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47 results for “16S rDNA”
Figure 2 in The Black Sea Flexopecten species-complex (Mollusca: Bivalvia: Pectinidae): Shell morphology and 16S rDNA variation
Figure 2. Frequency of occurrence depicted for 16S ribosomal DNA variants among individuals of Flexopecten glaber. A: Black Sea population, B: Mediterranean population.
Comparative seagulls of gut microbiota by using metagenomics and 16S rDNA sequencing
<p><span>Shotgun</span><span> metagenomic and 16S rDNA sequencing are commonly used methods to identify the taxonomic composition of microbial communities. </span><span>We compared the metagenome and 16S rDNA amplicon results to demonstrate the features of this animal. </span><span>In general, </span><span>relatively </span><span>consistent patterns and reliability could be identified by both sequencing methods, but the results varied </span><span>following </span><span>the refinement of taxonomic levels. </span><span>Metagenomic </span><span>sequencing was more suitable for the discovery and detection of pathogenic bacteria of gut microbiota in seagulls.</span><span> Although there were large differences in the numbers and abundance of </span><span>bacterial </span><span>species of</span><span> the</span><span> two methods in terms of taxonomic levels, the patterns and reliability results of </span><span>the </span><span>samples were consistent.</span></p>
Comparative seagulls of gut microbiota by using metagenomics and 16S rDNA sequencing
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16S rDNA sequencing data for characterizing the endosymbionts of leaf curl plum aphid ( Brachycaudus helichrysi) clones
<p>Asexual lineages often exhibit broad distributions and can thrive in extreme habitats compared to their sexual counterparts. Several hypotheses can be proposed to explain this pattern. Asexual lineages could be versatile genotypes with wide environmental tolerance, enabling their dispersal and persistence across large geographic areas. Alternatively, asexual genotypes could be ecological specialists that thrive in specific environments and outcompete relatives colonizing distantly related areas with similar conditions in the process. Several aphid species feature widespread obligate asexual lineages, commonly known as "superclones". Yet it is often unknown whether these clones are widespead ecological generalists or successful specialists. To explore these hypotheses, we examined climatic niche differentiation among six globally distributed obligate asexual lineages of the cosmopolitan aphid pest, <em>Brachycaudus helichrysi</em>. To insure that we were investigating the aphid genotype niche and not a by-product of their association with endosymbionts mediating thermal tolerance, we first verified that clones hosted similar endosymbiont communities. Subsequently, we conducted multivariate analyses on clone occurrence data on a worldwide scale. Our results revealed that despite their global distribution, <em>B. helichrysi</em> superclones occupy different climatic niches. This study represents the first evidence that aphid superclones distribution can be mediated by distinctive ranges of climatic tolerance.</p>
Figure 3 in The Black Sea Flexopecten species-complex (Mollusca: Bivalvia: Pectinidae): Shell morphology and 16S rDNA variation
Figure 3. Plot of shell length (H: in mm) versus Index of Morphological Plasticity (ΓK1).
Gut microbiota sequences of the long-tailed dwarf hamster (Cricetulus longicaudatus) using 16S rDNA
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16S rDNA sequencing data for characterizing the endosymbionts of leaf curl plum aphid ( Brachycaudus helichrysi) clones
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16S rDNA sequence data of research--Different periods of high-fat diet during peri-pregnancy cause variant offspring gut microbiota
<p> These are the 16S rRNA gene sequencing data based on the Illumina HiSeq2500 platform. Group a, b, c, d stand for group CD-CD, CD-HFD, HFD-CD, HFD-HFD separately. Each mouse of one group had two samples such as a1_1 and a1_2.</p>
Figure 1. Bayesian inference tree built using COI, 16S rDNA and ITS2 in Integrated taxonomy reveals multiple species in the Dendrobaena byblica (Rosa, 1893) complex (Oligochaeta: Lumbricidae)
Figure 1. Bayesian inference tree built using COI, 16S rDNA and ITS2 sequences. The numbers indicate the posterior probabilities. The colours show the two main clades.
Data from: Rapid species-level identification of vaginal and oral lactobacilli using MALDI-TOF MS analysis and 16S rDNA sequencing
Background: Lactobacillus represents a large genus with different implications for the human host. Specific lactobacilli are considered to maintain vaginal health and to protect from urogenital infection. The presence of Lactobacillus species in carious lesions on the other hand is associated with progressive caries. Despite their clinical significance, species-level identification of lactobacilli still poses difficulties and mostly involves a combination of different phenotypic and genotypic methods. This study evaluated rapid MALDI-TOF MS analysis of vaginal and oral Lactobacillus isolates in comparison to 16S rDNA analysis. Results: Both methods were used to analyze 77 vaginal and 21 oral Lactobacillus isolates. The concordance of both methods was at 96% with five samples discordantly identified. Fifteen different Lactobacillus species were found in the vaginal samples, primarily L. iners, L. crispatus, L. jensenii and L. gasseri. In the oral samples 11 different species were identified, mostly L. salivarius, L. gasseri, L. rhamnosus and L. paracasei. Overall, the species found belonged to six different phylogenetic groups. For several samples, MALDI-TOF MS analysis only yielded scores indicating genus-level identification. However, in most cases the species found agreed with the 16S rDNA analysis result. Conclusion: MALDI-TOF MS analysis proved to be a reliable and fast tool to identify lactobacilli to the species level. Even though some results were ambiguous while 16S rDNA sequencing yielded confident species identification, accuracy can be improved by extending reference databases. Thus, mass spectra analysis provides a suitable method to facilitate monitoring clinically relevant Lactobacillus species.
FIGURE 11 in Anterastes davrazensis sp. n. (Orthoptera, Tettigoniidae): morphology, song and 16S rDNA phylogeny
FIGURE 11. Phylogenetic tree obtained from MP analyses of the 16S rDNA haplotypes given in Table 1. In the phylogenetic analyses S. bella, P. distincta and B. turkiyae used to as outgroups. Bootstrap (MP, ML) and posterior probability (BI) support (those lower than 50% indicated by an *) to branches are shown as MP/ML/BI respectively.
FIGURE 9. Male calling song. A–C, A in Anterastes davrazensis sp. n. (Orthoptera, Tettigoniidae): morphology, song and 16S rDNA phylogeny
FIGURE 9. Male calling song. A–C, A. davrazensis sp. n.: A—irregular syllable groups, B—a group of syllables, C—opening and closing hemisyllable; D–F, A. uludaghensis: D—regular echemes, E—groups of echemes, F—opening and closing hemisyllable.
FIGURES 6–8 in Anterastes davrazensis sp. n. (Orthoptera, Tettigoniidae): morphology, song and 16S rDNA phylogeny
FIGURES 6–8. Anterastes davrazensis sp. n. female (Scale: 1mm): 6—Pronotum from above (A) and lateral view (B), 7—Subgenital plate and 5–7 sterna, 8—Ovipositor in whole (A) and apical view (B).
FIGURES 1–5 in Anterastes davrazensis sp. n. (Orthoptera, Tettigoniidae): morphology, song and 16S rDNA phylogeny
FIGURES 1–5. Anterastes davrazensis sp. n., male (Scale: 1mm): 1—Pronotum and tegmina from above (A) and lateral view (B), 2—Cerci, 3—Tenth tergite (A, B different individuals), 4—Subgenital plate (A, B different individuals), 5—Titillators (A, B different individuals).
FIGURE 10 in Anterastes davrazensis sp. n. (Orthoptera, Tettigoniidae): morphology, song and 16S rDNA phylogeny
FIGURE 10. Map showing localities and haplotypes used in phylogenetic analyses. Triangle represents the locality of new species.
FIGURE 3. Nuclear 16S rDNA Maximum-likelihood tree for 25 in Caltsacoryne setouchiensis (Hydrozoa, Anthoathecata) a new genus and species of hydrozoan jellyfish from Japan
FIGURE 3. Nuclear 16S rDNA Maximum-likelihood tree for 25 anthoathcata taxa based on the General Time Reversible model: Scale bar indicates branch length in substitutions per site. Nodal support values are presented as the ML bootstrap value; only values>50% are shown.
FIGURE 42. Maximum Likelihood consensus tree inferred from the 16S rDNA sequence alignment representing a in Monographic revision of the endemic Helix mazzullii De Cristofori & Jan, 1832 complex from Sicily and re-introduction of the genus Erctella Monterosato, 1894 (Pulmonata, Stylommatophora, Helicidae)
FIGURE 42. Maximum Likelihood consensus tree inferred from the 16S rDNA sequence alignment representing a possible reconstruction of Helicidae phylogeny. Initial trees for the heuristic search were obtained automatically. A GTR + Γ model (alpha= 0.29) was employed. The analysis involved 58 nucleotide sequences. All positions containing gaps and missing data were eliminated.
Data from: Rapid species-level identification of vaginal and oral lactobacilli using MALDI-TOF MS analysis and 16S rDNA sequencing
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Data from: Effects of 16S rDNA sampling on estimates of the number of endosymbiont lineages in sucking lice
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FIGURE 2 in Molecular phylogeny of some genera of Pamphagidae (Acridoidea, Orthoptera) from China based on mitochondrial 16S rDNA sequences
FIGURE 2. Minimum Evolution (ME) Bootstrap consensus tree from 13 species of Pamphagidae.
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Allen Brain Atlas
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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.