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34 results for “halophile”
Fig. 1 in Roseovarius ramblicola sp. nov., a moderately halophilic bacterium isolated from saline soil in Spain
Fig. 1. Maximum-likelihood phylogenetic tree based on nearly complete 16S rRNA gene sequences showing the relationships between strain D15T, type species of the genus Roseovarius and the closest related species in the family Rhodobacteraceae. Filled circles indicate nodes that were also recovered in the maximum-parsimony and neighbour-joining trees based on the same sequences. Numbers at nodes are levels of bootstrap support (percentages) based on analyses of 1000 re-sampled datasets; only values above 50 % are shown. Bar, 0.05 nt changes per position. The GenBank/EMBL/DDBJ accession number of each sequence is shown in parentheses.
Fig. 1 in MaNgROVIVIRga CUNICULI gen. nov., sp. nov., a moderately halophilic bacterium isolated from bioturbated Red Sea mangrove sediment, and proposal of the novel family MaNgROVIVIRgaCeae fam. nov.
Fig. 1. (a) Sediments in the mangrove forest at KAUST bioturbated by Uca species crabs; crab barrows are indicated by yellow arrows. Leaves forming mangrove litter are also visible. Bar, 10 cm. (b) Aquarium filled with mangrove bioturbated sediments and FSW for the incubation of DCs; bar, 6 cm. (c) Aerial view of DCs placed on the surface of mangrove sediments and cover with FSW inside the aquarium; bar, 6 cm.
Presence of perennial halophilous scrubs in 2016 in the former saltworks of Salins de Giraud, random forest classification on WV2
<p>The presence of perennial halophilous scrubs (<em>S. fruticosa</em> and <em>A. macrostachyum</em>) was mapped using a Worldview 2 (WV2) very-high resolution imagery acquired the 31st of August 2016, strictly cloudless. Multispectral indices, among the most used, were adapted to the bands of WV2. The Random Forest model (RF) package into the R software was used to perform image classification. RF OBB and omission errors for the class “presence” and the class “absence” were less important when the classification was done for each species individually, hence this raster is a combination of both classifications. The OBB error for <em>S.fruticosa</em> is 1.43% and for <em>A. macrostachyum</em> is 2.18%.</p>
FIGURE 6 in Taraxacum mirabile, an enigmatic sexual halophilous endemic dandelion, represents a new section
FIGURE 6. Taraxacum mirabile. General habit (ISTE 116904).
FIGURE 4 in Taraxacum mirabile, an enigmatic sexual halophilous endemic dandelion, represents a new section
FIGURE 4. Taraxacum mirabile. Somatic chromosomes (2n=16); each chromosome outlined (ISTE 116904).
Fig. 3 in MaNgROVIVIRga CUNICULI gen. nov., sp. nov., a moderately halophilic bacterium isolated from bioturbated Red Sea mangrove sediment, and proposal of the novel family MaNgROVIVIRgaCeae fam. nov.
Fig. 3. Scanning electron microscopy image of Mangrovivirga cuniculi R1DC9T (bar, 1 µm).
Testing different rRNA removal methods in 4 species of model halophilic archaea
GEO Series GSE200776. Halobacterium salinarum; Haloferax volcanii; Haloferax mediterranei; Haloarcula hispanica. 39 samples. Type: Expression profiling by high throughput sequencing.
The TroR transcription factor regulates iron homeostasis in the halophilic archaeon Haloferax volcanii
GEO Series GSE240622. Haloferax volcanii. 21 samples. Type: Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing.
Data from: Phylogenetically driven sequencing of extremely halophilic archaea reveals strategies for static and dynamic osmo-response
Organisms across the tree of life use a variety of mechanisms to respond to stress-inducing fluctuations in osmotic conditions. Cellular response mechanisms and phenotypes associated with osmoadaptation also play important roles in bacterial virulence, human health, agricultural production and many other biological systems. To improve understanding of osmoadaptive strategies, we have generated 59 high-quality draft genomes for the haloarchaea (a euryarchaeal clade whose members thrive in hypersaline environments and routinely experience drastic changes in environmental salinity) and analyzed these new genomes in combination with those from 21 previously sequenced haloarchaeal isolates. We propose a generalized model for haloarchaeal management of cytoplasmic osmolarity in response to osmotic shifts, where potassium accumulation and sodium expulsion during osmotic upshock are accomplished via secondary transport using the proton gradient as an energy source, and potassium loss during downshock is via a combination of secondary transport and non-specific ion loss through mechanosensitive channels. We also propose new mechanisms for magnesium and chloride accumulation. We describe the expansion and differentiation of haloarchaeal general transcription factor families, including two novel expansions of the TATA-binding protein family, and discuss their potential for enabling rapid adaptation to environmental fluxes. We challenge a recent high-profile proposal regarding the evolutionary origins of the haloarchaea by showing that inclusion of additional genomes significantly reduces support for a proposed large-scale horizontal gene transfer into the ancestral haloarchaeon from the bacterial domain. The combination of broad (17 genera) and deep (≥5 species in four genera) sampling of a phenotypically unified clade has enabled us to uncover both highly conserved and specialized features of osmoadaptation. Finally, we demonstrate the broad utility of such datasets, for metagenomics, improvements to automated gene annotation and investigations of evolutionary processes.
Data from: Phylogenetically driven sequencing of extremely halophilic archaea reveals strategies for static and dynamic osmo-response
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The TroR transcription factor regulates iron homeostasis in the halophilic archaeon Haloferax volcanii [RNA-Seq]
GEO Series GSE240621. Haloferax volcanii. 9 samples. Type: Expression profiling by high throughput sequencing.
The TroR transcription factor genome-wide binding analysis in the halophilic archaeon Haloferax volcanii [ChIP-Seq]
GEO Series GSE240518. Haloferax volcanii. 12 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
FIGURE 9 in Taraxacum mirabile, an enigmatic sexual halophilous endemic dandelion, represents a new section
FIGURE 9. Fine sculpture of achene surface of selected Taraxacum taxa other than T. mirabile, for comparison. A, Taraxacum (Atrata) chionomelas (PRA, cult. JŠ 3835). B, Taraxacum (Cucullata) cucullatum (PRA, cult. JŠ 6575). C, Taraxacum (Borysthenica) bachczisaraicum (PRA, cult. 318). D, Taraxacum (Piesis) besarabicum (PRA, cult. 308). Scale bars: A, 50 μm. B, 20 μm. C, 100 μm. D, 50 μm.
FIGURE 7. Taraxacum mirabile. A, a in Taraxacum mirabile, an enigmatic sexual halophilous endemic dandelion, represents a new section
FIGURE 7. Taraxacum mirabile. A, a detail of achene surface; Tuz Gölü (PRA, no. det. 33693). Scale bar = 0.1 mm. B, achenes; Tuz Gölü (PRA, no. det. 33693). Scale bar = 1 mm.
ScienceDex guides
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
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
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
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.