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Fig. 6 in Designation of a new family group name, Tonzidae fam. nov., for the genus Tonza (Lepidoptera, Yponomeutoidea), based on immature stages of Tonza citrorrhoa
Fig. 6. Mature larval thorax and abdominal segment of Tonza citrorrhoa Meyrick, 1905 (OPU-IN- LE2018IV0031|SK600, 0025|SK603, 0026|SK604). A. Thorax segment 1–3. B. Thoracic leg on thorax segment 1. C. A 1–4. D. A5–9. E. A9–10. F. Anal shield. Abbreviations: ans = anal shield; apl = anal proleg; Ba = claw, lateral view; Bb = same, frontal view; D1, D2 = dorsal setae; L1, L2, L3 = lateral setae; MD1 = microdorsal seta; MV3 = microventral seta; SD1, SD2 = subdorsal setae; sp = spiracle; SV1, SV2, SV3 = subventral setae; V1 = ventral seta; XD1, XD2 = XD group, dorsal setae on the anterior margin of the T1.
Fig. 9 in Designation of a new family group name, Tonzidae fam. nov., for the genus Tonza (Lepidoptera, Yponomeutoidea), based on immature stages of Tonza citrorrhoa
Fig. 9. SEMs of the mature larval structure of Tonza citrorrhoa Meyrick, 1905 (OPU-IN- LE2018IV0035|SK543). A. Mandible and maxillary palpus. B. Jugular gland-like structure. C. Prothoracic legs. D. Meso- and metathoracic legs. E. Right mesothoracic leg. F. Left mesothoracic leg. G. Same, base of claw. H. Right metathoracic leg. I. Same, base of claw. J. Left metathoracic leg. K. Same, claw and tarsus. L–M. Crochets of proleg on A3. N. Same on A4. O. Crochets of anal prolegs.
Fig. 8 in Designation of a new family group name, Tonzidae fam. nov., for the genus Tonza (Lepidoptera, Yponomeutoidea), based on immature stages of Tonza citrorrhoa
Fig. 8. Scanning electron micrographs (SEMs) of the adult of Tonza citrorrhoa Meyrick, 1905 (A, C = OPU-IN-LE2018IV0033, unsexed; B, E–I = 0034, male). A–D. Head. E–I. Cilia. A. Right side, lateral view. B. Left side, lateral view. C–D. Vertex and eye. E. Apical cilia on forewing. F–G. Cilia of dorsum on hindwing. H–I. Apical cilia on hindwing.
Fig. 5 in Designation of a new family group name, Tonzidae fam. nov., for the genus Tonza (Lepidoptera, Yponomeutoidea), based on immature stages of Tonza citrorrhoa
Fig. 5. Mature larval head of Tonza citrorrhoa Meyrick, 1905 (OPU-IN-LE2018IV0031|SK600, 0025|SK603, 0026|SK604). A. Head capsule, frontal view. B. Same, rear view. C. Same, lateral view. D. Labrum, frontal view. E. Same, rear view. F. Mandible, inner view. Abbreviations: A1, A2, A3 = anterior setae; Af1, Af2 = adfrontal setae; Afa = pore between setae Af1 and Af2; at = antenna; C1, C2 = clypeal setae; F1 = frontal seta; Fa: pore on the frons; L1 = lateral seta; lb = labium; lp = labial palpus; M1, M2 = mandibular setae; MD1, MD2 = microdorsal setae; MG1 = microgenal seta; mp = maxillary palpus; P1, P2 = posteriodorsal setae; S1, S2, S3 = stemmatal setae; spr = spinneret; SS1, SS2, SS3 = substemmatal setae; stm = stemma.
Fig. 4 in Designation of a new family group name, Tonzidae fam. nov., for the genus Tonza (Lepidoptera, Yponomeutoidea), based on immature stages of Tonza citrorrhoa
Fig. 4. Mature larva of Tonza citrorrhoa Meyrick, 1905 (OPU-IN-LE2018IV0031|SK600). A. Gene- ral, lateral view. B. Same, ventral view. C. Head and prothorax, dorsal view. D. Same, ventral view. E. Same, lateral view. F. Jugular glands, lateral view. G. A3, 4. H. Proleg on abdominal segment 3. I. Same, on abdominal segment 4. J. Spiracle on abdominal segment 8. K. Anal proleg, ventral view. Scale bar: 1 mm.
Fig. 2. A in Designation of a new family group name, Tonzidae fam. nov., for the genus Tonza (Lepidoptera, Yponomeutoidea), based on immature stages of Tonza citrorrhoa
Fig. 2. A tree estimated by neighbor-joining analysis under Kimura's two-parameter distance model using DNA barcode sequence, retrieved from BOLD identification system (IDS). Branch lengths are proportional to distances. Sequence with ID started from "SK-" is obtained from the present study, and the others are from the BOLD database. The letters within square brackets refer to the collection site of specimens as follows: Au = Australia; Ca = Canada; Cr = Costa Rica; Ec = Ecuador; Eu = Europe; Gh = Ghana; Ja = Japan; Ma = Macedonia; Pa = Pakistan; Pg = Papua New Guinea; Sk = South Korea; Ta = Taiwan; Un = Unknown; Us = United States; Ve = Venezuela. Asterisks show the superfamily Yponomeutoidea.
Fig. 3 in Designation of a new family group name, Tonzidae fam. nov., for the genus Tonza (Lepidoptera, Yponomeutoidea), based on immature stages of Tonza citrorrhoa
Fig. 3. Larvae and pupae of Tonza citrorrhoa Meyrick, 1905 on Putranjiva matsumurae Koidz. A. Tree of hostplant and larval webs. B. Later larva forming web on young leaves. C. Later larva, lateral view. D. Mature larva, dorsal view. E. Same, ventral view. F. Pupa, ventral view. G. Same, lateral view. H. Pupa at the joint of some cross silken threads, lateral view.
Fig. 1 in Designation of a new family group name, Tonzidae fam. nov., for the genus Tonza (Lepidoptera, Yponomeutoidea), based on immature stages of Tonza citrorrhoa
Fig. 1. Female adult of Tonza citrorrhoa Meyrick, 1905 (OPU-IN-LE 2018IV0005), host: Putranjiva matsumurae Koidz., from Yonaguni Is., Okinawa Pref., Japan. A. Adult specimen. B. Resting posture of adult, dorso-lateral view. Scale bar: 2 mm.
Fig. 3 in Morphology of immature stages of Helophorus (Gephelophorus) auriculatus (Coleoptera, Helophoridae)
Fig. 3. First instar larva of Helophorus auriculatus Sharp, 1884. Anterior margin of head capsule, dorsal view.
Figure 2 in Zoeal stages of Hiplyra variegata (Rüppell, 1830) (Crustacea: Brachyura: Leucosiidae) reared in the laboratory and collected from plankton at Al-Kharrar creek, central Red Sea
Figure 2. Hiplyra variegata (Rüppell, 1830), maxillule: (a) zoea I; (c) zoea II; (e) zoea III. Maxilla: (b) zoea I; (d) zoea II; (f) zoea III.
Ocean acidification induces distinct transcriptomic responses across life history stages of the sea urchin Heliocidaris erythrogramma
Ocean acidification (OA) from seawater uptake of rising carbon dioxide emissions impairs development in marine invertebrates, particularly in calcifying species. Plasticity in gene expression is thought to mediate many of these physiological effects, but how these responses change across life history stages remains unclear. The abbreviated lecithotrophic development of the sea urchin <i>Heliocidaris erythrogramma</i> provides a valuable opportunity to analyze gene expression responses across a wide range of life history stages, including the benthic, post-metamorphic juvenile. We measured the transcriptional response to OA in <i>H. erythrogramma</i> at three stages of the life cycle (embryo, larva, and juvenile) in a controlled breeding design. The results reveal a broad range of strikingly stage-specific impacts of OA on transcription, including changes in the number and identity of affected genes; the magnitude, sign, and variance of their expression response; and the developmental trajectory of expression. The impact of OA on transcription was notably modest in relation to gene expression changes during unperturbed development and dwarfed by genetic contributions from parentage. The latter result suggests that natural populations may provide an extensive genetic reservoir of resilience to OA. Taken together, these results highlight the complexity of the molecular response to OA, its substantial life history stage specificity, and the importance of contextualizing the transcriptional response to pH stress in light of normal development and standing genetic variation to better understand the capacity for marine invertebrates to adapt to OA.
Figure 1 in Description of the biology and immature stages of Pagyris ulla (Hewitson) (Lepidoptera: Nymphalidae: Ithomiini) in the Colombian Andes
Figure 1. Stages of Pagyris ulla. (A) Egg, (B) first instar, (C) second instar, (D) third instar, (E) fourth instar, (F) fifth instar, (G, H) pupa, (I) male: 1 – dorsal and 2 – ventral, (J) female: 1 – dorsal and 2 – ventral.
[2019 QSM Reconstruction Challenge] Submissions Stage 2
<p>This repository contains the original, unaltered files submitted to Stage 2 of the 2019 Quantitative Susceptibility Mapping Reconstruction Challenge.</p> <p>The data provided to applicants of the challenge along with the scripts used to obtain the evaluation metrics are available <a href="https://doi.org/10.5281/zenodo.4559540">here</a>. Information about the submitted solutions and resulting analysis metrics are available <a href="https://doi.org/10.5281/zenodo.3687196">here</a>.</p> <p>The results of the challenge are fully reported in the journal article "<a href="http://doi.org/10.1002/mrm.28754">QSM Reconstruction Challenge 2.0: Design and Report of Results</a>".</p>
Dataset of examples of Drosophila epithelia at different developmental stages
<p><strong>File list</strong></p> <p>A) notum1_GFP.TIF and notum1_mCherry.TIF</p> <p>B) notum2_GFP.tif and notum2_mCherry.tif</p> <p>C) wing_disc1.tif</p> <p>D) wing_disc2.tif</p> <p><strong>Samples</strong></p> <p>A-B) Posterior region of live drosophila pupal notum. All the cells express E-Cadherin::GFP, and a clonal subpopulation of them express active Yorkie and nuclear mCherry protein.</p> <p>C-D) Drosophila wing imaginal discs from L3 larval stage stained for (C) E-cadherin (green) and GFP (clone, magenta), (D) E-cadherin (green) and phospho-histone H3 (magenta)</p> <p><strong>Imaging conditions</strong></p> <p>(A) was done on a confocal spinning disk microscope with a 40X oil objective. (B,C,D) images were acquired using a Zeiss LSM 880 confocal microscope, equipped with an oil immersion objective (Plan-Apochromat 40x/1.3 Oil DIC UV-IR M27). (A-B) Stacks were generated with a Z interval of 1.5 um, 0.5 for (C) and 1 um for (D). (A) pixel size is 0.28um. (B-D) pixel size is 0.35um.</p>
Illuminating the planktonic stages of salmon lice: a unique fluorescence signal for rapid identification of a rare copepod in zooplankton assemblages.
<p>The Excitation Emission Matrix (EEM) measurements were taken with Shimadzu's proprietary software ‘LabSolutions RF’. All files are in the exported csv format with columns representing the excitation wavelengths and rows the emission wavelengths. Wavelengths range from 200-600 nm with a 2 nm increment. Fluorescence intensity was influenced by the fluctuating number of animals in the path of the excitation beam during the 5 minute measurement. We compensated for this artefact by repeating measurements of each sample five times, calculating the mean, and applying a smoothing function which found the median value within 10 nm. The fluorescence intensity was further normalized on a 0 to 1 scale by dividing intensity by the maximum fluorescence within each EEM measurement.</p> <p>Supplemental Table 1. The metadata of EEM measurements. The measurements were used for the spectrum section analysis and correspond to those depicted in Figures 2, 3, 4, & 5. See sections 3.1, 3.1.1, & 3.1.2. The Sample column indicates which lab culture cohort the sea lice came from (BGO*), which wild caught fish sample they came from (WC*), or the sampling date of non-target copepods (DDMMYY). The filename of each mean measurement is listed and indicates the first of 5 repeated measurements. Corresponding files can be found in the deposited.csv files at Zendo. In those files, data columns represent the excitation wavelengths, 200nm to 600nm increasing in 2 nm increments. Likewise, the rows represent the emission wavelengths. NaN’s are present where scattering layers were removed. All fluorescence intensity values are normalized to the maximum within each EEM.</p>
Fig. 12 in Preimaginal stages and biology of Bactericera lyrata (Hemiptera: Psylloidea: Triozidae)
Fig. 12. Fifth instar immature of Bactericera lyrata Seljak, Malenovský & Lauterer, 2008 with details of sectasetae, the circumanal pore ring and tarsal arolium.
Figs 1–5 in Preimaginal stages and biology of Bactericera lyrata (Hemiptera: Psylloidea: Triozidae)
Figs 1–5. Bactericera lyrata Seljak, Malenovský & Lauterer, 2008. 1 – adult male of the summer generation; 2 – adult female of the summer generation; 3 – adult male of the overwintering generation; 4 – adult female of the overwintering generation; 5 – abandoned field near Vogrsko village, Vipava Valley, western Slovenia: the type locality of B. lyrata.
Figs 6–11 in Preimaginal stages and biology of Bactericera lyrata (Hemiptera: Psylloidea: Triozidae)
Figs 6–11. Bactericera lyrata Seljak, Malenovský & Lauterer, 2008. 6 – fifth instar immature; 7 – fourth instar immature; 8 – egg; 9 – freshly hatched first instar immature; 10 – adult female and eggs on a leaf of Potentilla reptans; 11 – Potentilla reptans, the host plant.
Doctoral Studies as part of an Innovative Training Network (ITN): Early Stage Researcher (ESR) experiences - supplemental material & data
<p>Table and data repository for the manuscript "Doctoral Studies as part of an Innovative Training Network (ITN): Early Stage Researcher (ESR) experiences"</p> <p><strong>Supplemental Tables:</strong></p> <ul> <li>table1_ESIT Project Table</li> <li>table2_TIN-ACT Project Table</li> <li>table3_ITN_tinnitus</li> <li>table4_ITN_other</li> <li>table5_Individual PhDs</li> </ul> <p><strong>Individual-level and de-identified survey data (raw data):</strong></p> <ul> <li>raw_data_ITN_tinnitus (survey results from PhDs as part of an ITN with a focus on tinnitus)</li> <li>raw_data_ITN_other (survey results from PhDs associated to ITNs with another focus)</li> <li>raw_data_Individual_Phds (survey results from PhDs not part of an ITN)</li> </ul>
Reconciling supertramps, great speciators and relict species with the taxon cycle stages of a large island radiation (Aves: Campephagidae)
<p><strong>Aim</strong>: The taxon cycle concept provides a geographically explicit and testable set of hypotheses for exploring the evolutionary processes underlying the distribution of species in space and time. Here, we test taxon cycle predictions within a large avian island radiation, the core Campephagidae and explicitly integrate the concepts of 'supertramps', 'great speciators' and relictualization.</p> <p><strong>Location</strong>: The Indo-Pacific, Australia, Asia and Africa.</p> <p><strong>Taxon</strong>: Corvoid passerine birds.</p> <p><strong>Methods</strong>: We constructed a new time-calibrated molecular phylogeny of the core Campephagidae (cuckoo-shrikes, cicadabirds and trillers) using Bayesian phylogenetic methods. Ancestral range estimation methods and diversification rate analyses were used to explore the dispersal and diversification history of the group. We used an extensive dataset on wing morphology and range distributions to test for correlations between evolutionary age of species and dispersal capacity, diversification and distribution, while accounting for phylogenetic non-independence.</p> <p><strong>Results</strong>: The core Campephagidae represents an ecologically homogeneous radiation distributed across the Indo-Pacific, Australia, South-East Asia and Africa. Its members represent a continuum of dispersal abilities; some species are widespread and undifferentiated ('supertramps') or show strong differentiation of local populations ('great speciators'), and a few are endemic to single islands (relicts). We show that older species relative to younger species inhabit fewer and larger islands at higher elevations. The level of intraspecific variation measured as the number of subspecies also decreases with species age, and is highest in 'great speciators' with intermediate levels of dispersal abilities (as per hand-wing index).</p> <p><strong>Main conclusions</strong>: Based on trait correlations with species age, we infer phases of range expansion and contraction over millions of years (taxon cycles), within a single monophyletic group of birds. These observations demonstrate reconciliation of the concepts of 'supertramps', 'great speciators' and relictual paleo-endemics within the temporal stages of the taxon cycle.</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.