Rhodobacter microvirus Ebor attached to B10 host cell, single particle data
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ABSTRACT:
SUBMITTER: Pavol Bardy
PROVIDER: EMPIAR-12168 | biostudies-other |
REPOSITORIES: biostudies-other
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Project description:Single-stranded DNA bacteriophages of the Microviridae family are emerging as major components of the global virosphere, found abundantly across diverse habitats. We have identified and thoroughly characterized a new type of microvirus, Ebor, which infects the freshwater mixotrophic model bacterium Rhodobacter capsulatus. Here, we present raw LC-MS/MS data of partially purified virions of Ebor propagated on R. capsulatus strain SB1003. The sample E025 corresponds to ion-exchange purified virions, the sample D972 TOP to upper band obtained by CsCl gradient ultracentrifugation containing mostly flagella and the sample D972 BOTTOM to lower band of the respective centrifugation containing native virions.
2024-05-06 | MSV000094685 | MassIVE
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Project description:Marine heterotrophic microorganisms remineralize about half of the annual primary production, with the microbiomes on and around algae and particles having a major contribution. These microbiomes specifically include free-living chemotactic and particle-attached bacteria, which are often difficult to analyze individually, as the standard method of size-selective filtration only gives access to particle-attached bacteria. In this study, we demonstrated that particle collection in Imhoff sedimentation cones enriches microbiomes that included free-living chemotactic bacteria and were distinct from particle microbiomes obtained by filtration or centrifugation. Coastal seawater was collected during North Sea phytoplankton spring blooms, and the microbiomes were investigated using 16S rRNA amplicon sequencing and fluorescence microscopy. Enrichment factors of individual operational taxonomic units (OTUs) were calculated for comparison of fractionated communities after separation with unfractionated seawater communities. Filtration resulted in a loss of cells and yielded particle fractions including bacterial aggregates, filaments, and large cells. Centrifugation had the lowest separation capacity. Particles with a sinking rate of >2.4 m day-1 were collected in sedimentation cones as a bottom fraction and enriched in free-living chemotactic bacteria, i.e., Sulfitobacter, Pseudoalteromonas, and Vibrio. Subfractions of these bottom fractions, obtained by centrifugation, showed enrichment of either free-living or particle-attached bacteria. We identified five distinct enrichment patterns across all separation techniques: mechano-sensitive and mechano-stable free-living bacteria and three groups of particle-attached bacteria. Simultaneous enrichment of particle-attached and chemotactic free-living bacteria in Imhoff sedimentation cones is a novel experimental access to these groups providing more insights into the diversity, structure, and function of particle-associated microbiomes, including members of the phycosphere.
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