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Linking camera-trap data to taxonomy: Identifying photographs of morphologically similar chipmunks
<p>Remote cameras are a common method for surveying wildlife and recently have been promoted for implementing large-scale regional biodiversity monitoring programs. The use of camera-trap data depends on the correct identification of animals captured in the photographs, yet misidentification rates can be high, especially when morphologically similar species co-occur, and this can lead to faulty inferences and hinder conservation efforts. Correct identification is dependent on diagnosable taxonomic characters, photograph quality, and the experience and training of the observer. However, keys rooted in taxonomy are rarely used for the identification of camera-trap images and error rates are rarely assessed, even when morphologically similar species are present in the study area. We tested a method for ensuring high identification accuracy using two sympatric and morphologically similar chipmunk (<i>Neotamias</i>) species as a case study. We hypothesized that the identification accuracy would improve with use of the identification key, and with observer training, resulting in higher levels of observer confidence and higher levels of agreement among observers. We developed an identification key and tested identification accuracy based on photographs of verified museum specimens. Our results supported predictions for each of these hypotheses. In addition, we validated the method in the field by comparing remote camera data with live-trapping data. We recommend use of these methods to evaluate error rates and to exclude ambiguous records in camera-trap datasets. We urge that ensuring correct and scientifically defensible species identifications is incumbent on researchers and should be incorporated into the camera-trap workflow.</p>
Figure 14. A, B, E, F in Phylogeny and taxonomy of European funnel-web spiders of the Tegenaria-Malthonica complex (Araneae: Agelenidae) based upon morphological and molecular data
Figure 14. A, B, E, F, Eratigena inermis; C, D, G, H, Eratigena vomeroi; I, Tegenaria montiszasensis sp. nov.; J, Tegenaria annulata; K, L, Tegenaria schoenhoferi sp. nov.; M-P, Tegenaria annae sp. nov.; Q-T, Tegenaria ariadnae. Left male palp in ventral (A, C, K, M, Q) and retrolateral views (B, D, L, N, R); epigyne in ventral view (O, S), vulva in dorsal (E, G, I, J, P, T) and lateral views (F, H). Abbreviations: E, embolus; C, conductor; CD, copulatory duct; DA, dorsal appendages on CD; FD, fertilization duct; MA, median apophysis; RC, receptaculum; RTA d, dorsal branch of retrolateral tibial apophysis; RTA l, lateral branch of retrolateral tibial apophysis; TR, transversal ridge.
Figure 12. A, B in Phylogeny and taxonomy of European funnel-web spiders of the Tegenaria-Malthonica complex (Araneae: Agelenidae) based upon morphological and molecular data
Figure 12. A, B, Eratigena herculea; C, D, H, N, O, Eratigena arganoi; E, K, Eratigena sicana; F, G, L, M, Eratigena hispanica; I, J, P, Q, Eratigena sardoa; R–T, Eratigena picta. Female epigyne in ventral (A, C, F, I) and vulva in dorsal view (B, D, E, G, J); male left palp in ventral (L, N, P, R) and retrolateral views (M, O, Q, S); frontal face of male E. arganoi (H); habitus of female E. sicana (K); habitus of two males of E. picta (T). Scale bars = 0.5 mm.
› Figure 22. A, B, Tegenaria capolongoi; C-K, Tegenaria parmenidis; L-S, Tegenaria circeoensis sp. nov. Left male palp in ventral (E, N), retrolateral (F, O), and dorsal views (G, P); epigyne in ventral (A, C, Q, S) and vulva in dorsal view (B, D, R); intraspecific epigynal morphological variation (S); face of male in frontal view (J); spinnerets in ventral view (K); habitus (H) of male in dorsal and sternum in ventral view (I); carapace and abdomen of male in dorsal view (L, M). Scale bars = 0.5 mm (except 1 mm for H). in Phylogeny and taxonomy of European funnel-web spiders of the Tegenaria-Malthonica complex (Araneae: Agelenidae) based upon morphological and molecular data
› Figure 22. A, B, Tegenaria capolongoi; C-K, Tegenaria parmenidis; L-S, Tegenaria circeoensis sp. nov. Left male palp in ventral (E, N), retrolateral (F, O), and dorsal views (G, P); epigyne in ventral (A, C, Q, S) and vulva in dorsal view (B, D, R); intraspecific epigynal morphological variation (S); face of male in frontal view (J); spinnerets in ventral view (K); habitus (H) of male in dorsal and sternum in ventral view (I); carapace and abdomen of male in dorsal view (L, M). Scale bars = 0.5 mm (except 1 mm for H).
Figure 17. A, B in Phylogeny and taxonomy of European funnel-web spiders of the Tegenaria-Malthonica complex (Araneae: Agelenidae) based upon morphological and molecular data
Figure 17. A, B, Tegenaria domestica; C, F, G, M, N, Tegenaria racovitzai; D, E, Q, R, Tegenaria hauseri; H-J, Tegenaria bozhkovi; K, L, O, P, Tegenaria campestris; S, T, Tegenaria pieperi; U, Tegenaria schmalfussi; V, Tegenaria faniapollinis; W, Tegenaria percuriosa (holotype of Tegenaria bithyniae); X-Z, Tegenaria croatica sp. nov. Left male palp in ventral (M, O, Q) and retrolateral views (N, P, R); epigyne in ventral (D, F, H, K, S, U–W, Y) and posterioventral views (T), vulva in dorsal (E, G, I, L, U, Z) and lateral views (J); face of female Teg. domestica (A) and Teg. racovitzai (C); cheliceral margins of female Teg. domestica in posterioventral view (B); habitus, dorsal view (X). Scale bars = 0.5 mm (no scale for Teg. faniapollinis, V, and Teg. schmalfussi, U).
Figure 13. A, B, I, J in Phylogeny and taxonomy of European funnel-web spiders of the Tegenaria-Malthonica complex (Araneae: Agelenidae) based upon morphological and molecular data
Figure 13. A, B, I, J, Eratigena balearica; C, D, K, L, R, Eratigena inermis; E, F, M–Q, Eratigena vomeroi; G, H, Eratigena picta. Male left palp in ventral (A, C, E) and retrolateral views (B, D, F); epigyne in ventral (G, I, K, M) and vulva in dorsal view (H, J, L, N); carapace (O) and abdomen (Q) in dorsal view, sternum in ventral view (P, R). Scale bars = 0.5 mm.
Figure 20. A–I in Phylogeny and taxonomy of European funnel-web spiders of the Tegenaria-Malthonica complex (Araneae: Agelenidae) based upon morphological and molecular data
Figure 20. A–I, Tegenaria silvestris, variation in males and females (F–I); J-M, Tegenaria parvula; N, S-V, Tegenaria henroti; O-R, Tegenaria eleonorae; W-Z, Tegenaria pindosiensis sp. nov. Left male palp in ventral (A, F, J, O, S) and retrolateral views (B, G, K, P, T); epigyne in ventral (C, H, L, Q, U, W) and vulva in dorsal (D, I, M, R, V, X) and lateral views (E); female habitus (N) and abdomen in dorsal view (Z); sternum in ventral view (Y). Scale bars = 0.5 mm (except 1 mm for N).
Figure 18. A–C in Phylogeny and taxonomy of European funnel-web spiders of the Tegenaria-Malthonica complex (Araneae: Agelenidae) based upon morphological and molecular data
Figure 18. A–C, Tegenaria domestica; D-F, Tegenaria carensis; G, H, Tegenaria argaeica (female paratype); I-M, Tegenaria circeoensis sp. nov.; N-Q, Tegenaria parmenidis; R, S, Tegenaria sbordonii. Left male palp in ventral (A, D, I, N, R), retrolateral (E, J, O, S), and dorsal views (K); epigyne in ventral (B, G, L, P) and vulva in dorsal view (C, F, H, M, Q).
Figure 15. A, B in Phylogeny and taxonomy of European funnel-web spiders of the Tegenaria-Malthonica complex (Araneae: Agelenidae) based upon morphological and molecular data
Figure 15. A, B, Tegenaria achaea; C-F, Tegenaria argaeica; G-J, Tegenaria armigera; K, L, O-Q, Tegenaria dalmatica; M, N, Tegenaria hasperi; R-U, Tegenaria annulata; and V, X, Tegenaria schoenhoferi sp. nov. Left male palp in lateral (C, H, L, U, W), and ventral views (D, G, K, T, V); epigyne in ventral (A, E, I, M, O, R) and vulva in dorsal view (B, F, J, N, P, S); comparison of vulva of small and large 'forms' of Teg. armigera (J); Prosoma in frontal view (Q), abdomen in dorsal view (X). Scale bars = 0.5 mm (epigyne and vulva of Teg. argaeica, E–F without scale; photos from syntype taken with digital camera through the oculars).
Figure 5 in Phylogeny and taxonomy of European funnel-web spiders of the Tegenaria-Malthonica complex (Araneae: Agelenidae) based upon morphological and molecular data
Figure 5. Combined mtDNA data (cytochrome c oxidase subunit 1, nicotinamide adenine dinucleotide dehydrogenase subunit 1) Bayesian tree. Posterior probabilities of clades are expressed in percentages and given above branches. Clade support (> 50) from the resampling method (jack-knife, 1000 replications) based on parsimony analysis with implied weighting (K = 10) is given below the branches. Abbreviations: AT, Austria; BG, Bulgaria; CH, Switzerland; DE, Germany; FR, France; GR, Greece; IT, Italy; PT, Portugal; US, United States.
Figure 4 in Phylogeny and taxonomy of European funnel-web spiders of the Tegenaria-Malthonica complex (Araneae: Agelenidae) based upon morphological and molecular data
Figure 4. Combined DNA data (cytochrome c oxidase subunit 1, nicotinamide adenine dinucleotide dehydrogenase subunit 1, and 28S) Bayesian tree. Posterior probabilities of clades are expressed in percentages and given above branches. Clade support (> 50) from the resampling method (jack-knife, 1000 replications) based on parsimony analysis with implied weighting (K = 10) is given below the branches. Abbreviations: AT, Austria; BE, Belgium; BG, Bulgaria; CH, Switzerland; DE, Germany; ES, Spain; FR, France; GR, Greece; IT, Italy; PT, Portugal; SE, Sweden; US, United States. ·
Figure 2 in Phylogeny and taxonomy of European funnel-web spiders of the Tegenaria-Malthonica complex (Araneae: Agelenidae) based upon morphological and molecular data
Figure 2. Microscope and scanning electron microscopy pictures of character details. Plumose hairs (A) and claws (B) on tarsus I of Tegenaria dalmatica; C, embolus tip of Tegenaria ferruginea; D, male palp of Tegenaria dalmatica in ventroretrolateral view; E, retrolateral tibial apophysis in retrolateral view of Tegenaria ferruginea; F, epigyne in ventral view of Tegenaria domestica; G, long and dark spikes on the anal tubercle of Agelena labyrinthica; H, face and chelicerae, frontal view; I, cheliceral margins with teeth, ventral view; and J, sternum, ventral view, of female Eratigena atrica. Abbreviations: BT, basal portion of tegulum; C, conductor; CO, copulatory opening; CON, connection of tegulum and conductor; DB, dorsal branch; DC, distal portion of conductor; DP, dorsal part of terminal end of conductor; E, embolus; EP, epigynal plate; LB, lateral branch; LM, lateral margin of median region; MA, median apophysis; MC, lateral margin of conductor (here entirely folded); MP, median plate; MR, median region; PS, posterior sclerite (here bar- or band like); PT, 'pseudo teeth'; TEC, terminal end of conductor (here bifid); VB, ventral branch; VP, ventral part of terminal end of conductor. Scale bars for F–J = 0.5 mm.
Figure 3 in Phylogeny and taxonomy of European funnel-web spiders of the Tegenaria-Malthonica complex (Araneae: Agelenidae) based upon morphological and molecular data
Figure 3. Most parsimonious strict consensus tree based on morphological data with equal character weights. Branch support is indicated by jack-knife values (1000 pseudoreplicates)/Bremer support at the nodes. Analysis with implied weighting (K = 10) resulted in additional supported clades (jack-knife support): Tegenaria mercanturensis + Tegenaria mirifica (69), Tegenaria montana + Tegenaria rilaensis (52), Tegenaria parvula + Tegenaria silvestris (55). Black dots indicate apomorpies, white dots indicate homoplasies. Numbers above the dots correspond to the character number, numbers below the dots to the character state.
Figure 1 in Phylogeny and taxonomy of European funnel-web spiders of the Tegenaria-Malthonica complex (Araneae: Agelenidae) based upon morphological and molecular data
Figure 1. Scanning electron microscopy pictures of spinnerets of female and other structures. A–D, Tegenaria domestica; E, F, Tegenaria parietina; G, H, Tegenaria dalmatica; I, Eratigena agrestis; J, Eratigena atrica; K, Aterigena ligurica; L-N, Malthonica lusithanica; O, Allagelena gracilens. A, L, overview; B, D, F, I, K, N, PMS; E, H, J, ALS; M, distal segment of PLS; C, G, colulus; O, tarsal trichobothrium. Abbreviations: ALS, anterior lateral spinnerets; CGS, cylindrical gland spigot; COL, colulus; mAS, minor ampullate gland spigot; MAS, major ampullate gland spigot; N, nubbin; PGS, piriform gland spigots; PLS, posterior lateral spinnerets; PMS, posterior median spinnerets; T, tartipore; TS, tracheal stigma.
FIGURE 22 in Taxonomy of European Damaeidae (Acari, Oribatida) XI. European species of the genus Piribelba Miko 2021: redescriptions of P. rossica (Bulanova-Zachvatkina 1957) and P. piriformis (Mihelčič, 1964) using morphology and DNA sequence data
FIGURE 22. Piribelba piriformis (Mihelčič, 1964), paralectotypes (originally syntypes of author). A—solenidion φ1; B— setation of genu III (GeIII), genu and tibia IV (GeIII, TiIV); C—aggenital seta and genital setae, lateral view; D—details of selected setae (all in same scale); E—details of leg setation of another specimen, genu III and IV (GeIII, GeIV), tibia and proximal part of tarsus I (TiI, TsI); F—deutonymph in lateral view (dashed area represents crack in medium where observation is more difficult). Scale bar 100 μm.
FIGURE 29 in Taxonomy of European Damaeidae (Acari, Oribatida) XI. European species of the genus Piribelba Miko 2021: redescriptions of P. rossica (Bulanova-Zachvatkina 1957) and P. piriformis (Mihelčič, 1964) using morphology and DNA sequence data
FIGURE 29. Piribelba piriformis (Mihelčič, 1964), adult specimens from Slovakia (A–E: Dreveník, F–G: Sivec). A—dorsal view of the body; B—seta le; C—general view of the body with carried load of debris on notogaster, lateral view; D—legs I–III in lateral view, E—leg IV in lateral view; F—form "lanceata", lateral view; G—form "lanceata", detail of seta d of femur IV.
FIGURE 19 in Taxonomy of European Damaeidae (Acari, Oribatida) XI. European species of the genus Piribelba Miko 2021: redescriptions of P. rossica (Bulanova-Zachvatkina 1957) and P. piriformis (Mihelčič, 1964) using morphology and DNA sequence data
FIGURE 19. Piribelba rossica (Bulanova-Zachvatkina, 1957), nymphs from Kemerovo region, light microscope images: A, B—tritonymph, apodemes III at different focus of the microscope; C, D—tritonymph, apodemes II at different focus of the microscope; E—tritonymph, part of prodorsum with lamellar seta; F—deutonymph, genu IV; G—deutonymph, part of tibia IV. Scale bar 50 μm.
FIGURE 26 in Taxonomy of European Damaeidae (Acari, Oribatida) XI. European species of the genus Piribelba Miko 2021: redescriptions of P. rossica (Bulanova-Zachvatkina 1957) and P. piriformis (Mihelčič, 1964) using morphology and DNA sequence data
FIGURE 26. Piribelba piriformis (Mihelčič, 1964), adult. Specimen from Austria (Dörfertal): A—dorsal view; B—ventral view; C—seta le in different aspects (left: dorsal to dorsolateral view, right: dorsomedial view); D—bothridial complex. Specimen from Slovakia (Sivec), form "lanceata": E—dorsal view, F—ventral view, G—anal and genital shields; H—seta of ventral and dorsal parts of the body. Scale bars 100 μm (A, B, E, F), 50 μm (D, G, H).
FIGURE 16 in Taxonomy of European Damaeidae (Acari, Oribatida) XI. European species of the genus Piribelba Miko 2021: redescriptions of P. rossica (Bulanova-Zachvatkina 1957) and P. piriformis (Mihelčič, 1964) using morphology and DNA sequence data
FIGURE 16. Piribelba rossica (Bulanova-Zachvatkina, 1957), tritonymph from Kemerovo region: A—dorsal view (legs only partly drawn); B—ventral view (gnathosoma not shown, legs only partly drawn), C—lateral view (gnathosoma and legs only partly drawn). Scale bar 100 μm.
FIGURE 15 in Taxonomy of European Damaeidae (Acari, Oribatida) XI. European species of the genus Piribelba Miko 2021: redescriptions of P. rossica (Bulanova-Zachvatkina 1957) and P. piriformis (Mihelčič, 1964) using morphology and DNA sequence data
FIGURE 15. Piribelba rossica (Bulanova-Zachvatkina, 1957), deutonymph from Kemerovo region: A—leg I, right, antiaxial view; B—leg II, right, antiaxial view; C—leg III, right, antiaxial view; D—leg IV, right, antiaxial view. Scale bar 100 μm.
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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)
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DANDI Archive for NWB datasets
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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.