Publications associées à Meta-omics-aided isolation of an elusive anaerobic arsenic-methylating soil bacterium

The microbial genomics of glacier-fed streams: adaptations to an extreme ecosystem

Glacier-fed streams are the cold, ultra-oligotrophic, and unstable streams that are fed by glacial meltwater. Despite these extreme conditions, they harbour a diverse and abundant microbial diversity that develops into biofilms, covering the boulders and s ...

EPFL2024

Benchmarking informatics approaches for virus discovery: caution is needed when combining in silico identification methods

Jaspreet Singh Saini

Understanding the ecological impacts of viruses on natural and engineered ecosystems relies on the accurate identification of viral sequences from community sequencing data. To maximize viral recovery from metagenomes, researchers frequently combine viral ...

Amer Soc Microbiology2024

Reconstruction and analysis of genome-scale metabolic networks in single organisms and microbial communities

Evangelia Vagena

Microorganisms are a key component in the chain of life. They are essential for agriculture, produce a large proportion of oxygen, and play a central role in the cycle of elements. Microorganisms are widely used in the production of food and alcoholic beve ...

EPFL2024

Microbial genome collection of aerobic granular sludge cultivated in sequencing batch reactors using different carbon source mixtures

Aline Sondra Adler, Christof Holliger, Pilar Natalia Rodilla Ramírez, Laetitia Janine Andrée Cardona, Jaspreet Singh Saini, Ruizhe Pei

Aerobic granular sludge (AGS) consists of a microbial consortium that has an important role in wastewater treatment. This study investigates AGS microorganisms cultivated in a laboratory-scale sequencing batch reactor. Metagenomic sequencing was conducted ...

Amer Soc Microbiology2024

Comparison of Three Viral Nucleic Acid Preamplification Pipelines for Sewage Viral Metagenomics

Tamar Kohn, Xavier Fernandez Cassi

Viral metagenomics is a useful tool for detecting multiple human viruses in urban sewage. However, more refined protocols are required for its effective use in disease surveillance. In this study, we investigated the performance of three different preampli ...

2024

The cost of adaptability: resource availability constrains functional stability under pulsed disturbances

Hannes Markus Peter

Global change exposes ecosystems to changes in the frequency, magnitude, and concomitancy of disturbances, which impact the composition and functioning of these systems. Here, we experimentally evaluate the effects of salinity disturbances and eutrophicati ...

Amer Soc Microbiology2024

Fungal community composition predicts forest carbon storage at a continental scale

Nina Marion Aurélia Van Tiel

Forest soils harbor hyper-diverse microbial communities which fundamentally regulate carbon and nutrient cycling across the globe. Directly testing hypotheses on how microbiome diversity is linked to forest carbon storage has been difficult, due to a lack ...

Nature Portfolio2024

Microbial hydrogen sinks in the sand-bentonite backfill material for the deep geological disposal of radioactive waste

Rizlan Bernier-Latmani, Manon Frutschi, Niels Burzan, Aislinn Ann Boylan, Nicolas Louis Maurice Jacquemin, Simiao Wang, Camille Aude Rolland

The activity of subsurface microorganisms can be harnessed for engineering projects. For instance, the Swiss radioactive waste repository design can take advantage of indigenous microorganisms to tackle the issue of a hydrogen gas (H2) phase pressure build ...

Frontiers Media SA2024

Optimality principles for the analysis of biological processes across scales: From enzyme kinetics to microbiome dynamics

Asli Sahin

Microorganisms are essential for life on Earth, performing key roles in numerous biological processes. Their influence extends across a wide spectrum, from human health and ecological balance to advancements in biotechnology and industrial applications. Th ...

EPFL2024

Sulfur-cycling chemolithoautotrophic microbial community dominates a cold, anoxic, hypersaline Arctic spring

Ianina Altshuler

Background Gypsum Hill Spring, located in Nunavut in the Canadian High Arctic, is a rare example of a cold saline spring arising through thick permafrost. It perennially discharges cold (similar to 7 degrees C), hypersaline (7-8% salinity), anoxic (similar ...

BMC2023

Genomic insights into the coupling of a Chlorella-like microeukaryote and sulfur bacteria in the chemocline of permanently stratified Lake Cadagno

Christel Sybille Hassler

Meromictic Lake Cadagno is a permanently stratified system with a persistent microbial bloom within the oxic-anoxic boundary called the chemocline. The association between oxygenic and anoxygenic photosynthesis within the chemocline has been known for at l ...

SPRINGERNATURE2023

The Effects of Spatial Organization and Fluid Flow on the Social Interactions in Microbial Communities

Jeremy Pak Hei Wong

Bacteria often engage in social interactions with neighbouring bacteria. Ecosystems which are subjected to social interactions have been widely studied in well mixed settings such as test tubes, allowing us to identify the cellular components contributing ...

EPFL2023

Sulfurospirillum diekertiae sp. nov., a tetrachloroethene-respiring bacterium isolated from contaminated soil

Christof Holliger, Julien Maillard, Junxiong Wang

Two anaerobic, tetrachloroethene- (PCE-) respiring bacterial isolates, designated strain ACSDCE T and strain ACSTCE, were characterized using a polyphasic approach. Cells were Gram-stain-negative, motile, non-spore-forming and shared a vibrioid- to spirill ...

2023

Homogeneous Environmental Selection Structures the Bacterial Communities of Benthic Biofilms in Proglacial Floodplain Streams

Leïla Ezzat, Tom Ian Battin, Hannes Markus Peter, Jade Brandani, Tyler Joe Kohler, Stylianos Fodelianakis, Massimo Bourquin, Susheel Bhanu Busi, Grégoire Marie Octave Edouard Michoud

Streams draining proglacial floodplains harbor benthic biofilms comprised of diverse microbial communities. These high-mountain ecosystems are rapidly changing with climate warming, and it is therefore critical to better understand the mechanisms underlyin ...

AMER SOC MICROBIOLOGY2023

The biofilm ecology of proglacial floodplain streams

Jade Brandani

Glacial forelands figure among the most dynamic landscapes on Earth, and their formation is currently accelerating given glacier shrinkage. Draining these forelands are streams hosting unique microbial communities, which have the capacity to impact both th ...

EPFL2023

Metabolic Performance and Fate of Electrons during Nitrate-Reducing Fe(II) Oxidation by the Autotrophic Enrichment Culture KS Grown at Different Initial Fe/N Ratios

Natalia Jakus

Autotrophic nitrate-reducing Fe(II)-oxidizing (NRFeOx) microorganisms fix CO2 and oxidize Fe(II) coupled to denitrification, influencing carbon, iron, and nitrogen cycles in pH-neutral, anoxic environments. However, the distribution of electrons from Fe(II ...

AMER SOC MICROBIOLOGY2023

Overexpression of human alpha-Synuclein leads to dysregulated microbiome/metabolites with ageing in a rat model of Parkinson disease

Yogesh Singh Chauhan, Hilal Lashuel, Florian Lang, Joan Romani Aumedes, Yogesh Singh

Background Braak's hypothesis states that sporadic Parkinson's disease (PD) follows a specific progression of pathology from the peripheral to the central nervous system, and this progression can be monitored by detecting the accumulation of alpha-Synuclei ...

BMC2023

Biofilm morphogenesis on soft hydrogels

Alice Cont

Bacteria often colonize their environment in the form of surface attached multicellular communities called biofilms. Biofilms grow from surface-attached cells that undergo division while self-embedding in a viscoelastic matrix. Biofilms grow at the surface ...

EPFL2023

What happens to biomass burning-emitted particles in the ocean? A laboratory experimental approach based on their tracers

Christos Panagiotopoulos

Wildfires, controlled burns, and biofuel combustion (biomass burning or BB) are major contributors to particulate matter in the atmosphere and thus have an impact on climate, human health, and ecosystems. Once emitted, the particulate matter derived from B ...

Elsevier2023

Proteome adaptations of the organohalide-respiring Desulfitobacterium hafniense strain DCB-2 to various energy metabolisms

Christof Holliger, Julien Maillard, Florence Armand, Romain Hamelin, Mathilde Stéphanie Willemin

IntroductionDesulfitobacterium hafniense was isolated for its ability to use organohalogens as terminal electron acceptors via organohalide respiration (OHR). In contrast to obligate OHR bacteria, Desulfitobacterium spp. show a highly versatile energy meta ...

Frontiers Media SA2023