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Book ; Online: Microbial Ecotoxicology

Pesce, Stéphane / Martin-Laurent, Fabrice / Topp, Ed / Jean-Francois, Ghiglione

2020

Keywords	Science: general issues ; Medical microbiology & virology ; Microbiology (non-medical) ; Microbial communities ; Pollutants ; Environmental risk assessment ; Bioindication ; Biodegradation
Size	1 electronic resource (569 pages)
Publisher	Frontiers Media SA
Document type	Book ; Online
Note	English ; Open Access
HBZ-ID	HT021229982
ISBN	9782889638819 ; 2889638812
Database	ZB MED Catalogue: Medicine, Health, Nutrition, Environment, Agriculture

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Article ; Online: Vibrio spp and other potential pathogenic bacteria associated to microfibers in the North-Western Mediterranean Sea

Maria Luiza Pedrotti / Ana Luzia de Figueiredo Lacerda / Stephanie Petit / Jean François Ghiglione / Gabriel Gorsky

PLoS ONE, Vol 17, Iss

2022 Volume 11

Abstract: Microfibers, whether synthetic or natural, have increased dramatically in the environment, becoming the most common type of particles in the ocean, and exposing aquatic organisms to multiple negative impacts. Using an approach combining morphology ( ... ...

Abstract	Microfibers, whether synthetic or natural, have increased dramatically in the environment, becoming the most common type of particles in the ocean, and exposing aquatic organisms to multiple negative impacts. Using an approach combining morphology (scanning electron microscopy-SEM) and molecular taxonomy (High-Throughput DNA Sequencing- HTS), we investigated the bacterial composition from floating microfibers (MFs) collected in the northwestern Mediterranean Sea. The average number of bacteria in 100 μm2 on the surface of a fiber is 8 ± 5.9 cells; by extrapolating it to a whole fiber, this represents 2663 ± 1981 bacteria/fiber. Attached bacterial communities were dominated by Alteromonadales, Rhodobacterales, and Vibrionales, including the potentially human/animal pathogen Vibrio parahaemolyticus. This study reveals a high rate of bacterial colonization on MFs, and shows that these particles can host numerous bacterial species, including putative pathogens. Even if we cannot confirm its pathogenicity based only on the taxonomy, this is the first description of such pathogenic Vibrio living attached to MFs in the Mediterranean Sea. The identification of MFs colonizers is valuable in assessing health risks, as their presence can be a threat to bathing and seafood consumption. Considering that MFs can serve as vector for potentially pathogenic microorganisms and other pollutants throughout the ocean, this type of pollution can have both ecological and economic consequences.
Keywords	Medicine ; R ; Science ; Q
Subject code	551
Language	English
Publishing date	2022-01-01T00:00:00Z
Publisher	Public Library of Science (PLoS)
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Impacts of microplastics and the associated plastisphere on physiological, biochemical, genetic expression and gut microbiota of the filter-feeder amphioxus

Jingguang Cheng / Anne-Leila Meistertzheim / David Leistenschneider / Lena Philip / Justine Jacquin / Marie-Line Escande / Valérie Barbe / Alexandra ter Halle / Leila Chapron / Franck Lartaud / Stéphanie Bertrand / Hector Escriva / Jean-François Ghiglione

Environment International, Vol 172, Iss , Pp 107750- (2023)

2023

Abstract: Oceanic plastic pollution is of major concern to marine organisms, especially filter feeders. However, limited is known about the toxic effects of the weathered microplastics instead of the pristine ones. This study evaluates the effects of weathered ... ...

Abstract	Oceanic plastic pollution is of major concern to marine organisms, especially filter feeders. However, limited is known about the toxic effects of the weathered microplastics instead of the pristine ones. This study evaluates the effects of weathered polystyrene microplastic on a filter-feeder amphioxus under starvation conditions via its exposure to the microplastics previously deployed in the natural seawater allowing for the development of a mature biofilm (so-called plastisphere). The study focused on the integration of physiological, histological, biochemical, molecular, and microbiota impacts on amphioxus. Overall, specific alterations in gene expression of marker genes were observed to be associated with oxidative stresses and immune systems. Negligible impacts were observed on antioxidant biochemical activities and gut microbiota of amphioxus, while we highlighted the potential transfer of 12 bacterial taxa from the plastisphere to the amphioxus gut microbiota. Moreover, the classical perturbation of body shape detected in control animals under starvation conditions (a slim and curved body) but not for amphioxus exposed to microplastic, indicates that the microorganisms colonizing plastics could serve as a nutrient source for this filter-feeder, commitment with the elevated proportions of goblet cell-like structures after the microplastic exposure. The multidisciplinary approach developed in this study underlined the trait of microplastics that acted as vectors for transporting microorganisms from the plastisphere to amphioxus.
Keywords	Toxicity ; Weathered microplastic ; Plastisphere ; Bacterial transfer ; Vector ; Microbial ecotoxicology ; Environmental sciences ; GE1-350
Language	English
Publishing date	2023-02-01T00:00:00Z
Publisher	Elsevier
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Surface Characteristics Together With Environmental Conditions Shape Marine Biofilm Dynamics in Coastal NW Mediterranean Locations

Jean-François Briand / Thomas Pollet / Benjamin Misson / Cédric Garnier / Marlène Lejars / Marine Maintenay / Raphaëlle Barry-Martinet / Aurélie Portas / Jean-François Ghiglione / Christine Bressy

Frontiers in Marine Science, Vol

2022 Volume 8

Abstract: Microbial colonization of artificial substrates in coastal areas, which concerns hull ships, sensors as well as plastic debris, is of huge significance to attain a rational environmental management. Some surface and environmental drivers of biofilm ... ...

Abstract	Microbial colonization of artificial substrates in coastal areas, which concerns hull ships, sensors as well as plastic debris, is of huge significance to attain a rational environmental management. Some surface and environmental drivers of biofilm development have previously been described but their relative impact on the formation of biofilms remains unknown while crucial. Especially, there is no evidence of the relative importance of physical surface properties (wettability, roughness, smoothness) compared to seawater characteristics in driving biofilm abundance and diversity. In addition, few studies have considered the temporal evolution of this complex form of colonization, which often prevent to globally understand the process. Using experimental facilities in two Mediterrranean locations, a multidisciplinary approach including surface characterizations as well as seawaterquality analyses, flow cytometry and 16S rDNA metabarcoding, allowed for the identification of the main drivers of colonization for two antifouling (AF) coatings. One AF coating released copper (SPC1) while the other limit colonization thanks to physical properties, namely a low surface energy, roughness and smoothness (FRC1). Results were obtained over 75 days and compared to a control surface (PVC). Biofilm development was observed on all surfaces, with increasing density from AF coatings to PVC. Pionneer bacteria were dissimilar within all three surface types, however, communities observed on FRC1 converged toward PVC ones overtime, whereas SPC1 communities remained highly specific. A remarkably low and unique diversity was found on SPC1 during the experiment as Alteromonas accounted for more than 90% of the community colonizing this substrate until 12 days, and remained one of the co-dominant taxa of mature biofilms. Moreover, clear differences were found between geographical locations. Low nutrients and higher hydrodymanics in Banyuls bay resulted in less dense biofilms overall compared to Toulon, but also in a the slower dynamic of ...
Keywords	biofilm ; polymer surface ; antifouling coatings ; microbial ecotoxicology ; molecular ecology ; Science ; Q ; General. Including nature conservation ; geographical distribution ; QH1-199.5
Subject code	333
Language	English
Publishing date	2022-02-01T00:00:00Z
Publisher	Frontiers Media S.A.
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article: Status of coral reefs of Upolu (Independent State of Samoa) in the South West Pacific and recommendations to promote resilience and recovery of coastal ecosystems

Ziegler, Maren / Christian R. Voolstra / Emilie Boissin / Gaëlle Quéré / Guillaume Iwankow / Jean-François Ghiglione / Patrick Wincker / Serge Planes / Valérie Barbe

Marine pollution bulletin. 2018 Apr., v. 129, no. 1

2018

Abstract: Coral reef ecosystems worldwide are immediately threatened by the impacts of climate change. Here we report on the condition of coral reefs over 83 km of coastline at the island of Upolu, Samoa in the remote South West Pacific in 2016 during the Tara ... ...

Abstract	Coral reef ecosystems worldwide are immediately threatened by the impacts of climate change. Here we report on the condition of coral reefs over 83 km of coastline at the island of Upolu, Samoa in the remote South West Pacific in 2016 during the Tara Pacific Expedition. Despite the distance to large urban centers, coral cover was extremely low (<1%) at approximately half of the sites and below 10% at 78% of sites. Two reef fish species, Acanthurus triostegus and Zanclus cornutus, were 10% smaller at Upolu than at neighboring islands. Importantly, coral cover was higher within marine protected areas, indicating that local management action remains a useful tool to support the resilience of local reef ecosystems to anthropogenic impacts. This study may be interpreted as cautionary sign for reef ecosystem health in remote locations on this planet, reinforcing the need to immediately reduce anthropogenic impacts on a global scale.
Keywords	Acanthurus ; anthropogenic activities ; climate change ; coasts ; coral reefs ; corals ; ecosystems ; environmental health ; fish ; islands ; marine protected areas ; water pollution ; Zanclus cornutus ; Samoa
Language	English
Dates of publication	2018-04
Size	p. 392-398.
Publishing place	Elsevier Ltd
Document type	Article
ZDB-ID	2001296-2
ISSN	1879-3363 ; 0025-326X
ISSN (online)	1879-3363
ISSN	0025-326X
DOI	10.1016/j.marpolbul.2018.02.044
Database	NAL-Catalogue (AGRICOLA)

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Article ; Online: Open science resources from the Tara Pacific expedition across coral reef and surface ocean ecosystems

Fabien Lombard / Guillaume Bourdin / Stéphane Pesant / Sylvain Agostini / Alberto Baudena / Emilie Boissin / Nicolas Cassar / Megan Clampitt / Pascal Conan / Ophélie Da Silva / Céline Dimier / Eric Douville / Amanda Elineau / Jonathan Fin / J. Michel Flores / Jean-François Ghiglione / Benjamin C. C. Hume / Laetitia Jalabert / Seth G. John /

Rachel L. Kelly / Ilan Koren / Yajuan Lin / Dominique Marie / Ryan McMinds / Zoé Mériguet / Nicolas Metzl / David A. Paz-García / Maria Luiza Pedrotti / Julie Poulain / Mireille Pujo-Pay / Joséphine Ras / Gilles Reverdin / Sarah Romac / Alice Rouan / Eric Röttinger / Assaf Vardi / Christian R. Voolstra / Clémentine Moulin / Guillaume Iwankow / Bernard Banaigs / Chris Bowler / Colomban de Vargas / Didier Forcioli / Paola Furla / Pierre E. Galand / Eric Gilson / Stéphanie Reynaud / Shinichi Sunagawa / Matthew B. Sullivan / Olivier P. Thomas / Romain Troublé / Rebecca Vega Thurber / Patrick Wincker / Didier Zoccola / Denis Allemand / Serge Planes / Emmanuel Boss / Gaby Gorsky

Scientific Data, Vol 10, Iss 1, Pp 1-

2023 Volume 25

Abstract: Abstract The Tara Pacific expedition (2016–2018) sampled coral ecosystems around 32 islands in the Pacific Ocean and the ocean surface waters at 249 locations, resulting in the collection of nearly 58 000 samples. The expedition was designed to ... ...

Abstract	Abstract The Tara Pacific expedition (2016–2018) sampled coral ecosystems around 32 islands in the Pacific Ocean and the ocean surface waters at 249 locations, resulting in the collection of nearly 58 000 samples. The expedition was designed to systematically study warm-water coral reefs and included the collection of corals, fish, plankton, and seawater samples for advanced biogeochemical, molecular, and imaging analysis. Here we provide a complete description of the sampling methodology, and we explain how to explore and access the different datasets generated by the expedition. Environmental context data were obtained from taxonomic registries, gazetteers, almanacs, climatologies, operational biogeochemical models, and satellite observations. The quality of the different environmental measures has been validated not only by various quality control steps, but also through a global analysis allowing the comparison with known environmental large-scale structures. Such publicly released datasets open the perspective to address a wide range of scientific questions.
Keywords	Science ; Q
Subject code	551
Language	English
Publishing date	2023-06-01T00:00:00Z
Publisher	Nature Portfolio
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article: Planktonic prokaryote and protist communities in a submarine canyon system in the Ligurian Sea (NW Mediterranean)

Celussi, Mauro / Alberto Pallavicini / Alessandro Coluccelli / Aniello Russo / Annalisa Franzo / Cinzia Corinaldesi / Eugenio Rastelli / Gian Marco Luna / Grazia Marina Quero / Jacopo Chiggiato / Jean-François Ghiglione / Luca Zoccarato / Marco Lo Martire / Paola Del Negro / Pierre E. Galand / Serena Fonda Umani

Progress in oceanography. 2018 Nov., v. 168

2018

Abstract: Submarine canyons are large geomorphological features that incise continental margins and act as highly dynamic conduits of sediments from shallow to the deep-sea regions. They are often regarded as biodiversity and biomass hotspots, but their role in ... ...

Abstract	Submarine canyons are large geomorphological features that incise continental margins and act as highly dynamic conduits of sediments from shallow to the deep-sea regions. They are often regarded as biodiversity and biomass hotspots, but their role in influencing plankton communities is still poorly known. We studied the ecology of planktonic deep-sea microbes in a submarine canyon system (Polcevera and Bisagno canyons) in the Ligurian Sea (NW Mediterranean Sea), aiming at testing whether these large-scale incisions are peculiar systems, in comparison to the overlying water and the adjacent uncarved slope, in terms of biogeochemical and biological features. We analysed microbial communities’ composition by high-throughput sequencing of 16S and 18S rRNA genes and their functional attributes by measuring heterotrophic carbon production, dissolved inorganic carbon fixation, respiration and the activity of the exoenzymes leucine aminopeptidase, alkaline phosphatase, beta-glucosidase and lipase. We found that both prokaryotic and eukaryotic communities were not significantly different inside the canyons (if compared to the close slope and overlying water), but they were rather shaped by the water masses dynamics in the area. The shallowest Modified Atlantic Waters, Levantine Intermediate Waters and Winter Intermediate Waters hosted higher percentages of Alphaproteobacteria, Bacteroidetes and Dinophyta, while the deepest Western Mediterranean Deep Waters hosted a higher fraction of Gammaproteobacteria, Chloroflexi, Discoba and Fungi. Among the functional measurements, only leucine aminopeptidase activity showed higher rates within the canyons. However, local hotspots within the canyons characterised by high particulate matter loads and high C:N ratio (interpreted as refractory material from sediment local resuspension) displayed pronounced degradation activities.
Keywords	alkaline phosphatase ; alpha-Proteobacteria ; Bacteroidetes ; beta-glucosidase ; biodiversity ; biomass ; canyons ; carbon dioxide fixation ; carbon nitrogen ratio ; carboxylic ester hydrolases ; Chloroflexi ; enzyme activity ; extracellular enzymes ; fungi ; gamma-Proteobacteria ; genes ; high-throughput nucleotide sequencing ; inorganic carbon ; leucyl aminopeptidase ; microbial communities ; particulates ; plankton ; prokaryotic cells ; protists ; ribosomal RNA ; sediments ; Mediterranean Sea
Language	English
Dates of publication	2018-11
Size	p. 210-221.
Publishing place	Elsevier Ltd
Document type	Article
ISSN	0079-6611
DOI	10.1016/j.pocean.2018.10.002
Database	NAL-Catalogue (AGRICOLA)

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Article ; Online: The Tara Pacific expedition-A pan-ecosystemic approach of the "-omics" complexity of coral reef holobionts across the Pacific Ocean.

Serge Planes / Denis Allemand / Sylvain Agostini / Bernard Banaigs / Emilie Boissin / Emmanuel Boss / Guillaume Bourdin / Chris Bowler / Eric Douville / J Michel Flores / Didier Forcioli / Paola Furla / Pierre E Galand / Jean-François Ghiglione / Eric Gilson / Fabien Lombard / Clémentine Moulin / Stephane Pesant / Julie Poulain /

Stéphanie Reynaud / Sarah Romac / Matthew B Sullivan / Shinichi Sunagawa / Olivier P Thomas / Romain Troublé / Colomban de Vargas / Rebecca Vega Thurber / Christian R Voolstra / Patrick Wincker / Didier Zoccola / Tara Pacific Consortium

PLoS Biology, Vol 17, Iss 9, p e

2019 Volume 3000483

Abstract: Coral reefs are the most diverse habitats in the marine realm. Their productivity, structural complexity, and biodiversity critically depend on ecosystem services provided by corals that are threatened because of climate change effects-in particular, ... ...

Abstract	Coral reefs are the most diverse habitats in the marine realm. Their productivity, structural complexity, and biodiversity critically depend on ecosystem services provided by corals that are threatened because of climate change effects-in particular, ocean warming and acidification. The coral holobiont is composed of the coral animal host, endosymbiotic dinoflagellates, associated viruses, bacteria, and other microeukaryotes. In particular, the mandatory photosymbiosis with microalgae of the family Symbiodiniaceae and its consequences on the evolution, physiology, and stress resilience of the coral holobiont have yet to be fully elucidated. The functioning of the holobiont as a whole is largely unknown, although bacteria and viruses are presumed to play roles in metabolic interactions, immunity, and stress tolerance. In the context of climate change and anthropogenic threats on coral reef ecosystems, the Tara Pacific project aims to provide a baseline of the "-omics" complexity of the coral holobiont and its ecosystem across the Pacific Ocean and for various oceanographically distinct defined areas. Inspired by the previous Tara Oceans expeditions, the Tara Pacific expedition (2016-2018) has applied a pan-ecosystemic approach on coral reefs throughout the Pacific Ocean, drawing an east-west transect from Panama to Papua New Guinea and a south-north transect from Australia to Japan, sampling corals throughout 32 island systems with local replicates. Tara Pacific has developed and applied state-of-the-art technologies in very-high-throughput genetic sequencing and molecular analysis to reveal the entire microbial and chemical diversity as well as functional traits associated with coral holobionts, together with various measures on environmental forcing. This ambitious project aims at revealing a massive amount of novel biodiversity, shedding light on the complex links between genomes, transcriptomes, metabolomes, organisms, and ecosystem functions in coral reefs and providing a reference of the biological state of modern coral reefs in the Anthropocene.
Keywords	Biology (General) ; QH301-705.5
Subject code	551
Language	English
Publishing date	2019-09-01T00:00:00Z
Publisher	Public Library of Science (PLoS)
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Expanding Tara Oceans Protocols for Underway, Ecosystemic Sampling of the Ocean-Atmosphere Interface During Tara Pacific Expedition (2016–2018)

Gabriel Gorsky / Guillaume Bourdin / Fabien Lombard / Maria Luiza Pedrotti / Samuel Audrain / Nicolas Bin / Emmanuel Boss / Chris Bowler / Nicolas Cassar / Loic Caudan / Genevieve Chabot / Natalie R. Cohen / Daniel Cron / Colomban De Vargas / John R. Dolan / Eric Douville / Amanda Elineau / J. Michel Flores / Jean Francois Ghiglione /

Frontiers in Marine Science, Vol

2019 Volume 6

Abstract: Interactions between the ocean and the atmosphere occur at the air-sea interface through the transfer of momentum, heat, gases and particulate matter, and through the impact of the upper-ocean biology on the composition and radiative properties of this ... ...

Abstract	Interactions between the ocean and the atmosphere occur at the air-sea interface through the transfer of momentum, heat, gases and particulate matter, and through the impact of the upper-ocean biology on the composition and radiative properties of this boundary layer. The Tara Pacific expedition, launched in May 2016 aboard the schooner Tara, was a 29-month exploration with the dual goals to study the ecology of reef ecosystems along ecological gradients in the Pacific Ocean and to assess inter-island and open ocean surface plankton and neuston community structures. In addition, key atmospheric properties were measured to study links between the two boundary layer properties. A major challenge for the open ocean sampling was the lack of ship-time available for work at “stations”. The time constraint led us to develop new underway sampling approaches to optimize physical, chemical, optical, and genomic methods to capture the entire community structure of the surface layers, from viruses to metazoans in their oceanographic and atmospheric physicochemical context. An international scientific consortium was put together to analyze the samples, generate data, and develop datasets in coherence with the existing Tara Oceans database. Beyond adapting the extensive Tara Oceans sampling protocols for high-resolution underway sampling, the key novelties compared to Tara Oceans’ global assessment of plankton include the measurement of (i) surface plankton and neuston biogeography and functional diversity; (ii) bioactive trace metals distribution at the ocean surface and metal-dependent ecosystem structures; (iii) marine aerosols, including biological entities; (iv) geography, nature and colonization of microplastic; and (v) high-resolution underway assessment of net community production via equilibrator inlet mass spectrometry. We are committed to share the data collected during this expedition, making it an important resource important resource to address a variety of scientific questions.
Keywords	neuston/plankton genomics/taxonomy/imaging ; aerosols ; NCP ; IOP ; trace metals ; microplastic ; Science ; Q ; General. Including nature conservation ; geographical distribution ; QH1-199.5
Subject code	551
Language	English
Publishing date	2019-12-01T00:00:00Z
Publisher	Frontiers Media S.A.
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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