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1,454 results for “large scale”
Data from: Comparison of coded-wire tagging with parentage-based tagging and genetic stock identification in a large-scale coho salmon fisheries application in British Columbia, Canada
Wild Pacific salmon, including Coho salmon Onchorynchus kisutch, have been supplemented with hatchery propagation for over 50 years in support of increased ocean harvest and conservation of threatened populations. In Canada, the Wild Salmon Policy for Pacific salmon was established with the goal of maintaining and restoring healthy and diverse Pacific salmon populations, making conservation of wild salmon and their habitats the highest priority for resource management decision-making. A new approach to the assessment and management of wild coho salmon, and the associated hatchery production and fishery management is needed. Implementation of parentage-based tagging (PBT) may overcome problems associated with coded-wire tag-based (CWT) assessment and management of coho salmon fisheries, providing at a minimum information equivalent to that derived from the CWT program. PBT and genetic stock identification (GSI) were used to identify coho salmon sampled in fisheries (8,006 individuals) and escapements (1,692 individuals) in British Columbia to specific conservation units (CU), populations, and broodyears. Individuals were genotyped at 304 single nucleotide polymorphisms (SNPs) via direct sequencing of amplicons. Very high accuracy of assignment to population (100%) via PBT for 543 jack (age 2) assigned to correct age and collection location and 265 coded-wire tag (CWT, age 3) coho salmon assigned to correct age and release location was observed, with a 40,774–individual, 267–population baseline available for assignment. Coho salmon from un-CWTed enhanced populations contributed 65% of the catch in southern recreational fisheries in 2017. Application of a PBT-GSI system of identification to individuals in 2017 fisheries and escapements provided high-resolution estimates of stock composition, catch, and exploitation rate by CU or population, providing an alternate and more effective method in the assessment and management of Canadian-origin coho salmon relative to CWTs, and an opportunity for a genetic-based system to replace the current CWT system for coho salmon assessment.
Data from: Kicking Triturus arntzeni when it's down: large-scale nuclear genetic data confirm that newts from the type locality are genetically admixed
We collected nuclear DNA data (52 markers) with next-generation sequencing for nine Triturus newt specimens, including the holotype and two of the paratypes of T. arntzeni, from the type locality at Vrtovać in eastern Serbia. We compare these data to a reference set composed of the four crested newt species distributed in eastern Serbia namely T. cristatus, T. dobrogicus, T. ivanbureschi and T. macedonicus to determine to which of these species the newts from the type locality of T. arntzeni should be attributed. The majority of alleles in individuals from Vrtovać is derived from T. macedonicus, but a considerable number of T. ivanbureschi alleles is also present; alleles typical for T. cristatus and T. dobrogicus are found at low frequency. Accordingly, we interpret Vrtovać as a T. macedonicus – T. ivanbureschi hybrid population, albeit not composed of F1 hybrids but of genetically admixed individuals derived through multiple generations of backcrossing. The data support the notion that the name T. arntzeni should not be applied to a species newly distinguished in T. karelinii sensu lato (to which the name T. ivanbureschi has been given). We conclude that because of the hybrid nature of the individuals from Vrtovać, the name T. arntzeni should be placed not only in the synonymy of T. macedonicus but also in the synonymy of T. ivanbureschi. In this study we demonstrate that next-generation sequencing can provide high quality data for type material with degraded DNA and therefore can play an important role in taxonomy.
Large scale expression and purification of full length huntingtin Q46 from baculovirus expression system (2016/09/04)
<p>Open lab notebook huntingtin structure function project.<br> </p>
Large scale purification of full-length huntingtin Q23, Q46 and Q78 from insect cells
<p>Huntingtin structure function open lab notebook</p>
Small scale and large scale purification of full-length huntingtin Q17 and Q46 from mammalian expression system (2016/11/29)
<p>Huntingtin structure function open lab notebook project</p>
FIGURE 11 in The Eastern Arc Mountains and coastal forests of East Africa—an archive to understand large-scale biogeographical patterns: Pseudotomias, a new genus of African Pseudophyllinae (Orthoptera: Tettigoniidae)
FIGURE 11. Distribution of Pseudotomias species in Tanzania. Square: P. kisarawe n. sp. Circle: P. usambaricus n. sp.
FIGURE 10 in The Eastern Arc Mountains and coastal forests of East Africa—an archive to understand large-scale biogeographical patterns: Pseudotomias, a new genus of African Pseudophyllinae (Orthoptera: Tettigoniidae)
FIGURE 10. Morphological details of female Pseudotomias kisarawe n. sp. A. Lateral view on ovipositor B. Subgenital plate.
FIGURE 9 in The Eastern Arc Mountains and coastal forests of East Africa—an archive to understand large-scale biogeographical patterns: Pseudotomias, a new genus of African Pseudophyllinae (Orthoptera: Tettigoniidae)
FIGURE 9. Morphological details of male Pseudotomias kisarawe n. sp. A. Pronotum and head B. Semilateral view on abdominal apex C. Subgenital plate.
FIGURE 5 in The Eastern Arc Mountains and coastal forests of East Africa—an archive to understand large-scale biogeographical patterns: Pseudotomias, a new genus of African Pseudophyllinae (Orthoptera: Tettigoniidae)
FIGURE 5. Lateral view on ovipositor of Pseudotomias usambaricus n. sp. (A) and subgenital plate (B).
FIGURE 3 in The Eastern Arc Mountains and coastal forests of East Africa—an archive to understand large-scale biogeographical patterns: Pseudotomias, a new genus of African Pseudophyllinae (Orthoptera: Tettigoniidae)
FIGURE 3. Morphological details of male Pseudotomias usambaricus n. sp. A. Upper part of face showing expanded area formed by face closing gap between scapi of antennae; the fastigium verticis just protrudes above. B. Dorsal view on abdominal apex with undifferentiated 9th and 10th abdominal tergites and stout incurved cerci. C. Lateral view on abdominal apex. D. Subgenital plate.
FIGURE 4. Pseudotomias usambaricus n in The Eastern Arc Mountains and coastal forests of East Africa—an archive to understand large-scale biogeographical patterns: Pseudotomias, a new genus of African Pseudophyllinae (Orthoptera: Tettigoniidae)
FIGURE 4. Pseudotomias usambaricus n. sp. female. A. Resting posture with tegmina widely spread. B. Lateral view on head and pronotum.
FIGURE 1. Male Pseudotomias usambaricus n in The Eastern Arc Mountains and coastal forests of East Africa—an archive to understand large-scale biogeographical patterns: Pseudotomias, a new genus of African Pseudophyllinae (Orthoptera: Tettigoniidae)
FIGURE 1. Male Pseudotomias usambaricus n. sp. caught in the Nilo forest reserve, East Usambara Mountains.
Figure 8 in Off the scale: a new species of fishscale gecko (Squamata: Gekkonidae: Geckolepis) with exceptionally large scales
Figure 8 Micro-CT images of pectoral girdle of Geckolepis, based on G. megalepis sp. nov. (ZSM 2126/2007). (A) Ventral and (B) lateral view. Abbreviations: 1cf, primary coracoid fenestra; 2cf, secondary coracoid fenestra; acr, acromion process; cf, clavicular fenestra; cl, clavicle; cor, coracoid; ic, interclavicle; gf, glenoid fossa; hu, humerus; hu.c, humeral condyle; hu.dtp, deltopectoral crest of humerus; hu.ec, ectepicondylar crest of humerus; hu.hc, humeral crest of humerus; mc, metacarpal; ms, mesosternum; p, phalanges; ps, presternum; pu, patella ulnaris; r, radius; rl, radiale; s, scapula; sc.1c, primary coracoid ray of scapulocoracoid; sc.2c, secondary coracoid ray of scapulocoracoid; scf, scapulocoracoid fenestra; sf, scapular fenestra; ss, suprascapula; sc.sr, scapular ray of scapulocoracoid; sr, sternal ribs; sucf, supracoracoid foramen; u, ulna; ul, ulnare; xs, xiphisternum.
Figure 6 in Off the scale: a new species of fishscale gecko (Squamata: Gekkonidae: Geckolepis) with exceptionally large scales
Figure 6 Micro-CT images of skull (cranium and jaw) of the holotype of Geckolepis megalepis sp. nov. (ZSM 2126/2007). (A) Dorsal, (B) ventral, (C) lateral, (D) labial, and (E) lingual view. Abbreviations: adf, anterior inferior dental foramen; amf, anterior mylohyoid foramen; ar, articular facet; asnp, ascending nasal process of premaxilla; bo, basioccipital; bp, basipterygoid process of parabasisphenoid; ch, choana; cob, compound bone; cor, coronoid; d, dentary; dpp, (continued on next page...) Figure 6 (... continued) descending parietal process; ect, ectopterygoid; ept, epipterygoid; f, frontal; hscc, horizontal semi-circular canal; if, incisive foramen; j, jugal; larst, lateral aperture of the recessus scalae tympani; mdf, mandibular fossa; mf, mental foramen; mko, opening of the Meckelian canal, mx, maxilla; mx.ap, anterior process of maxilla; mx.fp, facial process of maxilla; mx.pp, posterior process of maxilla; mx.ps, palatal shelf of maxilla; n, nasal; occ, occipital condyle; oto, otooccipital; pal, palatine; pal.mp, maxillary process of palatine; pal.vf, vomerine flange of palatine; par, parietal; pbsh, parabasisphenoid; pmx, premaxilla; pmx.pps, premaxilla palatal shelf; pof, postorbitofrontal; pop, paroccipital process; ppp, posterolateral process of parietal; prf, prefrontal; pro, prootic; pro.ca, crista alaris of prootic; pro.cp, crista prootica of prootic; psaf, posterior surangular foramen; pscc, posterior semicircular canal; pt, pterygoid; pt.qp, quadrate process of pterygoid; q, quadrate; q.ch, conch of quadrate; rap, retroarticular process; s, stapes; saf, surangular foramen; scr, sclerotic ring; smx, septomaxilla; spl, splenial; sof, suborbital fenestra; sq, squamosal, so, supraoccipital; spht, sphenooccipital tubercle; tbr, trabeculae; v, vomer; v.lp, lateral process of vomer; v.mp, maxillary process of vomer. A rotational video of the skull is provided in Video S1.
Figure 5 in Off the scale: a new species of fishscale gecko (Squamata: Gekkonidae: Geckolepis) with exceptionally large scales
Figure 5 Micro-CT images of mineraliZed scales of Geckolepis specimens. Shown in dorsal (A, D, F, H, J) and ventral (B, E, G, I, K) view, and coronal cut at the parietal level (C) of Geckolepis megalepis (A– C, ZSM 2126/2007), Geckolepis OTU AB (D–E, ZSM 1520/2008), G. maculata (F–G, ZMB 9655), and G. humbloti (H–I, ZSM 80/2010; J–K, ZSM 81/2006). Note the high density of the scale covering in all the species, and the lack of mineralization in the postmental scales (compare with Figs. 2 and 3).
Figure 2 in Off the scale: a new species of fishscale gecko (Squamata: Gekkonidae: Geckolepis) with exceptionally large scales
Figure 2 Schematic drawings exemplifying morphological measurements and scale counts, following the scheme of Hawlitschek et al. (2016) based on Köhler et al. (2009). (A) Measurements and pholidosis of the head, drawn from the specimen in Fig. 3A (small scales around the eye and nostril not depicted); (B) body measurements; (C) postmental scale conditions, adapted from Lemme et al. (2013); (D) postnasal scale configuration types, adapted from Köhler et al. (2009). Scale counts in A: purple, canthal scales; blue, supralabials; red, infralabials. In C, cyan indicates mental scales and purple indicates postmental scales. For abbreviations and unillustrated characters, see Materials and Methods.
Figure 7 in Off the scale: a new species of fishscale gecko (Squamata: Gekkonidae: Geckolepis) with exceptionally large scales
Figure 7 Micro-CT images of spinal column of Geckolepis, based on G. megalepis sp. nov. (ZSM 2126/2007). (A) Lateral and (B) dorsal view. Abbreviations: lb, lumbar; sc, sacral. Regions are indicated by the posterodorsal-most point of the neural arches.
Figure 10 in Off the scale: a new species of fishscale gecko (Squamata: Gekkonidae: Geckolepis) with exceptionally large scales
Figure 10 Comparative micro-CT images of the skull (cranium and jaw) of other Geckolepis species. Shown in dorsal (A, F, K, P), ventral (B, G, L, Q), lateral (C, H, M, R), labial (D, I, N, S), and lingual (E, J, O, T) view. Depicting Geckolepis OTU AB (A–E, ZSM 1520/2008), holotype of G. maculata (F–J, ZMB 9655), and G. humbloti (K–O, ZSM 80/2010; P–T, ZSM 81/2006). From volume-rendering of micro-CT scans. Rotational videos of these skulls are provided in Videos S2–S5. For labels, see Fig. 6.
Figure 4 in Off the scale: a new species of fishscale gecko (Squamata: Gekkonidae: Geckolepis) with exceptionally large scales
Figure 4 Specimens of Geckolepis megalepis sp. nov. in preservative. (A–C) The holotype, ZSM 2126/2007; (D–F) paratype ZSM 232/2016. Shown in dorsal (A, D) and ventral (C, F) view, with a close-up view of the postmental scales (B, E) coloured for reference to Fig. 1. Scale bars indicate 10 mm. Chin insets are not to scale.
Figure 9 in Off the scale: a new species of fishscale gecko (Squamata: Gekkonidae: Geckolepis) with exceptionally large scales
Figure 9 Micro-CT images of pelvic girdle of Geckolepis, based on G. megalepis sp. nov. (ZSM 2126/2007). (A) Dorsal and (B) lateral view. Abbreviations: ac, acetabulum; ag, astragalocalcaneum; ep, epipubis; f, femur; fb, fibula; f.it, internal trochanter; f.itf, intertrochanteric fossa; f.fc, femoral condyle; hyi, hypoischium; il, ilium; il.pap, preacetabular process of ilium; is, ischium; is.t, ischiadic tuberosity; ltp, lenticular tibial patella; mt, metatarsals; of, obturator foramen; p, phalanges; pic, proischiadic cartilage; pb, pubis; pb.pl, processus lateralis of pubis; pc, post-cloacal bone; pt, pubic tubercle; tb, tibia; tf, thyroid fenestra.
ScienceDex guides
Understand access before you commit
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.