UniversityTaichungTaiwan
| | - Jiun-Yan Ding
- Biodiversity Research Center, Academia SinicaTaipeiTaiwan
| | - Ching-Hung Tseng
- Biodiversity Research Center, Academia SinicaTaipeiTaiwan
- Bioinformatics Program, Taiwan International Graduate Program, Academia SinicaTaipeiTaiwan
- Institute of Biomedical Informatics, National Yang-Ming UniversityTaipeiTaiwan
| | - Shueh-Ping Lou
- Biodiversity Research Center, Academia SinicaTaipeiTaiwan
| | - Takuma Mezaki
- Biological Institute on Kuroshio, Kuroshio Biological Research FoundationKochiJapan
| | - Yu-Ting Wu
- Biodiversity Research Center, Academia SinicaTaipeiTaiwan
- Department of Forestry, National Pingtung University of Science and TechnologyPingtungTaiwan
| | - Hsiang-Iu Wang
- Biodiversity Research Center, Academia SinicaTaipeiTaiwan
| | - Sen-Lin Tang
- Molecular and Biological Agricultural Sciences Program, Taiwan International Graduate Program, Academia SinicaTaipeiTaiwan
- Biodiversity Research Center, Academia SinicaTaipeiTaiwan
- Biotechnology Center, National Chung-Hsing UniversityTaichungTaiwan
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22
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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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23
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Menezes FGR, Barbosa WE, Vasconcelos LS, Rocha RS, Maggioni R, Sousa OV, Hofer E, Vieira RHSF. Genotypic assessment of a dichotomous key to identify Vibrio coralliilyticus, a coral pathogen. DISEASES OF AQUATIC ORGANISMS 2018; 128:87-92. [PMID: 29565257 DOI: 10.3354/dao03209] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
Vibrio coralliilyticus is a known pathogen to corals and larvae of bivalves. Its identification is made based on phenotypic and genotypic characters of isolated strains. To evaluate the efficiency of the phenotypic identification, 21 strains identified as V. coralliilyticus using a widely used dichotomous key were analyzed by qualitative PCR and sequencing of the 16S rDNA region. The results obtained by the behavioral test, amino acids usage, allow us to distinguish 3 A/L/O profiles: (1) A+/L-/O+; (2) A+/L+/O+; and (3) A-/L+/O+. In the genotypic tests, all strains tested positive with primers specific for the Vibrio genus. However, when primers were used for species identification, the results did not match those obtained with the dichotomous key chosen. The phenotypic characteristics taken into account to set apart V. coralliilyticus and other species were not proven to be efficient. More information about the morphological diversity of colonies and enzymatic activities should be considered in the formulation of phenotypic keys for V. coralliilyticus and related species.
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24
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Rubio-Portillo E, Kersting DK, Linares C, Ramos-Esplá AA, Antón J. Biogeographic Differences in the Microbiome and Pathobiome of the Coral Cladocora caespitosa in the Western Mediterranean Sea. Front Microbiol 2018; 9:22. [PMID: 29410656 PMCID: PMC5787083 DOI: 10.3389/fmicb.2018.00022] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2017] [Accepted: 01/05/2018] [Indexed: 12/21/2022] Open
Abstract
The endemic Mediterranean zooxanthellate scleractinian reef-builder Cladocora caespitosa is among the organisms most affected by warming-related mass mortality events in the Mediterranean Sea. Corals are known to contain a diverse microbiota that plays a key role in their physiology and health. Here we report the first study that examines the microbiome and pathobiome associated with C. caespitosa in three different Mediterranean locations (i.e., Genova, Columbretes Islands, and Tabarca Island). The microbial communities associated with this species showed biogeographical differences, but shared a common core microbiome that probably plays a key role in the coral holobiont. The putatively pathogenic microbial assemblage (i.e., pathobiome) of C. caespitosa also seemed to depend on geographic location and the human footprint. In locations near the coast and with higher human influence, the pathobiome was entirely constituted by Vibrio species, including the well-known coral pathogens Vibrio coralliilyticus and V. mediterranei. However, in the Columbretes Islands, located off the coast and the most pristine of the analyzed locations, no changes among microbial communities associated to healthy and necrosed samples were detected. Hence, our results provide new insights into the microbiome of the temperate corals and its role in coral health status, highlighting its dependence on the local environmental conditions and the human footprint.
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Affiliation(s)
- Esther Rubio-Portillo
- Department of Physiology, Genetics and Microbiology, University of Alicante, Alicante, Spain
| | - Diego K Kersting
- Working Group on Geobiology and Anthropocene Research, Institute of Geological Sciences, Freie Universität Berlin, Berlin, Germany.,Departament de Biologia Evolutiva, Ecologia i Ciències Ambientals, Institut de Recerca de la Biodiversitat (IRBio), Universitat de Barcelona, Barcelona, Spain
| | - Cristina Linares
- Departament de Biologia Evolutiva, Ecologia i Ciències Ambientals, Institut de Recerca de la Biodiversitat (IRBio), Universitat de Barcelona, Barcelona, Spain
| | | | - Josefa Antón
- Department of Physiology, Genetics and Microbiology, University of Alicante, Alicante, Spain
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25
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Pootakham W, Mhuantong W, Yoocha T, Putchim L, Sonthirod C, Naktang C, Thongtham N, Tangphatsornruang S. High resolution profiling of coral-associated bacterial communities using full-length 16S rRNA sequence data from PacBio SMRT sequencing system. Sci Rep 2017; 7:2774. [PMID: 28584301 PMCID: PMC5459821 DOI: 10.1038/s41598-017-03139-4] [Citation(s) in RCA: 72] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2017] [Accepted: 04/24/2017] [Indexed: 02/01/2023] Open
Abstract
Coral reefs are a complex ecosystem consisting of coral animals and a vast array of associated symbionts including the dinoflagellate Symbiodinium, fungi, viruses and bacteria. Several studies have highlighted the importance of coral-associated bacteria and their fundamental roles in fitness and survival of the host animal. The scleractinian coral Porites lutea is one of the dominant reef-builders in the Indo-West Pacific. Currently, very little is known about the composition and structure of bacterial communities across P. lutea reefs. The purpose of this study is twofold: to demonstrate the advantages of using PacBio circular consensus sequencing technology in microbial community studies and to investigate the diversity and structure of P. lutea-associated microbiome in the Indo-Pacific. This is the first metagenomic study of marine environmental samples that utilises the PacBio sequencing system to capture full-length 16S rRNA sequences. We observed geographically distinct coral-associated microbial profiles between samples from the Gulf of Thailand and Andaman Sea. Despite the geographical and environmental impacts on the coral-host interactions, we identified a conserved community of bacteria that were present consistently across diverse reef habitats. Finally, we demonstrated the superior performance of full-length 16S rRNA sequences in resolving taxonomic uncertainty of coral associates at the species level.
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Affiliation(s)
- Wirulda Pootakham
- National Center for Genetic Engineering and Biotechnology (BIOTEC), National Science and Technology Development Agency, Pathum Thani, Thailand.
| | - Wuttichai Mhuantong
- National Center for Genetic Engineering and Biotechnology (BIOTEC), National Science and Technology Development Agency, Pathum Thani, Thailand
| | - Thippawan Yoocha
- National Center for Genetic Engineering and Biotechnology (BIOTEC), National Science and Technology Development Agency, Pathum Thani, Thailand
| | - Lalita Putchim
- Phuket Marine Biological Center, Phuket, 83000, Thailand
| | - Chutima Sonthirod
- National Center for Genetic Engineering and Biotechnology (BIOTEC), National Science and Technology Development Agency, Pathum Thani, Thailand
| | - Chaiwat Naktang
- National Center for Genetic Engineering and Biotechnology (BIOTEC), National Science and Technology Development Agency, Pathum Thani, Thailand
| | | | - Sithichoke Tangphatsornruang
- National Center for Genetic Engineering and Biotechnology (BIOTEC), National Science and Technology Development Agency, Pathum Thani, Thailand
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26
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Sutherland KP, Berry B, Park A, Kemp DW, Kemp KM, Lipp EK, Porter JW. Shifting white pox aetiologies affecting Acropora palmata in the Florida Keys, 1994-2014. Philos Trans R Soc Lond B Biol Sci 2016; 371:rstb.2015.0205. [PMID: 26880837 DOI: 10.1098/rstb.2015.0205] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022] Open
Abstract
We propose 'the moving target hypothesis' to describe the aetiology of a contemporary coral disease that differs from that of its historical disease state. Hitting the target with coral disease aetiology is a complex pursuit that requires understanding of host and environment, and may lack a single pathogen solution. White pox disease (WPX) affects the Caribbean coral Acropora palmata. Acroporid serratiosis is a form of WPX for which the bacterial pathogen (Serratia marcescens) has been established. We used long-term (1994-2014) photographic monitoring to evaluate historical and contemporary epizootiology and aetiology of WPX affecting A. palmata at eight reefs in the Florida Keys. Ranges of WPX prevalence over time (0-71.4%) were comparable for the duration of the 20-year study. Whole colony mortality and disease severity were high in historical (1994-2004), and low in contemporary (2008-2014), outbreaks of WPX. Acroporid serratiosis was diagnosed for some historical (1999, 2003) and contemporary (2012, 2013) outbreaks, but this form of WPX was not confirmed for all WPX cases. Our results serve as a context for considering aetiology as a moving target for WPX and other coral diseases for which pathogens are established and/or candidate pathogens are identified. Coral aetiology investigations completed to date suggest that changes in pathogen, host and/or environment alter the disease state and complicate diagnosis.
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Affiliation(s)
| | - Brett Berry
- Odum School of Ecology, University of Georgia, Athens, GA 30602, USA
| | - Andrew Park
- Odum School of Ecology, University of Georgia, Athens, GA 30602, USA
| | - Dustin W Kemp
- Odum School of Ecology, University of Georgia, Athens, GA 30602, USA
| | - Keri M Kemp
- Odum School of Ecology, University of Georgia, Athens, GA 30602, USA Department of Environmental Health Science, University of Georgia, Athens, GA 30602, USA
| | - Erin K Lipp
- Department of Environmental Health Science, University of Georgia, Athens, GA 30602, USA
| | - James W Porter
- Odum School of Ecology, University of Georgia, Athens, GA 30602, USA
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Lin CH, Chuang CH, Twan WH, Chiou SF, Wong TY, Liu JK, Kao CY, Kuo J. Seasonal changes in bacterial communities associated with healthy and diseasedPoritescoral in southern Taiwan. Can J Microbiol 2016; 62:1021-1033. [DOI: 10.1139/cjm-2016-0100] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
We compared the bacterial communities associated with healthy scleractinian coral Porites sp. with those associated with coral infected with pink spot syndrome harvested during summer and winter from waters off the coast of southern Taiwan. Members of the bacterial community associated with the coral were characterized by means of denaturing gradient gel electrophoresis (DGGE) of a short region of the 16S rRNA gene and clone library analysis. Of 5 different areas of the 16S rRNA gene, we demonstrated that the V3 hypervariable region is most suited to represent the coral-associated bacterial community. The DNA sequences of 26 distinct bands extracted from DGGE gels and 269 sequences of the 16S rRNA gene from clone libraries were determined. We found that the communities present in diseased coral were more heterogeneous than the bacterial communities of uninfected coral. In addition, bacterial communities associated with coral harvested in the summer were more diverse than those associated with coral collected in winter, regardless of the health status of the coral. Our study suggested that the compositions of coral-associated bacteria communities are complex, and the population of bacteria varies greatly between seasons and in coral of differing health status.
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Affiliation(s)
- Chorng-Horng Lin
- Department of Bioresources, DaYeh University, Chang-Hua 51591, Taiwan
| | - Chih-Hsiang Chuang
- Graduate Institute of Marine Biology, National Dong Hwa University, Pingtung 94450, Taiwan
| | - Wen-Hung Twan
- Department of Planning and Research, National Museum of Marine Biology and Aquarium, Pingtung 94450, Taiwan
- Department of Life Sciences, National Taitung University, Taitung 95002, Taiwan
| | - Shu-Fen Chiou
- Department of Marine Biotechnology and Resources, National Sun Yat-sen University, Kaohsiung 80424, Taiwan
| | - Tit-Yee Wong
- Department of Biology, University of Memphis, Memphis, TN 38152, USA
| | - Jong-Kang Liu
- Department of Biological Sciences, National Sun Yat-sen University, Kaohsiung 80424, Taiwan
| | - Chyuan-yao Kao
- Graduate Institute of Marine Biology, National Dong Hwa University, Pingtung 94450, Taiwan
| | - Jimmy Kuo
- Graduate Institute of Marine Biology, National Dong Hwa University, Pingtung 94450, Taiwan
- Department of Planning and Research, National Museum of Marine Biology and Aquarium, Pingtung 94450, Taiwan
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Rodrigo-Torres L, Pujalte MJ, Arahal DR. Draft genome sequence of Shimia marina CECT 7688T. Mar Genomics 2016; 28:83-86. [DOI: 10.1016/j.margen.2016.01.006] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2015] [Revised: 01/27/2016] [Accepted: 01/27/2016] [Indexed: 11/26/2022]
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The Microbial Signature Provides Insight into the Mechanistic Basis of Coral Success across Reef Habitats. mBio 2016; 7:mBio.00560-16. [PMID: 27460792 PMCID: PMC4981706 DOI: 10.1128/mbio.00560-16] [Citation(s) in RCA: 91] [Impact Index Per Article: 11.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023] Open
Abstract
UNLABELLED For ecosystems vulnerable to environmental change, understanding the spatiotemporal stability of functionally crucial symbioses is fundamental to determining the mechanisms by which these ecosystems may persist. The coral Pachyseris speciosa is a successful environmental generalist that succeeds in diverse reef habitats. The generalist nature of this coral suggests it may have the capacity to form functionally significant microbial partnerships to facilitate access to a range of nutritional sources within different habitats. Here, we propose that coral is a metaorganism hosting three functionally distinct microbial interactions: a ubiquitous core microbiome of very few symbiotic host-selected bacteria, a microbiome of spatially and/or regionally explicit core microbes filling functional niches (<100 phylotypes), and a highly variable bacterial community that is responsive to biotic and abiotic processes across spatial and temporal scales (>100,000 phylotypes). We find that this coral hosts upwards of 170,000 distinct phylotypes and provide evidence for the persistence of a select group of bacteria in corals across environmental habitats of the Great Barrier Reef and Coral Sea. We further show that a higher number of bacteria are consistently associated with corals on mesophotic reefs than on shallow reefs. An increase in microbial diversity with depth suggests reliance by this coral on bacteria for nutrient acquisition on reefs exposed to nutrient upwelling. Understanding the complex microbial communities of host organisms across broad biotic and abiotic environments as functionally distinct microbiomes can provide insight into those interactions that are ubiquitous niche symbioses and those that provide competitive advantage within the hosts' environment. IMPORTANCE Corals have been proposed as the most diverse microbial biosphere. The high variability of microbial communities has hampered the identification of bacteria playing key functional roles that contribute to coral survival. Exploring the bacterial community in a coral with a broad environmental distribution, we found a group of bacteria present across all environments and a higher number of bacteria consistently associated with mesophotic corals (60 to 80 m). These results provide evidence of consistent and ubiquitous coral-bacterial partnerships and support the consideration of corals as metaorganisms hosting three functionally distinct microbiomes: a ubiquitous core microbiome, a microbiome filling functional niches, and a highly variable bacterial community.
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Séré M, Wilkinson DA, Schleyer MH, Chabanet P, Quod JP, Tortosa P. Characterisation of an atypical manifestation of black band disease on Porites lutea in the Western Indian Ocean. PeerJ 2016; 4:e2073. [PMID: 27441106 PMCID: PMC4941741 DOI: 10.7717/peerj.2073] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2016] [Accepted: 05/03/2016] [Indexed: 11/20/2022] Open
Abstract
Recent surveys conducted on Reunion Island coral reefs revealed an atypical manifestation of black band disease on the main framework building coral, Porites lutea. This BBD manifestation (PorBBD) presented a thick lighter-colored band, which preceded the typical BBD lesion. Whilst BBD aetiology has been intensively described worldwide, it remains unclear if corals with apparently similar lesions across coral reefs are affected by the same pathogens. Therefore, a multidisciplinary approach involving field surveys, gross lesion monitoring, histopathology and 454-pyrosequencing was employed to provide the first comprehensive characterization of this particular manifestation. Surveys conducted within two geomorphological zones over two consecutive summers and winters showed spatial and seasonal patterns consistent with those found for typical BBD. Genetic analyses suggested an uncharacteristically high level of Vibrio spp. bacterial infection within PorBBD. However, microscopic analysis revealed high densities of cyanobacteria, penetrating the compromised tissue as well as the presence of basophilic bodies resembling bacterial aggregates in the living tissue, adjacent to the bacterial mat. Additionally, classical BBD-associated cyanobacterial strains, genetically related to Pseudoscillatoria coralii and Roseofilum reptotaenium were identified and isolated and the presence of sulfate-reducers or sulfide-oxidizers such as Desulfovibrio and Arcobacter, previously shown to be associated with anoxic microenvironment within typical BBD was also observed, confirming that PorBBD is a manifestation of classical BBD.
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Affiliation(s)
- Mathieu Séré
- Agence pour la Recherche et la VAlorisation Marines (ARVAM), Saint-Denis, Réunion, France; Oceanographic Research Institute (ORI), Durban, KwaZulu-Natal, South Africa; UMR ENTROPIE, Labex CORAIL, Research Institute for the Development (IRD), Saint-Denis, Réunion, France
| | - David A Wilkinson
- Unité Mixte de Recherche "Processus Infectieux en Milieu Insulaire Tropical" (UMR PIMIT), Université de La Réunion, Inserm1187, CNRS9192, IRD249, Plateforme de Recherche CYROI , Saint Denis , Réunion , France
| | - Michael H Schleyer
- Oceanographic Research Institute (ORI) , Durban , KwaZulu-Natal , South Africa
| | - Pascale Chabanet
- UMR ENTROPIE, Labex CORAIL, Research Institute for the Development (IRD) , Saint-Denis , Réunion , France
| | - Jean-Pascal Quod
- Agence pour la Recherche et la VAlorisation Marines (ARVAM) , Saint-Denis , Réunion , France
| | - Pablo Tortosa
- Unité Mixte de Recherche "Processus Infectieux en Milieu Insulaire Tropical" (UMR PIMIT), Université de La Réunion, Inserm1187, CNRS9192, IRD249, Plateforme de Recherche CYROI , Saint Denis , Réunion , France
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Ziegler M, Roik A, Porter A, Zubier K, Mudarris MS, Ormond R, Voolstra CR. Coral microbial community dynamics in response to anthropogenic impacts near a major city in the central Red Sea. MARINE POLLUTION BULLETIN 2016; 105:629-40. [PMID: 26763316 DOI: 10.1016/j.marpolbul.2015.12.045] [Citation(s) in RCA: 112] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/30/2015] [Revised: 11/25/2015] [Accepted: 12/22/2015] [Indexed: 05/20/2023]
Abstract
Coral-associated bacteria play an increasingly recognized part in coral health. We investigated the effect of local anthropogenic impacts on coral microbial communities on reefs near Jeddah, the largest city on the Saudi Arabian coast of the central Red Sea. We analyzed the bacterial community structure of water and corals (Pocillopora verrucosa and Acropora hemprichii) at sites that were relatively unimpacted, exposed to sedimentation & local sewage, or in the discharge area of municipal wastewaters. Coral microbial communities were significantly different at impacted sites: in both corals the main symbiotic taxon decreased in abundance. In contrast, opportunistic bacterial families, such as e.g. Vibrionaceae and Rhodobacteraceae, were more abundant in corals at impacted sites. In conclusion, microbial community response revealed a measurable footprint of anthropogenic impacts to coral ecosystems close to Jeddah, even though the corals appeared visually healthy.
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Affiliation(s)
- Maren Ziegler
- Red Sea Research Center, Division of Biological and Environmental Science and Engineering, 4700 King Abdullah University of Science and Technology (KAUST), 23955-6900 Thuwal, Saudi Arabia
| | - Anna Roik
- Red Sea Research Center, Division of Biological and Environmental Science and Engineering, 4700 King Abdullah University of Science and Technology (KAUST), 23955-6900 Thuwal, Saudi Arabia
| | - Adam Porter
- College of Life and Environmental Sciences: Biosciences, Geoffrey Pope Building, University of Exeter, Stocker Road, Exeter EX4 4QD, United Kingdom
| | - Khalid Zubier
- Faculty of Marine Science, King Abdulaziz University, PO Box 80207, Jeddah 21589, Saudi Arabia
| | - Mohammed S Mudarris
- Faculty of Marine Science, King Abdulaziz University, PO Box 80207, Jeddah 21589, Saudi Arabia
| | - Rupert Ormond
- Faculty of Marine Science, King Abdulaziz University, PO Box 80207, Jeddah 21589, Saudi Arabia; Centre for Marine Biotechnology and Biodiversity, School of Life Sciences, Heriot-Watt University, Riccarton, Edinburgh EH14 4AS, Scotland, United Kingdom
| | - Christian R Voolstra
- Red Sea Research Center, Division of Biological and Environmental Science and Engineering, 4700 King Abdullah University of Science and Technology (KAUST), 23955-6900 Thuwal, Saudi Arabia.
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Vieira C, Engelen AH, Guentas L, Aires T, Houlbreque F, Gaubert J, Serrão EA, De Clerck O, Payri CE. Species Specificity of Bacteria Associated to the Brown Seaweeds Lobophora (Dictyotales, Phaeophyceae) and Their Potential for Induction of Rapid Coral Bleaching in Acropora muricata. Front Microbiol 2016; 7:316. [PMID: 27047453 PMCID: PMC4800410 DOI: 10.3389/fmicb.2016.00316] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2015] [Accepted: 02/29/2016] [Indexed: 11/13/2022] Open
Abstract
While reef degradation is occurring worldwide, it is not uncommon to see phase shifts from coral to macroalgal dominated reefs. Numerous studies have addressed the mechanisms by which macroalgae may outcompete corals and a few recent studies highlighted the putative role of bacteria at the interface between macroalgae and corals. Some studies suggest that macroalgae may act as vectors and/or foster proliferation of microorganisms pathogenic for corals. Using a combination of high throughput sequencing, bacterial culturing, and in situ bioassays we question if the adversity of macroalgal-associated bacteria to corals is mediated by specific bacterial taxa. Using Illumina sequencing, we characterized and compared the bacterial community from two Lobophora (Dictyotales, Phaeophyceae) species. The two species presented distinctive bacterial communities. Both species shared approximately half of their OTUs, mainly the most abundant bacteria. Species-specific OTUs belong to Planctomycetes, Proteobacteria, and Bacteroidetes. In total, 16 culturable bacterial strain were isolated and identified from the Lobophora surface, consisting of 10 genera (from nine families, four classes, and three phyla), some of which are not known as, but are related to pathogens involved in coral diseases, and others are naturally associated to corals. When patches of marine agar with 24 h cultures of each of these bacteria were placed in direct contact with the branches of the scleractinian coral Acropora muricata, they caused severe bleaching after 24 h exposure. Results suggest that regardless of taxonomic affinities, increase in density of these bacteria can be adverse to corals. Nevertheless, the microbial community associated to macroalgal surface may not represent a threat to corals, because the specific bacterial screening and control exerted by the alga preventing specific bacterial proliferation.
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Affiliation(s)
- Christophe Vieira
- IFD, Sorbonne Universités, UPMC Univ Paris 06Paris, France; UMR ENTROPIE (UR, IRD, Centre National de la Recherche Scientifique), Institut de Recherche pour le DéveloppementNouméa, New Caledonia; Phycology Research Group and Center for Molecular Phylogenetics and Evolution, Ghent UniversityGhent, Belgium
| | | | - Linda Guentas
- Laboratoire MAPIEM EA 4323, Université de ToulonLa Garde, France; Laboratoire LIVE, Université de Nouvelle-CalédonieNouméa, New Caledonia
| | - Tânia Aires
- Centre of Marine Sciences, University of the Algarve Portugal
| | - Fanny Houlbreque
- UMR ENTROPIE (UR, IRD, Centre National de la Recherche Scientifique), Institut de Recherche pour le Développement Nouméa, New Caledonia
| | - Julie Gaubert
- UMR ENTROPIE (UR, IRD, Centre National de la Recherche Scientifique), Institut de Recherche pour le Développement Nouméa, New Caledonia
| | - Ester A Serrão
- Centre of Marine Sciences, University of the Algarve Portugal
| | - Olivier De Clerck
- Phycology Research Group and Center for Molecular Phylogenetics and Evolution, Ghent University Ghent, Belgium
| | - Claude E Payri
- UMR ENTROPIE (UR, IRD, Centre National de la Recherche Scientifique), Institut de Recherche pour le Développement Nouméa, New Caledonia
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The microbiome of coral surface mucus has a key role in mediating holobiont health and survival upon disturbance. ISME JOURNAL 2016; 10:2280-92. [PMID: 26953605 PMCID: PMC4989324 DOI: 10.1038/ismej.2016.9] [Citation(s) in RCA: 172] [Impact Index Per Article: 21.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/26/2015] [Revised: 12/16/2015] [Accepted: 12/24/2015] [Indexed: 01/07/2023]
Abstract
Microbes are well-recognized members of the coral holobiont. However, little is known about the short-term dynamics of mucus-associated microbial communities under natural conditions and after disturbances, and how these dynamics relate to the host's health. Here we examined the natural variability of prokaryotic communities (based on 16S ribosomal RNA gene amplicon sequencing) associating with the surface mucus layer (SML) of Porites astreoides, a species exhibiting cyclical mucus aging and shedding. Shifts in the prokaryotic community composition during mucus aging led to the prevalence of opportunistic and potentially pathogenic bacteria (Verrucomicrobiaceae and Vibrionaceae) in aged mucus and to a twofold increase in prokaryotic abundance. After the release of aged mucus sheets, the community reverted to its original state, dominated by Endozoicimonaceae and Oxalobacteraceae. Furthermore, we followed the fate of the coral holobiont upon depletion of its natural mucus microbiome through antibiotics treatment. After re-introduction to the reef, healthy-looking microbe-depleted corals started exhibiting clear signs of bleaching and necrosis. Recovery versus mortality of the P. astreoides holobiont was related to the degree of change in abundance distribution of the mucus microbiome. We conclude that the natural prokaryotic community inhabiting the coral SML contributes to coral health and that cyclical mucus shedding has a key role in coral microbiome dynamics.
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Meyer JL, Gunasekera SP, Scott RM, Paul VJ, Teplitski M. Microbiome shifts and the inhibition of quorum sensing by Black Band Disease cyanobacteria. ISME JOURNAL 2015; 10:1204-16. [PMID: 26495995 DOI: 10.1038/ismej.2015.184] [Citation(s) in RCA: 57] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/01/2015] [Revised: 08/26/2015] [Accepted: 09/11/2015] [Indexed: 12/30/2022]
Abstract
Disruption of the microbiome often correlates with the appearance of disease symptoms in metaorganisms such as corals. In Black Band Disease (BBD), a polymicrobial disease consortium dominated by the filamentous cyanobacterium Roseofilum reptotaenium displaces members of the epibiotic microbiome. We examined both normal surface microbiomes and BBD consortia on Caribbean corals and found that the microbiomes of healthy corals were dominated by Gammaproteobacteria, in particular Halomonas spp., and were remarkably stable across spatial and temporal scales. In contrast, the microbial community structure in black band consortia was more variable and more diverse. Nevertheless, deep sequencing revealed that members of the disease consortium were present in every sampled surface microbiome of Montastraea, Orbicella and Pseudodiploria corals, regardless of the health status. Within the BBD consortium, we identified lyngbic acid, a cyanobacterial secondary metabolite. It strongly inhibited quorum sensing (QS) in the Vibrio harveyi QS reporters. The effects of lyngbic acid on the QS reporters depended on the presence of the CAI-1 receptor CqsS. Lyngbic acid inhibited luminescence in native coral Vibrio spp. that also possess the CAI-1-mediated QS. The effects of this naturally occurring QS inhibitor on bacterial regulatory networks potentially contribute to the structuring of the interactions within BBD consortia.
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Affiliation(s)
- Julie L Meyer
- Soil and Water Science Department, Genetics Institute, University of Florida-Institute of Food and Agricultural Sciences, Gainesville, FL, USA
| | | | - Raymond M Scott
- Soil and Water Science Department, Genetics Institute, University of Florida-Institute of Food and Agricultural Sciences, Gainesville, FL, USA
| | | | - Max Teplitski
- Soil and Water Science Department, Genetics Institute, University of Florida-Institute of Food and Agricultural Sciences, Gainesville, FL, USA.,Smithsonian Marine Station, Ft Pierce, FL, USA
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Ng JCY, Chan Y, Tun HM, Leung FCC, Shin PKS, Chiu JMY. Pyrosequencing of the bacteria associated with Platygyra carnosus corals with skeletal growth anomalies reveals differences in bacterial community composition in apparently healthy and diseased tissues. Front Microbiol 2015; 6:1142. [PMID: 26539174 PMCID: PMC4611154 DOI: 10.3389/fmicb.2015.01142] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2015] [Accepted: 10/05/2015] [Indexed: 11/13/2022] Open
Abstract
Corals are rapidly declining globally due to coral diseases. Skeletal growth anomalies (SGA) or "coral tumors" are a group of coral diseases that affect coral reefs worldwide, including Hong Kong waters in the Indo-Pacific region. To better understand how bacterial communities may vary in corals with SGA, for the first time, we examined the bacterial composition associated with the apparently healthy and the diseased tissues of SGA-affected Platgyra carnosus using 16S ribosomal rRNA gene pyrosequencing. Taxonomic analysis revealed Proteobacteria, Bacteroidetes, Cyanobacteria, and Actinobacteria as the main phyla in both the apparently healthy and the diseased tissues. A significant difference in the bacterial community composition was observed between the two conditions at the OTU level. Diseased tissues were associated with higher abundances of Acidobacteria and Gemmatimonadetes, and a lower abundance of Spirochaetes. Several OTUs belonging to Rhodobacteraceae, Rhizobiales, Gammaproteobacteria, and Cytophaga-Flavobacterium-Bacteroidetes (CFB) were strongly associated with the diseased tissues. These groups of bacteria may contain potential pathogens involved with the development of SGA or opportunistic secondary or tertiary colonizers that proliferated upon the health-compromised coral host. We suggest that these bacterial groups to be further studied based on inoculation experiments and testing of Koch's postulates in efforts to understand the etiology and progression of SGA.
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Affiliation(s)
- Jenny C Y Ng
- Department of Biology, Hong Kong Baptist University Hong Kong, Hong Kong
| | - Yuki Chan
- Department of Biology, Hong Kong Baptist University Hong Kong, Hong Kong ; Oral Biosciences, Faculty of Dentistry, The University of Hong Kong Hong Kong, Hong Kong ; School of Applied Sciences, Institute for Applied Ecology New Zealand, Auckland University of Technology Auckland, New Zealand
| | - Hein M Tun
- School of Biological Sciences, The University of Hong Kong Hong Kong, Hong Kong ; Department of Animal Science, University of Manitoba Winnipeg, MB, Canada
| | - Frederick C C Leung
- School of Biological Sciences, The University of Hong Kong Hong Kong, Hong Kong
| | - Paul K S Shin
- Department of Biology and Chemistry, City University of Hong Kong Hong Kong, Hong Kong ; State Key Laboratory in Marine Pollution Hong Kong, Hong Kong
| | - Jill M Y Chiu
- Department of Biology, Hong Kong Baptist University Hong Kong, Hong Kong ; State Key Laboratory in Marine Pollution Hong Kong, Hong Kong
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Séré MG, Tortosa P, Chabanet P, Quod JP, Sweet MJ, Schleyer MH. Identification of a bacterial pathogen associated withPoriteswhite patch syndrome in the Western Indian Ocean. Mol Ecol 2015; 24:4570-81. [DOI: 10.1111/mec.13326] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/02/2015] [Revised: 07/15/2015] [Accepted: 07/16/2015] [Indexed: 01/22/2023]
Affiliation(s)
- Mathieu G. Séré
- Agence pour la Recherche et la Valorisation Marines (ARVAM); Ste Clotilde Reunion Island France
- Oceanographic Research Institute (ORI); Durban KwaZulu-Natal South Africa
- IRD - UMR ENTROPIE; Labex CORAIL; CS 41095 97495 Sainte Clotilde Cedex La Réunion
| | - Pablo Tortosa
- Unité Mixte de Recherche “Processus Infectieux en Milieu Insulaire Tropical” (UMR PIMIT); Université de La Réunion; Inserm1187; CNRS9192, IRD249; Plateforme de Recherche CYROI; 2 rue Maxime Rivière 97490 Ste Clotilde Saint Denis France
| | - Pascale Chabanet
- IRD - UMR ENTROPIE; Labex CORAIL; CS 41095 97495 Sainte Clotilde Cedex La Réunion
| | - Jean-Pascal Quod
- Agence pour la Recherche et la Valorisation Marines (ARVAM); Ste Clotilde Reunion Island France
| | - Michael J. Sweet
- Molecular Health and Disease Laboratory College of Life and Natural Sciences; University of Derby; Kedleston Road Derby UK
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Gignoux-Wolfsohn SA, Vollmer SV. Identification of Candidate Coral Pathogens on White Band Disease-Infected Staghorn Coral. PLoS One 2015; 10:e0134416. [PMID: 26241853 PMCID: PMC4524643 DOI: 10.1371/journal.pone.0134416] [Citation(s) in RCA: 42] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/17/2015] [Accepted: 07/08/2015] [Indexed: 02/01/2023] Open
Abstract
Bacterial diseases affecting scleractinian corals pose an enormous threat to the health of coral reefs, yet we still have a limited understanding of the bacteria associated with coral diseases. White band disease is a bacterial disease that affects the two Caribbean acroporid corals, the staghorn coral Acropora cervicornis and the elkhorn coral A. palmate. Species of Vibrio and Rickettsia have both been identified as putative WBD pathogens. Here we used Illumina 16S rRNA gene sequencing to profile the bacterial communities associated with healthy and diseased A. cervicornis collected from four field sites during two different years. We also exposed corals in tanks to diseased and healthy (control) homogenates to reduce some of the natural variation of field-collected coral bacterial communities. Using a combination of multivariate analyses, we identified community-level changes between diseased and healthy corals in both the field-collected and tank-exposed datasets. We then identified changes in the abundances of individual operational taxonomic units (OTUs) between diseased and healthy corals. By comparing the diseased and healthy-associated bacteria in field-collected and tank-exposed corals, we were able to identify 16 healthy-associated OTUs and 106 consistently disease-associated OTUs, which are good candidates for putative WBD pathogens. A large percentage of these disease-associated OTUs belonged to the order Flavobacteriales. In addition, two of the putative pathogens identified here belong to orders previously suggested as WBD pathogens: Vibronales and Rickettsiales.
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Affiliation(s)
- Sarah A. Gignoux-Wolfsohn
- Marine Science Center, Northeastern University, Nahant, Massachusetts, United States of America
- * E-mail:
| | - Steven V. Vollmer
- Marine Science Center, Northeastern University, Nahant, Massachusetts, United States of America
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Quéré G, Meistertzheim AL, Steneck RS, Nugues MM. Histopathology of crustose coralline algae affected by white band and white patch diseases. PeerJ 2015; 3:e1034. [PMID: 26157617 PMCID: PMC4493676 DOI: 10.7717/peerj.1034] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2015] [Accepted: 05/28/2015] [Indexed: 01/14/2023] Open
Abstract
Crustose coralline algae (CCA) are major benthic calcifiers that play crucial roles in marine ecosystems, particularly coral reefs. Over the past two decades, epizootics have been reported for several CCA species on coral reefs worldwide. However, their causes remain often unknown in part because few studies have investigated CCA pathologies at a microscopic scale. We studied the cellular changes associated with two syndromes: Coralline White Band Syndrome (CWBS) and Coralline White Patch Disease (CWPD) from samples collected in Curaçao, southern Caribbean. Healthy-looking tissue of diseased CCA did not differ from healthy tissue of healthy CCA. In diseased tissues of both pathologies, the three characteristic cell layers of CCA revealed cells completely depleted of protoplasmic content, but presenting an intact cell wall. In addition, CWBS showed a transition area between healthy and diseased tissues consisting of cells partially deprived of protoplasmic material, most likely corresponding to the white band characterizing the disease at the macroscopic level. This transition area was absent in CWPD. Regrowth at the lesion boundary were sometimes observed in both syndromes. Tissues of both healthy and diseased CCA were colonised by diverse boring organisms. Fungal infections associated with the diseased cells were not seen. However, other bioeroders were more abundant in diseased vs healthy CCA and in diseased vs healthy-looking tissues of diseased CCA. Although their role in the pathogenesis is unclear, this suggests that disease increases CCA susceptibility to bioerosion. Further investigations using an integrated approach are needed to carry out the complete diagnosis of these diseases.
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Affiliation(s)
- Gaëlle Quéré
- Leibniz Center for Tropical Marine Ecology (ZMT), Bremen, Germany
- Laboratoire d’Excellence ‘CORAIL’ and USR 3278 CRIOBE EPHE-CNRS-UPVD, Perpignan Cedex, France
| | | | - Robert S. Steneck
- Darling Marine Center, School of Marine Sciences, University of Maine, Walpole, ME, USA
| | - Maggy M. Nugues
- Laboratoire d’Excellence ‘CORAIL’ and USR 3278 CRIOBE EPHE-CNRS-UPVD, Perpignan Cedex, France
- Carmabi Foundation, Piscaderabaai z/n, Willemstad, Curaçao
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Séré MG, Chabanet P, Turquet J, Quod JP, Schleyer MH. Identification and prevalence of coral diseases on three Western Indian Ocean coral reefs. DISEASES OF AQUATIC ORGANISMS 2015; 114:249-261. [PMID: 26036832 DOI: 10.3354/dao02865] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
Coral diseases have caused a substantial decline in the biodiversity and abundance of reef-building corals. To date, more than 30 distinct diseases of scleractinian corals have been reported, which cause progressive tissue loss and/or affect coral growth, reproductive capacity, recruitment, species diversity and the abundance of reef-associated organisms. While coral disease research has increased over the last 4 decades, very little is known about coral diseases in the Western Indian Ocean. Surveys conducted at multiple sites in Reunion, South Africa and Mayotte between August 2010 and June 2012 revealed the presence of 6 main coral diseases: black band disease (BBD), white syndrome (WS), pink line syndrome (PLS), growth anomalies (GA), skeleton eroding band (SEB) and Porites white patch syndrome (PWPS). Overall, disease prevalence was higher in Reunion (7.5 ± 2.2%; mean ± SE) compared to South Africa (3.9 ± 0.8%) and Mayotte (2.7 ± 0.3%). Across locations, Acropora and Porites were the genera most susceptible to disease. Spatial variability was detected in both Reunion and South Africa, with BBD and WS more prevalent on shallow than deep reefs. There was also evidence of seasonality in 2 diseases: the prevalence of BBD and WS was higher in summer than winter. This was the first study to investigate the ecology of coral diseases, providing both qualitative and quantitative data, on Western Indian Ocean reefs, and surveys should be expanded to confirm these patterns.
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Affiliation(s)
- Mathieu G Séré
- ARVAM, 2 rue Maxime Rivière, CYROI, Technopole de La Réunion, 97490 Ste Clotilde, Reunion, France
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Amphritea spongicola sp. nov., isolated from a marine sponge, and emended description of the genus Amphritea. Int J Syst Evol Microbiol 2015; 65:1866-1870. [DOI: 10.1099/ijs.0.000188] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-stain-negative, rod-shaped (1.2–2.1 μm × 0.8–0.9 μm), flagellated and motile marine bacterium, designated MEBiC05461T, was isolated from a marine sponge inhabiting Micronesia. Strain MEBiC05461T was oxidase-negative and catalase-positive. Growth was observed at 8.0–35.6 °C (optimum 30.0 °C), at pH 5.0–9.0 (optimum pH 7.0) and with 1.5–6.0 % (w/v, optimum 2.0–2.5 %) NaCl. 16S rRNA gene sequence analysis revealed that strain MEBiC05461T showed high similarity to members of the genus Amphritea (96.4–96.6 %). The predominant cellular fatty acids were C16:0 (23.9 %), summed feature 3 (C16:1ω7c and/or C16:1ω6c; 39.7 %) and summed feature 8 (C18:1ω7c and/or C18:1ω6c; 22.0 %). The DNA G+C content was 48.5 mol%. The major respiratory quinone was Q-8.Phosphatidylethanolamine, phosphatidylglycerol, one unidentified glycolipid, one unidentified aminolipid, one unidentified glycophospholipid and two unidentified lipids were detected as the major polar lipids. On the basis of the data from this polyphasic taxonomic study, strain MEBiC05461T should be classified as a representative of a novel species in the genus Amphritea, and the name proposed is Amphritea spongicola sp. nov. The type strain is MEBiC05461T ( = KCCM 42943T = JCM 16668T). Emendations of the genus Amphritea and species Amphritea atlantica
Gärtner et al. 2008 and Amphritea balenae
Miyazaki et al. 2008 are were also given.
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Yang SH, Seo HS, Lee JH, Kim SJ, Kwon KK. Kiloniella spongiae sp. nov., isolated from a marine sponge and emended description of the genus Kiloniella Wiese et al. 2009 and Kiloniella laminariae. Int J Syst Evol Microbiol 2015; 65:230-234. [DOI: 10.1099/ijs.0.069773-0] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022] Open
Abstract
A Gram-reaction-negative, aerobic, rod-shaped and non-motile marine bacterium, designated MEBiC09566T was isolated from a sponge collected at Uljin County in the coastal area of the East Sea (36° 55′ N, 129° 25′ E), Korea. The 16S rRNA gene sequence analysis revealed that strain MEBiC09566T showed the highest similarity with the
Kiloniella laminariae
LD81T (96.7 %). Growth was observed at 11–31 °C (optimum 25 °C), at pH 6.0–8.5 (optimum pH 7.0) and with 0–6 % (optimum 2.5 %) NaCl. The predominant cellular fatty acids were summed feature 8 (comprised of C18 : 1ω7c/C18 : 1ω6c) and summed feature 3 (comprised of C16 : 1ω7c and/or C16 : 1ω6c). The DNA G+C content is 44.6 mol%. The major respiratory quinone is Q-9. Phosphatidylethanolamine, phosphatidylglycerol, an unidentified lipid, two unidentified aminophospholipids and one unidentified aminolipid were detected as major polar lipids. On the basis of this polyphasic taxonomic data, it is concluded that strain MEBiC09566T should be classified as representing a novel species in the genus
Kiloniella
and the name proposed is Kiloniella spongiae sp. nov. The type strain is MEBiC09566T ( = KCCM 43040T = JCM 19930T). Emended descriptions of the genus
Kiloniella
Wiese et al. 2009 and
Kiloniella laminariae
are also given.
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Affiliation(s)
- Sung-Hyun Yang
- Marine Biotechnology Research Center, Korea Institute of Ocean Science & Technology, PO Box 29, Ansan 425-600, Republic of Korea
| | - Hyun-Seok Seo
- Marine Biotechnology Research Center, Korea Institute of Ocean Science & Technology, PO Box 29, Ansan 425-600, Republic of Korea
| | - Jung-Hyun Lee
- Marine Biotechnology Research Center, Korea Institute of Ocean Science & Technology, PO Box 29, Ansan 425-600, Republic of Korea
| | - Sang-Jin Kim
- Marine Biotechnology Research Center, Korea Institute of Ocean Science & Technology, PO Box 29, Ansan 425-600, Republic of Korea
| | - Kae Kyoung Kwon
- Marine Biotechnology Research Center, Korea Institute of Ocean Science & Technology, PO Box 29, Ansan 425-600, Republic of Korea
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Sheridan C, Baele JM, Kushmaro A, Fréjaville Y, Eeckhaut I. Terrestrial runoff influences white syndrome prevalence in SW Madagascar. MARINE ENVIRONMENTAL RESEARCH 2014; 101:44-51. [PMID: 25218232 DOI: 10.1016/j.marenvres.2014.08.003] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/06/2014] [Revised: 08/08/2014] [Accepted: 08/12/2014] [Indexed: 06/03/2023]
Abstract
Terrestrial runoff and sedimentation have been implicated in a variety of impacts on scleractinian corals. However, despite accumulating evidence, little work has been done to investigate their influence on coral disease development. This study examined the role that river runoff and the associated sedimentation could play in affecting the prevalence of the coral disease "white syndrome" in SW Madagascar. Corals from reefs affected by river discharge and terrestrial sediments were more affected by white syndrome than reefs located far from any source of terrestrial runoff. Terrestrial runoff-affected reefs also displayed a wider diversity of coral species affected by this disease. While much evidence has been pointing in the direction of indirect effects of such runoff on coral disease development, our data corroborates earlier suggestions that pathogens are present within the sediments. As such, sediments released on reefs through river discharge could act as reservoirs of coral pathogens.
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Affiliation(s)
- C Sheridan
- Biology of Marine Organisms and Biomimetics Lab, Research Institute for Biosciences, University of Mons, Avenue du champ de Mars 6, 7000 Mons, Belgium.
| | - J M Baele
- Department of Geology and Applied Geology, Faculty of Engineering, University of Mons, Rue de Houdain 9, 7000 Mons, Belgium
| | - A Kushmaro
- Avram and Stella Goldstein-Goren Department of Biotechnology Engineering and National Institute for Biotechnology in the Negev, Ben-Gurion University of the Negev, Beer-Sheva, Israel; School of Materials Science and Engineering, Nanyang Technological University, Singapore, Singapore
| | - Y Fréjaville
- Blue Ventures, Level 2 Annex, Omnibus Business Centre, 39-41 North Road, London N7 9DP, UK
| | - I Eeckhaut
- Biology of Marine Organisms and Biomimetics Lab, Research Institute for Biosciences, University of Mons, Avenue du champ de Mars 6, 7000 Mons, Belgium; Polyaquaculture Research Unit, IH.SM, Tuléar, Madagascar
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Meyer JL, Paul VJ, Teplitski M. Community shifts in the surface microbiomes of the coral Porites astreoides with unusual lesions. PLoS One 2014; 9:e100316. [PMID: 24937478 PMCID: PMC4061089 DOI: 10.1371/journal.pone.0100316] [Citation(s) in RCA: 71] [Impact Index Per Article: 7.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/26/2014] [Accepted: 05/23/2014] [Indexed: 11/24/2022] Open
Abstract
Apical lesions on Porites astreoides were characterized by the appearance of a thin yellow band, which was preceded by bleaching of the coral tissues and followed by a completely denuded coral skeleton, which often harbored secondary macroalgal colonizers. These characteristics have not been previously described in Porites and do not match common Caribbean coral diseases. The lesions were observed only in warmer months and at shallow depths on the fore reef in Belize. Analysis of the microbial community composition based on the V4 hypervariable region of 16S ribosomal RNA genes revealed that the surface microbiomes associated with nonsymptomatic corals were dominated by the members of the genus Endozoicomonas, consistent with other studies. Comparison of the microbiomes of nonsymptomatic and lesioned coral colonies sampled in July and September revealed two distinct groups, inconsistently related to the disease state of the coral, but showing some temporal signal. The loss of Endozoicomonas was characteristic of lesioned corals, which also harbored potential opportunistic pathogens such as Alternaria, Stenotrophomonas, and Achromobacter. The presence of lesions in P. astreoides coincided with a decrease in the relative abundance of Endozoicomonas, rather than the appearance of specific pathogenic taxa.
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Affiliation(s)
- Julie L. Meyer
- Soil and Water Science Department, University of Florida-Institute of Food and Agricultural Sciences, Gainesville, Florida, United States of America
| | - Valerie J. Paul
- Smithsonian Marine Station, Ft. Pierce, Florida, United States of America
| | - Max Teplitski
- Soil and Water Science Department, University of Florida-Institute of Food and Agricultural Sciences, Gainesville, Florida, United States of America
- Smithsonian Marine Station, Ft. Pierce, Florida, United States of America
- * E-mail:
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