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182 results for “molecular collections”
FIGURE 1. Species collection locations. Ceratina floridana indicated with black triangles, C in Morphological and molecular delineation of a new species in the Ceratina dupla species-group (Hymenoptera: Apidae: Xylocopinae) of eastern North America
FIGURE 1. Species collection locations. Ceratina floridana indicated with black triangles, C. dupla in gray circles, and C. mikmaqi in black circles.
FIGURE 2. Collection sites. 1 in A new genus of anthophilous drosophilids, Impatiophila (Diptera, Drosophilidae): morphology, DNA barcoding and molecular phylogeny, with descriptions of thirty-nine new species
FIGURE 2. Collection sites. 1, along the way from Lage Village, Baiba Town, Linzhi County to Hanmi Village, Beibeng Town, Motuo County, Xizang; 2, Hanmi Village; 3, along the way from Hanmi to the seat of Beibeng Town; 4, the seat of Beibeng Town; 5, from the seat of Beibeng Town to Yarang Village, Motuo Town, Motuo County, Xizang; 6, from Yarang to the seat of Motuo County; 7, Tongmai Village, Yigong Town, Bomi County, Xizang; 8, Hutiaoxia Town, Shangri-la County, Yunnan; 9, Liangjiaren (site 2) in Hutiaoxia Town; 10, Cangshan National Nature Reserve, Dali, Yunnan; 11, Yangbi County, Yunnan; 12, Jiujiezi, Mt. Gaoligong, Baoshan, Yunnan; 13, Baihualing Village, Mangkuan Town, Longyang District; Baoshan, Yunnan; 14, Hesong Village, Xiding Town, Menghai County, Yunnan; 15, Yixiang Town, Simao District, Pu'er, Yunnan; 16, Mt. Huanglianshan, Luchun County, Yunnan; 17, Wenjing Town or Jinping Town, Jingdong County, Yunnan; 18, Qiongzhusi, Kunming, Yunnan; 19, Mt. E'mei, Emeishan City, Sichuan; 20, Haoping, Taibaishan National Nature Reserve, Shaanxi; 21, Shennongjia Forestry District, Shiyan, Hubei; 22, Maoershan National Nature Reserve, Guilin, Guangxi; 23, Chitou, Nantou, Taiwan, China.
The Great British Liverwort Hunt – collecting wild accessions for molecular biology research while engaging the public
<p>During the lockdowns of the COVID-19 pandemic, outreach activities of universities were significantly perturbed. The Sainsbury Laboratory Cambridge University (SLCU) outreach project for the Cambridge festival in 2021 was therefore a fully online project, which asked people from across the mainland of the United Kingdom to send in plant samples of <i>Marchantia polymorpha</i>, and <i>Lunularia cruciata. </i>The samples were, upon arrival, established into axenic culture for use in research. Here, we deposit the names and locational data of the lines established in axenic culture for the wider use of the research community. Out of 76 samples received, 68 were successfully established in sterile tissue culture. This dataset also includes an analysis of the sex of the <i>M. polymorpha</i> accessions.</p>
FIGURE 33. Pluteus atrofibrillosus. A–B. Collection ECV 4153a in Molecular phylogeny and phylogeography of Holarctic species of Pluteus section Pluteus (Agaricales: Pluteaceae), with description of twelve new species
FIGURE 33. Pluteus atrofibrillosus. A–B. Collection ECV 4153a (photo by M. Wood). C. Pleurocystidia. D. Cheilocystidia. E. Pileipellis. F. Basidiospores. C–F from ECV 4153a. All line drawings by A. Justo. Scale bars = 10 µm.
FIGURE 21. Pluteus brunneidiscus. A. Collection BPI 884087 in Molecular phylogeny and phylogeography of Holarctic species of Pluteus section Pluteus (Agaricales: Pluteaceae), with description of twelve new species
FIGURE 21. Pluteus brunneidiscus. A. Collection BPI 884087 (photo by A. Minnis). B. Pleurocystidia. C. Basidiospores. D. Pileipellis. E. Cheilocystidia. B–E from collection AJ586. All line drawings by A. Justo. Scale bars = 10 µm.
FIGURE 20. Pluteus methvenii. A. Collection 090626 in Molecular phylogeny and phylogeography of Holarctic species of Pluteus section Pluteus (Agaricales: Pluteaceae), with description of twelve new species
FIGURE 20. Pluteus methvenii. A. Collection 090626-AV04 (photo by Andrus Voitk). B. Collection 060916 (photo by R. Smith). C. Collection TN5-029 (photo by R. Smith). D. Basidiospores. E. Pleurocystidia. F. Cheilocystidia. G. Pileipellis. D–G from collection 090626-AV04. All line drawings by A. Justo. Scale bars = 10 µm.
FIGURE 19. Pluteus primus. A. Collection 060816 in Molecular phylogeny and phylogeography of Holarctic species of Pluteus section Pluteus (Agaricales: Pluteaceae), with description of twelve new species
FIGURE 19. Pluteus primus. A. Collection 060816-AV13 (photo by Andrus Voitk). B. Pleurocystidia. C. Basidiospores. D. Cheilocystidia. E. Pileipellis. B–E from collection 060816-AV13. All line drawings by A. Justo. Scale bars = 10 µm.
FIGURE 17. Pluteus eos. A. Collection 050916 in Molecular phylogeny and phylogeography of Holarctic species of Pluteus section Pluteus (Agaricales: Pluteaceae), with description of twelve new species
FIGURE 17. Pluteus eos. A. Collection 050916-AV12 (photo by Andrus Voitk). B. Pleurocystidia from 050916-AV12. C. Pleurocystidia from AJ 589. D. Basidiospores. E. Cheilocystidia. F. Pileipellis. D–F from collection AJ 589. All line drawings by A. Justo. Scale bars = 10 µm.
FIGURE 24. Pluteus petasatus. A. Collection A. Caballero 1945 in Molecular phylogeny and phylogeography of Holarctic species of Pluteus section Pluteus (Agaricales: Pluteaceae), with description of twelve new species
FIGURE 24. Pluteus petasatus. A. Collection A. Caballero 1945 (photo by A. Caballero). B. Collection AJ 143 (photo by A. Justo). C. Collection AJ 325 (photo by A. Justo). D. Collection AJ 541 (photo by A. Justo). E. Basidiospores. F. Pleurocystidia. G. Intermediate cystidia. H. Cheilocystidia. I. Pileipellis. E–I from AJ143. All line drawings by A. Justo. Scale bars = 10 µm.
DrugMol3D: An Expanded Collection of Molecular Data for Optimized Drug Structures and Descriptive Properties
Open the record for dataset details and reuse information.
FIGURES 5–18. Figures 5, 6 in Notes on the diatom collection of the Natural History Museum, London (BM) IX: Campylodiscus hardmanianus, with a discussion on synapomorphy and the poverty of molecular monophyly
FIGURES 5–18. Figures 5, 6: Specimens from BM 8909 ('L.H.[ardman] (D) | No. 199 | HoNg KoNg', scaLe bar = 20μm. Figures 7, 8: Specimens from BM 9000 ('L.H.[ardman] | No. 200 | HoNg KoNg' [seLected specimeNs], scaLe bar = 20μm. Figures 9, 10: Specimens from BM Adams G304 ('Hong Kong | E.G.[rove] 12/87'), scaLe bar = 50μm. Figures 11, 12: Specimens from BM8910 ('Campylodiscus hardmanianus Grev. | 9/81 | Hong Kong', broken coverslip), scale bar = 20μm. Figure 13: Specimens from BM 12860 (Cleve & Möller slide no. 80), 'Carpentaria Bay' [= Arafura Sea, Gulf of Carpenteria], Australia, scaLe bar = 20μm. Figure 14: Unpublished drawing of Campylodiscus hardmanianus Grev. Figures 15, 16: Specimens from BM Adams GC833 ('Campylodiscus daemelianus | SamaraNg | 29/12/88), scaLe bar = 20μm. Figures 17, 18: Specimens from BM Adams GC831 ('Campylodiscus daemelianus | 9.81 | 26/33 | HoNg KoNg', scaLe bar = 20μm.
FIGURES 19–29. Figures 19, 20 in Notes on the diatom collection of the Natural History Museum, London (BM) IX: Campylodiscus hardmanianus, with a discussion on synapomorphy and the poverty of molecular monophyly
FIGURES 19–29. Figures 19, 20: Specimens of Campylodiscus hardmanianus var. grovei Deby from BM Adams GC829, 'Derbend', Caspian Sea, Russia, scaLe bar = 20μm. Figures 21, 22: Specimens of Campylodiscus hardmanianus var. grovei Deby from BM 53492, 'Derbent', Caspian Sea, Russia, scale bar = 50μm. Figure 23: Specimen (?) of 'C. sonderianus' from BM 35870, 'TypeN-PLatte | I.D. MöLLer', scaLe bar = 50μm. Figure 24: Reproduction of the published name (designation) for 'Campylodiscus Sonderianus Grun. n. sp.' in Möller (1877, p. 13). Figures 25, 6: Specimens of Campylodiscus daemelianus from BM 26853, 'Yarra, Yarra', Australia (Van Heurck, Types du Synopsis des Diatomées de Belgique, No. 542 ('Yarra-Yarra (AUstraLie)', scaLe bar = 50μm. Figure 27: Specimen of Coronia echeneis from Wismar, Germany, BM 12875, Cleve & Möller, no. 115, 'Lebend im Hafen von Wismar', scaLe bar = 20μm. Figures 28, 9: Specimen of 'C. sonderianus' from BM 64450, 'ChaLLeNger StatioN 233', 'T.E.Doeg', scaLe bar = 50μm.
FIGURE 4 in Molecular and morphological identification of frog species collected at Rara Lake in Rara National Park, Nepal
FIGURE 4. The adult male specimen of Paa cf. ercepeae (NHM 17A-0120). (A–F) specimen in preservative; (A & D) dorsal view; (C & E) ventral view; (B) frontal view; (F) left foot.
FIGURE 3 in Molecular and morphological identification of frog species collected at Rara Lake in Rara National Park, Nepal
FIGURE 3. (A) Principal Component Analysis (PCA) of 25 meristic measurements from 27 male specimens colored by species. Circles are scaled by snout-vent length (SVL); (B) Boxplot of SVL (mm) for each Paa species showing that SVL predicts most of the variation between species.
FIGURE 1 in Molecular and morphological identification of frog species collected at Rara Lake in Rara National Park, Nepal
FIGURE 1. Top - Map of the western extent of Rara Lake demonstrating where we encountered the specimens used in this study. Bottom - Rara Lake landscape view (left); Lake outlet (right).
FIGURE 2 in Molecular and morphological identification of frog species collected at Rara Lake in Rara National Park, Nepal
FIGURE 2.. Maximum Likelihood phylogeny of Paa species from the Central Himalaya clade. Bold letters indicate data (specimens) collected in this study. Bootstrap values> 75 are shown in black circles. Colors correspond to Fig. 3.
FIGURE 5 in Molecular and morphological identification of frog species collected at Rara Lake in Rara National Park, Nepal
FIGURE 5. The adult male specimens of Paa rarica. (A, C, D, E, & F) specimen NHM 17A-0118; (B) specimen NHM 17A- 0119; (A & B) specimens in life; (C, D, E, & F) specimens in preservative; (A, B, C, & D) dorsal view; (E) ventral view; (E & F) spines on the first and second fingers and chest region.
Lophuromys stanley: is member of the L. flavopunctatus species complex and was named during partial revision of the L. aguilus species complex. It is characterized by craniometric and genetic character-istics; its skull proportions are similar to L. laticeps, and molecularly, it is similar to L. margarettae and L. zena (cytochrome-b). Lophuromys stanleyi is one of four endemic species in the Rwenzori Mountains diversity hotspot. Monotypic. Distribution. Rwenzori Mts, E DR Congo and SW Uganda. Descriptive notes. Head-body 113-126 mm, tail 40-80 mm, ear 16-19 mm, hindfoot 22-24 mm; weight 36-55 g. The Rwenzori Brush-furred Rat has a speckled pelage similar to other speciesin the L. flavopunctatus species complex. Tail is short, 50-60% of head-body length. Habitat. Poorly known, but type specimen was collected at an elevation of 3700 m. Food and Feeding. No information. Breeding. No information. Activity patterns. No information. in Muridae
Lophuromys stanley: is member of the L. flavopunctatus species complex and was named during partial revision of the L. aguilus species complex. It is characterized by craniometric and genetic character-istics; its skull proportions are similar to L. laticeps, and molecularly, it is similar to L. margarettae and L. zena (cytochrome-b). Lophuromys stanleyi is one of four endemic species in the Rwenzori Mountains diversity hotspot. Monotypic. Distribution. Rwenzori Mts, E DR Congo and SW Uganda. Descriptive notes. Head-body 113-126 mm, tail 40-80 mm, ear 16-19 mm, hindfoot 22-24 mm; weight 36-55 g. The Rwenzori Brush-furred Rat has a speckled pelage similar to other speciesin the L. flavopunctatus species complex. Tail is short, 50-60% of head-body length. Habitat. Poorly known, but type specimen was collected at an elevation of 3700 m. Food and Feeding. No information. Breeding. No information. Activity patterns. No information.
MDD-Molecular Dynamics Dataset: Collection of protein-ligand complex simulations
<p>Dataset is part of the paper: https://chemrxiv.org/engage/chemrxiv/article-details/664c73f6418a5379b0de8152.</p> <p>This dataset consists of molecular dynamics (MD) simulations of 862 unique protein-ligand complexes, covering a wide range of protein families and diverse chemical classes of ligands. It is derived from publicly available repositories and represents the largest single source of MD simulations to date.</p> <p>All protein-ligand complexes included in the dataset were prepared following a standardized protocol. Missing atoms in the protein structures were added using the PDBFixer tool. The protein targets were parameterized using the AMBER99SB-ILDN force field, while ligands were parameterized with the ANTECHAMBER module within the ACPYPE tool. Ligand partial charges were determined to match the quantum-mechanically generated electrostatic potential via the Restrained Electrostatic Potential (RESP) method, and the remaining parameters were set using the GAFF2 force field. The molecular dynamics simulations were performed using GROMACS. The simulations were configured in a cubic simulation box with periodic boundary conditions and employed a TIP3P water model within an electrostatically neutral environment. The simulation protocol included an initial minimization cycle, followed by temperature equilibration in the NVT ensemble and pressure equilibration in the NPT ensemble. Production simulations were conducted over a period of 200 ns, with a timestep of 100 ps.</p> <p>Constructing a large, representative set of MD simulations poses challenges due to the high computational costs and complexities associated with preparing molecular systems. Moreover, given the limited number of suitable training examples (complexes) and the large volume of MD data from each simulation, careful filtering and feature selection are crucial. This dataset is valuable for exploring how molecular dynamics simulation data can be integrated with protein-ligand binding affinity prediction tasks, an essential component of in silico drug discovery pipelines. MD simulations, in particular, offer a dynamic view by illustrating the temporal interactions within protein-ligand complexes, potentially providing additional insights for affinity and specificity estimates.</p>
Fig. 1 Map showing major drainages and mahseer collection localities across India. 1 River Tawi, Jammu. 2 River Beas, Pong. 3 River Beas, Pathankot. 4 River Satluj, Nangal. 5 River Yamuna, Yamuna nagar. 6 River Ganga, Rishekesh. 7 River Bhagirathi. 8 River Kosi, Ramnagar. 9 River Sharda, Tanakpur. 10 River Gerua, Katarnia Ghat. 11 in Molecular evidence to reconcile taxonomic instability in mahseer species (Pisces: Cyprinidae) of India
Fig. 1 Map showing major drainages and mahseer collection localities across India. 1 River Tawi, Jammu. 2 River Beas, Pong. 3 River Beas, Pathankot. 4 River Satluj, Nangal. 5 River Yamuna, Yamuna nagar. 6 River Ganga, Rishekesh. 7 River Bhagirathi. 8 River Kosi, Ramnagar. 9 River Sharda, Tanakpur. 10 River Gerua, Katarnia Ghat. 11 River Tista, Mal/Udalabadi. 12 River Jaldhaka, Bindhu. 13 River Ziyabharali, Bhlukpong. 14 River Dikrong, Doimukh. 15 River Sank, Gwalior. 16 River Tons, Chackghat. 17 River Tawa, Itarsi. 18 River Mahanadi, Sambhalpur. 19 River Krishna. 20 River Chaliyaar, Nilambur. 21 River Chalakudy, Puzha
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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.