Silent rain: does the atmosphere-mediated connectivity between microbiomes influence bacterial evolutionary rates?

Exploring the size-dependent dynamics of photosynthetic cells in rainwater: The influence of atmospheric variables and rain characteristics

The presence of microalgae in the atmosphere raises health and environmental concerns. Despite recent scientific advances, our knowledge of the origins and dynamics of photosynthetic cells in relation to atmospheric processes is limited due to a lack of empirical data. To address this gap, we conducted a one-year survey, collecting and analyzing rainwater samples. This study proposes to investigate the temporal dynamics of photosynthetic cells based on their size in combination with a unique dataset of variables of interest: type of rain and its characteristics, local meteorology, concentrations of inorganic chemical species, and long-range air mass transport. The analysis of the biochemical composition of rainwater, along with its correlation with the origin of air masses using ions as tracers, provides evidence of the long-range transport of photosynthetic cells. Additionally, our study reveals distinct removal mechanisms from the atmosphere for photosynthetic cells depending on their size. Our results suggest that convective events with high-intensity rainfall led to the efficient removal of medium-sized photosynthetic cells (4-15 μm) from the atmosphere. However, removal mechanisms for small (<4 μm) and large-sized cells (>15 μm) are not influenced by microphysical rainfall characteristics and seem to be governed by different atmospheric processes: dry deposition is proposed to be a significant mechanism for the removal of large-sized photosynthetic cells, while small-sized cells detected in rain are correlated with the horizontal wind speed and duration of rainfall, particularly during stratiform events. This implies that the removal of photosynthetic cells from the atmosphere is strongly influenced by environmental variables, which are expected to vary in response to global change. Therefore, it is crucial to enhance the monitoring of photosynthetic cells in relation to atmospheric processes and investigate the potential impact of the dissemination of genetic material from distant sources on recipient ecosystems.

Marine viruses disperse bidirectionally along the natural water cycle

Marine viruses in seawater have frequently been studied, yet their dispersal from neuston ecosystems at the air-sea interface towards the atmosphere remains a knowledge gap. Here, we show that 6.2% of the studied virus population were shared between air-sea interface ecosystems and rainwater. Virus enrichment in the 1-mm thin surface microlayer and sea foams happened selectively, and variant analysis proved virus transfer to aerosols collected at ~2 m height above sea level and rain. Viruses detected in rain and these aerosols showed a significantly higher percent G/C base content compared to marine viruses. CRISPR spacer matches of marine prokaryotes to foreign viruses from rainwater prove regular virus-host encounters at the air-sea interface. Our findings on aerosolization, adaptations, and dispersal support transmission of viruses along the natural water cycle.

The aeromicrobiome: the selective and dynamic outer-layer of the Earth's microbiome

The atmosphere is an integral component of the Earth's microbiome. Abundance, viability, and diversity of microorganisms circulating in the air are determined by various factors including environmental physical variables and intrinsic and biological properties of microbes, all ranging over large scales. The aeromicrobiome is thus poorly understood and difficult to predict due to the high heterogeneity of the airborne microorganisms and their properties, spatially and temporally. The atmosphere acts as a highly selective dispersion means on large scales for microbial cells, exposing them to a multitude of physical and chemical atmospheric processes. We provide here a brief critical review of the current knowledge and propose future research directions aiming at improving our comprehension of the atmosphere as a biome.

Rainfalls sprinkle cloud bacterial diversity while scavenging biomass

Bacteria circulate in the atmosphere, through clouds and precipitation to surface ecosystems. Here, we conducted a coordinated study of bacteria assemblages in clouds and precipitation at two sites distant of ∼800 m in elevation in a rural vegetated area around puy de Dôme Mountain, France, and analysed them in regard to meteorological, chemical and air masses' history data. In both clouds and precipitation, bacteria generally associated with vegetation or soil dominated. Elevated ATP-to-cell ratio in clouds compared with precipitation suggested a higher proportion of viable cells and/or specific biological processes. The increase of bacterial cell concentration from clouds to precipitation indicated strong below-cloud scavenging. Using ions as tracers, we derive that 0.2 to 25.5% of the 1.1 × 107 to 6.6 × 108 bacteria cell/m2/h1 deposited with precipitation originated from the source clouds. Yet, the relative species richness decreased with the proportion of inputs from clouds, pointing them as sources of distant microbial diversity. Biodiversity profiles, thus, differed between clouds and precipitation in relation with distant/local influencing sources, and potentially with bacterial phenotypic traits. Notably Undibacterium, Bacillus and Staphylococcus were more represented in clouds, while epiphytic bacteria such as Massilia, Sphingomonas, Rhodococcus and Pseudomonas were enriched in precipitation.

Indirect Selection against Antibiotic Resistance via Specialized Plasmid-Dependent Bacteriophages

Antibiotic resistance genes of important Gram-negative bacterial pathogens are residing in mobile genetic elements such as conjugative plasmids. These elements rapidly disperse between cells when antibiotics are present and hence our continuous use of antimicrobials selects for elements that often harbor multiple resistance genes. Plasmid-dependent (or male-specific or, in some cases, pilus-dependent) bacteriophages are bacterial viruses that infect specifically bacteria that carry certain plasmids. The introduction of these specialized phages into a plasmid-abundant bacterial community has many beneficial effects from an anthropocentric viewpoint: the majority of the plasmids are lost while the remaining plasmids acquire mutations that make them untransferable between pathogens. Recently, bacteriophage-based therapies have become a more acceptable choice to treat multi-resistant bacterial infections. Accordingly, there is a possibility to utilize these specialized phages, which are not dependent on any particular pathogenic species or strain but rather on the resistance-providing elements, in order to improve or enlengthen the lifespan of conventional antibiotic approaches. Here, we take a snapshot of the current knowledge of plasmid-dependent bacteriophages.