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Figure 8 from: Hernández-Ortiz V, Canal NA, Tigrero Salas JO, Ruíz-Hurtado FM, Dzul-Cauich JF (2015) Taxonomy and phenotypic relationships of the Anastrepha fraterculus complex in the Mesoamerican and Pacific Neotropical dominions (Diptera, Tephritidae). In: De Meyer M, Clarke AR, Vera MT, Hendrichs J (Eds) Resolution of Cryptic Species Complexes of Tephritid Pests to Enhance SIT Application and Facilitate International Trade. ZooKeys 540: 95-124. https://doi.org/10.3897/zookeys.540.6027
Figure 8 - Analysis of allometry among morphotypes in the Anastrepha fraterculus complex. Multivariate regression performed from Procrustes coordinates against log-Centroid size values for the wings.
Figures 14-25 from: Hernández-Ortiz V, Canal NA, Tigrero Salas JO, Ruíz-Hurtado FM, Dzul-Cauich JF (2015) Taxonomy and phenotypic relationships of the Anastrepha fraterculus complex in the Mesoamerican and Pacific Neotropical dominions (Diptera, Tephritidae). In: De Meyer M, Clarke AR, Vera MT, Hendrichs J (Eds) Resolution of Cryptic Species Complexes of Tephritid Pests to Enhance SIT Application and Facilitate International Trade. ZooKeys 540: 95-124. https://doi.org/10.3897/zookeys.540.6027
Figures 14-25 - Typical shape of the acuelus tip in morphotypes from the Meso-American and Pacific dominions. Mexican morphotype: 14 Mexico-Apazapan 15 Guatemala-City 16 Panama-La Campana. Venezuelan morphotype: 17 Venezuela-Corrales. Andean morphotype: 18 Venezuela-Loma Mitimbis 19 Colombia-Barbosa. Peruvian morphotype: 20 Ecuador-Agroficial 21 Peru-La Molina. Ecuadorian morphotype: 22 Ecuador-Chota 23 Peru-Echarate. Brazilian lineage: 24 Peru-Valle Sagrado 25 Argentina-Tucuman. Scale bar 0.05 mm.
Figure 6 from: Hernández-Ortiz V, Canal NA, Tigrero Salas JO, Ruíz-Hurtado FM, Dzul-Cauich JF (2015) Taxonomy and phenotypic relationships of the Anastrepha fraterculus complex in the Mesoamerican and Pacific Neotropical dominions (Diptera, Tephritidae). In: De Meyer M, Clarke AR, Vera MT, Hendrichs J (Eds) Resolution of Cryptic Species Complexes of Tephritid Pests to Enhance SIT Application and Facilitate International Trade. ZooKeys 540: 95-124. https://doi.org/10.3897/zookeys.540.6027
Figure 6 - Scatter plot of means of centroids morphotypes from first three Canonical Variates resulted from the CVA applied to linear morphometric model. Percentage in parenthesis indicates the contribution to the differentiation of the groups.
Figure 5 from: Hernández-Ortiz V, Canal NA, Tigrero Salas JO, Ruíz-Hurtado FM, Dzul-Cauich JF (2015) Taxonomy and phenotypic relationships of the Anastrepha fraterculus complex in the Mesoamerican and Pacific Neotropical dominions (Diptera, Tephritidae). In: De Meyer M, Clarke AR, Vera MT, Hendrichs J (Eds) Resolution of Cryptic Species Complexes of Tephritid Pests to Enhance SIT Application and Facilitate International Trade. ZooKeys 540: 95-124. https://doi.org/10.3897/zookeys.540.6027
Figure 5 - Phenogram showing the linear morphometric relationships among 40 population samples of the Af complex, based on Mahalanobis distances computed from the CVA. Clustering method UPGMA.
Figures 1-4 from: Hernández-Ortiz V, Canal NA, Tigrero Salas JO, Ruíz-Hurtado FM, Dzul-Cauich JF (2015) Taxonomy and phenotypic relationships of the Anastrepha fraterculus complex in the Mesoamerican and Pacific Neotropical dominions (Diptera, Tephritidae). In: De Meyer M, Clarke AR, Vera MT, Hendrichs J (Eds) Resolution of Cryptic Species Complexes of Tephritid Pests to Enhance SIT Application and Facilitate International Trade. ZooKeys 540: 95-124. https://doi.org/10.3897/zookeys.540.6027
Figures 1-4 - Morphological structures and variables used for morphometric assessment of the Anastrepha fraterculus complex: 1 Thorax in dorsal view 2 Aculeus tip in ventral view 3 Measurements for the linear morphometrics of wing 4 Landmarks used for the geometric analysis of the wing shape.
Figures 12-13 from: Hernández-Ortiz V, Canal NA, Tigrero Salas JO, Ruíz-Hurtado FM, Dzul-Cauich JF (2015) Taxonomy and phenotypic relationships of the Anastrepha fraterculus complex in the Mesoamerican and Pacific Neotropical dominions (Diptera, Tephritidae). In: De Meyer M, Clarke AR, Vera MT, Hendrichs J (Eds) Resolution of Cryptic Species Complexes of Tephritid Pests to Enhance SIT Application and Facilitate International Trade. ZooKeys 540: 95-124. https://doi.org/10.3897/zookeys.540.6027
Figures 12-13 - Scatter plots of individuals tested by CVA grouping samples by distributional areas: 12a–b Eight populations from Ecuador 13a–b Five populations from Peru. a linear morphometrics b geometric morphometrics of wing-shape. Confidence ellipses 95%.
Figures 9-11 from: Hernández-Ortiz V, Canal NA, Tigrero Salas JO, Ruíz-Hurtado FM, Dzul-Cauich JF (2015) Taxonomy and phenotypic relationships of the Anastrepha fraterculus complex in the Mesoamerican and Pacific Neotropical dominions (Diptera, Tephritidae). In: De Meyer M, Clarke AR, Vera MT, Hendrichs J (Eds) Resolution of Cryptic Species Complexes of Tephritid Pests to Enhance SIT Application and Facilitate International Trade. ZooKeys 540: 95-124. https://doi.org/10.3897/zookeys.540.6027
Figures 9-11 - Scatter plots of individuals tested by CVA grouping samples by distributional areas: 9a–b Mesoamerican-Caribbean lineage represented by 12 populations from Mexico, Guatemala, and Panama, including the single Venezuela lowland for comparisons 10a–b Five populations from Venezuela 11a–b Eleven populations from Colombia a linear morphometrics b geometric morphometrics of wing-shape. Confidence ellipses 95%.
Supplementary material 1 from: Singh G, Aptroot A, Rico VJ, Otte J, Divakar PK, Crespo A, Cáceres ME da S, Lumbsch HT, Schmitt I (2018) Neoprotoparmelia gen. nov. and Maronina (Lecanorales, Protoparmelioideae): species description and generic delimitation using DNA barcodes and phenotypical characters. MycoKeys 44: 19-50. https://doi.org/10.3897/mycokeys.44.29904
Table S1: List of primers used in this study :
Figure 7 from: Singh G, Aptroot A, Rico VJ, Otte J, Divakar PK, Crespo A, Cáceres ME da S, Lumbsch HT, Schmitt I (2018) Neoprotoparmelia gen. nov. and Maronina (Lecanorales, Protoparmelioideae): species description and generic delimitation using DNA barcodes and phenotypical characters. MycoKeys 44: 19-50. https://doi.org/10.3897/mycokeys.44.29904
Figure 7 Neoprotoparmeliacapensis, holotype Crespo, Divakar, Hawksworth, Amo & Lumbsch 63f (MAF-Lich. 19584). a Habit b Section through centre of apothecium, showing cupular proper exciple (arrow) c Ascus d Spores, showing setae (arrow). Scale bars: 2 mm (a), 100 µm (b), 10 µm (c), 5 µm (d).
Figure 8 from: Singh G, Aptroot A, Rico VJ, Otte J, Divakar PK, Crespo A, Cáceres ME da S, Lumbsch HT, Schmitt I (2018) Neoprotoparmelia gen. nov. and Maronina (Lecanorales, Protoparmelioideae): species description and generic delimitation using DNA barcodes and phenotypical characters. MycoKeys 44: 19-50. https://doi.org/10.3897/mycokeys.44.29904
Figure 8 Neoprotoparmeliacorallifera (type species Neoprotoparmelia), sample Papong 7100. Scale bar: 1 mm.
Figure 12 from: Singh G, Aptroot A, Rico VJ, Otte J, Divakar PK, Crespo A, Cáceres ME da S, Lumbsch HT, Schmitt I (2018) Neoprotoparmelia gen. nov. and Maronina (Lecanorales, Protoparmelioideae): species description and generic delimitation using DNA barcodes and phenotypical characters. MycoKeys 44: 19-50. https://doi.org/10.3897/mycokeys.44.29904
Figure 12 Neoprotoparmeliaplurisporibadia, holotype Cáceres & Aproot 22130 (ABL). a Habitus b ascus with ascospores. Scale bars: 1 mm (a), 10 micron (b).
Figure 6 from: Singh G, Aptroot A, Rico VJ, Otte J, Divakar PK, Crespo A, Cáceres ME da S, Lumbsch HT, Schmitt I (2018) Neoprotoparmelia gen. nov. and Maronina (Lecanorales, Protoparmelioideae): species description and generic delimitation using DNA barcodes and phenotypical characters. MycoKeys 44: 19-50. https://doi.org/10.3897/mycokeys.44.29904
Figure 6 Neoprotoparmeliabrasilisidiata, holotype Cáceres & Aproot 21684 (ISE). Scale bar: 1 mm.
Figure 3 from: Singh G, Aptroot A, Rico VJ, Otte J, Divakar PK, Crespo A, Cáceres ME da S, Lumbsch HT, Schmitt I (2018) Neoprotoparmelia gen. nov. and Maronina (Lecanorales, Protoparmelioideae): species description and generic delimitation using DNA barcodes and phenotypical characters. MycoKeys 44: 19-50. https://doi.org/10.3897/mycokeys.44.29904
Figure 3 Maroninaaustraliensis (type species of Maronina), holotype Hafellner 17823 & Rogers (GZU). Scale bar: 1 mm.
Figure 11 from: Singh G, Aptroot A, Rico VJ, Otte J, Divakar PK, Crespo A, Cáceres ME da S, Lumbsch HT, Schmitt I (2018) Neoprotoparmelia gen. nov. and Maronina (Lecanorales, Protoparmelioideae): species description and generic delimitation using DNA barcodes and phenotypical characters. MycoKeys 44: 19-50. https://doi.org/10.3897/mycokeys.44.29904
Figure 11 Neoprotoparmeliapauli, holotype Kirika & Lumbsch 3821 (EA) a Habit b Centre of apothecia section, showing cupular proper exciple (arrow). Scale bars: 1 mm (a), 20 µm (b).
Figure 1 from: Singh G, Aptroot A, Rico VJ, Otte J, Divakar PK, Crespo A, Cáceres ME da S, Lumbsch HT, Schmitt I (2018) Neoprotoparmelia gen. nov. and Maronina (Lecanorales, Protoparmelioideae): species description and generic delimitation using DNA barcodes and phenotypical characters. MycoKeys 44: 19-50. https://doi.org/10.3897/mycokeys.44.29904
Figure 1 Phylogeny of Protoparmelioideae based on maximum likelihood analysis of ITS rDNA sequences of Protoparmelia and Neoprotoparmelia (Maronina s.l.). Numbers above branches indicate bootstrap support. Terminal clades were collapsed at the species level for clarity of presentation. The length of the triangle corresponds to branch lengths. Numbers in parentheses indicate number of specimens included in collapsed clade. Voucher information of each specimen in a clade is given in Table 1; New Neoprotoparmelia species are marked in red and bold.
Figure 2 from: Singh G, Aptroot A, Rico VJ, Otte J, Divakar PK, Crespo A, Cáceres ME da S, Lumbsch HT, Schmitt I (2018) Neoprotoparmelia gen. nov. and Maronina (Lecanorales, Protoparmelioideae): species description and generic delimitation using DNA barcodes and phenotypical characters. MycoKeys 44: 19-50. https://doi.org/10.3897/mycokeys.44.29904
Figure 2 Boxplot showing the intra- and interspecific genetic distances of Neoprotoparmelia species and the overall intraspecific distances from all species and pairwise interspecific distances. New species described in this study are marked in red.
Gestational and Peri-conceptional Exposure to Intra-nasal Instilled Air Pollutants Epigenetically Perturb Metabolic, Placental and Embryonic Phenotypes
<p><strong>Supplementary Figure legends</strong></p> <p> </p> <p><strong>Figure 1: </strong>Gestational study: Bar plots of plasma metabolites</p> <p> </p> <p><strong>Figure 2:</strong> Gestational study: Bar graph depicting gestational day 19 (GD19) maternal (left) and fetal (right) blood glucose concentrations presented as mean ± SEM. Air pollutant exposed group (AP) versus controls (CON), *p < 0.05 AP versus CON.</p> <p> </p> <p><strong>Figure 3: </strong>Gestational study: <strong>(A)</strong> GO term enrichment analysis of expressed genes between the AP group versus the CON group (n=6 each). Significant enrichment of pathways represented as q-values have been presented in a color-coded key. NES = normalized enrichment score. <strong>(B)</strong> Category cnet plot depicting the linkage of genes and biological concepts (hallmark pathways) as a network illustrating which genes are involved in enriched pathways, and genes that may belong to multiple annotation categories.</p> <p><strong>Figure 4: </strong>Gestational study:<strong> (A) </strong>Representative Western blots of various glucose and lipid transporter proteins and TNFα protein, with vinculin serving as an internal loading control, obtained from CON and AP GD19 placentas<strong>. (B) </strong>Bar plot showing densitometric analysis of Western blots of the various glucose and lipid transporters and TNFα (n=8 for each protein in each group). Data are depicted as Mean ± SEM. While trends are seen, statistical significance was not achieved.</p> <p><strong>Figure 5: </strong>Periconceptional study: <strong>(A)</strong> Bar plots demonstrating fasting blood glucose concentrations (left panel), Glucose tolerance tests (GTTs) (middle panel) and the area under the curves (AUCs) for GTTs (right panel) in non-pregnant (NP), pregnant (P), omega-3 diet exposed (P<em>n-3</em>) pregnant C57/BL6 (BL6) and CD1 pregnant mice are shown. <strong>(B)</strong> Bar plots demonstrating basal fed-state blood glucose concentrations (left panel), Insulin tolerance tests (ITTs) (middle panel) and AUCs for ITTs (right panel) in non-pregnant (NP), pregnant (P), omega-3 diet exposed (P<em>n-3</em>) pregnant C57/BL6 (BL6) and CD1 pregnant mice are shown (n=4-6 each). Data are presented as Mean ± SEM. Significance is shown as <sup>#</sup>compared to BL6-NP, *compared to BL6-P, and <sup>!</sup>compared to BL6-Pn-3 at a p< 0.05.</p> <p><strong>Figure 6: </strong>Periconceptional study:<strong> (A) </strong>Representative Western blots demonstrate various GD19 placental glucose and lipid transporter proteins, with vinculin serving as the internal loading control. <strong>(B) </strong>Bar plots show densitometric analysis of the Western blots of the various glucose and lipid transporters (n=8 for each protein in each group). Data are presented as Mean ± SEM.</p> <p><strong>Figure 7</strong>: Periconceptional study: Category cnet plot depicting the linkage of genes and biological concepts (hallmark pathways) as a network illustrating which genes are involved in enriched pathways, and the genes that may belong to multiple annotation categories between <strong>(A)</strong> AP and CON,<strong> (B)</strong> AP-<em>n-3</em> and AP, <strong>(C) </strong>AP-<em>n-3</em> and CON.</p> <p><strong>Figure 8: </strong>Periconceptional study:<strong> (A)</strong> Bar plots showing coverage of the 5’-hydroxymethylation DNA marks and genomic annotations in GD19 placentas from CON, AP, <em>n-3</em> and AP<em>-n-3</em> experimental groups (n=4 each). <strong>(B)</strong> Pie charts showing the distribution and genomic annotation of differentially methylated regions (DMRs) between the AP and CON groups. Upper panel depicts the distribution of DMRs across CpG-islands and associated regions, while the lower panel depicts the distribution of DMRs around different genomic regions. <strong>(C)</strong> Pie charts showing the distribution and genomic annotation of differentially methylated regions (DMRs) between AP<em>-n-3</em> and CON (left panel), <em>n-3</em> versus CON (middle panel) and AP<em>-n-3</em> versus AP (right panel).</p> <p><strong>Figure 9:</strong> Periconceptional study: <strong>(A-D) </strong>Volcano plots demonstrating the DNA methylation profiles of GD19 placentas from <strong>(A)</strong> AP versus CON, <strong>(B)</strong> AP<em>n-3</em> vs CON, <strong>(C)</strong> <em>n-3</em> vs CON, and <strong>(D)</strong> AP-<em>n-3</em> vs AP groups. Red and blue dots represent hypomethylated and hypermethylated loci respectively (n=4 each group). </p> <p> </p> <p> </p> <p> </p> <p> </p>
Data for: Altered wing phenotypes of captive‐bred migratory birds lower post‐release fitness
<p><span>Captive-breeding and release to the wild is a globally important conservation tool. However, captivity can result in phenotypic changes that incur post-release fitness costs, especially if they affect strenuous or risky behaviors. Bird wing shape is critical for migration success and suboptimal phenotypes are strongly selected against. I demonstrate surprising plasticity of bird wing phenotypes in captivity for 4/16 studied species. In a model species, captive-born juveniles with wild wing phenotypes (a 1mm longer distal primary flight feather) survived post-release at 2.7 times the rate of those with captive phenotypes (i.e. a shorter distal feather). Subtle phenotypic changes and their fitness impacts are more common than widely realized because they are easily overlooked. To improve captive-breeding for conservation, practitioners must surveil phenotypic changes and find ways to mitigate them.<br></span></p>
Pooled CRISPR Screening of High-content Cellular Phenotypes by Ghost Cytometry_01
<p>Pooled CRISPR screening of high-content cellular phenotypes by ghost cytometry (NFkB NGS data, conventional flow cytometer data, Amnis data)</p>
Pooled CRISPR Screening of High-content Cellular Phenotypes by Ghost Cytometry_02
<p>Pooled CRISPR Screening of High-content Cellular Phenotypes by Ghost Cytometry (Macrophage NGS data)</p>
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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.