Search bioRxiv⌕ Search

Biology subjects

Rieder, S.

Publications and source records attributed to Rieder, S..

2 recordsLinked to original sources

Riverine plastic litter restructures microbial vitamin B12 metabolism and generates functional heterogeneity

Rivers transport most land-derived plastic waste to the ocean, yet how this reshapes microbial metabolic potential remains poorly resolved. We characterized plastisphere and water-column communities across 14 stations along the River Rhine, integrating ATR-FTIR polymer characterization, 16S/18S rRNA amplicon profiles, and 120 metagenome-assembled genomes. Plastisphere communities were taxonomically distinct from water communities (PERMANOVA R = 0.258, p = 0.0001) and, despite no overall shift in functional centroid (R = 0.245, p = 0.125), were markedly more heterogeneous in functional composition across sites (permutest p = 0.0047). Aerobic corrin ring synthesis, the core B12 biosynthetic pathway, was among the most differentially dispersed functions and enriched on plastic at all seven paired stations (Wilcoxon exact test, W = 3, p = 0.004079). This signal coincided with a diatom-dominated eukaryotic plastisphere community; diatoms cannot synthesize B12 and depend on bacterial provisioning, linking functional and taxonomic restructuring via a plausible cross-domain mechanism. Plastisphere communities were also less tightly coupled to the river's dissolved nutrient gradient than water communities (envfit R = 0.64 vs. 0.82). Together, these results indicate that riverine plastic litter does not merely accumulate biomass passively but actively restructures specific metabolic capacities of its colonizers, exemplified by vitamin B12 metabolism.

microbiology↗

Development of a high-density, 2M SNP genotyping array and 670k SNP imputation array for the domestic horse

BackgroundTo date, genome-scale analyses in the domestic horse have been limited by suboptimal single nucleotide polymorphism (SNP) density and uneven genomic coverage of the current SNP genotyping arrays. The recent availability of whole genome sequences has created the opportunity to develop a next generation, high-density equine SNP array.\n\nResultsUsing whole genome sequence from 153 individuals representing 24 distinct breeds collated by the equine genomics community, we cataloged over 23 million de novo discovered genetic variants. Leveraging genotype data from individuals with both whole genome sequence, and genotypes from lower-density, legacy SNP arrays, a subset of [~]5 million high-quality, high-density array candidate SNPs were selected based on breed representation and uniform spacing across the genome. Considering probe design recommendations from a commercial vendor (Affymetrix, now Thermo Fisher Scientific) a set of [~]2 million SNPs were selected for a next-generation high-density SNP chip (MNEc2M). Genotype data were generated using the MNEc2M array from a cohort of 332 horses from 20 breeds and a lower-density array, consisting of [~]670 thousand SNPs (MNEc670k), was designed for genotype imputation.\n\nConclusionsHere, we document the steps taken to design both the MNEc2M and MNEc670k arrays, report genomic and technical properties of these genotyping platforms, and demonstrate the imputation capabilities of these tools for the domestic horse.

genomics↗