Temperature- and dispersal-dependent priority effects
Ontology highlight
ABSTRACT:
PROVIDER: PRJEB34383 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| ERR3517410_1.fastq.gz | Fastqsanger.gz | |||
| ERR3517410_2.fastq.gz | Fastqsanger.gz | |||
| ERR3517420_1.fastq.gz | Fastqsanger.gz | |||
| ERR3517420_2.fastq.gz | Fastqsanger.gz | |||
| ERR3517430_1.fastq.gz | Fastqsanger.gz |
Items per page: 5 1 - 5 of 262 |
Similar Datasets
Project description:The rate, timing, and mode of species dispersal is recognized as a key driver of the structure and function of communities of macroorganisms, and may be one ecological process that determines the diversity of microbiomes. Many previous studies have quantified the modes and mechanisms of bacterial motility using monocultures of a few model bacterial species. But most microbes live in multispecies microbial communities, where direct interactions between microbes may inhibit or facilitate dispersal through a number of physical (e.g., hydrodynamic) and biological (e.g., chemotaxis) mechanisms, which remain largely unexplored. Using cheese rinds as a model microbiome, we demonstrate that physical networks created by filamentous fungi can impact the extent of small-scale bacterial dispersal and can shape the composition of microbiomes. From the cheese rind of Saint Nectaire, we serendipitously observed the bacterium Serratia proteamaculans actively spreads on networks formed by the fungus Mucor. By experimentally recreating these pairwise interactions in the lab, we show that Serratia spreads on actively growing and previously established fungal networks. The extent of symbiotic dispersal is dependent on the fungal network: diffuse and fast-growing Mucor networks provide the greatest dispersal facilitation of the Serratia species, while dense and slow-growing Penicillium networks provide limited dispersal facilitation. Fungal-mediated dispersal occurs in closely related Serratia species isolated from other environments, suggesting that this bacterial-fungal interaction is widespread in nature. Both RNA-seq and transposon mutagenesis point to specific molecular mechanisms that play key roles in this bacterial-fungal interaction, including chitin utilization and flagellin biosynthesis. By manipulating the presence and type of fungal networks in multispecies communities, we provide the first evidence that fungal networks shape the composition of bacterial communities, with Mucor networks shifting experimental bacterial communities to complete dominance by motile Proteobacteria. Collectively, our work demonstrates that these strong biophysical interactions between bacterial and fungi can have community-level consequences and may be operating in many other microbiomes.
2017-08-02 | GSE85095 | GEO
Project description:Much of the bacterial secondary production in the aquatic ecosystems is supported by rapid uptake of labile metabolites released from phytoplankton, either directly through excretion and diffusion or indirectly through lysis and predation. This project seeks to investigate the effects of temperature stress on the metabolite pools produced and released by three model phytoplankton species (a diatom, a coccolithophore, and a cyanobacterium) that will assess changes in the composition and fate of metabolites transferredto bacteria. While focused on estuarine microbes, findings of this project will be broadly relevant to temperature effects on microbial autotrophic-heterotrophic metabolite transfer in freshwater, marine, and soil ecosystems.
The work (proposal:https://doi.org/10.46936/10.25585/60001361) conducted by the U.S. Department of Energy Joint Genome Institute (https://ror.org/04xm1d337), a DOE Office of Science User Facility, is supported by the Office of Science of the U.S. Department of Energy operated under Contract No. DE-AC02-05CH11231.
2024-11-06 | MSV000096315 | MassIVE
Project description:We used whole-genome microarrays to identify the global transcriptional changes during biofilm dispersal and also to investigate the molecular mechanism that regulating biofilm dispersal.
2017-02-27 | GSE95377 | GEO
Project description:Nutrient availability and grazing influence priority effects in aquatic microbial communities
| PRJEB58812 | ENA
Project description:Both high and low water temperature stresses are major environmental threats of growth and productivity in aquatic animals. However, the mechanism of response to temperature stress of scallop remains unclear. In this study, Argopecten irradians concentricus treated with high and cold temperature stress were analysed with the transcriptomes, metabolomes and integrated network analysis. Transcriptomic analyses revealed that there were many differentially expressed genes enriched calcium ion, kinase activity, phosphatase activity, and lipid related pathways between high temperature stress group and the control group. Although similar results were found in the low temperature stress group versus the control group, the genes enriched in these pathways were different. Moreover, much more genes were enriched in transcription factor activity in the low temperature stress group versus the control group
2022-01-21 | GSE178138 | GEO
Project description:Mammalian body temperature oscillates with the time of the day and is altered in diverse pathological conditions. We recently identified a body temperature-sensitive thermometer-like kinase, which alters SR protein phosphorylation and thereby globally controls alternative splicing (AS). AS can generate unproductive variants which are recognized and degraded by diverse mRNA decay pathways – including nonsense-mediated decay (NMD). Here we show extensive coupling of body temperature-controlled AS to mRNA decay, leading to global control of temperature-dependent gene expression (GE). Temperature-controlled, decay-inducing splicing events are evolutionarily conserved and pervasively found within RNA-binding proteins, including most SR proteins. AS-coupled poison exon inclusion is essential for rhythmic GE of SR proteins and has a global role in establishing temperature-dependent rhythmic GE profiles, both, in mammals under circadian body temperature cycles and in plants in response to ambient temperature changes. Together, these data identify body temperature-driven AS coupled mRNA decay as an evolutionary ancient, core clock-independent mechanism to generate rhythmic GE.
2020-11-01 | GSE158882 | GEO
Project description:Purpose: House fly has a stable polygenic sex determination system. The male determining factor (Mdmd) is commonly found on the Y chromosome (Y^M) or the third chromosome (III^M). These proto-Y chromosomes are clinally distributed, with Y^M found most commonly in northern latitudes and III^M most commonly found at southern latitudes, hinting at possible genotype-by-temperature interactions that maintain the polymorphism. If this distribution is maintained by temperature-dependent selection pressures, we expect the fitness of III^M and Y^M flies to vary across developmental temperatures. These temperature-dependent effects could be driven by differential gene expression in III^M and Y^M males at different temperatures. Here, we performed RNA-seq experiments to study how genotype-by-temperature interactions affect gene expression in male houseflies carrying different proto-Y chromosomes. Methods: We raised a Y^M strain known as IsoCS and a III^M strain known as CSrab at 18°C and 29°C for two generations. We dissected 5 heads and 15-20 pairs of testes for each of three replicates of each genotype-by-temperature combination. We carried out RNA-seq on these tissues. Results: We identified 247 genes whose expression in testis and 50 genes whose expression in head depends on genotype-by-temperature interactions.
2020-09-01 | GSE136188 | GEO
Project description:To evaluate the gene expression levels dependent on cultivated temperature (15-degree only or 25-degree after 15-degree grown) in wild type (N2 strain) and daf-2mutant
2016-05-31 | GSE81409 | GEO
Project description:We made rat models of mild, moderate and severe hypothermia, and performed body temperature-dependent microRNA expression analysis in illiopsoas muscle.
2020-10-02 | GSE139446 | GEO
Project description:Temperature dependent RNA secondary structure in Trypanosoma brucei
| PRJEB14403 | ENA