Eric Capo

Eric Capo
Institut de Ciències del Mar · Department of Marine Biology

PhD in Aquatic Microbial Ecology
Post-doc Researcher, Coordinator of the sedaDNA scientific society

About

43
Publications
14,583
Reads
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502
Citations
Citations since 2016
39 Research Items
491 Citations
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Introduction
I am an aquatic microbial ecologist using molecular tools to study past and modern microbial communities (e.g. bacteria, archaea and protists) and their responses to environmental changes. I currently study mercury cycling microorganisms from marine systems. In parallel, I am working on ancient metagenomes from freshwater and marine sediments.
Additional affiliations
July 2019 - August 2021
Umeå University
Position
  • PostDoc Position
Description
  • The goal of this project was to investigate mercury methylation of the microbial communitiy in the Baltic Sea waters
June 2017 - May 2019
Umeå University
Position
  • PostDoc Position
Description
  • The research works aims were - to quantify fish abundance in northern lakes via eDNA analysis - to study climate change-induced regime shifts in northern lake ecosystems
Education
October 2013 - September 2016
French National Institute for Agriculture, Food, and Environment (INRAE)
Field of study
  • Environmental microbiology, limnology, molecular paleoecology
September 2011 - June 2013
Claude Bernard University Lyon 1
Field of study
  • Microbial Ecology

Publications

Publications (43)
Article
Full-text available
High-throughput sequencing of sedimentary DNA (sed-DNA) was utilized to reconstruct the temporal dynamics of microbial eukaryotic communities (MECs) at a centennial scale in two re-oligotrophicated lakes that were exposed to different levels of phosphorus enrichment. The temporal changes within the MECs were expressed in terms of richness, composit...
Article
Full-text available
The use of lake sedimentary DNA to track the long-term changes in both terrestrial and aquatic biota is a rapidly advancing field in paleoecological research. Although largely applied nowadays, knowledge gaps remain in this field and there is therefore still research to be conducted to ensure the reliability of the sedimentary DNA signal. Building...
Article
Full-text available
In-depth knowledge about spatial and temporal variation in microbial diversity and function is needed for a better understanding of ecological and evolutionary responses to global change. In particular, the study of microbial ancient DNA preserved in sediment archives from lakes and oceans can help us to evaluate the responses of aquatic microbes i...
Article
Full-text available
Mercury (Hg) methylation genes (hgcAB) mediate the formation of the toxic methylmercury and have been identified from diverse environments, including freshwater and marine ecosystems, Arctic permafrost, forest and paddy soils, coal‐ash amended sediments, chlor‐alkali plants discharges and geothermal springs. Here we present the first attempt at a s...
Article
Full-text available
Increased concentration of mercury, particularly methylmercury, in the environment is a worldwide concern because of its toxicity in severely exposed humans. Although the formation of methylmercury in oxic water columns has been previously suggested, there is no evidence of the presence of microorganisms able to perform this process, using the hgcA...
Article
Full-text available
Analyses of sedimentary DNA (sedDNA) have increased exponentially over the last decade and hold great potential to study the effects of anthropogenic stressors on lake biota over time. Herein, we synthesise the literature that has applied a sedDNA approach to track historical changes in lake biodiversity in response to anthropogenic impacts, with a...
Article
Full-text available
Planktonic and benthic bacterial communities hold central roles in the functioning of freshwater ecosystems and mediate key ecosystem services such as primary production and nutrient remineralisation. Although it is clear that such communities vary in composition both within and between lakes, the environmental factors and processes shaping the div...
Article
Full-text available
Neurotoxic methylmercury (MeHg) is formed by microbial methylation of inorganic divalent Hg (HgII) and constitutes severe environmental and human health risks. The methylation is enabled by hgcA and hgcB genes, but it is not known if the associated molecular-level processes are rate-limiting or enable accurate prediction of MeHg formation in nature...
Data
Locations of sampling sites from sedimentary ancient environmental DNA (aeDNA) studies. aeDNA is DNA that has degraded into short fragments, exhibits post-mortem damage signatures, and is recovered from a non-living tissue, organism, or environmental sample. Here we focus on sedimentary archives with contiguous records such as lake and marine sedim...
Conference Paper
Full-text available
Since the industrial revolution, Lake Biwa (Japan) has been subjected to multiple stressors of human origins causing alterations in the composition and function of its resident biota and thus its ecosystem services. Lake eutrophication in the 1960s, the manipulation of lake water level since 1990s and concomitantly rising of water temperatures have...
Preprint
Full-text available
Mercury methylation genes (hgcAB) mediate the formation of the toxic methylmercury and have been identified from diverse environments, including freshwater and marine ecosystems, Arctic permafrost, forest and paddy soils, coal-ash amended sediments, chlor-alkali plants discharges and geothermal springs. Here we present the first attempt at a standa...
Poster
Full-text available
Microbes carrying the hgcAB gene pair are primarily responsible for methylmercury (MeHg) production, transforming inorganic mercury (HgII) into MeHg. Recent work based on the detection of hgcAB genes in publicly available genomic data and metagenome-assembled genomes expanded our understanding of the phylogenetic diversity of potential Hg-methylato...
Preprint
Full-text available
Neurotoxic methylmercury (MeHg) is formed by microbial methylation of inorganic divalent Hg (HgII) and constitutes severe environmental and human health risks. The methylation is enabled by hgcA and hgcB genes, but it is not known if the associated molecular-level processes are rate-limiting or enable accurate prediction of MeHg formation in nature...
Article
Full-text available
Human-induced expansion of oxygen-deficient zones can have dramatic impacts on marine systems and its resident biota. One example is the formation of the potent neurotoxic methylmercury (MeHg) that is mediated by microbial methylation of inorganic divalent Hg (HgII) under oxygen-deficient conditions. A negative consequence of the expansion of oxyge...
Article
Full-text available
PaleoEcoGen is a new working group that was launched with the aim of bringing together scientists from around the world who use ancient environmental DNA (ancient eDNA) as a novel proxy to examine the response of past biological communities to environmental changes (pastglobalchanges.org/paleoecogen). We are particularly interested in exploiting th...
Article
Full-text available
During the 20th century, many lakes in the Northern Hemisphere were affected by increasing human population and urbanization along their shorelines and catchment, resulting in aquatic eutrophication. Ecosystem monitoring commenced only after the changes became apparent, precluding any examination of timing and dynamics of initial community change i...
Conference Paper
Historical deposits of sedimentary DNA are a promising target for molecular tools with potential to inform about long-term changes in aquatic microbiome (i.e., bacteria, archaea protists, fungi, viruses) and how microorganisms are controlled by viral infection, pathogens, and larger predators (e.g. zooplankton and fish). As sedimentary DNA archives...
Article
Full-text available
Anthropogenic and climatic stressors on freshwater ecosystems are of global concern. However, the interactions and effects of multiple stressors (e.g., nutrient enrichment, climate warming, altered wind and precipitation) acting over different spatial and temporal scales are often complex and remain controversial. Here, we reconstructed one‐century...
Article
Full-text available
Climate change is projected to cause increased inflow of terrestrial dissolved organic matter to coastal areas in northerly regions. Estuarine bacterial community will thereby receive larger loads of organic matter and inorganic nutrients available for microbial metabolism. The composition of the bacterial community and its ecological functions may...
Conference Paper
Full-text available
Since the seminal paper in 1998 (Coolen and Overmann), sedimentary ancient DNA (sedaDNA) has become a powerful tool in paleoecology to reconstruct past changes in terrestrial and aquatic biodiversity. Still, sedaDNA is an emerging tool and there is a need for calibrations and validations to ensure the reliability of sedaDNA as a proxy to reconstruc...
Article
Full-text available
Functionally uniform monocultures have remained the paradigm in microalgal cultivation despite the apparent challenges to avoid invasions by other microorganisms. A mixed microbial consortium approach has the potential to optimize and maintain biomass production despite of seasonal changes and to be more resilient toward contaminations. Here we pre...
Article
Full-text available
Measures of environmental DNA (eDNA) concentrations in water samples have the potential to be both a cost-efficient and a nondestructive method to estimate fish population abundance. However, the inherent temporal and spatial variability in abiotic and biotic conditions in aquatic systems have been suggested to be a major obstacle to determine rela...
Article
Full-text available
On the annual and interannual scales, lake microbial communities are known to be heavily influenced by environmental conditions both in the lake and in its terrestrial surroundings. However , the influence of landscape setting and environmental change on shaping these communities over a longer (millennial) timescale is rarely studied. Here, we appl...
Article
Full-text available
To better predict the consequences of environmental change on aquatic microbial ecosystems it is important to understand what enables community resilience. The mechanisms by which a microbial community maintain its overall function, for example, the cycling of carbon, when exposed to a stressor, can be explored by considering three concepts: biotic...
Data
Microorganisms play a significant role in regulating the form and fate of mercury (Hg) in aquatic and terrestrial ecosystems. Microbes with the hgcAB gene pair can produce a more toxic, and bioaccumulative form of Hg, methylmercury (MeHg). Microbes that possess the mer operon can demethylate and/or reduce Hg species as part of a detoxification mech...
Article
Full-text available
Methylmercury (MeHg), a neurotoxic compound biomagnifying in aquatic food webs, can be a threat to human health via fish consumption. However, the composition and distribution of the microbial communities mediating the methylation of mercury (Hg) to MeHg in marine systems remain largely unknown. In order to fill this knowledge gap, we used the Balt...
Article
Full-text available
The quantification of the abundance of aquatic organisms via the use of environmental DNA (eDNA) molecules present in water is potentially a useful tool for efficient and noninvasive population monitoring. However, questions remain about the reliability of molecular methods. Among the factors that can hamper the reliability of the eDNA quantificati...
Preprint
Full-text available
Methylmercury (MeHg), a neurotoxic compound biomagnifying in aquatic food webs, can be a threat to human health via fish consumption. However, the composition and distribution of the microbial communities mediating the methylation of mercury (Hg) to MeHg in marine systems remain largely unknown. In order to fill this gap of knowledge, we used the B...
Article
Full-text available
Classical methods for estimating the abundance of fish populations are often both expensive, time-consuming and destructive. Analyses of the environmental DNA (eDNA) present in water samples could alleviate such constraints. Here, we developed protocols to detect and quantify brown trout (Salmo trutta) and Arctic char (Salvelinus alpinus) populatio...
Conference Paper
The temporal trajectory of lake microbial communities is still rarely investigated over timescales that encompass the full history of an aquatic ecosystem and, therefore, its response to global or local long-term environmental changes. Thanks to the development of molecularbased procedures in paleoecology, it is today possible to assess changes in...
Article
Full-text available
To assess the sensitivity of lakes to anthropogenically-driven environmental changes (e.g., nutrient supply, climate change), it is necessary to first isolate the effects of between-year variability in weather conditions. This variability can strongly impact a lake’s biological community especially in boreal and arctic areas where snow phenology pl...
Conference Paper
Full-text available
Climate change is a key driver of changes in lakes, especially in northern ecosystems. The structure, composition and metabolism of aquatic communities may be highly sensitive to climate-driven weather variability with possible negative effects on lake functioning and ecosystem services. Ice-covered lakes are particularly interesting because of the...
Article
Full-text available
Paleogenetics provides a powerful framework to reconstruct the long-term temporal dynamics of various biological groups from aquatic sediments. However, validations are still required to ensure the authenticity of the molecular signal obtained from sedimentary DNA. Here, we investigated the effects of early diagenesis on the DNA signal from micro-e...
Article
Full-text available
The emergence of DNA analyses of lake sediments has opened up many new areas of inquiry, including the study of taxa that were traditionally not considered in paleolimnology because they do not leave distinct morphological fossils. Here, we discuss the potential and challenges associated with the study of DNA in paleolimnology to address critical r...
Thesis
Full-text available
L’eutrophisation et le réchauffement climatique sont reconnus comme des forçages majeurs du fonctionnement des lacs. Toutefois les connaissances concernant la réponse des communautés microbiennes eucaryotes à ces forçages sont encore très lacunaires, alors même que les microbes eucaryotes, porteurs d’une vaste diversité taxonomique et fonctionnelle...
Article
Full-text available
Assessing the extent to which changes in lacustrine biodiversity are affected by anthropogenic or climatic forces requires extensive paleolimnological data. We used high-throughput sequencing to generate time-series data encompassing over 2200 years of microbial eukaryotes (protists and Fungi) diversity changes from the sedimentary DNA record of 2...
Conference Paper
Based on the coupling between paleoecology and high-throughput sequencing of DNA, we analyzed the sedimentary records from two lakes (Lake Annecy and Lake Bourget, French Alps) in order to reconstruct the temporal dynamics of their microbial eukaryotes communities. We aimed to reveal the effects of environmental changes in these two lakes both simi...
Article
Full-text available
Studies based on the coupling of a paleolimnological approach and molecular tools (e.g., sequencing of sedimentary DNA) present a promising opportunity to obtain long-term data on past lacustrine biodiversity. However, certain validations are still required, such as the evaluation of DNA preservation in sediments for various planktonic taxa that do...

Questions

Question (1)
Question
Nowodays, there are many papers published in the field of sedimentary DNA. Some provide new strategies for the authentication of the past signal of biological communities, others provide interesting findings about population/community ecology or human migrations. Please cite one or several sed-DNA based papers that made major contributions in ecology.

Network

Cited By

Projects

Projects (5)
Project
Methylmercury (MeHg), a neurotoxic compound biomagnifying through aquatic food webs, can be a threat to human health via fish consumption. However, the composition and distribution of the microbial communities mediating the transformation of mercury (Hg) to MeHg and vice versa remain largely unknown in marine systems. Using environmental metagenomes and metatranscriptomes, we would like to augment the knowledge about the diversity, composition and role of Hg-cycling microbial guilds in oxygen-deficient aquatic ecosystems.
Project
This tool is an updated and comprehensive database about the scientific literature related to sed-ancient-DNA studies. This initiative comes from the sedaDNA scientific society https://ercapo.wixsite.com/sedadna-society