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4,144 results for “ITS barcode”
Figure 1 in DNA barcoding of black cherry aphid Myzus cerasi (Fabricus, 1775) (Hemiptera: Aphididae) populations collected from Prunus avium and Prunus cerasus
Figure 1. Black cherry aphid colonies on the terminal growth of host plant (Denizli, Honaz).
Figure 1 A-B in DNA barcoding and a new taxonomic status of the Triaenodes ochreellus lefkas Malicky, 1974 (Insecta, Trichoptera) with new distribution data
Figure 1 A-B. The River Neretva in Opuzen (left bank).
Data from: Performance of DNA metabarcoding, standard barcoding and morphological approaches in the identification of insect biodiversity
<p>A repository containing the data and R code for the associated manuscript titled "Performance of DNA metabarcoding, standard barcoding and morphological approaches in the identification of insect biodiversity"</p> <p>Created by Romana K. Salis</p> <div> <h2>Content Overview</h2> <a href="https://github.com/rksalis/LNU_insectbarcoding/tree/main#content-overview"></a></div> <div> <h3>Rcode:</h3> <a href="https://github.com/rksalis/LNU_insectbarcoding/tree/main#rcode"></a></div> <p>analysis_070923.R</p> <div> <h3>Data files:</h3> <a href="https://github.com/rksalis/LNU_insectbarcoding/tree/main#data-files"></a></div> <p>literature_search_210624.csv barcoding_datasets.csv - barcoding datasets match category counts for the butterflies, bees and wasps</p> <p>barcoding_VB_thresholds.csv - barcoding datasets match category counts for the vietnamese butterfly with different similarity thresholds</p> <p>barcoding_VB_families.csv - barcoding datasets match category counts for the vietnamese butterfly families</p> <p>vietkordfinal_x.csv - intraspecific similarity and geographic distance</p> <p>vietnam_area.csv - intraspecific similarity and sampling area</p> <p>BINsvSp.csv - number of BINs and morphospecies</p> <p>Metabarcoding_Results_CommonSpecies.csv - metabarcoding results including the species only those also identified by morphology</p> <p>Metabarcoding_Results_BINSpecies.csv - metabarcoding results BIN species</p> <p>Metabarcoding_Results_BINs.csv - metabarcoding results all BINs</p>
CRISPRi with barcoded expression reporters dissects regulatory networks in human cells
<p>Genome-wide CRISPR screens have emerged as powerful tools for uncovering the genetic underpinnings of diverse biological processes. Incisive screens often depend on directly measuring molecular phenotypes, such as regulated gene expression changes, provoked by CRISPR-mediated genetic perturbations. Here, we provide quantitative measurements of transcriptional responses in human cells across genome-scale perturbation libraries by coupling CRISPR interference (CRISPRi) with barcoded expression reporter sequencing (CiBER-seq). To enable CiBER-seq in mammalian cells, we optimize the integration of highly complex, barcoded sgRNA libraries into a defined genomic context. CiBER-seq profiling of a nuclear factor kappa B (NF-κB) reporter delineates the canonical signaling cascade linking the transmembrane TNF-alpha receptor to inflammatory gene activation and highlights cell-type-specific factors in this response. Importantly, CiBER-seq relies solely on bulk RNA sequencing to capture the regulatory circuit driving this rapid transcriptional response. Our work demonstrates the accuracy of CiBER-seq and its potential for dissecting genetic networks in mammalian cells with superior time resolution.</p>
Table 2 Unidentified species with a in Checklist of Water mites in Mexico. Historical background and DNA barcoding perspectives
<p><b>Table 2</b> Unidentified species with a DNA barcode in BOLD database. BINs indicate putative species. * Unique BINs this database.</p><table><tbody><tr><th><i>Taxa</i></th><th>BIN</th><th><i>Taxa</i></th><th>BIN</th><th><i>Taxa</i></th><th>BIN</th></tr></tbody><tbody><tr><th>Arrenuridae</th><td></td><td>Limnesiidae</td><td></td><td><b>Pionidae</b></td><td></td></tr><tr><th>Arrenuridae</th><td>AEA 4828*</td><td><i>Limnesiidae</i></td><td>AEA 4382*</td><td><i>Pionidae</i></td><td>AEA 4809*</td></tr><tr><th><i>Arrenurus cristinae</i></th><td>AEA 7842*</td><td><i>Centrolimnesia</i></td><td>AEA 3914*</td><td><i>Piona</i></td><td>AEA 5358*</td></tr><tr><th><i>Arrenurus eduardoi</i></th><td>AEA 7844*</td><td><i>Limnesia</i></td><td>AEA 6471*</td><td><i>Piona</i></td><td>AEE 5501*</td></tr><tr><th><i>Arrenurus federicoi</i></th><td>AEB 7095*</td><td><i>Limnesia</i></td><td>ACX 7759</td><td><i>Piona</i></td><td>AEN 6046*</td></tr><tr><th><i>Arrenurus ecosur</i></th><td>ACX 8463</td><td><i>Limnesia</i></td><td>ACY 7380</td><td><i>Piona</i></td><td>AEO 7290*</td></tr><tr><th><i>Arrenurus marshallae</i></th><td>ACL2521</td><td><i>Limnesia</i></td><td>AEA 5595</td><td><i>Piona</i></td><td>AER1599 *</td></tr><tr><th><i>Arrenurus</i></th><td>ACX 8462*</td><td><b>Hygrobatidae</b></td><td></td><td><i>Piona</i></td><td>AER1600 *</td></tr><tr><th><i>Arrenurus</i></th><td>ACX 8788*</td><td>Hygrobatidae</td><td>AEA 5236*</td><td><i>Piona</i></td><td>AER1601 *</td></tr><tr><th><i>Arrenurus</i></th><td>ACX 8789*</td><td>Hygrobatidae</td><td>AEA 4089*</td><td><b>Mideopsidae</b></td><td></td></tr><tr><th><i>Arrenurus</i></th><td>ACY 6809*</td><td><i>Atractides</i></td><td>ACX 7786*</td><td>Mideopsidae</td><td>AEB 4633*</td></tr><tr><th><i>Arrenurus</i></th><td>ADI 3752*</td><td><i>Hygrobates</i></td><td>AEA 3689*</td><td><i>Mideopsis</i></td><td>ACY 7169*</td></tr><tr><th><i>Arrenurus</i></th><td>ADI 4458*</td><td><i>Hygrobates</i></td><td>AEA 3690*</td><td><i>Mideopsis</i></td><td>AEA 6512*</td></tr><tr><th><i>Arrenurus</i></th><td>AEA 3972*</td><td><i>Hygrobates</i></td><td>AEA 3924*</td><td><i>Mideopsis</i></td><td>ACX 8679</td></tr><tr><th><i>Arrenurus</i></th><td>AEA 7182*</td><td><i>Hygrobates</i></td><td>ACX 7887</td><td><b>Krendowskiidae</b></td><td></td></tr><tr><th><i>Arrenurus</i></th><td>AEA 7843*</td><td><i>Hygrobates</i></td><td>ADO 7098</td><td><i>Krendowskia</i></td><td>ACX 8435*</td></tr><tr><th><i>Arrenurus</i></th><td>AEA 8234*</td><td><b>Unionicolidae</b></td><td></td><td><i>Geayia</i></td><td>ACT 6195</td></tr><tr><th><i>Arrenurus</i></th><td>AEF1989 *</td><td>Unionicolidae</td><td>AEA 6658*</td><td><b>Hydrachnidia</b></td><td>AEA3823*</td></tr><tr><th><i>Arrenurus</i></th><td>AEF 8444*</td><td>Unionicolidae</td><td>ACY 7381</td><td></td><td>AEA4343*</td></tr><tr><th><i>Arrenurus</i></th><td>ACL2418</td><td>Unionicolidae</td><td>AEB1594 *</td><td></td><td>AEF3494*</td></tr><tr><th><i>Arrenurus</i></th><td>ACX 8464</td><td>Unionicolidae</td><td>AEA 7951*</td><td></td><td>AEF8255*</td></tr><tr><th><b>Limnocharidae</b></th><td></td><td>Unionicolidae</td><td>AEA 6062*</td><td></td><td>AEF0324*</td></tr><tr><th>Limnocharidae</th><td>AEA 4515*</td><td>Unionicolidae</td><td>AEA 4829*</td><td></td><td>AEI2293*</td></tr><tr><th><i>Limnochares</i></th><td>ACY 6840*</td><td>Unionicolidae</td><td>AEA 3726*</td><td></td><td>AEI2954*</td></tr><tr><th><i>Limnochares</i></th><td>ADI 4862*</td><td>Unionicolidae</td><td>AEA 4514*</td><td></td><td>AEI4296*</td></tr><tr><th><i>Eylaidae</i></th><td></td><td><i>Unionicola</i></td><td>ACX 8035*</td><td></td><td>AEI4327*</td></tr><tr><th><i>Eylaidae</i></th><td>AEA 4696*</td><td><i>Unionicola</i></td><td>ADM 7936*</td><td></td><td>AEI4328*</td></tr><tr><th><i>Eylaidae</i></th><td>AEA 5669*</td><td><i>Unionicola</i></td><td>AEB 4634*</td><td></td><td>AEI4329*</td></tr><tr><th><i>Eylais</i></th><td>ADD 9174*</td><td><i>Unionicola</i></td><td>AEE 0841*</td><td></td><td>AEI8266*</td></tr><tr><th><b>Hydryphantidae</b></th><td></td><td><i>Unionicola</i></td><td>ACX 9008</td><td></td><td>AEI8707*</td></tr><tr><th><i>Hydryphantes</i></th><td>AEA 5005*</td><td><i>Unionicola</i></td><td>AEF2345</td><td></td><td>AEI 9124*</td></tr><tr><th><b>Hydrodromidae</b></th><td></td><td><i>Unionicola</i></td><td>ACX 8034</td><td></td><td>AEJ2119*</td></tr><tr><th><i>Hydrodroma</i></th><td>ADF 3732</td><td><i>Neumania</i></td><td>AEA 8101*</td><td></td><td>AEN6047*</td></tr><tr><th><b>Anisitsiellidae</b></th><td></td><td><i>Neumania</i></td><td>ACY 6829</td><td></td><td>AEN8226*</td></tr><tr><th><i>Mamersellides</i></th><td>AEA 6955*</td><td><i>Koenikea</i></td><td>ACY 7384*</td><td></td><td>AEN8227*</td></tr><tr><th><i>Mamersellides</i></th><td>AEA 6956*</td><td><i>Koenikea</i></td><td>ACB 9299</td><td></td><td>AEO5260*</td></tr><tr><th><i>Torrenticolidae</i></th><td></td><td><i>Koenikea</i></td><td>ADI2928</td><td></td><td>AER2566 *</td></tr><tr><th><i>Torrenticolidae</i></th><td>AEA 4395*</td><td><i>Koenikea</i></td><td>ADI 3114</td><td></td><td>AEB1898</td></tr><tr><th><i>Torrenticola</i></th><td>AEA 7372*</td><td></td><td></td><td></td><td></td></tr></tbody></table>
Fig. 2 in DNA barcoding of the genus Verbascum (Scrophulariaceae) in the Arabian Peninsula
Fig. 2. Distribution of the clades and species, colours correspond to those used in Fig. 1.
Figure 2 in DNA Barcoding revealing the occurrence of Isarachnanthus (Cnidaria; Anthozoa; Ceriantharia) in Cape Verde
Figure 2. Evolutionary reconstruction of Isarachnanthus Carlgren, 1924 by Maximum Likelihood method based on the General Time Reversible model, likelihood (-1410.7055) with 523 positions in the final dataset.
Figure 3 in DNA Barcoding revealing the occurrence of Isarachnanthus (Cnidaria; Anthozoa; Ceriantharia) in Cape Verde
Figure 3. Area of occurrence of Isarachnanthus maderensis (Johnson, 1861), as follows: (A) Cape Verde (this study), (B) Ascension Island (Stampar & Morandini 2017), (C) Madeira Island, (D) Rocas Atoll and (E) Curaçao (Stampar et al., 2012).
Figure 1 in DNA Barcoding revealing the occurrence of Isarachnanthus (Cnidaria; Anthozoa; Ceriantharia) in Cape Verde
Figure 1. Specimens of Isarachnanthus maderensis (Johnson, 1861) in Santo Antão Island, Porto Novo harbor (A) andTarrafal, Santiago Island (B). (Diameter around 3 cm). Photos: Peter Wirtz.
Fig. 2 in The discovery of Barretonus (Curculionidae: Cossoninae) in the Canary Islands: barcoding, morphology and description of new species
Fig. 2. Dorsal and lateral habitus: A – Barretonus auarita sp. nov.; B – B. daute sp. nov.
Fig. 13 in NGS-barcodes, haplotype networks combined to external morphology help to identify new species in the mangrove genus Ngirhaphium Evenhuis & Grootaert, 2002 (Diptera: Dolichopodidae: Rhaphiinae) in Southeast Asia
Fig. 13. Distribution map of Ngirhaphium in Southeast Asia
Fig. 9 in NGS-barcodes, haplotype networks combined to external morphology help to identify new species in the mangrove genus Ngirhaphium Evenhuis & Grootaert, 2002 (Diptera: Dolichopodidae: Rhaphiinae) in Southeast Asia
Fig. 9. Distribution map of Ngirhaphium meieri, new species and Ngirhaphium thaicum, new species.
Fig. 7 in NGS-barcodes, haplotype networks combined to external morphology help to identify new species in the mangrove genus Ngirhaphium Evenhuis & Grootaert, 2002 (Diptera: Dolichopodidae: Rhaphiinae) in Southeast Asia
Fig. 7. Ngirhaphium meieri, new species, female habitus. Scale = 1 mm.
Fig. 6 in NGS-barcodes, haplotype networks combined to external morphology help to identify new species in the mangrove genus Ngirhaphium Evenhuis & Grootaert, 2002 (Diptera: Dolichopodidae: Rhaphiinae) in Southeast Asia
Fig. 6. Ngirhaphium meieri, new species, male habitus (photo: Abdulloh Samoh). Scale = 1 mm.
Fig. 3 in NGS-barcodes, haplotype networks combined to external morphology help to identify new species in the mangrove genus Ngirhaphium Evenhuis & Grootaert, 2002 (Diptera: Dolichopodidae: Rhaphiinae) in Southeast Asia
Fig. 3. Ngirhaphium thaicum, new species male habitus. Scale = 1 mm.
Fig. 4 in NGS-barcodes, haplotype networks combined to external morphology help to identify new species in the mangrove genus Ngirhaphium Evenhuis & Grootaert, 2002 (Diptera: Dolichopodidae: Rhaphiinae) in Southeast Asia
Fig. 4. Ngirhaphium thaicum, new species habitus female. Scale = 1 mm.
Fig. 3 in PhyloCode und DNA Barcoding - Taxonomische Regeln und Techniken im Wandel?
Fig. 3: "Species-sorting" und "Gene-sorting" können unterschiedlich
Fig. 5 in PhyloCode und DNA Barcoding - Taxonomische Regeln und Techniken im Wandel?
Fig. 5: Beispiel für die phylogenetische Definition
Figure 2 in The first DNA barcodes for the Australian platypus tick Ixodes ornithorhynchi Lucas, 1846 (Acari: Ixodidae) to facilitate conservation efforts for a declining parasite and its host
Figure 2 Phylogenetic relationships ofIxodes ornithorhynchi at the COI locus with published refer-
Data from: Using DNA barcoding to identify host-parasite interactions between cryptic species of goby (Coryphopterus: Gobiidae, Perciformes) and parasitic copepods (Pharodes tortugensis: Chondracanthidae, Cyclopoida)
<p>Previous work, using morphological characters, identified a generalist copepod parasite (<i>Pharodes tortugensis</i>) at high prevalence on two common gobies (C<i>oryphopterus glaucofraenum</i> and <i>C. dicrus</i>) in the British Virgin Islands (BVI). DNA barcoding subsequently revealed <i>C. glaucofraenum</i> to be three morphologically similar species (<i>C. glaucofraenum</i>, <i>C. venezuelae</i> and <i>C. tortugae</i>), casting doubt on host identities in the BVI and the classification of the parasite as a single species. Mitochondrial cytochrome c oxidase subunit I (COI) data from 67 gobies in the BVI showed that, in addition to <i>C. dicrus</i>, host gobies were a mix of <i>C. glaucofraenum</i> and <i>C. venezuelae,</i> while <i>C. tortugae</i> was unexpectedly absent from the study area. COI data (n = 70) indicated that the copepod infecting all three hosts was a single species, almost certainly <i>P. tortugensis</i>. The pharodes–coryphopterus interaction has a strong impact on host dynamics in the BVI, and a revised understanding of these dynamics must account for any differences among the three newly confirmed hosts in transmission of, and susceptibility to, the shared parasite. No other infected hosts were discovered at our sites, but <i>P. tortugensis</i> is reportedly widespread and infects 12 additional host species elsewhere. Further DNA barcoding is thus needed to test whether <i>P. tortugensis</i> is truly a widespread generalist, or instead represents a group of more specialized cryptic species.</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.