The archaeome in metaorganism research, with a focus on marine models and their bacteria-archaea interactions.

Metaorganism research contributes substantially to our understanding of the interaction between microbes and their hosts, as well as their co-evolution. Most research is currently focused on the bacterial community, while archaea often remain at the sidelines of metaorganism-related research. Here, we describe the archaeome of a total of eleven classical and emerging multicellular model organisms across the phylogenetic tree of life.

Turbid Waters and Clearer Standards: Refining Water Quality Criteria for Coastal Environments by Encompassing Metal Bioavailability from Suspended Particles.

Suspended particulate matter (SPM) carries a major fraction of metals in turbid coastal waters, markedly influencing metal bioaccumulation and posing risks to marine life. However, its effects are often overlooked in current water quality criteria for metals, primarily due to challenges in quantifying SPM's contribution. This contribution depends on the SPM concentration, metal distribution coefficients (), and the bioavailability of SPM-bound metals (assimilation efficiency, AE), which can collectively be integrated as a modifying factor (MF).

Properties influencing flux and diatom uptake of mercury and methylmercury from estuarine sediments.

Mercury (Hg) is a conspicuous and persistent global pollutant. Ionic Hg can be methylated into noxious methylmercury (CHHg), which biomagnifies in marine tropic webs and poses a health risk to humans and organisms. Sediment Hg methylation rates are variable, and the output flux of created CHHg are dependent on sediment characteristics and environmental factors.

The Impact of the Culture Regime on the Metabolome and Anti-Phytopathogenic Activity of Marine Fungal Co-Cultures.

Co-cultivation, coupled with the OSMAC approach, is considered an efficient method for expanding microbial chemical diversity through the activation of cryptic biosynthetic gene clusters (BGCs). As part of our project aiming to discover new fungal metabolites for crop protection, we previously reported five polyketides, the macrolides dendrodolides E () and N (), the azaphilones spiciferinone () and 8-hydroxy-spiciferinone (), and the -naphtho--pyrone cephalochromin () from the solid Potato Dextrose Agar (PDA) co-culture of two marine sediment-derived fungi, and . However, some of the purified metabolites could not be tested due to their minute quantities.

Diatom-mediated food web functioning under ocean artificial upwelling.

Enhancing ocean productivity by artificial upwelling is evaluated as a nature-based solution for food security and climate change mitigation. Fish production is intended through diatom-based plankton food webs as these are assumed to be short and efficient. However, our findings from mesocosm experiments on artificial upwelling in the oligotrophic ocean disagree with this classical food web model.

Plankton community changes during the last 124 000 years in the subarctic Bering Sea derived from sedimentary ancient DNA.

Current global warming results in rising sea-water temperatures, and the loss of sea ice in Arctic and subarctic oceans impacts the community composition of primary producers with cascading effects on the food web and potentially on carbon export rates. This study analyzes metagenomic shotgun and diatom rbcL amplicon sequencing data from sedimentary ancient DNA of the subarctic western Bering Sea that records phyto- and zooplankton community changes over the last glacial-interglacial cycles, including the last interglacial period (Eemian). Our data show that interglacial and glacial plankton communities differ, with distinct Eemian and Holocene plankton communities.

The decline of kilkas, sturgeons and seals in the Caspian Sea: The potential of qualitative loop analysis for the cumulative assessment of multiple drivers of stress.

Multiple stressors often act concomitantly on ecosystems but detection of species responses follows the "single species-single driver" strategy, and cumulative impacts are seldom considered. During 1990-2010, multiple perturbations in the Caspian Sea, led to the decline of kilka, sturgeon and Caspian seal populations. Specific causes for their collapse were identified but a cumulative assessment has never been carried out.

The source of microbial transmission influences niche colonization and microbiome development.

Early life microbial colonizers shape and support the immature vertebrate immune system. Microbial colonization relies on the vertical route via parental provisioning and the horizontal route via environmental contribution. Vertical transmission is mostly a maternal trait making it hard to determine the source of microbial colonization in order to gain insight into the establishment of the microbial community during crucial development stages.

Coastal trapped waves and tidal mixing control primary production in the tropical Angolan upwelling system.

Eastern boundary upwelling systems are hotspots of marine life and primary production. The strength and seasonality of upwelling in these systems are usually related to local wind forcing. However, in some tropical upwelling systems, seasonal maxima of productivity occur when upwelling favorable winds are weak.

Misconceptions of the marine biological carbon pump in a changing climate: Thinking outside the "export" box.

The marine biological carbon pump (BCP) stores carbon in the ocean interior, isolating it from exchange with the atmosphere and thereby coregulating atmospheric carbon dioxide (CO ). As the BCP commonly is equated with the flux of organic material to the ocean interior, termed "export flux," a change in export flux is perceived to directly impact atmospheric CO , and thus climate. Here, we recap how this perception contrasts with current understanding of the BCP, emphasizing the lack of a direct relationship between global export flux and atmospheric CO .

The transition between coastal and offshore areas in the North Sea unraveled by suspended particle composition.

Identifying the mechanisms that contribute to the variability of suspended particulate matter concentrations in coastal areas is important but difficult, especially due to the complexity of physical and biogeochemical interactions involved. Our study addresses this complexity and investigates changes in the horizontal spread and composition of particles, focusing on cross-coastal gradients in the southern North Sea and the English Channel. A semi-empirical model is applied on in situ data of SPM and its organic fraction to resolve the relationship between organic and inorganic suspended particles.

Seawater physics and chemistry along the Med-SHIP transects in the Mediterranean Sea in 2016.

The Mediterranean Sea has been sampled irregularly by research vessels in the past, mostly by national expeditions in regional waters. To monitor the hydrographic, biogeochemical and circulation changes in the Mediterranean Sea, a systematic repeat oceanographic survey programme called Med-SHIP was recommended by the Mediterranean Science Commission (CIESM) in 2011, as part of the Global Ocean Ship-based Hydrographic Investigations Program (GO-SHIP). Med-SHIP consists of zonal and meridional surveys with different frequencies, where comprehensive physical and biogeochemical properties are measured with the highest international standards.

The effects of primary and secondary bacterial exposure on the seahorse (Hippocampus erectus) immune response.

Evolutionary adaptations in the Syngnathidae teleost family (seahorses, pipefish and seadragons) culminated in an array of spectacular morphologies, key immune gene losses, and the enigmatic male pregnancy. In seahorses, genome modifications associated with immunoglobulins, complement, and major histocompatibility complex (MHC II) pathway components raise questions concerning their immunological efficiency and the evolution of compensatory measures that may act in their place. In this investigation heat-killed bacteria (Vibrio aestuarianus and Tenacibaculum maritimum) were used in a two-phased experiment to assess the immune response dynamics of Hippocampus erectus.

Genetic diversity and population structure of farmed and wild Nile tilapia (Oreochromis niloticus) in Uganda: The potential for aquaculture selection and breeding programs.

Nile tilapia is one of the most important aquaculture species globally, providing high-quality animal protein for human nutrition and a source of income to sustain the livelihoods of many people in low- and middle-income countries. This species is native to Africa and nowadays farmed throughout the world. However, the genetic makeup of its native populations remains poorly characterized.

Governance pathway for coastal eutrophication based on regime shifts in diatom-dinoflagellate composition of the Bohai and Baltic Seas.

Regime shifts in the diatom-dinoflagellate composition have occurred in the Baltic Sea (BS) and Bohai Sea (BHS) under eutrophication and have affected the entire coastal ecosystem, damaging the regulatory, provisioning, cultural, and supporting service functions of marine ecosystems. Therefore, finding a solution to restore the balance of phytoplankton community composition and mitigate eutrophication is of utmost importance. In this study, the Driver (per capita gross domestic product)-Pressure (terrestrial inputs)-State (seawater environmental parameters)-Impact (proportions of diatoms and dinoflagellates)-Response (eutrophication governance projects) framework served as a guide for our analysis of the causal relationship among various environmental components in the coastal system.

Novel Henna-Related Naphthazarine Photosensitizers for an Effective Photodynamic Therapy of Onychomycosis.

Onychomycosis caused by, e.g., or is the most common human nail disease with a worldwide prevalence of more than 10%.

Opportunistic Bacteria of Grapevine Crown Galls Are Equipped with the Genomic Repertoire for Opine Utilization.

Young grapevines (Vitis vinifera) suffer and eventually can die from the crown gall disease caused by the plant pathogen Allorhizobium vitis (Rhizobiaceae). Virulent members of A. vitis harbor a tumor-inducing plasmid and induce formation of crown galls due to the oncogenes encoded on the transfer DNA.

Lipidomic chemotaxonomy aligned with phylogeny of Halobacteria.

Archaea play an important role in global biogeochemical cycles and are considered ancestral to eukaryotes. The unique lipid composition of archaea, characterized by isoprenoid alkyl chains and ether linkage to glycerol-1-phosphate, offers valuable insights into archaeal phylogeny and evolution. However, comprehensive studies focusing on archaeal lipidomes, especially at the intact polar lipid level, are currently limited.

Toward a Cenozoic history of atmospheric CO.

The geological record encodes the relationship between climate and atmospheric carbon dioxide (CO) over long and short timescales, as well as potential drivers of evolutionary transitions. However, reconstructing CO beyond direct measurements requires the use of paleoproxies and herein lies the challenge, as proxies differ in their assumptions, degree of understanding, and even reconstructed values. In this study, we critically evaluated, categorized, and integrated available proxies to create a high-fidelity and transparently constructed atmospheric CO record spanning the past 66 million years.

Proton Binding Characteristics of Dissolved Organic Matter Extracted from the North Atlantic.

Marine dissolved organic matter (DOM) presents key thermodynamic properties that are not yet fully constrained. Here, we report the distribution of binding sites occupied by protons (i.e.

Tracing growth patterns in cod ( L.) using bioenergetic modelling.

Understanding individual growth in commercially exploited fish populations is key to successful stock assessment and informed ecosystem-based fisheries management. Traditionally, growth rates in marine fish are estimated using otolith age-readings in combination with age-length relationships from field samples, or tag-recapture field experiments. However, for some species, otolith-based approaches have been proven unreliable and tag-recapture experiments suffer from high working effort and costs as well as low recapture rates.

Dominance of the coral around Phuket Island in the Andaman Sea, Thailand.

(Linnaeus, 1758), a species complex, consists of several genetic lineages, some of which likely represent reproductively isolated species, including the species Lamarck, 1816. can exhibit similar morphological characteristics as , thus making it difficult to identify species-level taxonomic units. To determine whether the -like colonies on the reefs in the Andaman Sea (previously often identified as ) consist of different species, we sampled individual colonies at five sites along a 50 km coastal stretch at Phuket Island and four island sites towards Krabi Province, Thailand.