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РИС. 5. ЗагрЯЗнение готовых обраЗцов длЯ СЭМ при длительном хранении в негерметичных условиЯх (A–C) либо при хранении проШедШих процедуру мацерированиЯ беЗ последуюЩего обеЗЗараживаниЯ (D, E). A–С. Бактерии на поверхности глохидиев (Nodularia douglasiae, р. ИлистаЯ, бассейн оЗ. Ханка, Приморский кр.). А. ВнеШний вид глохидиЯ, основное ЗагрЯЗнение на створке в верхней части фото. В. Крючок глохидиЯ, основное ЗагрЯЗнение в левой части фото. С. Створка, вид иЗнутри. D. Единичные бактерии на створке глохидиЯ, вид иЗнутри (Kunashiria japonica, оЗ. Утиное, о-в Зелёный, Курильские о-ва). E. Гифы гриба на створке глохидиЯ, вид на наружную пору (Beringiana beringiana, оЗ. АЗабачье, Камчатка). МасШтаб 50 мкм (А, C), 10 мкм (В, D), 1 мкм (Е). Микроскопы Zeiss MERLIN (А, B, C, E), Zeiss EVO 40 (D), напыление хромом (А–С), Золотом (D), углеродом (Е). FIG. 5. Contamination of the SEM ready-made samples during long-term storage under unsealed conditions (A–C) or during storage the samples that have passed the maceration procedure without subsequent disinfection (D, E). A–C. Bacteria on the glochidia surface (Nodularia douglasiae, Ilistaya River, Khanka Lake basin, Primorsky Krai). A. Glochidium with the main pollution on the valve in the upper part of the photo. B. Hook with the main pollution on the left side of the photo. C. Interior valve. D. Bacteria on the interior valve (Kunashiria japonica, Utinoe Lake, Zeliony Island, Kuril Islands). E. Fungal hyphae on the pore of exterior valve (Beringiana beringiana, Azabachye Lake, Kamchatka). Scale bars 50 μm (A, C), 10 μm (B, D), 1 μm (E). Zeiss MERLIN (A, B, C, E) and Zeiss EVO 40 (D) microscopes, sputter coating with chromium (A–C), gold (D), and carbon (E). in Методика подготовки раковин глохидиев (Bivalvia, Unionidae) длЯ работы на сканируюЩем Электронном микроскопе
РИС. 5. ЗагрЯЗнение готовых обраЗцов длЯ СЭМ при длительном хранении в негерметичных условиЯх (A–C) либо при хранении проШедШих процедуру мацерированиЯ беЗ последуюЩего обеЗЗараживаниЯ (D, E). A–С. Бактерии на поверхности глохидиев (Nodularia douglasiae, р. ИлистаЯ, бассейн оЗ. Ханка, Приморский кр.). А. ВнеШний вид глохидиЯ, основное ЗагрЯЗнение на створке в верхней части фото. В. Крючок глохидиЯ, основное ЗагрЯЗнение в левой части фото. С. Створка, вид иЗнутри. D. Единичные бактерии на створке глохидиЯ, вид иЗнутри (Kunashiria japonica, оЗ. Утиное, о-в Зелёный, Курильские о-ва). E. Гифы гриба на створке глохидиЯ, вид на наружную пору (Beringiana beringiana, оЗ. АЗабачье, Камчатка). МасШтаб 50 мкм (А, C), 10 мкм (В, D), 1 мкм (Е). Микроскопы Zeiss MERLIN (А, B, C, E), Zeiss EVO 40 (D), напыление хромом (А–С), Золотом (D), углеродом (Е). FIG. 5. Contamination of the SEM ready-made samples during long-term storage under unsealed conditions (A–C) or during storage the samples that have passed the maceration procedure without subsequent disinfection (D, E). A–C. Bacteria on the glochidia surface (Nodularia douglasiae, Ilistaya River, Khanka Lake basin, Primorsky Krai). A. Glochidium with the main pollution on the valve in the upper part of the photo. B. Hook with the main pollution on the left side of the photo. C. Interior valve. D. Bacteria on the interior valve (Kunashiria japonica, Utinoe Lake, Zeliony Island, Kuril Islands). E. Fungal hyphae on the pore of exterior valve (Beringiana beringiana, Azabachye Lake, Kamchatka). Scale bars 50 μm (A, C), 10 μm (B, D), 1 μm (E). Zeiss MERLIN (A, B, C, E) and Zeiss EVO 40 (D) microscopes, sputter coating with chromium (A–C), gold (D), and carbon (E).
Figure 3 in High-temperature stress induces bacteria-specific adverse and reversible effects on Ulva (Chlorophyta) growth and its chemosphere in a reductionist model system
Figure 3: Temperature shift experiment from 18 °C to 30 °C. (A) After the temperature shift, the longitudinal growth of the propagules of equal length in three different tripartite communities was measured with ImageJ software and compared with the established model system for
Figure 2 in High-temperature stress induces bacteria-specific adverse and reversible effects on Ulva (Chlorophyta) growth and its chemosphere in a reductionist model system
Figure 2: Bioassay for morphogenetic activity performed at 18 °C. Using a tripartite community with Ulva mutabilis, the morphogenetic activity of the thallusin-releasing bacteria Maribacter sp. was complemented by one out of the four strains isolated from the surface of Ulva ohnoi. Under standard conditions, axenic gametes (A) were cultivated in the tissue culture flask with the tested bacteria alone (B–E), in the presence of Roseovarius sp. (G–J) or with Maribacter sp. MS6 (L–O) in comparison to the controls (F and K). Arrows with closed heads indicate protrusion formation due to the lack of thallusin released by Maribacter sp. Arrows with open heads indicate rhizoid formation in the presence of Maribacter sp. Magnification bar = 100 µm.
Figure 1 in High-temperature stress induces bacteria-specific adverse and reversible effects on Ulva (Chlorophyta) growth and its chemosphere in a reductionist model system
Figure 1: Workflow. Selected bacteria IH2, IH18, IH25, and G8 were collected from the surface of Ulva ohnoi, phenocopying the activity of Roseovarius sp. MS2 and forming a tripartite community with Maribacter sp. MS6 and the gametophyte of Ulva mutabilis (morphotype "slender"; strain FSU-UM5-1). Ulva mutabilis (25 mg dry weight) was cultivated with the two bacterial strains (OD620 = 0.001) under standard conditions (Wichard and Oertel 2010). Propagules of equal length were stressed by a temperature shift from 18 °C to 30 °C using continuous light (80 µmol photon m−2 s−1) to avoid chronobiological effects. Axenic cultures and tripartite communities were prepared according to Spoerner et al. (2012). exo-Metabolomics and multivariate analysis of the metabolite profiling of the supernatant (150 mL) of four tripartite communities were performed according to Alsufyani et al. (2017) and Ghaderiardakani et al. (2022). Drawings of Ulva were taken from Wichard (2023) under the terms of CC BY 4.0. Created with BioRender.com.
Figure 2 in Isolation and characterization of bacteria associated with silkworm gut under antibiotic-treated larval feeding
Figure 2. Phylogenetic relationship and identification of bacterial strains isolated in this study based on 16S rRNA gene sequence through Neighbor Joining method using 1000 bootstrap replicates.
bacteria_masking:v21.1.1 complementary file (fasta)
<p>This archive contains the 42216 fasta files used to build the kraken database here : https://zenodo.org/records/11518607</p> <p>This is 24Gb large and could not be added in the original record.</p>
Figure 1 in Tertiary hospital sewage as reservoir of bacteria expressing MDR phenotype in Brazil
Figure 1. Distribution of antibiotic resistance (%) of bacteria isolated in sewage from a tertiary hospital in Ribeirão Preto, São Paulo, Brazil. AMI: Amikacin; AMO: amoxicillin; AMC: amoxicillin clavulanate; AMP: ampicillin; ASB: ampicillin sulbactam; CPM: cefepime; CTX: cefotaxime; CFO: cefoxitin; CAZ:ceftazidime; CRO: ceftriaxone; CLO:chloramphenicol; COL: colistin; CRX: cefuroxime; CIP:ciprofloxacin; CLI: clindamycin; ERI: erythromycin; ERT: ertapenem; GEN: gentamycin; IPM: imipenem; LNZ: linezolid; MER: meropenem; NIT: nitrofurantoin; TZP:piperacillin tazobactam; SXT:trimethoprim-sulfamethoxazole; TCP: teicoplanin; TET:tetracycline; VAN:vancomycin.
Figure 5 in Biodegradation of petroleum by bacteria isolated from fishes of Indian Ocean
Figure 5. (A) GC-MS spectra Control Crude oil (No inoculation); (B) GC-MS spectra Sample crude oil (Inoculated).
Figure 4 in Biodegradation of petroleum by bacteria isolated from fishes of Indian Ocean
Figure 4. Phylogenetic tree showing position of 4 isolated strains. The optimal tree with the sum of branch length = 0.20627849 is shown. The nucleotide sequence used for finding evolutionary relationship was ~ 950 bp. The evolutionary distances were computed using the Maximum Composite Likelihood method and are in the units of the number of base substitutions per site. This analysis involved 16 nucleotide sequences. All ambiguous positions were removed for each sequence pair (pairwise deletion option). There were a total of 844 positions in the final dataset.
Figure 3 in Biodegradation of petroleum by bacteria isolated from fishes of Indian Ocean
Figure 3. Comparison of 24 h LB broth culture (without crude oil) and 10-day MSM culture containing 0.5% crude oil.
Figure 1 in Biodegradation of petroleum by bacteria isolated from fishes of Indian Ocean
Figure 1. Bacterial growth against crude oil on MSA media. The Y axis shows the percentage of crude oil concentration while the X axis shows the number of bacterial isolates survived.
Figure 2 in Biodegradation of petroleum by bacteria isolated from fishes of Indian Ocean
Figure 2. Comparison of 24 h bacterial culture using LB broth containing crude oil and MS broth without crude oil.
Figure 6 in Biodegradation of petroleum by bacteria isolated from fishes of Indian Ocean
Figure 6. (A) GC-MS spectra Control used Engine oil (No inoculation). B. GC-MS spectra Used Engine oil sample (inoculated).
Figure 2 in Antiadhesion and antibiofilm potential of Fagonia indica from Cholistan desert against clinical multidrug resistant bacteria
Figure 2. Effect of sub-inhibitory concentrations of chloroform extract of Fagonia indica on bacterial attachment to polystyrene surfaces. Cells grown in the absence of extract served as control. Values are presented as mean + SE.
Figure 1 in Antiadhesion and antibiofilm potential of Fagonia indica from Cholistan desert against clinical multidrug resistant bacteria
Figure 1. Effect of chloroform extract of Fagonia indica on membrane protein leakage. Bradford method was used to monitor the effect of various concentrations on leakage of protein. Values are presented as mean + SE.
Human intestinal Bacteria Collection (HiBC): Genome sequences
<p>The <a href="https://hibc.rwth-aachen.de/" target="_blank" rel="noopener">Human intestinal Bacteria Collection (HiBC)</a> is a collection of bacterial strains, isolated from the human gut for which 16S rRNA gene sequences, genome sequences and culture conditions are made available to the research community. In addition to previously described bacteria, we include strains that represent novel species which have been taxonomically described and validly named, or will be in the future. This collection will be updated regularly.</p> <p>This dataset includes the genome sequences of the isolates in the FASTA nucleotide format. Plasmids sequences when present are located at the very end of the file.</p> <p><strong>UPDATE v3</strong>: The genome of one of our isolate had been unfortunately swapped. This mistake has been now corrected on Zenodo and Coscine. The genome of <em>Segatella sinensis</em> CLA-AA-H117 should be considered correct with 103 contigs and 3 671 232 nt. Please note that the genome available at the NCBI is the correct one (GCA_040324585.2). Two typos regarding taxonomy have been corrected as well: <em>Maccoya intestinihominis</em> has been corrected to <em>Maccoyia intestinihominis</em> and <em>Faecousia faecis</em> to <em>Faecousia intestinalis</em>.</p>
Fig. 6 in Trichoplusia ni (Lepidoptera: Noctuidae) survival, immune response, and gut bacteria changes afer exposure to Azadirachta indica (Sapindales: Meliaceae) volatiles
Fig. 6. Transcription of the 23S gene of Enterobacteria (428 bp) and ribosomal protein S5 gene (782 bp) from rRNA samples of Trichoplusia ni NL strain larval midguts, afer exposure to 10 g of neem leaves, determined by reverse transcriptase polymerase chain reaction (RT-PCR). PCR product of RNA not subject- ed to RT-PCR was taken as a negative control. Lane 1, DNA ladder 100 bp; lane 2, PCR product of plasmid DNA with the Enterobacteria insert as positive control; lane 3, PCR products of the 23S gene of Enterobacteria and the ribosomal protein S5 gene of T. ni from unexposed larvae; lanes 4, 6, and 8, PCR of control RNA; lane 5, RT-PCR products in gut from VOC-exposed T. ni larva, showing both 23S and ribosomal protein S5 gene amplification (1st replication); lane 7, RT-PCR products in gut from VOC-exposed T. ni larva, showing both 23S and ribosomal protein S5 gene amplification (2nd replication).
Fig. 3 in Trichoplusia ni (Lepidoptera: Noctuidae) survival, immune response, and gut bacteria changes afer exposure to Azadirachta indica (Sapindales: Meliaceae) volatiles
Fig. 3. Mortality for NL and Gto strains of Trichoplusia ni exposed as neonate larvae for 7 d in sealed containers to VOCs from 1 or 10 g of dried neem stems compared with the unexposed controls. Data represent the mean ± standard deviation of 3 replicate experiments per treatment (90 larvae per replicate were tested).
Fig. 1 in Trichoplusia ni (Lepidoptera: Noctuidae) survival, immune response, and gut bacteria changes afer exposure to Azadirachta indica (Sapindales: Meliaceae) volatiles
Fig. 1. Setup of the bioassay container for neem VOC exposure of Trichoplusia ni neonates. A) View of tray with 30 cups placed inside the 11 L plastic container with airtight lid for VOC exposure; B) view of tray with 30 cups with artificial diet infested with 3 neonates each and cardboard lid to allow VOC exchange; C) view of 1 L container with artificial diet (bottom) and 1 oz (29.6 mL) cups (top) with 1 g milled dried neem stems or leaves.
Fig. 1 in A report on 30 unrecorded bacteria species in Korea belonging to the classes Betaproteobacteria and Gammaproteobacteria in 2021
Fig. 1. Transmission electron micrographs of cells of the strains belonging to the Betaproteobacteria and Gammaproteobacteria. The strains were cultured at their optimal growth conditions. Strain: 1, HMG1432; 2, HMG1944; 3, HMG2081; 4, HMG5310; 5, SATFR7; 6, ATS74; 7, PS9; 8, 18JY64; 9, BT33; 10, MMS21YDR2; 11, CAU 1658; 12, 16_SB_L4; 13, G12; 14, CAU 1657; 15, 15G113; 16, CAU 1650; 17, MMS21M35; 18, CAU 1655; 19, 17_H6_M9; 20, GJ5111; 21, G510; 22, CAU 1666; 23, SATFR3; 24, AMTFM1; 25, AMTFM15; 26, AMTFR2; 27, DSTFM2; 28, BT758; 29, JHKTFM108; 30, DSTFM15.
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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.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
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.