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96 results for “prokaryotes”
Data from: Particle-association lifestyle is a phylogenetically conserved trait in bathypelagic prokaryotes
The free-living (FL) and particle-attached (PA) marine microbial communities have repeatedly been proved to differ in their diversity and composition in the photic ocean and also recently in the bathypelagic ocean at a global scale. However, although high taxonomic ranks have been proved to exhibit preferences for a PA or FL mode of life, it remains poorly understood whether two clear lifestyles do exist and how these are distributed across the prokaryotic phylogeny. We studied the FL and PA prokaryotes in 30 stations distributed worldwide within the bathypelagic oceanic realm using high throughput sequencing of their 16S rDNA. A high proportion of the bathypelagic prokaryotes were mostly found either attached to particles or freely in the surrounding water but rarely in both types of environments. In particular, this trait was deeply conserved through their phylogeny suggesting that the deep-ocean particles and the surrounding water constitute two highly distinct niches and that transitions from one to the other have been rare at an evolutionary time-scale. As a consequence, PA and FL communities had clear alpha- and beta-diversity differences that exceeded the global-scale geographical variation. Our study organizes the bathypelagic prokaryotic diversity into a reasonable number of ecologically coherent taxa regarding their association to particles, a first step for understanding which are the microbes responsible for the processing of the dissolved and particulate pools of organic matter that have a very different biogeochemical role in the deep ocean. --
Prokaryotic Single-Cell RNA Sequencing by In Situ Combinatorial Indexing
GEO Series GSE141018. Escherichia coli; Staphylococcus aureus. 18 samples. Type: Expression profiling by high throughput sequencing.
Data from: Particle-association lifestyle is a phylogenetically conserved trait in bathypelagic prokaryotes
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Reannotation of CCA-ends, initiator tRNAs, and other CAU-anticodon tRNAs of prokaryotic genomes in tRNAdb-CE 0.8
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The Epigenomic Landscape of Prokaryotes
GEO Series GSE69872. Streptococcus equinus; Salmonella enterica subsp. arizonae serovar 62:z4,z23:-; Xylella fastidiosa Temecula1; Acetivibrio thermocellus ATCC 27405; Rhodopseudomonas palustris CGA009; Neisseria meningitidis FAM18; Thermoplasma acidophilum DSM 1728; Hydrogenovibrio crunogenus XCL-2; Chloroflexus aggregans DSM 9485; Thermosipho melanesiensis BI429; Shewanella woodyi ATCC 51908; Bradyrhizobium elkanii USDA 76; Dinoroseobacter shibae DFL 12 = DSM 16493; Parabacteroides distasonis ATCC 8503; Anoxybacillus flavithermus WK1; Escherichia coli str. K-12 substr. MG1655; Capnocytophaga ochracea DSM 7271; Haloterrigena turkmenica DSM 5511; Palaeococcus ferrophilus DSM 13482; Acetivibrio thermocellus DSM 1313; Gracilinema caldarium DSM 7334; Treponema succinifaciens DSM 2489; Winmispira thermophila DSM 6578; Caldithrix abyssi DSM 13497; Calidithermus chliarophilus DSM 9957; Cohnella panacarvi Gsoil 349; Methylobacterium sp. 10; Xanthobacter sp. 91; Geopsychrobacter electrodiphilu
Mycobacteria excises DNA damage in 12- or 13-nucleotide-long oligomers by prokaryotic-type dual incisions and performs transcription-coupled repair
GEO Series GSE159048. Mycolicibacterium smegmatis. 4 samples. Type: Other.
Sensing prokaryotic mRNA signifies microbial viability and promotes immunity
GEO Series GSE27960. Mus musculus. 24 samples. Type: Expression profiling by array.
Genome-wide identification of natural RNA aptamers in prokaryotes and eukaryotes
GEO Series GSE106133. Pseudomonas aeruginosa; Bacillus subtilis; Candida albicans. 18 samples. Type: Expression profiling by high throughput sequencing.
The CTPase activity of ParB acts as a timing mechanism to control the dynamics and function of prokaryotic DNA partition complexes
GEO Series GSE174037. Myxococcus xanthus DK 1622. 14 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
Endophytic and rhizophytic prokaryotic communities in S. alterniflora and petroleum degradation
GEO Series GSE148431. Eukaryota; Viruses; synthetic construct; Bacteria; uncultured bacterium; Archaea. 24 samples. Type: Expression profiling by array.
An optimized RNA amplification method for prokaryotic expression profiling analysis
GEO Series GSE17074. Escherichia coli. 6 samples. Type: Expression profiling by array.
Prokaryotic N1-methyladenosine erasers maintain tRNA m1A modification levels in Streptomyces venezuelae.
GEO Series GSE264330. Streptomyces venezuelae. 52 samples. Type: Other.
Transcriptomic responses to iron bioavailability from virus-mediated lysates in marine prokaryotes
GEO Series GSE166618. Dokdonia sp. Dokd-P16. 120 samples. Type: Expression profiling by high throughput sequencing.
Prokaryote whole-genome tiling microarray design and validation
GEO Series GSE61738. Escherichia coli str. K-12 substr. MG1655; Agrobacterium fabrum str. C58. 38 samples. Type: Expression profiling by genome tiling array.
Prokaryotic expression profiling analysis for single or combined chaperones deletion
GEO Series GSE69912. Escherichia coli. 11 samples. Type: Expression profiling by array.
Prediction of Natural and Synthetic Convergent Overlapping Genes in Prokaryotes using Deep Learning
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
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DANDI Archive for NWB datasets
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International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.