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opencc-by-4.0Aug 2024View details →

Fig. 1 in Description of unrecorded wild yeasts from soil in Republic of Korea under cold conditions

Fig. 1. Morphology of the unrecorded yeast cells incubated at 10°C. The colonies of Mrakia frigida CY-9-10C (A) and Slooffia cresolica PG3-4-10C (B). The budding cells of Mrakia frigida CY-9-10C (C) and Slooffia cresolica PG3-4-10C (D). Bars, 10 μm and 5 μm, respectively. All strains were grown after 3 days on YPD agar.

opencc-by-4.0Mar 2018View details →

Data archive: Niche overlap between a cold-water coral and an associated sponge for isotopically-enriched particulate food sources

Data belonging to the paper:  Dick van Oevelen, Christina E. Mueller, Tomas Lundälv, Fleur C. van Duyl, Jasper M. de Goeij, Jack J. Middelburg (In press) Niche overlap between a cold-water coral and an associated sponge for isotopically-enriched particulate food sources. PLOS ONE

openbsd-3-clauseJul 2019View details →

Cold Ion Measurements Enabled by Electrostatic Instrument Biasing: Implementation and Modeling Results

Cold Ion Measurements Enabled by Electrostatic Instrument Biasing: Implementation and Modeling Results   This archive contains the data file for the five CPIC simulations run for paper Larsen et al 2019.  [1, 2]. The data files contents and format are described.   Each data file is stored in HDF5 format written with h5py [3, 4]. The files named field_potential_bias_XX_data.h5 contain the electric field components and electric potential with the following structure: <blockquote> + :|____Author (str [50]) :|____Bias (str [3]) :|____DOI (str [22]) :|____Date (str [14]) :|____Description (str [81]) :|____File_Creator (str [44]) :|____License (str [2140]) |____E (h5py._hl.dataset.Dataset (3, 101, 101, 101))     :|____Description (str [41])     :|____Format (str [94])     :|____Units (str [3]) |____XYZ (h5py._hl.dataset.Dataset (3, 101)) |____phi (h5py._hl.dataset.Dataset (101, 101, 101))   </blockquote> See the metadata within the file for units of each variable.   The files named detector_bias_XX_data.h5 contain the particles collected at the simulated detector in a mix of physical and CPIC units with the following structure: <blockquote> <pre>+</pre> <pre>:|____Author (str [50])</pre> <pre>:|____Bias (str [4])</pre> <pre>:|____DIO (str [22])</pre> <pre>:|____Date (str [14])</pre> <pre>:|____Description (str [81])</pre> <pre>:|____Detector_area (str [11])</pre> <pre>:|____File_Creator (str [44])</pre> <pre>:|____License (str [2140])</pre> <pre>:|____Timestep (str [12])</pre> <pre>:|____Timestep_description (str [114])</pre> <pre>:|____electron_temperature (str [6])</pre> <pre>:|____photoemission_electron_energy (str [4])</pre> <pre>:|____potential_at_boundary (str [3])</pre> <pre>:|____proton_electron_mass_ratio (str [4])</pre> <pre>:|____proton_temperature (str [7])</pre> <pre>:|____reference_density (str [9])</pre> <pre>|____Energy (h5py._hl.dataset.Dataset (2296,))</pre> <pre>    :|____Description (str [32])</pre> <pre>    :|____Units (str [2])</pre> <pre>|____Velocity (h5py._hl.dataset.Dataset (2296,))</pre> <pre>    :|____Description (str [59])</pre> <pre>    :|____Units (str [3])</pre> <pre>|____Velocity_CPIC (h5py._hl.dataset.Dataset (2296,))</pre> <pre>    :|____Description (str [59])</pre> <pre>    :|____Units (str [4])</pre> <pre>|____Vx (h5py._hl.dataset.Dataset (2296,))</pre> <pre>    :|____Description (str [44])</pre> <pre>    :|____Units (str [3])</pre> <pre>|____Vx_CPIC (h5py._hl.dataset.Dataset (2296,))</pre> <pre>    :|____Description (str [44])</pre> <pre>    :|____Units (str [4])</pre> <pre>|____Vy (h5py._hl.dataset.Dataset (2296,))</pre> <pre>    :|____Description (str [44])</pre> <pre>    :|____Units (str [3])</pre> <pre>|____Vy_CPIC (h5py._hl.dataset.Dataset (2296,))</pre> <pre>    :|____Description (str [44])</pre> <pre>    :|____Units (str [4])</pre> <pre>|____Vz (h5py._hl.dataset.Dataset (2296,))</pre> <pre>    :|____Description (str [44])</pre> <pre>    :|____Units (str [3])</pre> <pre>|____Vz_CPIC (h5py._hl.dataset.Dataset (2296,))</pre> <pre>    :|____Description (str [44])</pre> <pre>    :|____Units (str [4])</pre> <pre>|____phi (h5py._hl.dataset.Dataset (2296,))</pre> <pre>    :|____Description (str [41])</pre> <pre>    :|____Units (str [3])</pre> <pre>|____q (h5py._hl.dataset.Dataset (2296,))</pre> <pre>    :|____Description (str [47])</pre> <pre>    :|____Units (str [4])</pre> <pre>|____species (h5py._hl.dataset.Dataset (2296,))</pre> <pre>    :|____Description (str [26])</pre> <pre>|____theta (h5py._hl.dataset.Dataset (2296,))</pre> <pre>    :|____Description (str [37])</pre> <pre>    :|____Units (str [3])</pre> <pre>|____timestep (h5py._hl.dataset.Dataset (2296,))</pre> <pre>    :|____Description (str [41])</pre> <pre>|____weight (h5py._hl.dataset.Dataset (2296,))</pre> <pre>    :|____Description (str [38])</pre> <pre>    :|____Units (str [4])</pre> </blockquote>   The information in parentheses are the datatype and size, square brackets, [], denote a single element of that many characters and parentheses, (), denote the stored array size. Lines with a leading colon, :, are metadata fields to make the data files more usable.   1.         Delzanno, G.L., et al., CPIC: a curvilinear particle-in-cell code for plasma–material interaction studies. IEEE Transactions on Plasma Science, 2013. 41(12): p. 3577-3587. 2.         Meierbachtol, C.S., et al., An electrostatic Particle-In-Cell code on multi-block structured meshes. Journal of Computational Physics, 2017. 350: p. 796-823. 3.         Folk, M., A. Cheng, and K. Yates. HDF5: A file format and I/O library for high performance computing applications. in Proceedings of supercomputing. 1999. 4.         Collette, A., et al., h5py/h5py 2.9.0. 2018.

opencc-by-4.0Sep 2019View details →

Processed data for "Dissociation of solid tumour tissues with cold active protease for single-cell RNA-seq minimizes conserved collagenase-associated stress responses"

tar.gz of processed data in the form of compressed R files (rds) of SingleCellExperiment (<a href="https://bioconductor.org/packages/release/bioc/html/SingleCellExperiment.html">https://bioconductor.org/packages/release/bioc/html/SingleCellExperiment.html</a>) objects and a metadata csv for the data in the publication Dissociation of solid tumour tissues with cold active protease for single-cell RNA-seq minimizes conserved collagenase-associated stress responses (O'Flanagan et al. 2019).

opencc-by-4.0Dec 2023View details →

Figure 2 in Diversity of butterflies (Lepidoptera: Rhopalocera) from cold desert of district Kargil in the union territory of Ladakh, India

Figure 2. Photograph of Collection sites in Kargil Ladakh (U.T). Table 1. Name of location recorded during the survey along with Latitude, Longitude and altitudinal range

Figure 3 in Benthic invertebrates associated with subfossil cold-water coral frames and hardgrounds in the Albanian deep waters (Adriatic Sea)

Figure 3. Cnidaria recorded from the study area: a) Leiopathes glaberrima (AL16SA1); b) Dendrophyllia cornigera (AL16SA1); c) Isidella elongata (AL16SE2); d, d1) Caryophyllia calveri (AL15SE1); e) Stenocyathus vermiformis (AL16SE2); f, f ) Lophelia pertusa 1 (AL15SE1); g) Nausithoe sp. (AL15SE1)

Figure 5 in Benthic invertebrates associated with subfossil cold-water coral frames and hardgrounds in the Albanian deep waters (Adriatic Sea)

Figure 5. Annelids associated with Lophelia subfossil colonies from stations AL15SE1 and AL16SE2: a) Hyalopomatus madreporae, b, c) Serpulidae sp. 1, d) Filogranula gracilis, e) 1: Metavermilia multicristata, 2: Janita fimbriata, f) Metavermilia multicristata.

Figure 4 in Benthic invertebrates associated with subfossil cold-water coral frames and hardgrounds in the Albanian deep waters (Adriatic Sea)

Figure 4. Mollusks associated with the Lophelia pertusa and Dendrophyllia cornigera subfossil colonies collected at AL15SE1 and AL16SE2, and AL16SA1: a) Ranella olearia; b) Orania fusulus; c) Nassarius lima; d) Pagodula echinata; e) Putzeysia wiseri; f) Eulimella bogii; g) Emarginula adriatica; h) Yoldiella philippiana; i) Kelliella miliaris; j) Spondylus gussoni; k) Timoclea ovata; l) Tropidomya abbreviata.

Figure 6 in Benthic invertebrates associated with subfossil cold-water coral frames and hardgrounds in the Albanian deep waters (Adriatic Sea)

Figure 6. SEM images of bryozoans: a) Neolagenipora eximia, stat. AL15SE1; b) Idmidronea sp. 1., stat. AL15SE1.

opencc-by-4.0Aug 2024View details →

Codes and source data for "Common occurrences of subsurface heatwaves and cold-spells in ocean eddies"

This repository contains the MATLAB (R2022b) codes (*.m files) and the figure source data (.mat files)  for the paper "Common occurrences of subsurface heatwaves and cold-spells in ocean eddies" (He et al., 2024).  For installation of MatLab, please refer to: https://au.mathworks.com/products/matlab.html For queries about this repository and its contents, please contact Dr. Qingyou He (qyhe@scsio.ac.cn). %% Fig1.m: For plotting main Fig.1. %% Fig2.m: For plotting main Fig.2. %% Fig3.m: For plotting main Fig.3. %% Fig4.m: For plotting main Fig.4. %% Fig5.m: For plotting main Fig.5. %% Fig6.m: For plotting main Fig.6. %% Data Fig1.mat: For main Fig.1. %% Data Fig2.mat: For main Fig.2. %% Data Fig3.mat: For main Fig.3. %% Data Fig4.mat: For main Fig.4. %% Data Fig5.mat: For main Fig.5. %% Data Fig6.mat: For main Fig.6. References: He, Q., W. Zhan, M. Feng, Y. Gong, S. Cai, and H. Zhan (2024), Common occurrences of subsurface heatwaves and cold spells in ocean eddies, Nature, 634, 1111–1117, doi:10.1038/s41586-024-08051-2.

Fig. 18 in Thyasirid bivalves from Cretaceous and Paleogene cold seeps

Fig. 18. Geological ranges of Thyasiridae and the discussed thyasirid genera at seeps and non-seep environments.

Fig. 16. Thyasirid bivalve Thyasira becca Kauffman, 1967, from a in Thyasirid bivalves from Cretaceous and Paleogene cold seeps

Fig. 16. Thyasirid bivalve Thyasira becca Kauffman, 1967, from a Campanian seep carbonate at Warbonnet Battlefield Monument, Montrose, Nebraska, USA. A. ZPAL L.16/18, a partial internal mold in left (A1) and right (A2) lateral views, with fragments of the shell preserved and weak radial striation on the surface of the mold; dorsal view (A3) shows broad posterior sulcus; anterior view (A4) shows poorly preserved anterior adductor muscle scar. B. ZPAL L.16/19, a partial internal mold in left lateral view, showing broad posterior sulcus and posterior part of the posterior adductor muscle scar. C. ZPAL L.16/20, of a complete internal mold in right lateral view showing the shell outline.

Fig. 17 in Thyasirid bivalves from Cretaceous and Paleogene cold seeps

Fig. 17. Thyasiridae gen. et sp. indet A and B, respectively. A. ZPAL L.16/21 from middle to upper Eocene cold seep carbonates of West Fork of Grays River, "Siltstone of Unit B", western Washington State, USA; a poorly preserved specimen in left lateral view with partially preserved shell. B. ZPAL L.16/22 from an upper Oligocene, SR4 seep carbonate, Satsop River area, Lincoln Creek Formation, western Washington State, USA; a specimen in left left lateral view showing shell outline, external ornament, and secondary ridge running amidst posterior fold (asterisk).

Fig. 15 in Thyasirid bivalves from Cretaceous and Paleogene cold seeps

Fig. 15. Thyasirid bivalve Thyasira tanabei Kiel, Amano, and Jenkins, 2008, from Santonian seep carbonates from the Himenoura Group, Maeshima, Goshoura Island, Kumamoto Prefecture, southern Kyushu, Japan. A. ZPAL L.16/14, a partial internal mold in oblique right lateral view (A1); detail with indicated radial striae and anterior adductor muscle scar (A2, A3). B. ZPAL L.16/15, a partial internal mold in oblique right lateral view (B1); probably anterior pedal retractor muscle scar (B2). C. ZPAL L.16/16, a specimen in oblique dorsal view (C1); a very weak posterior sulcus and posterior fold, with minute auricle visible (C2). D. ZPAL L.16/17, a specimen in oblique posterodorsal view (D1); posterodorsal shell margin with posterior sulcus, posterior fold, submarginal sulcus and auricles indicated (D2).

Fig. 14 in Thyasirid bivalves from Cretaceous and Paleogene cold seeps

Fig. 14. Thyasirid bivalve Maorithyas? sp. from upper Eocene cold seep carbonates in the "Siltstone of Cliff Point", Bear River, western Washington State, USA. ZPAL L.16/13, a poorly preserved specimen in left (A), right (B) lateral, and dorsal (C) views.

Fig. 13 in Thyasirid bivalves from Cretaceous and Paleogene cold seeps

Fig. 13. Thyasirid bivalve Maorithyas folgeri (Wagner and Schilling, 1923) from Oligocene strata of the San Emigdio Formation, Devil's Kitchen, California, USA. UCMP 11434, holotype in right (A), left (B) lateral, and dorsal (C) views.

Fig. 12 in Thyasirid bivalves from Cretaceous and Paleogene cold seeps

Fig. 12. Thyasirid bivalve Maorithyas humptulipsensis sp. nov. from a middle Eocene seep carbonate of the Humptulips Formation, LACMIP loc. 12385, Washington State, USA. A. ZPAL L.16/10, holotype in right (A1) and left (A2) lateral views; anterior view (A3), showing two ridges running from umbo towards the anterioventral angle (asterisks), bounding weak lunule (×). B. NRM Mo 182388, a partially preserved specimen in right (B1) and left (B2) lateral views; the shape similar to that of the specimen shown in A, although the dorsal margin is more convex; the anterior view (B3) shows inflated shell with incurved umbo; dorsal view (B4) shows weak posterior sulcus. C. ZPAL L.16/11, a partially preserved internal mold in anterior view (C1); the interpretative drawing (C2) shows the position of anterior adductor and anterior pedal retractor muscle scars. D. ZPAL L.16/12, specimen in oblique posterior view (D1), the interpretative drawing (D2) shows the posterior adductor muscle scar.

Fig. 11 in Thyasirid bivalves from Cretaceous and Paleogene cold seeps

Fig. 11. Schematic illustration of the thyasirid bivalve Maorithyas humptulipsensis sp. nov., highlighting its main morphological features. A. Outer surface of the right valve in lateral view. B. Internal surface of the right valve in lateral view. C. Outer surface of the right valve in dorsal view and internal mold of the left valve view. D. Outer surface of the right valve in anterior view and internal mold of the left valve view.

Fig. 10 in Thyasirid bivalves from Cretaceous and Paleogene cold seeps

Fig. 10. Thyasirid bivalve Conchocele cf. bathyaulax Hickman, 2015. A. ZPAL L.16/7 from an upper Oligocene seep carbonate of the Pysht Formation, East Twin River, northwestern Washington State, USA; an articulated specimen in left (A1) and right (A2) views, showing characteristic rhomboidal shape with roughly parallel, convex dorsal and ventral margins, and roughly parallel anterior and posterior margins, asterisk shows a lateral aspect of a secondary ridge (A1); anterior view (A3), showing anterior pedal and adductor muscle scars, weakly incurved umbones and inflated shells, asterisk shows a frontal aspect of a secondary ridge shown in A1; dorsal view (A4), shows moderately deep posterior sulcus. B. ZPAL L.16/8 from an upper Eocene–lower Oligocene of the Canyon River, Lincoln Creek Formation, western Washington State, USA; a medium-sized specimen in left lateral view, showing incurved umbo. C. ZPAL L.16/9 from an upper Oligocene of the Pysht Formation, East Twin River, northwestern Washington State, USA; a large specimen in left (C1) and right (C2) lateral views with umbo more protruding than ZPAL L.16/7, 8 (A, B), asterisk shows a lateral aspect of a secondary ridge shown in C3; anterior view (C3) showing weak secondary ridge running from umbo towards the anteroventral angle (asterisked).

Fig. 9 in Thyasirid bivalves from Cretaceous and Paleogene cold seeps

Fig. 9. Thyasirid bivalve Conchocele kiritachiensis sp. nov. from an upper Eocene seep carbonate of the Sakasagawa Formation, Kiritachi, Hokkaido, Japan. A. JUE 16036, holotype in right (A1) and left lateral (A2) views; dorsal view (A3) showing anterior flat area demarcated by rude ridge and a posterior fold. B. JUE 16037-3, paratype, young shell in right (B1) and left (B2) lateral and dorsal (B3) views. C. JUE 16037-2, paratype in right lateral view. D. JUE 16037-4, paratype in dorsal view, showing distinct anterior flat area demarcated by rude ridge and a distinct posterior sulcus. E. JUE 16037-7, inner side of paratype in left lateral view, showing both anterior and posterior adductor muscle scar. F. JUE 16037-6, paratype in left lateral view, the largest specimen of this species, having a pointed umbo and a wide posterior fold. G. JUE 16037-1, paratype, large specimen in left lateral view, showing a pointed umbo and a wide posterior fold. H. JUE 16037-5, paratype in right (H1) and left (H2) lateral views, showing narrow apical angle, instead posterior fold partly broken.