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Yu Y, Miao L, Adyel TM, Waldschläger K, Wu J, Hou J. Aquatic plastisphere: Interactions between plastics and biofilms. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2023; 322:121196. [PMID: 36736560 DOI: 10.1016/j.envpol.2023.121196] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/30/2022] [Revised: 01/28/2023] [Accepted: 01/31/2023] [Indexed: 06/18/2023]
Abstract
Because of the high production rates, low recycling rates, and poor waste management of plastics, an increasing amount of plastic is entering the aquatic environment, where it can provide new ecological niches for microbial communities and form a so-called plastisphere. Recent studies have focused on the one-way impact of plastic substrata or biofilm communities. However, our understanding of the two-way interactions between plastics and biofilms is still limited. This review first summarizes the formation process and the co-occurrence network analysis of the aquatic plastisphere to comprehensively illustrate the succession pattern of biofilm communities and the potential consistency between keystone taxa and specific environmental behavior of the plastisphere. Furthermore, this review sheds light on mutual interactions between plastics and biofilms. Plastic properties, environmental conditions, and colonization time affect biofilm development. Meanwhile, the biofilm communities, in turn, influence the environmental behaviors of plastics, including transport, contaminant accumulation, and especially the fragmentation and degradation of plastics. Based on a systematic literature review and cross-referencing from these disciplines, the current research focus, and future challenges in exploring aquatic plastisphere development and biofilm-plastic interactions are proposed.
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Affiliation(s)
- Yue Yu
- Key Laboratory of Integrated Regulation and Resources Development on Shallow Lakes, Ministry of Education, College of Environment, Hohai University, 210098, Nanjing, People's Republic of China; Department of Civil, Environmental and Geomatic Engineering, ETH Zürich, Zurich, 8093, Switzerland
| | - Lingzhan Miao
- Key Laboratory of Integrated Regulation and Resources Development on Shallow Lakes, Ministry of Education, College of Environment, Hohai University, 210098, Nanjing, People's Republic of China.
| | - Tanveer M Adyel
- Centre for Integrative Ecology, School of Life and Environmental Sciences, Deakin University, Melbourne, VIC, 3125, Australia
| | - Kryss Waldschläger
- Hydrology and Quantitative Water Management Group, Wageningen University & Research, Wageningen, Netherlands
| | - Jun Wu
- Key Laboratory of Integrated Regulation and Resources Development on Shallow Lakes, Ministry of Education, College of Environment, Hohai University, 210098, Nanjing, People's Republic of China
| | - Jun Hou
- Key Laboratory of Integrated Regulation and Resources Development on Shallow Lakes, Ministry of Education, College of Environment, Hohai University, 210098, Nanjing, People's Republic of China
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Li W, Miao L, Adyel TM, Wu J, Yu Y, Hou J. Characterization of dynamic plastisphere and their underlying effects on the aging of biodegradable and traditional plastics in freshwater ecosystems. JOURNAL OF HAZARDOUS MATERIALS 2023; 446:130714. [PMID: 36599276 DOI: 10.1016/j.jhazmat.2022.130714] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/17/2022] [Revised: 12/29/2022] [Accepted: 12/30/2022] [Indexed: 06/17/2023]
Abstract
Recently, biodegradable plastics (BPs) are emerging as a sustainable alternative to traditional plastics. When released into an aquatic environment, the biodegradable performance of BPs is influenced by biochemical processes, especially the developed plastisphere. However, studies addressing the biodegrading capacity of BPs and traditional plastics within the plastisphere are still limited. Here, we investigated plastisphere community variations and their capacity to biodegrade polyethylene terephthalate (PET) and starch-based plastics (SBP) for four time periods (15, 30, 45, and 80 days) in three freshwaters. Unexpectedly, there is no significant difference in the microbial communities and network structure of the plastisphere between SBP and PET. Moreover, SBP tended to age rapidly at the early stage (0-15 days), while the aging degree of SBP and PET did not display an obvious difference at 80 days. Partial least squares path modeling suggested that plastic aging was mainly dominated by keystone taxa of network and aquatic environmental factors. These results suggest that the aging rate of commercial BPs may not be as fast as we imagine in freshwaters (SBP ≈ PET), and the environmental behaviors of BPs in the aquatic environment should be paid more attention to.
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Affiliation(s)
- Wanyi Li
- Key Laboratory of Integrated Regulation and Resources Development on Shallow Lakes, Ministry of Education, College of Environment, Hohai University, Nanjing 210098, People's Republic of China
| | - Lingzhan Miao
- Key Laboratory of Integrated Regulation and Resources Development on Shallow Lakes, Ministry of Education, College of Environment, Hohai University, Nanjing 210098, People's Republic of China.
| | - Tanveer M Adyel
- Centre for Integrative Ecology, School of Life and Environmental Sciences, Deakin University, Melbourne, VIC 3125, Australia
| | - Jun Wu
- Key Laboratory of Integrated Regulation and Resources Development on Shallow Lakes, Ministry of Education, College of Environment, Hohai University, Nanjing 210098, People's Republic of China
| | - Yue Yu
- Department of Civil, Environmental, and Geomatic Engineering, ETH Zürich, Zürich, Switzerland
| | - Jun Hou
- Key Laboratory of Integrated Regulation and Resources Development on Shallow Lakes, Ministry of Education, College of Environment, Hohai University, Nanjing 210098, People's Republic of China
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3
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Impacts of UV-C irradiation on marine biofilm community succession. Appl Environ Microbiol 2021; 88:e0229821. [PMID: 34936837 DOI: 10.1128/aem.02298-21] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Marine biofilms are diverse microbial communities and important ecological habitats forming on surfaces submerged in the ocean. Biofilm communities resist environmental disturbance, making them a nuisance to some human activities ('biofouling'). Anti-fouling solutions rarely address the underlying stability or compositional responses of these biofilms. Using bulk measurements and molecular analyses, we examined temporal and UV-C antifouling-based shifts in marine biofilms in the coastal Western North Atlantic Ocean during early fall. Over a 24-d period, bacterial communities shifted from early dominance of Gammaproteobacteria to increased proportions of Alphaproteobacteria, Bacteroidia and Acidimicrobiia. In a network analysis based on temporal covariance, Rhodobacteraceae (Alphaproteobacteria) nodes were abundant and densely connected with generally positive correlations. In the eukaryotic community, persistent algal, protistan, and invertebrate groups were observed, although consistent temporal succession was not detected. Biofilm UV-C treatment at 13 and 20 days resulted in losses of chlorophyll a and transparent exopolymer particles, indicating biomass disruption. Bacterial community shifts suggested that UV-C treatment decreased biofilm maturation rate and was associated with proportional shifts among diverse bacterial taxa. UV-C treatment was also associated with increased proportions of protists potentially involved in detritivory and parasitism. Older biofilm communities had increased resistance to UV-C, suggesting that early biofilms are more susceptible to UV-C based antifouling. The results suggest that UV-C irradiation is potentially an effective antifouling method in marine environments in terms of biomass removal and in slowing maturation. However, as they mature, biofilm communities may accumulate microbial members that are tolerant or resilient under UV-treatment. Importance Marine biofilms regulate processes from organic matter and pollutant turnover to eukaryotic settlement and growth. Biofilm growth and eukaryotic settlement interfering with human activities via growth on ship hulls, aquaculture operations, or other marine infrastructure are called 'biofouling'. There is a need to develop sustainable anti-fouling techniques by minimizing impacts to surrounding biota. We use the biofouling-antifouling framework to test hypotheses about marine biofilm succession and stability in response to disturbance, using a novel UV-C LED device. We demonstrate strong bacterial biofilm successional patterns and detect taxa potentially contributing to stability under UV-C stress. Despite UV-C-associated biomass losses and varying UV susceptibility of microbial taxa, we detected high compositional resistance among biofilm bacterial communities, suggesting decoupling of disruption in biomass and community composition following UV-C irradiation. We also report microbial covariance patterns over 24 days of biofilm growth, pointing to areas for study of microbial interactions and targeted antifouling.
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Abstract
Major water-polluting microplastics (for example, polyethylene, polypropylene and others) have lower density than water. Therefore, they are concentrated in the neustonic layer near the water-air interface altogether with dissolved or colloidal natural organic matter, hydrophobic cells and spores of bacteria. This can cause environmental and public health problems because the floating micro- and nanoparticles of plastics could be coated with biofilm of hydrophobic and often putative pathogenic bacteria. Biofilm-coated microplastics are more attractive for consumption by aquatic animals than pure microplastics, and that increases the negative impacts of microplastics. So, impacts of even small quantities of microplastics in aquatic environments must be accounted for considering their accumulation in the micro-layer of water-air interphase and its interaction with bacterioneuston. Microorganisms attached to the surface of microplastic particles could interact with them, use them as substrates for growth, to change properties and biodegrade. The study of microbial life on the surface of microplastic particles is one of the key topics to understanding their role in the environment.
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Lozano C, Lee C, Wattiez R, Lebaron P, Matallana-Surget S. Unraveling the molecular effects of oxybenzone on the proteome of an environmentally relevant marine bacterium. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 793:148431. [PMID: 34182435 DOI: 10.1016/j.scitotenv.2021.148431] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/11/2021] [Revised: 05/13/2021] [Accepted: 06/09/2021] [Indexed: 06/13/2023]
Abstract
The use of Benzophenone-3 (BP3), also known as oxybenzone, a common UV filter, is a growing environmental concern in regard to its toxicity on aquatic organisms. Our previous work stressed that BP3 is toxic to Epibacterium mobile, an environmentally relevant marine α-proteobacterium. In this study, we implemented a label-free quantitative proteomics workflow to decipher the effects of BP3 on the E. mobile proteome. Furthermore, the effect of DMSO, one of the most common solvents used to vehicle low concentrations of lipophilic chemicals, was assessed to emphasize the importance of limiting solvent concentration in ecotoxicological studies. Data-independent analysis proteomics highlighted that BP3 induced changes in the regulation of 56 proteins involved in xenobiotic export, detoxification, oxidative stress response, motility, and fatty acid, iron and amino acid metabolisms. Our results also outlined that the use of DMSO at 0.046% caused regulation changes in proteins related to transport, iron uptake and metabolism, and housekeeping functions, underlining the need to reduce the concentration of solvents in ecotoxicological studies.
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Affiliation(s)
- Clément Lozano
- Sorbonne Université, CNRS, Laboratoire de Biodiversité et Biotechnologies Microbiennes, USR3579, Observatoire Océanologique, 66650 Banyuls-sur-mer, France; Division of Biological and Environmental Sciences, Faculty of Natural Sciences, Stirling University, United Kingdom
| | - Charlotte Lee
- Division of Biological and Environmental Sciences, Faculty of Natural Sciences, Stirling University, United Kingdom
| | - Ruddy Wattiez
- Department of Proteomic and Microbiology, University of Mons, Mons, Belgium
| | - Philippe Lebaron
- Sorbonne Université, CNRS, Laboratoire de Biodiversité et Biotechnologies Microbiennes, USR3579, Observatoire Océanologique, 66650 Banyuls-sur-mer, France
| | - Sabine Matallana-Surget
- Division of Biological and Environmental Sciences, Faculty of Natural Sciences, Stirling University, United Kingdom.
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Marasini S, Leanse LG, Dai T. Can microorganisms develop resistance against light based anti-infective agents? Adv Drug Deliv Rev 2021; 175:113822. [PMID: 34089778 DOI: 10.1016/j.addr.2021.05.032] [Citation(s) in RCA: 23] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2020] [Revised: 03/25/2021] [Accepted: 05/31/2021] [Indexed: 12/13/2022]
Abstract
Recently, there have been increasing numbers of publications illustrating the potential of light-based antimicrobial therapies to combat antimicrobial resistance. Several modalities, in particular, which have proven antimicrobial efficacy against a wide range of pathogenic microbes include: photodynamic therapy (PDT), ultraviolet light (UVA, UVB and UVC), and antimicrobial blue light (aBL). Using these techniques, microbial cells can be inactivated rapidly, either by inducing reactive oxygen species that are deleterious to the microbial cells (PDT, aBL and UVA) or by causing irreversible DNA damage via direct absorption (UVB and UVC). Given the multi-targeted nature of light-based antimicrobial modalities, it has been hypothesised that resistance development to these approaches is highly unlikely. Furthermore, with the exception of a small number of studies, it has been found that resistance to light based anti-infective agents appears unlikely, irrespective of the modality in question. The concurrent literature however stipulates, that further studies should incorporate standardised microbial tolerance assessments for light-based therapies to better assess the reproducibility of these observations.
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Affiliation(s)
- Sanjay Marasini
- Department of Ophthalmology, New Zealand National Eye Centre, The University of Auckland, New Zealand.
| | - Leon G Leanse
- Wellman Center for Photomedicine, Massachusetts General Hospital, Harvard Medical School, Boston, MA, USA; Vaccine and Immunotherapy Center, Massachusetts General Hospital, Harvard Medical School, Boston, MA, USA
| | - Tianhong Dai
- Wellman Center for Photomedicine, Massachusetts General Hospital, Harvard Medical School, Boston, MA, USA; Vaccine and Immunotherapy Center, Massachusetts General Hospital, Harvard Medical School, Boston, MA, USA
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7
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Sánchez O, Ferrera I, Mabrito I, Gazulla CR, Sebastián M, Auladell A, Marín-Vindas C, Cardelús C, Sanz-Sáez I, Pernice MC, Marrasé C, Sala MM, Gasol JM. Seasonal impact of grazing, viral mortality, resource availability and light on the group-specific growth rates of coastal Mediterranean bacterioplankton. Sci Rep 2020; 10:19773. [PMID: 33188261 PMCID: PMC7666142 DOI: 10.1038/s41598-020-76590-5] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/04/2020] [Accepted: 10/19/2020] [Indexed: 11/25/2022] Open
Abstract
Estimation of prokaryotic growth rates is critical to understand the ecological role and contribution of different microbes to marine biogeochemical cycles. However, there is a general lack of knowledge on what factors control the growth rates of different prokaryotic groups and how these vary between sites and along seasons at a given site. We carried out several manipulation experiments during the four astronomical seasons in the coastal NW Mediterranean in order to evaluate the impact of grazing, viral mortality, resource competition and light on the growth and loss rates of prokaryotes. Gross and net growth rates of different bacterioplankton groups targeted by group-specific CARD-FISH probes and infrared microscopy (for aerobic anoxygenic phototrophs, AAP), were calculated from changes in cell abundances. Maximal group-specific growth rates were achieved when both predation pressure and nutrient limitation were experimentally minimized, while only a minimal effect of viral pressure on growth rates was observed; nevertheless, the response to predation removal was more remarkable in winter, when the bacterial community was not subjected to nutrient limitation. Although all groups showed increases in their growth rates when resource competition as well as grazers and viral pressure were reduced, Alteromonadaceae consistently presented the highest rates in all seasons. The response to light availability was generally weaker than that to the other factors, but it was variable between seasons. In summer and spring, the growth rates of AAP were stimulated by light whereas the growth of the SAR11 clade (likely containing proteorhodopsin) was enhanced by light in all seasons. Overall, our results set thresholds on bacterioplankton group-specific growth and mortality rates and contribute to estimate the seasonally changing contribution of various bacterioplankton groups to the function of microbial communities. Our results also indicate that the least abundant groups display the highest growth rates, contributing to the recycling of organic matter to a much greater extent than what their abundances alone would predict.
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Affiliation(s)
- Olga Sánchez
- Departament de Genètica i Microbiologia, Universitat Autònoma de Barcelona, 08193, Bellaterra, Catalunya, Spain.
| | - Isabel Ferrera
- Centro Oceanográfico de Málaga, Instituto Español de Oceanografía, 29640, Fuengirola, Málaga, Spain. .,Departament de Biologia Marina i Oceanografia, Institut de Ciències del Mar, ICM-CSIC, 08003, Barcelona, Catalunya, Spain.
| | - Isabel Mabrito
- Departament de Genètica i Microbiologia, Universitat Autònoma de Barcelona, 08193, Bellaterra, Catalunya, Spain
| | - Carlota R Gazulla
- Departament de Genètica i Microbiologia, Universitat Autònoma de Barcelona, 08193, Bellaterra, Catalunya, Spain.,Departament de Biologia Marina i Oceanografia, Institut de Ciències del Mar, ICM-CSIC, 08003, Barcelona, Catalunya, Spain
| | - Marta Sebastián
- Departament de Biologia Marina i Oceanografia, Institut de Ciències del Mar, ICM-CSIC, 08003, Barcelona, Catalunya, Spain.,Instituto de Oceanografía y Cambio Global (IOCAG), Universidad de Las Palmas de Gran Canaria (ULPGC), Telde, 35214, Spain
| | - Adrià Auladell
- Departament de Biologia Marina i Oceanografia, Institut de Ciències del Mar, ICM-CSIC, 08003, Barcelona, Catalunya, Spain
| | - Carolina Marín-Vindas
- Departament de Biologia Marina i Oceanografia, Institut de Ciències del Mar, ICM-CSIC, 08003, Barcelona, Catalunya, Spain.,Escuela de Ciencias Biológicas, Universidad Nacional, Heredia, 40101, Costa Rica
| | - Clara Cardelús
- Departament de Biologia Marina i Oceanografia, Institut de Ciències del Mar, ICM-CSIC, 08003, Barcelona, Catalunya, Spain
| | - Isabel Sanz-Sáez
- Departament de Biologia Marina i Oceanografia, Institut de Ciències del Mar, ICM-CSIC, 08003, Barcelona, Catalunya, Spain
| | - Massimo C Pernice
- Departament de Biologia Marina i Oceanografia, Institut de Ciències del Mar, ICM-CSIC, 08003, Barcelona, Catalunya, Spain
| | - Cèlia Marrasé
- Departament de Biologia Marina i Oceanografia, Institut de Ciències del Mar, ICM-CSIC, 08003, Barcelona, Catalunya, Spain
| | - M Montserrat Sala
- Departament de Biologia Marina i Oceanografia, Institut de Ciències del Mar, ICM-CSIC, 08003, Barcelona, Catalunya, Spain
| | - Josep M Gasol
- Departament de Biologia Marina i Oceanografia, Institut de Ciències del Mar, ICM-CSIC, 08003, Barcelona, Catalunya, Spain
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8
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Lozano C, Matallana-Surget S, Givens J, Nouet S, Arbuckle L, Lambert Z, Lebaron P. Toxicity of UV filters on marine bacteria: Combined effects with damaging solar radiation. THE SCIENCE OF THE TOTAL ENVIRONMENT 2020; 722:137803. [PMID: 32197158 DOI: 10.1016/j.scitotenv.2020.137803] [Citation(s) in RCA: 25] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/03/2020] [Revised: 03/06/2020] [Accepted: 03/06/2020] [Indexed: 05/20/2023]
Abstract
Organic UV filters are of emerging concern due to their occurrence and persistence in coastal ecosystems. Because marine bacteria are crucial in the major biogeochemical cycles, there is an urgent need to understand to what extent these microorganisms are affected by those chemicals. This study deciphers the impact of five common sunscreen UV filters on twenty-seven marine bacteria, combining both photobiology and toxicity analysis on environmentally relevant species. Seven bacteria were sensitive to different organic UV filters at 1000 μg L-1, including octinoxate and oxybenzone. This is the first report demonstrating inhibition of bacterial growth from 100 μg L-1. None of the UV filters showed any toxicity at 1000 μg L-1 on stationary phase cells, demonstrating that physiological state was found to be a key parameter in the bacterial response to UV-filters. Indeed, non-growing bacteria were resistant to UV filters whereas growing cells exhibited UV filter dependent sensitivity. Octinoxate was the most toxic chemical at 1000 μg L-1 on growing cells. Interestingly, photobiology experiments revealed that the toxicity of octinoxate and homosalate decreased after light exposure while the other compounds were not affected. In terms of environmental risk characterization, our results revealed that the increasing use of sun blockers could have detrimental impacts on bacterioplanktonic communities in coastal areas. Our findings contribute to a better understanding of the impact of the most common UV filters on bacterial species and corroborate the importance to consider environmental parameters such as solar radiation in ecotoxicology studies.
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Affiliation(s)
- Clément Lozano
- Sorbonne Université, CNRS, Laboratoire de Biodiversité et Biotechnologies Microbiennes, USR3579, Observatoire Océanologique, 66650 Banyuls-sur-mer, France; Division of Biological and Environmental Sciences, Faculty of Natural Sciences, Stirling University, United Kingdom
| | - Sabine Matallana-Surget
- Division of Biological and Environmental Sciences, Faculty of Natural Sciences, Stirling University, United Kingdom.
| | - Justina Givens
- Sorbonne Université, CNRS, Laboratoire de Biodiversité et Biotechnologies Microbiennes, USR3579, Observatoire Océanologique, 66650 Banyuls-sur-mer, France
| | - Salomé Nouet
- Sorbonne Université, CNRS, Laboratoire de Biodiversité et Biotechnologies Microbiennes, USR3579, Observatoire Océanologique, 66650 Banyuls-sur-mer, France
| | - Louise Arbuckle
- Division of Biological and Environmental Sciences, Faculty of Natural Sciences, Stirling University, United Kingdom
| | - Zacharie Lambert
- Sorbonne Université, CNRS, Laboratoire de Biodiversité et Biotechnologies Microbiennes, USR3579, Observatoire Océanologique, 66650 Banyuls-sur-mer, France
| | - Philippe Lebaron
- Sorbonne Université, CNRS, Laboratoire de Biodiversité et Biotechnologies Microbiennes, USR3579, Observatoire Océanologique, 66650 Banyuls-sur-mer, France.
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9
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Oberbeckmann S, Labrenz M. Marine Microbial Assemblages on Microplastics: Diversity, Adaptation, and Role in Degradation. ANNUAL REVIEW OF MARINE SCIENCE 2020; 12:209-232. [PMID: 31226027 DOI: 10.1146/annurev-marine-010419-010633] [Citation(s) in RCA: 168] [Impact Index Per Article: 42.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/02/2023]
Abstract
We have known for more than 45 years that microplastics in the ocean are carriers of microbially dominated assemblages. However, only recently has the role of microbial interactions with microplastics in marine ecosystems been investigated in detail. Research in this field has focused on three main areas: (a) the establishment of plastic-specific biofilms (the so-called plastisphere); (b) enrichment of pathogenic bacteria, particularly members of the genus Vibrio, coupled to a vector function of microplastics; and (c) the microbial degradation of microplastics in the marine environment. Nevertheless, the relationships between marine microorganisms and microplastics remain unclear. In this review, we deduce from the current literature, new comparative analyses, and considerations of microbial adaptation concerning plastic degradation that interactions between microorganisms and microplastic particles should have rather limited effects on the ocean ecosystems. The majority of microorganisms growing on microplastics seem to belong to opportunistic colonists that do not distinguish between natural and artificial surfaces. Thus, microplastics do not pose a higher risk than natural particles to higher life forms by potentially harboring pathogenic bacteria. On the other hand, microplastics in the ocean represent recalcitrant substances for microorganisms that are insufficient to support prokaryotic metabolism and will probably not be microbially degraded in any period of time relevant to human society. Because we cannot remove microplastics from the ocean, proactive action regarding research on plastic alternatives and strategies to prevent plastic entering the environment should be taken promptly.
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Affiliation(s)
- Sonja Oberbeckmann
- Department of Biological Oceanography, Leibniz Institute for Baltic Sea Research Warnemünde (IOW), D-18119 Rostock, Germany;
| | - Matthias Labrenz
- Department of Biological Oceanography, Leibniz Institute for Baltic Sea Research Warnemünde (IOW), D-18119 Rostock, Germany;
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10
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Glutamicibacter mishrai sp. nov., isolated from the coral Favia veroni from Andaman Sea. Arch Microbiol 2019; 202:733-745. [PMID: 31796989 DOI: 10.1007/s00203-019-01783-0] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2019] [Revised: 10/21/2019] [Accepted: 11/25/2019] [Indexed: 10/25/2022]
Abstract
A novel aerobic marine actinobacterium (strain S5-52T) belonging to the genus Glutamicibacter was isolated from the coral Favia veroni sampled from the Andaman Sea, India. Cells are Gram stain positive and rod shaped. The DNA G+C content was 58.7 mol%. The major quinones were MK-8 and MK-9. The polar lipids were diphosphatidylglycerol, phosphatidylglycerol, glycolipid, trimannosyldiacylglycerol, phospholipid and dimannosylglyceride. The peptidoglycan type was A4α. Strain S5-52T showed a maximum 16S rRNA similarity of 99.36% with Glutamicibacter halophytocola DSM 101718T. The genome of strain S5-52T was 3.57 Mb that contains 3274 protein coding sequences (CDS). DNA-DNA similarity and ANI values between S5-52T and the reference strains were below 70% and 95-96%, respectively. Analysis of genomic reduction events in the evolutionary path from the LUCA (last universal common ancestor) to G. mishrai LMG 29155T and G. halophytocola DSM 101718T exhibit a number of genes involved in amino acid metabolism, cell wall biogenesis and replication, recombination and repair mechanism that reduced in both the species. Based on phenotypic, chemotaxonomic properties and comparative genomic studies, the strain S5-52T is considered a novel species of the genus Glutamicibacter, for which the name Glutamicibacter mishrai sp. nov. is proposed. The type strain is S5-52T (= KCTC 39846T = LMG 29155T).
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11
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Teira E, Logares R, Gutiérrez‐Barral A, Ferrera I, Varela MM, Morán XAG, Gasol JM. Impact of grazing, resource availability and light on prokaryotic growth and diversity in the oligotrophic surface global ocean. Environ Microbiol 2019; 21:1482-1496. [DOI: 10.1111/1462-2920.14581] [Citation(s) in RCA: 17] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/23/2018] [Revised: 02/26/2019] [Accepted: 03/02/2019] [Indexed: 12/14/2022]
Affiliation(s)
- Eva Teira
- Departamento de Ecoloxía e Bioloxía AnimalUniversidade de Vigo Vigo Spain
| | - Ramiro Logares
- Departamento de Biologia Marina i OceanografiaInstitut de Ciències del Mar, CSIC Barcelona Catalonia Spain
| | | | - Isabel Ferrera
- Departamento de Biologia Marina i OceanografiaInstitut de Ciències del Mar, CSIC Barcelona Catalonia Spain
- Instituto Español de OceanografíaCentro Oceanográfico de Málaga Fuengirola Spain
| | - Marta M. Varela
- Instituto Español de OceanografíaCentro Oceanográfico de A Coruña A Coruña Spain
| | - Xosé Anxelu G. Morán
- Red Sea Research Center, Division of Biological and Environmental Sciences and EngineeringKing Abdullah University of Science and Technology Thuwal Saudi Arabia
| | - Josep M. Gasol
- Departamento de Biologia Marina i OceanografiaInstitut de Ciències del Mar, CSIC Barcelona Catalonia Spain
- Centre for Marine Ecosystems ResearchEdith Cowan University Joondalup Western Australia Australia
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12
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Matallana-Surget S, Werner J, Wattiez R, Lebaron K, Intertaglia L, Regan C, Morris J, Teeling H, Ferrer M, Golyshin PN, Gerogiorgis D, Reilly SI, Lebaron P. Proteogenomic Analysis of Epibacterium Mobile BBCC367, a Relevant Marine Bacterium Isolated From the South Pacific Ocean. Front Microbiol 2018; 9:3125. [PMID: 30622520 PMCID: PMC6308992 DOI: 10.3389/fmicb.2018.03125] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2018] [Accepted: 12/03/2018] [Indexed: 12/16/2022] Open
Abstract
Epibacterium mobile BBCC367 is a marine bacterium that is common in coastal areas. It belongs to the Roseobacter clade, a widespread group in pelagic marine ecosystems. Species of the Roseobacter clade are regularly used as models to understand the evolution and physiological adaptability of generalist bacteria. E. mobile BBCC367 comprises two chromosomes and two plasmids. We used gel-free shotgun proteomics to assess its protein expression under 16 different conditions, including stress factors such as elevated temperature, nutrient limitation, high metal concentration, and UVB exposure. Comparison of the different conditions allowed us not only to retrieve almost 70% of the predicted proteins, but also to define three main protein assemblages: 584 essential core proteins, 2,144 facultative accessory proteins and 355 specific unique proteins. While the core proteome mainly exhibited proteins involved in essential functions to sustain life such as DNA, amino acids, carbohydrates, cofactors, vitamins and lipids metabolisms, the accessory and unique proteomes revealed a more specific adaptation with the expression of stress-related proteins, such as DNA repair proteins (accessory proteome), transcription regulators and a significant predominance of transporters (unique proteome). Our study provides insights into how E. mobile BBCC367 adapts to environmental changes and copes with diverse stresses.
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Affiliation(s)
- Sabine Matallana-Surget
- Division of Biological and Environmental Sciences, Faculty of Natural Sciences, University of Stirling, Stirling, United Kingdom
| | - Johannes Werner
- Department of Biological Oceanography, Leibniz Institute of Baltic Sea Research, Rostock, Germany
| | - Ruddy Wattiez
- Department of Proteomics and Microbiology, Interdisciplinary Mass Spectrometry Center (CISMa), University of Mons, Mons, Belgium
| | - Karine Lebaron
- Division of Biological and Environmental Sciences, Faculty of Natural Sciences, University of Stirling, Stirling, United Kingdom
| | - Laurent Intertaglia
- Sorbonne Universites, UPMC Univ Paris 06, CNRS, Laboratoire de Biodiversité et Biotechnologies Microbiennes (LBBM), Observatoire Océanologique, Banyuls/Mer, France.,Sorbonne Universites, UPMC Univ Paris 06, CNRS, Observatoire Océanologique de Banyuls (OOB), Banyuls/Mer, France
| | - Callum Regan
- Division of Biological and Environmental Sciences, Faculty of Natural Sciences, University of Stirling, Stirling, United Kingdom
| | - James Morris
- Division of Biological and Environmental Sciences, Faculty of Natural Sciences, University of Stirling, Stirling, United Kingdom
| | - Hanno Teeling
- Department of Molecular Ecology, Max Planck Institute for Marine Microbiology, Bremen, Germany
| | - Manuel Ferrer
- Department of Applied Biocatalysis, Institute of Catalysis, CSIC, Madrid, Spain
| | - Peter N Golyshin
- School of Natural Sciences, University of Bangor, Bangor, United Kingdom
| | - Dimitrios Gerogiorgis
- Institute for Materials and Processes, School of Engineering, University of Edinburgh, The King's Buildings, Edinburgh, United Kingdom
| | - Simon I Reilly
- School of Natural Sciences, University of Bangor, Bangor, United Kingdom
| | - Philippe Lebaron
- Sorbonne Universites, UPMC Univ Paris 06, CNRS, Laboratoire de Biodiversité et Biotechnologies Microbiennes (LBBM), Observatoire Océanologique, Banyuls/Mer, France.,Sorbonne Universites, UPMC Univ Paris 06, CNRS, Observatoire Océanologique de Banyuls (OOB), Banyuls/Mer, France
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13
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Pérez V, Hengst M, Kurte L, Dorador C, Jeffrey WH, Wattiez R, Molina V, Matallana-Surget S. Bacterial Survival under Extreme UV Radiation: A Comparative Proteomics Study of Rhodobacter sp., Isolated from High Altitude Wetlands in Chile. Front Microbiol 2017; 8:1173. [PMID: 28694800 PMCID: PMC5483449 DOI: 10.3389/fmicb.2017.01173] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/23/2017] [Accepted: 06/08/2017] [Indexed: 12/21/2022] Open
Abstract
Salar de Huasco, defined as a polyextreme environment, is a high altitude saline wetland in the Chilean Altiplano (3800 m.a.s.l.), permanently exposed to the highest solar radiation doses registered in the world. We present here the first comparative proteomics study of a photoheterotrophic bacterium, Rhodobacter sp., isolated from this remote and hostile habitat. We developed an innovative experimental approach using different sources of radiation (in situ sunlight and UVB lamps), cut-off filters (Mylar, Lee filters) and a high-throughput, label-free quantitative proteomics method to comprehensively analyze the effect of seven spectral bands on protein regulation. A hierarchical cluster analysis of 40 common proteins revealed that all conditions containing the most damaging UVB radiation induced similar pattern of protein regulation compared with UVA and visible light spectral bands. Moreover, it appeared that the cellular adaptation of Rhodobacter sp. to osmotic stress encountered in the hypersaline environment from which it was originally isolated, might further a higher resistance to damaging UV radiation. Indeed, proteins involved in the synthesis and transport of key osmoprotectants, such as glycine betaine and inositol, were found in very high abundance under UV radiation compared to the dark control, suggesting the function of osmolytes as efficient reactive oxygen scavengers. Our study also revealed a RecA-independent response and a tightly regulated network of protein quality control involving proteases and chaperones to selectively degrade misfolded and/or damaged proteins.
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Affiliation(s)
- Vilma Pérez
- Laboratory of Molecular Ecology and Applied Microbiology, Department of Pharmaceutical Sciences, Universidad Católica del NorteAntofagasta, Chile.,Centre for Biotechnology and BioengineeringSantiago, Chile.,Programa de Doctorado en Ciencias Biológicas, Facultad de Ciencias de la Salud, Universidad de AntofagastaAntofagasta, Chile
| | - Martha Hengst
- Laboratory of Molecular Ecology and Applied Microbiology, Department of Pharmaceutical Sciences, Universidad Católica del NorteAntofagasta, Chile.,Centre for Biotechnology and BioengineeringSantiago, Chile
| | - Lenka Kurte
- Laboratory of Molecular Ecology and Applied Microbiology, Department of Pharmaceutical Sciences, Universidad Católica del NorteAntofagasta, Chile.,Centre for Biotechnology and BioengineeringSantiago, Chile
| | - Cristina Dorador
- Centre for Biotechnology and BioengineeringSantiago, Chile.,Laboratory of Microbial Complexity and Functional Ecology, Institute of Antofagasta and Department of Biotechnology, Universidad de AntofagastaAntofagasta, Chile
| | - Wade H Jeffrey
- Center for Environmental Diagnostics and Bioremediation, University of West Florida, PensacolaFL, United States
| | - Ruddy Wattiez
- Proteomics and Microbiology Laboratory, Research Institute of Biosciences, University of MonsMons, Belgium
| | - Veronica Molina
- Department of Biology, Faculty of Natural and Exact Sciences, Universidad de Playa AnchaValparaíso, Chile
| | - Sabine Matallana-Surget
- Division of Biological and Environmental Sciences, Faculty of Natural Sciences, University of StirlingStirling, United Kingdom
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14
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Gardiner M, Thomas T, Egan S. A glutathione peroxidase (GpoA) plays a role in the pathogenicity of Nautella italica strain R11 towards the red alga Delisea pulchra. FEMS Microbiol Ecol 2015; 91:fiv021. [DOI: 10.1093/femsec/fiv021] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 01/27/2015] [Indexed: 02/05/2023] Open
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15
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Giannakis S, Rtimi S, Darakas E, Escalas-Cañellas A, Pulgarin C. Light wavelength-dependent E. coli survival changes after simulated solar disinfection of secondary effluent. Photochem Photobiol Sci 2015; 14:2238-50. [DOI: 10.1039/c5pp00110b] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Solar disinfection ofE. coliwas followed by PHR and dark conditions. The assessment elucidated the relationship between the emitted PHR wavelengths and the survival response in the dark.
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Affiliation(s)
- Stefanos Giannakis
- Laboratory of Environmental Engineering and Planning
- Department of Civil Engineering
- Aristotle University of Thessaloniki
- 54124 Thessaloniki
- Greece
| | - Sami Rtimi
- Swiss Federal Institute of Technology
- Lausanne
- Institute of Chemical Sciences and Engineering
- 1015 Lausanne
- Switzerland
| | - Efthymios Darakas
- Laboratory of Environmental Engineering and Planning
- Department of Civil Engineering
- Aristotle University of Thessaloniki
- 54124 Thessaloniki
- Greece
| | - Antoni Escalas-Cañellas
- Laboratory of Control of Environmental Contamination
- Institute of Textile Research and Industrial Cooperation of Terrassa (INTEXTER)
- Universitat Politècnica de Catalunya
- 08222 Terrassa
- Spain
| | - César Pulgarin
- Swiss Federal Institute of Technology
- Lausanne
- Institute of Chemical Sciences and Engineering
- 1015 Lausanne
- Switzerland
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16
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Elucidating bacterial regrowth: Effect of disinfection conditions in dark storage of solar treated secondary effluent. J Photochem Photobiol A Chem 2014. [DOI: 10.1016/j.jphotochem.2014.05.016] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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17
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Hartmann EM, Durighello E, Pible O, Nogales B, Beltrametti F, Bosch R, Christie-Oleza JA, Armengaud J. Proteomics meets blue biotechnology: a wealth of novelties and opportunities. Mar Genomics 2014; 17:35-42. [PMID: 24780860 DOI: 10.1016/j.margen.2014.04.003] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/12/2014] [Revised: 04/11/2014] [Accepted: 04/12/2014] [Indexed: 10/25/2022]
Abstract
Blue biotechnology, in which aquatic environments provide the inspiration for various products such as food additives, aquaculture, biosensors, green chemistry, bioenergy, and pharmaceuticals, holds enormous promise. Large-scale efforts to sequence aquatic genomes and metagenomes, as well as campaigns to isolate new organisms and culture-based screenings, are helping to push the boundaries of known organisms. Mass spectrometry-based proteomics can complement 16S gene sequencing in the effort to discover new organisms of potential relevance to blue biotechnology by facilitating the rapid screening of microbial isolates and by providing in depth profiles of the proteomes and metaproteomes of marine organisms, both model cultivable isolates and, more recently, exotic non-cultivable species and communities. Proteomics has already contributed to blue biotechnology by identifying aquatic proteins with potential applications to food fermentation, the textile industry, and biomedical drug development. In this review, we discuss historical developments in blue biotechnology, the current limitations to the known marine biosphere, and the ways in which mass spectrometry can expand that knowledge. We further speculate about directions that research in blue biotechnology will take given current and near-future technological advancements in mass spectrometry.
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Affiliation(s)
- Erica M Hartmann
- CEA, DSV, IBEB, Lab Biochim System Perturb, Bagnols-sur-Cèze, F-30207, France
| | - Emie Durighello
- CEA, DSV, IBEB, Lab Biochim System Perturb, Bagnols-sur-Cèze, F-30207, France
| | - Olivier Pible
- CEA, DSV, IBEB, Lab Biochim System Perturb, Bagnols-sur-Cèze, F-30207, France
| | - Balbina Nogales
- Microbiologia, Departament de Biologia, Universitat de les Illes Balears, Palma de Mallorca, Spain
| | | | - Rafael Bosch
- Microbiologia, Departament de Biologia, Universitat de les Illes Balears, Palma de Mallorca, Spain
| | - Joseph A Christie-Oleza
- School of Life Sciences, University of Warwick, Gibbet Hill Road, Coventry CV47AL, United Kingdom
| | - Jean Armengaud
- CEA, DSV, IBEB, Lab Biochim System Perturb, Bagnols-sur-Cèze, F-30207, France.
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18
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The antagonistic and synergistic effects of temperature during solar disinfection of synthetic secondary effluent. J Photochem Photobiol A Chem 2014. [DOI: 10.1016/j.jphotochem.2014.02.003] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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19
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Ruiz-González C, Simó R, Sommaruga R, Gasol JM. Away from darkness: a review on the effects of solar radiation on heterotrophic bacterioplankton activity. Front Microbiol 2013; 4:131. [PMID: 23734148 PMCID: PMC3661993 DOI: 10.3389/fmicb.2013.00131] [Citation(s) in RCA: 74] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2013] [Accepted: 05/06/2013] [Indexed: 12/22/2022] Open
Abstract
Heterotrophic bacterioplankton are main consumers of dissolved organic matter (OM) in aquatic ecosystems, including the sunlit upper layers of the ocean and freshwater bodies. Their well-known sensitivity to ultraviolet radiation (UVR), together with some recently discovered mechanisms bacteria have evolved to benefit from photosynthetically available radiation (PAR), suggest that natural sunlight plays a relevant, yet difficult to predict role in modulating bacterial biogeochemical functions in aquatic ecosystems. Three decades of experimental work assessing the effects of sunlight on natural bacterial heterotrophic activity reveal responses ranging from high stimulation to total inhibition. In this review, we compile the existing studies on the topic and discuss the potential causes underlying these contrasting results, with special emphasis on the largely overlooked influences of the community composition and the previous light exposure conditions, as well as the different temporal and spatial scales at which exposure to solar radiation fluctuates. These intricate sunlight-bacteria interactions have implications for our understanding of carbon fluxes in aquatic systems, yet further research is necessary before we can accurately evaluate or predict the consequences of increasing surface UVR levels associated with global change.
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Affiliation(s)
- Clara Ruiz-González
- Department of Marine Biology and Oceanography, Institut de Ciències del Mar, CSICBarcelona, Spain
- Département des Sciences Biologiques, Université du Québéc à MontréalMontréal, QC, Canada
| | - Rafel Simó
- Department of Marine Biology and Oceanography, Institut de Ciències del Mar, CSICBarcelona, Spain
| | - Ruben Sommaruga
- Laboratory of Aquatic Photobiology and Plankton Ecology, Institute of Ecology, University of InnsbruckInnsbruck, Austria
| | - Josep M. Gasol
- Department of Marine Biology and Oceanography, Institut de Ciències del Mar, CSICBarcelona, Spain
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