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1,293 results for “gene sequencing”
FIGURE 7. Bayesian phylogenetic tree inferred from SSU rRNA gene sequences. Posterior probabilities greater than 50 in Description of Trischistoma abharensis n. sp. (Nematoda: Trischistomatidae) and first record of Tripylella intermedia (Bütschli, 1873) Brzeski & Winiszewska-Ślipinska, 1993 (Nematoda: Tripylidae) from Iran
FIGURE 7. Bayesian phylogenetic tree inferred from SSU rRNA gene sequences. Posterior probabilities greater than 50% are given on appropriate clades. Nematode species, GenBank accession numbers, and locations are listed for each taxon if known. The accession no. AY284737 was originally deposited in GenBank as Paratripyla sp., but it was used as Tripylella sp. by van Megen et. al. (2009).
FIGURE 10. Stenopsyche tienmushanensis Hwang 1957, larva. 10A–G in A new species of Stenopsyche, with descriptions of larvae and females of some species associated by gene sequences (Insecta: Trichoptera)
FIGURE 10. Stenopsyche tienmushanensis Hwang 1957, larva. 10A–G, head: 10A, dorsal; 10B, left lateral; 10C, ventral; 10D, labrum and clypeus, dorsal; 10E, mandibles, mentum, and anterior ventral apotome, ventral; 10F, left mandible, ventral; 10G, pair of #18 setae, posteroventral. 10H–I, prothorax: 10H, dorsal; 10I, left lateral. 10J–L, foreleg and propleuron: 10J, left foretrochantin, episternum, and epimeron, left lateroventral; 10K, left forecoxa, left lateral; 10L, right tarsus and claw, right lateral.
FIGURE 11 in A new species of Stenopsyche, with descriptions of larvae and females of some species associated by gene sequences (Insecta: Trichoptera)
FIGURE 11. Stenopsyche sp. 1, larva. 11A–F, head: 11A, dorsal; 11B, left lateral; 11C, ventral; 11D, labrum and clypeus, dorsal; 11E, mandibles, mentum, and anterior ventral apotome, ventral; 11F, left mandible, ventral, 11G, pair of #18 setae, posteroventral. 11H–I, prothorax: 11H, dorsal; 11I, left lateral. 11J-L, foreleg and propleuron: 11J, left foretrochantin, episternum, and epimeron, left lateroventral; 11K, left forecoxa, left lateral; 11L, right tarsus and claw, right lateral.
FIGURE 9. Stenopsyche tienmushanensis Hwang 1957, female genitalia. 9A in A new species of Stenopsyche, with descriptions of larvae and females of some species associated by gene sequences (Insecta: Trichoptera)
FIGURE 9. Stenopsyche tienmushanensis Hwang 1957, female genitalia. 9A, left lateral; 9B, dorsal; 9C, ventral.
FIGURE 8. Stenopsyche navasi Ulmer 1926, larva. 8A–F in A new species of Stenopsyche, with descriptions of larvae and females of some species associated by gene sequences (Insecta: Trichoptera)
FIGURE 8. Stenopsyche navasi Ulmer 1926, larva. 8A–F, head: 8A, dorsal; 8B, left lateral; 8C, ventral; 8D, labrum and clypeus, dorsal; 8E, mandibles, mentum, and anterior ventral apotome, ventral; 8F, left mandible, ventral; 8G, pair of #18 setae, posteroventral. 8H–I, prothorax: 8H, dorsal; 8I, left lateral. 8J–M, foreleg and propleuron: 8J, left foretrochantin, episternum, and epimeron, left lateroventral; 8K, left forecoxa, left lateral; 8L, right tarsus and claw, right lateral. 8M, left mesotrochanter, anterior.
FIGURE 7. Stenopsyche navasi Ulmer 1926, female genitalia. 7A in A new species of Stenopsyche, with descriptions of larvae and females of some species associated by gene sequences (Insecta: Trichoptera)
FIGURE 7. Stenopsyche navasi Ulmer 1926, female genitalia. 7A, left lateral; 7B, dorsal; 7C, ventral.
FIGURE 6. Stenopsyche angustata Martynov 1930, larva. 6A–F in A new species of Stenopsyche, with descriptions of larvae and females of some species associated by gene sequences (Insecta: Trichoptera)
FIGURE 6. Stenopsyche angustata Martynov 1930, larva. 6A–F, head: 6A, dorsal; 6B, left lateral; 6C, ventral; 6D, labrum and clypeus, dorsal; 6E, mandibles, mentum, and anterior ventral apotome, ventral; 6F, left mandible, ventral, 6G, pair of #18 setae, posteroventral. 6H–I, prothorax: 6H, dorsal; 6I, left lateral. 6J–L, foreleg and propleuron: 6J, left foretrochantin, episternum and epimeron, left lateroventral; 6K, left forecoxa, left lateral; 6L, right tarsus and claw, right lateral.
FIGURE 5. Stenopsyche angustata Martynov 1930, female genitalia. 5A in A new species of Stenopsyche, with descriptions of larvae and females of some species associated by gene sequences (Insecta: Trichoptera)
FIGURE 5. Stenopsyche angustata Martynov 1930, female genitalia. 5A, left lateral; 5B, dorsal; 5C, ventral.
FIGURE 4 in A new species of Stenopsyche, with descriptions of larvae and females of some species associated by gene sequences (Insecta: Trichoptera)
FIGURE 4. Stenopsyche huangshanensis sp. nov., larva. 4A–G, head: 4A, dorsal; 4B, left lateral; 4C, ventral; 4D, labrum and clypeus, dorsal; 4E, mandibles, mentum, and anterior ventral apotome, ventral; 4F, left mandible, ventral; 4G, pair of #18 setae, posteroventral. 4H–I, prothorax: 4H, dorsal; 4I, left lateral. 4J–L, foreleg and propleuron: 4J, left foretrochantin, episternum, and epimeron, left lateroventral; 4K, left forecoxa, left lateral; 4L, right tarsus and claw, right lateral.
FIGURE 3 in A new species of Stenopsyche, with descriptions of larvae and females of some species associated by gene sequences (Insecta: Trichoptera)
FIGURE 3. Stenopsyche huangshanensis sp. nov., female genitalia. 3A, left lateral; 3B, dorsal; 3C, ventral. ap.IX = lateral apodeme of segment IX; c. = cercus; pr.sp. = processus spermathcae; seg.IX = segment IX; seg.X = segment X; st.VIII = sternum VIII; t.VIII = tergum VIII; vul.sc. = vulvar scale.
FIGURE 2 in A new species of Stenopsyche, with descriptions of larvae and females of some species associated by gene sequences (Insecta: Trichoptera)
FIGURE 2. Stenopsyche huangshanensis sp. nov., male genitalia. 2A, left lateral; 2B, dorsal; 2C, ventral; 2D, phallus, left lateral.
FIGURE 1 in A new species of Stenopsyche, with descriptions of larvae and females of some species associated by gene sequences (Insecta: Trichoptera)
FIGURE 1. COI neighbor-joining diagram used to determine larval-female-male associations of Chinese Stenopsyche species.
FIGURE 4. Bayesian tree inferred from LSU gene DNA sequences. Posterior probabilities exceeding 50 in Laimaphelenchus hyrcanus n. sp. (Nematoda: Aphelenchoididae), a new species from northern Iran
FIGURE 4. Bayesian tree inferred from LSU gene DNA sequences. Posterior probabilities exceeding 50% are given on appropriate clades. Nematode species and GenBank accession numbers are listed for each taxon.
SUPPLEMENTARY FIGURE 2. Tree generated from the nucleotide sequence for the mitochondrial gene region, igr1–cox1 in A taxonomic revision of Anthothela (Octocorallia: Scleraxonia: Anthothelidae) and related genera, with the addition of new taxa, using morphological and molecular data
SUPPLEMENTARY FIGURE 2. Tree generated from the nucleotide sequence for the mitochondrial gene region, igr1–cox1 of Anthothela-like specimens. Bayesian posterior probabilities shown above branch, ML bootstrap values below branch; HKY+G (Bayesian results split freq = 0.0019, 10000000 gen, burnin=25000). (* indicates nodes present only in Bayesian analysis).
FIGURE 6. Bayesian tree inferred from LSU gene DNA sequences. Posterior probabilities exceeding 50 in A new species of the genus Tripylina Brzeski, 1963 (Nematoda: Enoplida: Trischistomatidae) from Zhejiang Province, eastern China
FIGURE 6. Bayesian tree inferred from LSU gene DNA sequences. Posterior probabilities exceeding 50% are given on appropriate clades. Nematode species and GenBank numbers are listed for each taxon.
FIGURE 5. Bayesian tree inferred from SSU gene DNA sequences. Posterior probabilities exceeding 50 in A new species of the genus Tripylina Brzeski, 1963 (Nematoda: Enoplida: Trischistomatidae) from Zhejiang Province, eastern China
FIGURE 5. Bayesian tree inferred from SSU gene DNA sequences. Posterior probabilities exceeding 50% are given on appropriate clades. Nematode species and GenBank numbers are listed for each taxon.
FASTA 16s gene sequencing files for Control points for design of taxonomic composition in synthetic human gut consortia
<p>FASTA file output from Illumina MiSeq. Processed tally files (reads / species used to calculate relative abundances) are available in the other Zenodo repository listed in the key resources table, under ~ BC###/rawData/tallyfile.xlsx</p>
cDNA sequence of E2 gene family in Arabidopsis thaliana and data of statistical analysis
<p>E2 ubiquitin-conjugating enzymes act as a heart role in the ubiquitination process and are responsible for catalysis ubiquitin transfer. Although the function of ubiquitin-protein ligases (E3s) in plant response to diverse abiotic stress by targeting specific substrates has been well studied, the E2s' involvement in environmental responses and their downstream targets are not well understood. Here, we demonstrated that the E2 ubiquitin-conjugating enzyme 18 (UBC18) regulates the stability of FREE1 to modulate iron deficiency stress. UBC18 affects the ubiquitination of FREE1 and promotes its degradation, overexpression of<em> UBC18</em> in plants decreases their sensitivity to iron deficiency by reducing the level of FREE1, and high accumulation of FREE1 in<em> </em>the<em> ubc18</em> mutant resulted in sensitivity to iron deficiency. In addition, we demonstrated the lysine residues K227, K295, K315, and K540 are required for FREE1 ubiquitination and stability regulation, and mutation of these lysines of FREE1 residues resulted in sensitivity to iron starvation in plants. Taken together, our findings reveal a mechanism of UBC18 in response to iron deficiency stress by altering the abundance of FREE1, and further elucidate the role of ubiquitination sites in FREE1 stability regulation and the plant iron deficiency response.</p>
BactPrep: A user-friendly whole-genome sequencing analysis platform for the detection of homologous recombination and horizontal gene transfer in bacteria - Sample Dataset
<p>This is the dataset used as the sample dataset for the pipeline BactPrep. This dataset consists of 218 <em>Streptococcus pneumoniae</em> PMEN1 WGS assemblies collected from the year 1984 - 2008 from 22 unique countries globally. The raw sequencing data was originally published in the work: Rapid pneumococcal evolution in response to clinical interventions (doi: 10.1371/journal.ppat.1002745) under the bioproject PRJEB2085.</p> <p>We have assembled the raw sequences records with the following steps: 1) raw reads were first quality checked using fastQC 0.11.9; 2) adapters and low quality reads were removed using Trimmomatic 0.39 with parameter “ILLUMINACLIP:TruSeq2-PE.fa:2:30:10:2:keepBothReads LEADING:3 TRAILING:3 SLIDINGWINDOW:4:15 MINLEN:36”; 3) trimmed reads were error-corrected and assembled into WGS assemblies using SPAdes 3.15.0 with parameters "--careful --mismatch-correction”.</p>
Long-read genome sequencing of bread wheat facilitates disease resistance gene cloning
<p>Cloning agronomically important genes from large, complex crop genomes remains challenging. Here, we generate a 14.7-gigabase chromosome-scale<i> </i>assembly of the South African bread wheat (<i>Triticum aestivum</i>) cultivar Kariega by combining high-fidelity long reads, optical mapping, and chromosome conformation capture. The resulting assembly is an order of magnitude more contiguous than previous wheat assemblies. Kariega shows durable resistance against the devastating fungal stripe rust disease. We identified the race-specific disease resistance gene <i>Yr27</i>, encoding an intracellular immune receptor, as a major contributor to this resistance. <i>Yr27</i> is allelic to the leaf rust resistance gene <i>Lr13,</i> with the Yr27 and Lr13 proteins sharing 97% sequence identity. Our results thus demonstrate the feasibility of generating chromosome-scale wheat assemblies to clone genes and also exemplify that highly similar alleles of a single-copy gene can confer resistance to different pathogens, which might provide a basis for engineering <i>Yr27</i> alleles with multiple recognition specificities in future.</p>
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.
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.