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On predicting particle capture rates in aquatic ecosystems.

ABSTRACT: Recent advances in understanding the capture of moving suspended particles in aquatic ecosystems have opened up new possibilities for predicting rates of suspension feeding, larval settlement, seagrass pollination and sediment removal. Drawing on results from both highly-resolved computational fluid dynamics (CFD) simulations and existing experimental data, we quantify the controlling influence of flow velocity, particle size and collector size on rates of contact between suspended particles and biological collectors over the parameter space characterising a diverse range of aquatic ecosystems. As distinct from assumptions in previous modeling studies, the functional relationships describing capture are highly variable. Contact rates can vary in opposing directions in response to changes in collector size, an organism's size, the size of particles being intercepted (related to diet in the case of suspension feeders), and the flow strength. Contact rates shift from decreasing to increasing with collector diameter when particles become relatively large and there is vortex shedding in the collector wake. And in some ranges of the ecologically relevant parameter space, contact rates do not increase strongly with velocity or particle size. The understanding of these complex dependencies allows us to reformulate some hypotheses of selection pressure on the physiology and ecology of aquatic organisms. We discuss the benefits and limitations of CFD tools in predicting rates of particle capture in aquatic ecosystems. Finally, across the complete parameter space relevant to real aquatic ecosystems, all quantitative estimates of particle capture from our model are provided here.

SUBMITTER: Espinosa-Gayosso A

PROVIDER: S-EPMC8694431 | biostudies-literature |

REPOSITORIES: biostudies-literature

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Project description:BackgroundPolintons are large mobile genetic elements found in the genomes of eukaryotic organisms that are considered the ancient ancestors of most eukaryotic dsDNA viruses. Originally considered as transposons, they have been found to encode virus capsid genes, suggesting they may actually be integrated viruses; however, an extracellular form has yet to be detected. Recently, circa 25 Polinton-like viruses have been discovered in environmental metagenomes and algal genomes, which shared distantly related genes to both Polintons and virophages (Lavidaviridae). These entities could be the first members of a major class of ancient eukaryotic viruses; however, owing to the lack of available genomes for analysis, information on their global diversity, evolutionary relationships, eukaryotic hosts, and status as free virus particles is limited.ResultsHere, we analysed the metaviromes of an alpine lake to show that Polinton-like virus genome sequences are abundant in the water column. We identify major capsid protein genes belonging to 82 new Polinton-like viruses and use these to interrogate publicly available metagenomic datasets, identifying 543 genomes and a further 16 integrated into eukaryotic genomes. Using an analysis of shared gene content and major capsid protein phylogeny, we define large groups of Polinton-like viruses and link them to diverse eukaryotic hosts, including a new group of viruses, which possess all the core genes of virophages and infect oomycetes and Chrysophyceae.ConclusionsOur study increased the number of known Polinton-like viruses by 25-fold, identifying five major new groups of eukaryotic viruses, which until now have been hidden in metagenomic datasets. The large enrichment (> 100-fold) of Polinton-like virus sequences in the virus-sized fraction of this alpine lake and the fact that their viral major capsid proteins are found in eukaryotic host transcriptomes support the hypothesis that Polintons in unicellular eukaryotes are viruses. In summary, our data reveals a diverse assemblage of globally distributed viruses, associated with a wide range of unicellular eukaryotic hosts. We anticipate that the methods we have developed for Polinton-like virus detection and the database of over 20,000 genes we present will allow for continued discovery and analysis of these new viral groups. Video abstract.

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On predicting particle capture rates in aquatic ecosystems.

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