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Fig. 11 in Five new and five known species of the genus Tylencholaimus de Man, 1876 (Nematoda: Dorylaimida: Tylencholaimoidea) from Western Ghats of India
Fig. 11. Tylencholaimus southindicus sp. nov. A. Paratype 1, ♀ (slide 2). B, J–L. Paratype 11, ♂ (slide 5). C, E. Paratype 5, ♀ (slide 3). D, I. Holotype, ♀ (AMU/ZD/NC/Tylencholaimus southindicus/1). F. Paratype 3, ♀ (slide 2). G. Paratype 4, ♀ (slide 2). H. Paratype 13, ♀ (slide 5). A. Entire female. B. Entire male. C. Female anterior region. D. Female anterior region showing amphid. E. Female pharyngeal region. F. Female expanded part of pharynx. G–H. Female genital system. I. Female posterior region. J. Male posterior region. K. Spicule. L. Lateral guiding piece.
Fig. 10 in Five new and five known species of the genus Tylencholaimus de Man, 1876 (Nematoda: Dorylaimida: Tylencholaimoidea) from Western Ghats of India
Fig. 10. Tylencholaimus shamimi sp. nov. (LM photographs). A, C, E, F–H. Holotype, ♀ (AMU/ZD/NC/ Tylencholaimus shamimi/1). B, D, I. Paratype 5, ♀ (slide 4). J–K. Paratype 6, ♂ (slide 5). A–B. Female anterior region. C. Female anterior region showing amphid. D. Female pharyngeal region. E. Female expanded part of pharynx. F–G. Female genital system. H. Vulval region. I. Female posterior region. J. Male posterior region. K. Male posterior end. Scale bars: A–C, E–K = 10 μm; D = 20 μm.
Fig. 13 in Five new and five known species of the genus Tylencholaimus de Man, 1876 (Nematoda: Dorylaimida: Tylencholaimoidea) from Western Ghats of India
Fig. 13. Tylencholaimus striatus sp. nov., ♀. A, D–F, H. Paratype 1 (slide 2). B–C. Holotype (AMU/ ZD/NC/Tylencholaimus striatus/1). G. Paratype 5 (slide 4). A. Entire specimen. B. Anterior region C. Anterior region showing amphid. D. Expanded part of pharynx. E. Pharyngeal region. F–G. Genital system. H. Posterior region.
Fig. 7 in Five new and five known species of the genus Tylencholaimus de Man, 1876 (Nematoda: Dorylaimida: Tylencholaimoidea) from Western Ghats of India
Fig. 7. Tylencholaimus macroamphidius sp. nov. A, C, F–G. Holotype, ♀ (AMU/ZD/NC/Tylencholaimus macroamphidius/1). B, D, H–J. Paratype 6, ♂ (slide 5). E. Paratype 3, ♀ (slide 3). A. Entire female. B. Entire male. C. Female anterior region. D. Male anterior region showing amphid. E. Female expanded part of pharynx. F. Female genital system. G. Female posterior region. H. Male posterior region. I. Spicule. J. Lateral guiding piece.
Fig. 1 in Five new and five known species of the genus Tylencholaimus de Man, 1876 (Nematoda: Dorylaimida: Tylencholaimoidea) from Western Ghats of India
Fig. 1. Tylencholaimus mirabilis (Bütschli, 1873). A. Entire female. B. Entire male. C. Female anterior region. D. Female anterior region showing amphid. E. Female pharyngeal region. F. Female expanded part of pharynx. G–H. Female genital system. I. Female posterior region. J. Male posterior region. K. Spicule. L. Lateral guiding piece.
Figs 1-8 in On the genus Sunius Stephens, 1829 of Turkey. V. A new micropterous species from central southern Anatolia, with additional records from the western Mediterranean region (Coleoptera: Staphylinidae: Paederinae)
Figs 1-8. Details of Sunius tauricus sp. n. (1) Habitus. (2) Forebody. (3) Male abdominal sternite VII. (4) Male abdominal sternite VIII. (5-6) Aedeagus, lateral view. (7-8) Aedeagus, ventral view. Scale bars: 0.5 mm (1-2); 0.1 mm (3-8).
Motor usage imprints microtubule stability on the shaft - Western blots
<p>Original western blot images that have been used in Andreu-Carbo et al, Motor usage imprints microtubule stability on the shaft, bioRxiv, 10.1101/2021.04.09.439170. For details see the paper.</p>
Fracture maps and calving fronts for Thwaites Glacier western terminus 2015-2021
<p>These data comprise observations of severe crevassing and calving front position over the Thwaites Glacier Ice Tongue (TGIT) between 2015 and 2021 in geotiff form, along with bitmap versions of Sentinel-1 backscatter images from which the observations were derived. A version of UNet was used to create the data from the backscatter images.<br> These data were collected in 2021 for the study of structural change on the TGIT.</p> <p>File information: tgit_cfs.tar.gz is a gz-compressed directory of binary calving front segmentations of the Thwaites Glacier Ice Tongue in geotiff format.<br> tgit_fms.tar.gz is a gz-compressed directory of binary fracture segmentations of the Thwaites Glacier Ice Tongue in geotiff format.</p>
Dataset for the paper "Data for Distribution of Vascular Plants (Tracheophytes) of urban forests and floodplains in the Tyumen city (Western Siberia)"
<p>Dataset associated with the manuscript “Data for Distribution of Vascular Plants (Tracheophytes) of urban forests and floodplains in the Tyumen city (Western Siberia)” submitted to the journal Data.</p>
Thermal regimes and hatching success related data for wild king cobra nests from the Western Himalayas, Uttarakhand, India
<p>This dataset, collected between 2009-2020, describes the thermal regimes of wild king cobra nests from the foothills of the Western Himalayas of Uttarakhand, northern India. Nest and ambient temperatures at nest sites were recorded every hour via automatic data loggers during, mostly, the latter part of incubation period (post natural nest-abandonment by female king cobras). Nest attributes (e.g. size, weight etc.) and hatching success parameters (i.e. percentage of hatched eggs and offspring size) are also provided per nest. All uploaded data have been analyzed in the paper: "House warming: wild king cobra nests have thermal regimes that positively affect hatching success and hatchling size" by Dolia et al. (currently under review in Journal of Thermal Biology.)</p>
A new cryptic species of Nyctibatrachus (Amphibia, Anura, Nyctibatrachidae) with description of its tadpole from the central Western Ghats, India
<p>We describe a new species of night frog belonging to the genus <em>Nyctibatrachus</em> from the central Western Ghats, India.</p>
Figure 2 in A gigantic bizarre marine turtle (Testudines: Chelonioidea) from the Middle Campanian (Late Cretaceous) of South-western Europe
Figure 2. Shellandpelvicgirdleelementsof Leviathanochelysaenigmatica gen. etsp. nov. (a) Dorsalviewof MCD9884 with the elements disposed as they were discovered, remarking in white the preserved carapace portion (MCD9884a). (b) Visceral view of the carapacewith asuperimposed interpretation of the shell elements. (c) Dorsal view of the preserved pelvic girdle without the carapace, and (d) ventral view of the same element with the carapace. Asterisk marks indicate the location of the autapomorphic accessory pubic process. Details of the accessory pubic process in (e) dorsal and (f) ventral view. (g) Close up view of the posteromedial part of the pubes, in ventral (upper picture) and posterior view (lower picture), preserving part of the thyroid fossae separated by a thick bone structure (black arrow). (h) Ventral view of the left acetabulum, illustrating the limits between the pelvic bones. (i) Detail of the outer ornamented surfaceof the ilium. (j) Histological section of the costal 8 (MCD9884.1), showing acancellous bone zone between the highly vascularized internal and external cortices. Abbreviations: (ac) Acetabulum; (app) Accessory Pubic Process; (cb) cancellous bone; (co) costal plate; (eco) External Cortex; (ico) Internal Cortex; (il) Ilium; (ils) ilium insertion scar; (isc) Ischium; (il) Ilium; (ne) neural plate; (pb) Pubis; (pbb) pubic bridge; (tf) Thyroid fossa.
Figure 1 in A gigantic bizarre marine turtle (Testudines: Chelonioidea) from the Middle Campanian (Late Cretaceous) of South-western Europe
Figure 1. GeographicandgeologicalsituationofCalTorrades. TheCalTorradesfossillocalitylocation, respect: (a) the Iberian Peninsula; and (b) the Eastern Pyrenees. (c) Simplified geological map including the locality (white star). (d) Field capture of Cal Torrades outcrop, marking with the star the location of the fossil remains: (e) pelvis; and (f) ilium. (g) Locality stratigraphic column with the geological materials and fossil remains. Modified from Costantinoand Angelini26,Vidal27 and free access digital mapsof the Institut de Cartografia i Geologia de Catalunya (ICGC; http://www.icc.cat/vissir3/).
Figure 3 in A gigantic bizarre marine turtle (Testudines: Chelonioidea) from the Middle Campanian (Late Cretaceous) of South-western Europe
Figure 3. Phylogeneticrelationshipof Leviathanochelysaenigmatica gen. etsp. nov. Simplifiedphylogenetic hypothesis of the relationship of Leviathanochelysaenigmatica within Pan-Chelonioidea based of 20 MPT with 1647 steps according to the Strict Consensus topology. Number under main branching nodes correlate with Bremer support values. Taxa are illustrated according to their time-range occurrence, but not to the timedivergence of the nodes which are tentatively placed according to fossil record evidences.
Top-secret internal communiction by DERG regarding the population of Welkait and Tsegede (Western Tigray, Ethiopia), 1984
<p>During the civil war in Ethiopia between the military “Derg” regime and the Tigray People’s Liberation Front (TPLF) the Dejena mountain range in Welkait became, around 1980, the main base for Tigray resistance against the Derg regime that was in power at the time. In the Ethiopian federal state, after 1991, Welkait became part of Tigray, Western Tigray zone, which is contested by the core Ethiopian Amhara elites. A rare communication document between Derg’s military command and the Ministry of Defense, dating back to 1984 has been retrieved, where they lament that the population of the Welkait and the adjacent Tselemti districts supports the TPLF, because the people are Tigrinya speakers. Up to this date, the archive is top-secret, and photos of the document were furtively taken. This typical document from the 1980s, prepared on carbon copy paper using a ge’ez font type writing machine, was shown to a well-informed Ethiopian analyst, who confirmed its authenticity.</p>
Data for the paper "Two small volcanoes, one inside the other: geophysical and drilling investigation of Bažina maar in western Eger Rift"
<p>This dataset consists of all data used in the manuscript of "Two small volcanoes, one inside the other: geophysical and drilling investigation of Bažina maar in western Eger Rift". </p> <p>The repository contains</p> <p>1. Gravity data after topographic correction - for details see README.TXT</p> <p>2. Magnetic data - for details see README.TXT</p> <p>3. Ground resistivity measurement using the multielectrode method - for details see README.TXT</p> <p>4. Lithology and logging data from the two boreholes S4 and S4 - file Stratigraphy_and_Logging_S4.pdf</p>
Sharpening of Cold Season Storms over the Western US: companion dataset
<p>This folder includes the intermediate data and scripts (of plots in the main text) for the following manuscript:</p> <p>Chen et al., Sharpening of Cold Season Storms over the Western US.</p> <p>The simulations are done using WRF V3.8 at PNNL. A historical simulation ("NARR") is done for 1981-2010, and five future simulations ("CanESM2", "CESM1-CAM5", "GFDL-ESM2M", "HadGEM2-ES", "MPI-ESM-MR") are done for 2041-2070 using the Pseudo Global Warming (PGW) approach. For the WRF model configuration and the simulation details, please refer to the abovementioned manuscript and Chen et al. (2018). The precipitation objects are then identified using the 5 mm/day threshold.</p> <p>The paths in the scripts are self-consistent. You can just download the .zip file and run the Jupyter notebook to reproduce the figures in the paper.</p> <p> </p> <p>Reference:</p> <p>Chen, X., L. R. Ruby, Y. Gao, Y. Liu, M. Wigmosta, and M. Richmond (2018), Predictability of Extreme Precipitation in Western U.S. Watersheds Based on Atmospheric River Occurrence, Intensity, and Duration, <em>Geophys. Res. Lett.</em> doi: <a href="https://agupubs.onlinelibrary.wiley.com/doi/10.1029/2018GL079831">10.1029/2018GL079831</a></p> <p>Chen, X., L. R. Ruby, Y. Gao, Y. Liu, and M. Wigmosta (2023), Sharpening of cold-season storms over the western United States, Nat. Clim. Change. doi: <a href="https://www.nature.com/articles/s41558-022-01578-0">10.1038/s41558-022-01578-0</a></p>
CO1 Sequences and Material Table of Western Palearctic Weevil Taxa
<p>The ZIP file contains the CO1 sequence dataset and its corresponding material table from the research article:<br> Schütte A, Stüben PE, Astrin JJ (2023) Molecular Weevil Identification Project: A Thoroughly Curated Barcode Release of 1300 Western Palearctic Weevil Species (Coleoptera: Curculionoidea) - <em>Biodiversity Data Journal</em> <strong>11</strong>.</p>
Floristic composition in three different forest types in western Amazonia
<p><span><span>Aim</span></span><span>: The latitudinal gradient is considered a first-order biogeographical pattern for most taxonomic groups. Yet, latitudinal changes in plant ecological communities are not always consistent, and this could be related to the physical and biological characteristics of different forest types. In this study, we compare latitudinal changes in floristic diversity (alpha diversity), composition (beta diversity), and dominance across different tropical forest types: floodplain, <em>terra</em> <em>firme</em>, and submontane forests. </span></p> <p><span><span>Location</span></span><span>: Western Amazonia (Ecuador, Peru, and Bolivia).</span></p> <p><span><span>Taxon</span>: Woody plants. </span></p> <p><span><span>Methods</span></span><span>: We inventoried 1,978 species and 31,203 individuals of vascular plants with a diameter at breast height ≥ 2.5 cm in 118 0.1-ha plots over a 1,800-km latitudinal gradient in three different forest types. The relationships between alpha diversity, latitude, and forest type were analysed using generalised linear mixed models (GLMMs). Semi-parametric permutational multivariate analysis of variance was used to investigate the effects of latitude and forest type on beta diversity. Dominant species abundances were correlated with non-metric multidimensional scaling ordination axes to reflect their contributions in shaping changes in beta diversity. </span></p> <p><span><span>Results</span></span><span>: Alpha diversity increased towards equatorial latitudes in <em>terra</em> <em>firme</em> and submontane forests but remained relatively constant in floodplains. Beta diversity of all forest types changed with latitude, although less clearly in floodplains. Overall, the abundances of dominant species decreased towards the Equator, though in floodplains they were more homogeneous along the gradient.</span></p> <p><span><span>Main conclusions</span></span><span>: Alpha diversity, beta diversity and dominance patterns differed across forest types. In floodplain forests, the flooding regime is a strong predictor of floristic composition, which maintains alpha diversity constant along the latitudinal gradient. However, alpha and beta diversity in unflooded forests increase steadily towards equatorial latitudes. Furthermore, we found fewer dominant species contributing to changes beta diversity in floodplain forests. Shifts in abundance of dominant species over gradients can explain how beta diversity is driven differently per forest type.</span></p>
Data from: Plant Community Structure in Tropical Rain Forest Fragments of the Western Ghats, India
<p><strong>DESCRIPTION</strong></p><p>This dataset includes vegetation plot data on trees, lianas, understorey plants, and regeneration, and related data and species name matching files in five rainforest sites collected in 2003 as part of the following study:</p><p>MUTHURAMKUMAR, S., AYYAPPAN, N., PARTHASARATHY, N., MUDAPPA, D., RAMAN, T. R. S., SELWYN, M. A. & PRAGASAN, L. A. 2006. <a href="http://doi.org/10.1111/j.1744-7429.2006.00118.x">Plant community structure in tropical rain forest fragments of the Western Ghats, India</a>. <i>Biotropica</i> 38: 143–160. DOI: 10.1111/j.1744-7429.2006.00118.x</p><p>The regeneration data were analysed and presented in the following publication and related dataset:</p><p>OSURI, A. M., CHAKRAVARTHY, D., MUDAPPA, D., RAMAN, T. R. S., AYYAPPAN, N., MUTHURAMKUMAR, S. & PARTHASARATHY, N. 2017. Successional status, seed dispersal mode and overstorey species influence tree regeneration in tropical rain-forest fragments in Western Ghats, India. <i>Journal of Tropical Ecology</i> 33(4): 270-284. DOI: <a href="http://doi.org/10.1017/S0266467417000219">10.1017/S0266467417000219</a></p><p>OSURI, A. M., CHAKRAVARTHY, D., MUDAPPA, D., RAMAN, T. R. S., AYYAPPAN, N., MUTHURAMKUMAR, S. & PARTHASARATHY, N. 2017. <a href="http://doi.org/10.5061/dryad.vd0nn">Data from: Successional status, seed dispersal mode and overstorey species influence tree regeneration in tropical rain-forest fragments in Western Ghats, India</a>, Dryad, Dataset, https://doi.org/10.5061/dryad.vd0nn</p><p><br><strong>CONTACTS</strong></p><p>CONTACT #1<br>1. Name: <a href="https://orcid.org/0000-0002-1347-3953">T. R. Shankar Raman</a><br>2. Work Address: Nature Conservation Foundation, 1311, 12th A Main, Vijayanagar 1st Stage, Mysuru 570017, Karnataka, India<br>3. Work Phone: +91 821 2515601<br>4. Email address: trsr@ncf-india.org<br>5. ORCID: https://orcid.org/0000-0002-1347-3953</p><p>CONTACT #2<br>1. Name: <a href="https://orcid.org/0000-0001-9708-4826">Divya Mudappa</a><br>2. Work Address: Nature Conservation Foundation, 1311, 12th A Main, Vijayanagar 1st Stage, Mysuru 570017, Karnataka, India<br>3. Work Phone: +91 821 2515601<br>4. Email address: divya@ncf-india.org<br>5. ORCID: https://orcid.org/0000-0001-9708-4826</p><p>CONTACT #3<br>1. Name: <a href="https://orcid.org/0000-0001-9909-5633">Anand M. Osuri</a><br>2. Work Address: Nature Conservation Foundation, 1311, 12th A Main, Vijayanagar 1st Stage, Mysuru 570017, Karnataka, India<br>3. Work Phone: +91 821 2515601<br>4. Email address: aosuri@ncf-india.org<br>5. ORCID: https://orcid.org/0000-0001-9909-5633</p><p>CONTACT #4<br>1. Name: <a href="https://orcid.org/0000-0003-4383-557X">N. Ayyappan</a><br>2. Work Address: French Institute of Pondicherry, No. 11, Post Box No. 33, Saint Louis Street, Pondicherry – 605 001, India.<br>3. Work Phone: + 91- 413-2231616<br>4. Email address: ayyappan.n@ifpindia.org<br>5. ORCID: https://orcid.org/0000-0003-4383-557X</p><p>CONTACT #5<br>1. Name: <a href="https://orcid.org/0000-0002-7791-8499">S. Muthuramkumar</a><br>2. Work Address: V.H.N.S.N. College, 3/151-1, College Road, Virudhunagar - 626001, Tamil Nadu, India.<br>3. Work Phone: + 91-4562-280154<br>4. Email address: muthuramkumar@vhnsnc.edu.in<br>5. ORCID: https://orcid.org/0000-0002-7791-8499</p><p>CONTACT #6<br>1. Name: <a href="https://orcid.org/0000-0002-4172-5441">N. Parthasarathy</a><br>2. Work Address: Department of Ecology and Environmental Sciences, Pondicherry University, R Venkat Raman Nagar, Kalapet, Pondicherry 605014, India<br>3. Work Phone: + 91-413-2654326<br>4. Email address: parthapu@yahoo.com<br>5. ORCID: https://orcid.org/0000-0002-4172-5441</p><p><br><strong>KEYWORDS</strong></p><p>Anamalai hills; biodiversity hotspot; disturbance; endemics; fragmentation; lianas; plant conservation; tree diversity; tropical rain forest; understory plants.</p><p><br><strong>GEOGRAPHIC COVERAGE</strong></p><p>1. Location/Study Area: Valparai Plateau, Tamil Nadu, India; Anamalai Tiger Reserve, Tamil Nadu, India</p><p>2. GPS coordinates: Valparai Plateau (10°15'- 10°22'N, 76°52' - 76°59'E); Anamalai Tiger Reserve (10°12' - 10°35'N, 76°49' - 77°24'E)</p><p><br><strong>TEMPORAL COVERAGE</strong></p><p>1. Begins: 2003-03-01 (Year, Month, Day)<br>2. Ends: 2003-04-30 (Year, Month, Day)</p><p><br><strong>METHODS</strong></p><p>Methods involved systematic vegetation plots for trees, lianans and understorey plants as described in Muthuramkumar et al. 2006 (<i>Biotropica</i> 38: 143–160. DOI: 10.1111/j.1744-7429.2006.00118.x) and for tree and woody regeneration as described in Osuri et al. 2017 (<i>Journal of Tropical Ecology</i> 33(4): 270-284. DOI: 10.1017/S0266467417000219). The vegetation sampling methods are briefly described below.</p><p>The present study was conducted in five tropical wet evergreen forest fragments located on the Valparai plateau (Fig. 1): Akkamalai (AK, 2600 ha), Upper Manamboli (UM, 100 ha), Lower Manamboli (LM, 100 ha), Tata Finlay (TF, 32 ha), and Injipara (IP, 18 ha).</p><p>In each site, vegetation was sampled in randomly placed noncontiguous plots of 20 × 20 m located at least 50 m apart and at least 20 m into the fragment interior from the edges, major trails, or roads. We sampled 20 plots each in IP, TF, and LM, and 25 plots each in UM and AK. Within each plot, all trees ≥30cm girth at breast height (gbh, at 1.3 m; corresponding to DBH of 9.55 cm) and lianas ≥1 cm diameter at breast height (DBH) were identified to species, counted, and their girth/diameter measured. For multi-stemmed trees bole girths were measured separately, basal area calculated and summed. Each 20 x 20 m plot was divided into four 10 × 10 m quarters.</p><p>For understory plants, 2 × 2 m quadrats were laid at the four corners of the 20 × 20 m plot (one in each of the corresponding four quarters) and all shrubs, undershrubs, herbs, ferns, and small twiners found within the quadrats were enumerated and identified. The regeneration sampling was done in a 5 × 5-m plot (0.0025 ha) placed at the outer corner of the first (south-west) quarter of the 20 x 20 m plot. Within each regeneration plot, we identified, counted and measured all tree saplings >1 cm diameter at breast height (dbh, at 1.3 m) and <9.55 cm dbh (equivalent to <30 cm girth at breast height, gbh). Woody shrubs of 1–9.55 cm dbh were alsorecorded in the regeneration plots (but these were excluded in the Osuri et al. 2017 analysis).</p><p>For vegetatively propagating plants a clump of stems that is basally connected was considered as one individual. Canopy height was measured with a range finder and canopy closure was measured using a spherical densiometer. Vouchers were identified with regional flora and confirmed with the Western Ghats collections available in the herbarium of Salim Ali School of Ecology, Pondicherry University, from our previous works in the region.</p><p> </p><p><strong>ACKNOLWEDGEMENTS</strong></p><p>Funders and other supporters of the research are acknowledged in the original publications. The compilation and publication of this dataset was carried out as part of an NCF project supported by Fondation Franklinia.</p><p><br><strong>FILES INCLUDED</strong></p><p>Besides the 00_README.txt file that contains this metadata, the dataset includes the following 11 files, whose details and contents are explained below.</p><p><br><strong>01_all_sites.csv</strong></p><p><i>Description</i>: The file contains details of the five study sites (three continuous forest and two forest fragment sites).<br> <br><i>Note</i>: Current Name of TF (Tata Finlay) site is Old Valparai, current name of Akkamalai (AK) is Iyerpadi-Akkamalai complex. Sites and codes correspond to the Muthuramkumar et al. 2006 paper (https://doi.org/10.1111/j.1744-7429.2006.00118.x).</p><p><i>Column names and descriptions:</i><br>eventDate: Date range when sampling was carried out in the sites<br>old_sitename: Name of the site as used in the Muthuramkumar et al. (2006) paper (https://doi.org/10.1111/j.1744-7429.2006.00118.x)<br>sitecode: Site code as used in the Muthuramkumar et al. (2006) paper (https://doi.org/10.1111/j.1744-7429.2006.00118.x)<br>site: Site name as at present and used in this dataset<br>decimalLatitude: latitude in decimal degrees North<br>decimalLongitude: longitude in decimal degrees East<br>geodeticDatum: Geodetic Datum WGS 84<br>coordinateUncertaintyInMeters: Uncertainty in metres of the GPS location (as only one location available for entire site where points were distributed)<br>type: Indicates whether site was continuous rainforest or rainforest fragment<br>Area_ha: Area in hectares<br>Altitude_min_m: Minimum altitude in metres of sampled plots<br>Altitude_max_m: Maximum altitude in metres of sampled plots<br>Ownership: Whether site is in privately owned land or within state-protected reserve<br>Average_canopy_height_m: average canopy height in metres<br>Canopy_closure_%: estimated canopy closure in percentage<br>Nearby_plantations: Adjoining plantations</p><p><br><strong>02_all_trees_adult_data.csv</strong></p><p><i>Description</i>: The file contains records of all adult trees >= 30 cm girth at breast height of 1.3 m (gbh) recorded within 20 m x 20 m plots across three continuous forests and two forest fragments.</p><p><i>Note</i>: Same as in the Osuri et al. (2017) dataset (https://doi.org/10.5061/dryad.vd0nn), with <i>Tithonia diversifolia</i> added back in Injipara and data from one additional site (Manamboli Lower) added back from the original dataset corresponding to the Muthuramkumar et al. 2006 paper (https://doi.org/10.1111/j.1744-7429.2006.00118.x).<br> <br><i>Column names and descriptions:</i><br>x: Row index<br>site: Name of forest site<br>plot_no: An unique plot number assigned to each 20m x 20m adult tree plot within each site<br>q_no: An unique number assigned to each of four 10m x 10m quarters within each adult plot<br>t_no: An unique number assigned to each individual tree within each site.<br>old_code: Species codes used at the time of data collection (refer to Appendix A of the main paper for full species names, and the 06_all_species_names.csv file with this dataset)<br>osuri_code: Revised species codes used in the Osuri et al. 2017 paper in <i>Journal of Tropical Ecology</i> 33: 270-284 (https://doi.org/10.1017/S0266467417000219) and related dataset (https://doi.org/10.5061/dryad.vd0nn)<br>current_code: Species codes used at present<br>gbh_1 to gbh_16: Girth at breast height of single- (gbh_1) and multi-stemmed (gbh_2 – gbh_16) individuals, measured in centimetres (cm)<br>P_ID: Unique plot ID created by combining columns site and plot_no</p><p><br><strong>03_all_liana_data.csv</strong></p><p><i>Description</i>: The file contains records of all lianas >= 1 cm diameter at breast height of 1.3 m (dbh) recorded within 20 m x 20 m plots across three continuous forests and two forest fragments.</p><p><i>Note</i>: Lianas were not included in the Osuri et al. (2017) dataset (https://doi.org/10.5061/dryad.vd0nn).</p><p><i>Column names and descriptions:</i><br>x: Row index<br>site: Name of forest site<br>plot_no: An unique plot number assigned to each 20m x 20m adult tree plot within each site<br>q_no: An unique number assigned to each of four 10m x 10m quarters within each adult plot<br>t_no: An unique number assigned to each individual tree within each site.<br>old_code: Species codes used at the time of data collection (refer to Appendix A of the main paper for full species names, and the 06_all_species_names.csv file with this dataset)<br>osuri_code: Indicated as NA since these data were not used in the Osuri et al. 2017 paper in <i>Journal of Tropical Ecology</i> 33: 270-284 (https://doi.org/10.1017/S0266467417000219) and related dataset (https://doi.org/10.5061/dryad.vd0nn)<br>current_code: Species codes used at present<br>dbh_1 to dbh_11: Diameter at breast height of single- (dbh_1) and multi-stemmed (dbh_2 – dbh_11) individuals, measured in centimetres (cm) <br>P_ID: Unique plot ID created by combining columns site and plot_no</p><p><br><strong>04_all_herbs_data.csv</strong></p><p><i>Description</i>: The file contains records of all understorey plants (shrubs, undershrubs, herbs, ferns, and small twiners) recorded in 2 m × 2 m quadrats laid at the four corners of each 20 m × 20 m plot in three continuous forests and two forest fragments.</p><p><i>Note</i>: Understorey plants were not included in the Osuri et al. (2017) dataset (https: //doi.org/10.5061/dryad.vd0nn).</p><p><i>Column names and descriptions:</i><br>x: Row index<br>site: Name of forest site<br>plot_no: An unique plot number assigned to each 20m x 20m plot within each site<br>corner_no: An unique number assigned to each of four 2 m x 2 m quadrat laid at the four corners of the 20 m x 20 m plot<br>t_no: A number assigned to each individual species recorded within the corner plot.<br>old_code: Species codes used at the time of data collection (refer to Appendix A of the main paper for full species names, and the 06_all_species_names.csv file with this dataset)<br>osuri_code: Indicated as NA since these data were not used in the Osuri et al. 2017 paper in <i>Journal of Tropical Ecology</i> 33: 270-284 (https://doi.org/10.1017/S0266467417000219) and related dataset (https://doi.org/10.5061/dryad.vd0nn)<br>current_code: Species codes used at present<br>count: Number of individuals counted (for vegetatively propagating plants a clump of stems that was basally connected was considered as one individual)<br>P_ID: Unique plot ID created by combining columns site and plot_no</p><p><br><strong>05_all_regeneration_data.csv</strong></p><p><i>Description</i>: The file contains records of woody seedlings and saplings (1-5 cm diameter at breast height at 1.3 m, dbh) and larger-stemmed trees (>5 cm dbh) recorded within single 5 m x 5 m regeneration plots nested within 20 m x 20 m plots. Plots were located in three continuous forests and two forest fragments. Data were filtered during analysis in Osuri et al. (2017, <i>Journal of Tropical Ecology</i>) to retain only seedling and saplings, defined as individuals with effective diameter <=5 cm.</p><p><i>Note</i>: Same as in the Osuri et al. (2017) dataset, with <i>Tithonia diversifolia</i> added back in Injipara from original dataset; and data from one additional site (Manamboli Lower) added back from the Muthuramkumar et al. 2006 dataset.<br> <br><i>Column names and descriptions:</i><br>x: Row index<br>site: Name of forest site<br>plot_no: An unique plot number assigned to each 20m x 20m adult tree plot within each site<br>q_no: The 5 m x 5 m plot was placed in the SW corner of the 20 m x 20 m plot in this q_no which indicates one of the four 10 m x 10 m quarters of the 20 m x 20 m plot, where each quarter was given a unique number in each site<br>t_no: An unique number assigned to each individual seedling, sapling or tree within each site.<br>old_code: Species codes used at the time of data collection (for full species names refer to 06_all_species_names.csv file with this dataset)<br>osuri_code: Revised species codes used in the Osuri et al. 2017 paper in <i>Journal of Tropical Ecology </i>33: 270-284 (https://doi.org/10.1017/S0266467417000219) and related dataset (https://doi.org/10.5061/dryad.vd0nn)<br>current_code: Species codes used at present<br>dbh_1 to dbh_12: Diameter at breast height of single- (dbh_1) and multi-stemmed (dbh_2 – dbh_12) individuals, measured in centimetres (cm) <br>eff_dbh: Effective diameter at breast height (cm)- calculated as ((dbh)^2 +(dbh_1)^2 +...+(dbh_12)^2)^(1/2),<br>P_ID: Unique plot ID created by combining columns site and plot_no</p><p><br><strong>06_all_canopy_readings.csv</strong></p><p><i>Description</i>: The file contains canopy-related measurements taken in each 20 m × 20 m plot in three continuous forests and two forest fragments.</p><p><i>Note</i>: Units of light meter reading were not recorded</p><p><i>Column names and descriptions:</i><br>site: Name of forest site<br>plot_no: An unique plot number assigned to each 20m x 20m adult tree plot within each site<br>reading: A number assigned to the 1 to 4 readings taken in each plot<br>light: Light measurement taken with a light meter in the plot<br>canopy_openness: Canopy openness (scored from 0-100%) using a spherical densiometer (Canopy cover = 100 - canopy openness)<br>P_ID: Unique plot ID created by combining columns site and plot_no</p><p><br><strong>07_all_extracanopy_trees_data.csv</strong></p><p><i>Description</i>: The file contains records of additional trees outside the 5 x 5 m plot whose canopy was overhead of the plot.</p><p><i>Note</i>: Species codes are used to denote presence (not count of stems) of that species in the overhead canopy.</p><p><i>Column names and descriptions:</i><br>site: Name of forest site<br>plot_no: An unique plot number assigned to each 20m x 20m adult tree plot within each site<br>q_no: The 5 m x 5 m plot was placed in the SW corner of the 20 m x 20 m plot in this q_no which indicates one of the four 10 m x 10 m quarters of the 20 m x 20 m plot, where each quarter was given a unique number in each site<br>old_code: Species codes used at the time of data collection (for full species names refer to 06_all_species_names.csv file with this dataset)<br>osuri_code: Revised species codes used in the Osuri et al. 2017 paper in J<i>ournal of Tropical Ecology </i>33: 270-284 (https://doi.org/10.1017/S0266467417000219) and related dataset (https://doi.org/10.5061/dryad.vd0nn)<br>current_code: Species codes used at present<br>P_ID: Unique plot ID created by combining columns site and plot_no</p><p><br><strong>08_all_species_names.csv</strong></p><p><i>Description</i>: This file provides species codes and species scientific names as originally used in the Muthuramkumar et al. 2006 paper (https://doi.org/10.1111/j.1744-7429.2006.00118.x), and as matched with the Global Biodiversity Information Facility (GBIF) species name matching tool</p><p><i>Note</i>: For plots that had no species occurrences (old_code = No herbs, Noliana), NA has been used for other columns</p><p><i>Column names and descriptions:</i><br>group: Code indicating main dataset group where species occurs (tree and regeneration data, liana data, understorey plants data)<br>old_code: Species codes used at the time of data collection (refer to traits data file for full species names)<br>osuri_code: Revised species codes if used in the Osuri et al. 2017 paper in <i>Journal of Tropical Ecology</i> 33: 270-284 (https://doi.org/10.1017/S0266467417000219) and related dataset (https://doi.org/10.5061/dryad.vd0nn) or else indicated as NA<br>current_code: Species codes used at present<br>original_name: Scientific name of plant species as used at the time of the original publication (Muthuramkumar et al. 2006)<br>original_fullname: Scientific name and authorship of plant species as used at the time of the original publication (Muthuramkumar et al. 2006)<br>original_family: Family of the plant species as used at the time of original publication<br>GBIFname: Scientific name as matched by GBIF species name matching tool<br>key: GBIF name matching tool key number<br>matchType: Type of match<br>confidence: Confidence returned by name matching tool<br>status: Whether accepted name or synonym<br>rank: Taxanomic rank (level) to which identified<br>kingdom: Taxonomic Kingdom<br>phylum: Taxonomic Phylum<br>class: Taxonomic Class<br>order: Taxonomic Order<br>family: Taxonomic Family<br>genus: Taxonomic Genus<br>species: Taxonomic Species<br>canonicalName: Canonical part of scientific name matched by GBIF<br>authorship: Authorship of scientific name matched by GBIF<br>scientificName: Current scientific name (from species, genus, or family columns)</p><p><br><strong>09_tabula_Biotropica_appendix1.csv</strong></p><p><i>Description</i>: This file contains tabled values extracted from Appendix 1 of Muthuramkumar et al. 2006 paper in Biotropica (DOI: 10.1111/j.1744-7429.2006.00118.x); extraction from PDF carried out using Tabula software (https://tabula.technology/)</p><p><i>Note</i>: Last 5 columns contain total abundance (count of individuals/stems) in the corresponding site.</p><p><i>Column names and descriptions:</i><br>slno: serial number<br>habit: Plant habit indicating trees, lianas, or understorey plants<br>species: species name as used in Appendix 1 of Muthuramkumar et al. 2006<br>asterisk: species endemic to Western Ghats are indicated by an asterisk (∗ ), and invasive species by double asterisk (∗∗ ).<br>voucher_number: voucher number of herbarium specimen deposited in the herbarium of Salim Ali School of Ecology, Pondicherry University, India.<br>family: plant family as in Appendix 1<br>Iyerpadi-Akkamalai: abundance (total number of individuals counted) in this site<br>Manamboli_Upper: abundance (total number of individuals counted) in this site<br>Manamboli_Lower: abundance (total number of individuals counted) in this site<br>Old_Valparai: abundance (total number of individuals counted) in this site<br>Injipara: abundance (total number of individuals counted) in this site</p><p><br><strong>10_Muthuramkumar et al 2006_Abstract and Appendix 1_extract_Biotropica.pdf</strong></p><p>Extracted PDF of first page with Abstract and Appendix 1 of Muthuramkumar et al. 2006 (DOI: 10.1111/j.1744-7429.2006.00118.x).</p><p><br><strong>11_figure_1_Biotropica_paper.jpg</strong></p><p>JPEG image of Figure 1 (map of study area) from the following publication:<br>MUTHURAMKUMAR, S., AYYAPPAN, N., PARTHASARATHY, N., MUDAPPA, D., RAMAN, T. R. S., SELWYN, M. A. & PRAGASAN, L. A. 2006. Plant community structure in tropical rain forest fragments of the Western Ghats, India. Biotropica 38: 143–160. DOI: 10.1111/j.1744-7429.2006.00118.x</p>
ScienceDex guides
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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.