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Fig. 6 in A comparative exploration of the inquiline and prey species of Nepenthes rafflesiana pitchers in contiguous and fragmented habitat patches in Singapore

Fig. 6. Box and whisker plots show that inquiline taxa were found in different abundances across the different forest types, with several species being confined to the old secondary forests within the Central Catchment Nature Reserve (CCNR). Bold horizontal lines represent median log-transformed number of each inquiline taxon in pitchers from each forest type (denoted by colours); boxes represent interquartile range; whiskers represent maximum values. Taxon names are abbreviated as done in the previous figure; rare inquiline taxa which were present in only one sample are not displayed.

Fig. 2 in A comparative exploration of the inquiline and prey species of Nepenthes rafflesiana pitchers in contiguous and fragmented habitat patches in Singapore

Fig. 2. Habitat types in which Nepenthes rafflesiana plants were found in this study: (a) coastal cliffs; (b) adinandra belukar; (c) old secondary forests (in this case, a tree fall gap within an old secondary forest). Nepenthes rafflesiana plants are indicated by an arrow in panels a and c. Coastal cliffs (a) and adinandra belukar (b) type habitats were mainly found outside the Central Catchment Nature Reserve (CCNR), while old secondary forests type habitats were only found within the CCNR. Despite their different locations, plant communities in which N. rafflesiana were found in coastal cliff habitats (a) and typical adinandra belukar habitats (b) were compositionally highly similar and may both be classified as adinandra belukar type plant communities. (Photographs by: Lam Weng Ngai).

Fig. 1 in A comparative exploration of the inquiline and prey species of Nepenthes rafflesiana pitchers in contiguous and fragmented habitat patches in Singapore

Fig. 1. Nepenthes rafflesiana lower (a) and upper (b) pitchers in situ; location of the Central Catchment Nature Reserve (CCNR) in Singapore (c). Data sources for (c): Singapore Public Data (https://data.gov.sg); Global Administrative Areas Database version 3.6 (https:// gadm.org/data.html). (Photographs by: Lam Weng Ngai).

Fig. 5 in A comparative exploration of the inquiline and prey species of Nepenthes rafflesiana pitchers in contiguous and fragmented habitat patches in Singapore

Fig. 5. Sample-size- (a) and coverage-based (b) rarefaction curves of inquiline species richness from pitchers collected outside of (pink lines) and within (brown lines) the Central Catchment Nature Reserve (CCNR). Lines represent the interpolated (continuous) and extrapolated (dashed) species richness of each forest type, as a function of the number of individuals sampled within it (a) and the estimated sample coverage (b); shaded regions represent the 95% confidence intervals of these estimates; points represent the observed species richness (these are omitted from panel b to prevent the obscuring of other details in the figure).

Fig. 4 in A comparative exploration of the inquiline and prey species of Nepenthes rafflesiana pitchers in contiguous and fragmented habitat patches in Singapore

Fig. 4. Two-dimensional NMDS plot of the pitcher inquiline communities of the sampled Nepenthes rafflesiana pitchers. Each point represents an inquiline community from an individual pitcher, with its colour denoting the location in which it was found (within [brown] or outside [pink] the Central Catchment Nature Reserve [CCNR]), and its shape denoting its pitcher type (triangles denote upper, and circles, lower, pitchers). Texts represent inquiline species centroids, with font sizes proportional to the number of pitchers in which each was found. A species is more likely to occur in a pitcher if the pitcher's point is located close to the species' centroid. Taxon name abbreviations: Dasy = Dasyhelea spp.; Phor = Phoridae; Ar.giv = Armigeres giveni; Ar.kuc = Ar. cf. kuchingensis; Cx.bre = Culex brevipalpus complex; Cx.cur = Cx. curtipalpis; Tp.tnx = Tripteroides tenax; Lest = Lestodiplosis sp.; Nsyr = Nepenthosyrphus sp. raff; Creu = Creutzeria spp.; M2.sp1 = Histiostomatidae genus 1 sp. 1; Naca = Nepenthacarus spp.; Zwic = Zwickia spp.; Nema = nematodes.

Fig. 9 in A comparative exploration of the inquiline and prey species of Nepenthes rafflesiana pitchers in contiguous and fragmented habitat patches in Singapore

Fig. 9. Habitus of Armigeres giveni fourth instar larva (a); Ar. giveni female adult (b); Ar. cf. kuchingensis fourth instar larva (c); Ar. cf. kuchingensis male adult (d). Scale bars represent 1 mm. (Photographs by: Yeo Huiqing).

Fig. 10 in A comparative exploration of the inquiline and prey species of Nepenthes rafflesiana pitchers in contiguous and fragmented habitat patches in Singapore

Fig. 10. Illustrations of mite genera inhabiting Nepenthes rafflesiana pitchers in Singapore: (a) Undescribed genus (male dorsum), (b) Creutzeria sp. (male venter), (c) Zwickia sp. (male dorsum), (d) Nepenthacarus sp. (male dorsum). Scale bars represent 150 micrometres. (Illustrations by: Norman J. Fashing).

opencc-by-4.0Dec 2008View details →

Fig. 2 in Simple relationships to predict attributes of fish assemblages in patches of submerged macrophytes

Fig. 2. Correlation coefficients (Pearson's R) obtained from relationships between fish assemblage attributes (a: density; b: species richness) and habitat variables (macrophyte biomass, BIOM; volume, VOL; proportional volume, %VOL). We show correlation results from all patches (All), patches dominated by E. densa and patches dominated by E. najas. All correlations were statistically significant (p <0.05).

opencc-zeroSep 2021View details →

Patch-clamp recordings from dorsal raphe neurons

This dataset contains whole-cell electrophysiological recordings (patch-clamp recordings) from three cell types in mice: <ul> <li>serotonin (5-HT) neurons,</li> <li>somatostatin (SOM)-expressing GABA interneurons, and</li> <li>layer 5 pyramidal neurons.</li> </ul> 5-HT and GABA neurons were recorded in the dorsal raphe nucleus (DRN), which is the main source of serotonergic input to the forebrain. Together, they make up the majority of the neurons found in the DRN. This dataset can be used to investigate the intrinsic electrophysiological properties of these two types of DRN neurons and contrast them with another abundant and well-studied cell type, the L5 pyramidal neuron. This data was used in <a href="https://doi.org/10.7554/eLife.72951" rel="noopener" title="Temporal derivative computation in the dorsal raphe network revealed by an experimentally-driven augmented integrate-and-fire modeling framework | eLife">our paper</a> describing a spiking neural network model of the dorsal raphe nucleus: Emerson F. Harkin, Michael B. Lynn, Alexandre Payeur, Jean-François Boucher, Léa Caya-Bissonnette, Dominic Cyr, Chloe Stewart, André Longtin, Richard Naud, and Jean-Claude Béïque. Temporal derivative computation in the dorsal raphe network revealed by an experimentally-driven augmented integrate-and-fire modeling framework. eLife, 2023. doi: 10.7554/eLife.72951

opencc-by-4.0Jan 2023View details →

Synthesizing Patches in Dockerfiles: Base Dataset

Docker containers are a standardized way of packaging applications and their execution environment in a reproducible manner. This dataset is an extension of an existing docker dataset with over 100,000 Dockerfiles in 15,000 projects (https://zenodo.org/record/1200869/).  This dataset was used to extract patching patterns for Dockerfiles with the goal of improving quality in an automatic fashion. The extension of the original dataset includes:  <ul> <li>Static analysis results of every version of every Dockerfile</li> <li>Vulnerability data from analysing a limited amount of built Docker images</li> <li>A second database containing quality patches based on the static analysis results </li> </ul>   Files: <ul> <li>msr18_extended A compressed, binary PostgreSQL database dump of the docker dataset extended with analysis results</li> <li>patch_database A compressed, binary PostgreSQL database dump of extracted patches</li> <li>patch_datbase.sql A PostgreSQL plain SQL database dump of extracted patches</li> </ul> Furhter information on the artifact used to extract and apply patches and instructions to import the database dumps are provided here: https://github.com/mandoway/dfp

opencc-by-4.0Feb 2023View details →

Global Wetlands: Luderick Seagrass Dataset - Test Set Image Patches

This dataset is a test dataset of image patches created from the 'novel-test' split of the Global Wetlands Luderick-Seagrass dataset.  The original images were divided as a grid into 50 image patches.  The image patches were manually labeled into 'Background', 'Fish' and 'Seagrass' sets.  The images were otherwise unaltered.  We contribute this test dataset of underwater image patches to facilitate evaluation of coarse segmentation seagrass methods. Original dataset description: "This dataset comprises of annotated footage of Girella tricuspidata in two estuary systems in South East Queensland, Australia. This data is suitable for a range of classification and object detection research in unconstrained underwater environments." Original dataset citation:  Ditria, Ellen M; Connolly, Rod M; Jinks, Eric L; Lopez-Marcano, Sebastian (2021): Annotated video footage for automated identification and counting of fish in unconstrained marine environments. PANGAEA, <a href="https://doi.org/10.1594/PANGAEA.926930">https://doi.org/10.1594/PANGAEA.926930</a>. The original dataset is available at:  https://github.com/globalwetlands/luderick-seagrass https://download.pangaea.de/dataset/926930/files/Fish_automated_identification_and_counting.zip https://globalwetlands.blob.core.windows.net/globalwetlands-public/datasets/luderick-seagrass/luderick-seagrass.zip

opencc-zeroApr 2023View details →

Effects of nurse shrubs and biochar on planted conifer seedling survival and growth in a high-severity burn patch in New Mexico, USA

The synergistic effects of widespread high-severity wildfire and anthropogenic climate change are driving large-scale vegetation conversion. In the southwestern United States, areas that were once dominated by conifer forests are now shrub- or grasslands after high-severity wildfire, an ecosystem conversion that could be permanent without human intervention. Yet, the reforestation of these landscapes is rarely successful, with a mean planted seedling survival of just 25 %. Given these low rates, we carried out a planting experiment to quantify the impacts of biochar as a soil amendment and shrubs as nurse plants on planted conifer seedling survival and growth following high-severity wildfire. We planted 1200 seedlings of three species (Pinus ponderosa, P. strobiformis, and Pseudotsuga menziesii) in a 2-ha area within the footprint of the Las Conchas fire in New Mexico, USA. We used four treatments: under shrubs, or in the open and with or without biochar in a full-factorial design. We found that planting tree seedlings underneath shrubs increased tree seedling survival by 46 % after 3 years, with some marginal evidence that shrubs inhibited seedling diameter growth (mean R2 = 0.08). The addition of biochar increased seedling survival by 11 % but had no effect on seedling growth. Our study suggests that planted seedling survival in post-wildfire areas can be increased by planting under shrubs in soil amended with biochar. The widespread adoption of these methods may improve the success rates of post-wildfire reforestation efforts in semi-arid areas, regaining some of the ecosystem services lost to high-severity wildfire.

opencc-by-4.0Apr 2023View details →

Training patches and prediction codes of deep learning (LANA) model for Landsat 8/9 cloud/shadow mask

This dataset includes (i) the image patches dataset and (ii) application/prediction (not training) codes for Landsat 8 cloud and cloud shadow masking used in a paper in review and uploaded here:   Hankui Zhang, Dong Luo, David Roy, A learning attention network algorithm (LANA) for accurate Landsat-8 cloud and shadow masking, Remote Sensing of Environment  The documentation is in <a href="https://zenodo.org/api/files/5462baa5-2bba-4b0f-92aa-c17681b6464b/l8_training_data_readme_new.pdf?versionId=95253efb-6447-46d8-ae4b-ac0c93b43532">l8_training_data_readme_new.pdf</a>.

opencc-zeroJun 2023View details →

APPENDIX 12 in Detangling the effects of patch attributes on bryophyte diversity in fragmented subtropical secondary forests - a case study of land-bridge islands

APPENDIX 12. — Relationships of accumulative species number with accumulative sampling efforts for eight largest islands.

opencc-zeroJun 2023View details →

FIG. 2 in Detangling the effects of patch attributes on bryophyte diversity in fragmented subtropical secondary forests - a case study of land-bridge islands

FIG. 2. — Relationships of species richness with number of habitat types, area, elevation, shape irregularity, vegetative cover, and ISW for five bryophyte categories in 168 forest fragments of the Thousand Island Lake, China. The regression equations are derived from GLMMs. Note: ISW, the relative proportion of water within a circle of a diameter of 1000 m centered on a given island.

opencc-by-4.0May 2016View details →

2 patch AVSD repair, 96th AATS

2 Patch AVSD Repair Talk Delivered at 96th AATS Baltimore, Dr. K S IYER, FORTIS HEART INSTITUTE

opencc-zeroAug 2023View details →

Population genomic evidence that stream networks structure genetic diversity in the narrowly endemic patch-nosed salamander (Urspelerpes brucei)

Described in 2009, the Patch-nosed Salamander (Urspelerpes brucei) is a miniature species of lungless salamander with a geographic range of only ~45 km2. This species is endemic to the foothills of the Appalachian Mountains in extreme northeastern Georgia and northwestern South Carolina. The Tugaloo River—a waterway of some 50 m in width that forms the political boundary between the two states—bisects the tiny range of U. brucei and likely acts as a barrier to gene flow. Using RADcap data and a suite of complementary population genomic analyses, we evaluated the role that this river and its tributaries may play in enabling and/or interrupting gene flow among populations of U. brucei, and we investigated patterns of within-population and between-population genetic variation. Our results revealed a general pattern of isolation-by-stream distance and indicated that a population separated by the Tugaloo River is moderately more differentiated than what is explainable by stream distance alone. Unique in both its physiography and geologic history, this region in which U. brucei lives also harbors more than a dozen other species of lungless salamanders. Therefore, the genetic patterns that we have elucidated may have larger implications for differentiation among populations of other species with similar dispersal abilities.

opencc-by-4.0Sep 2023View details →

Forest patch histories in the Chicago Region

This layer used forest patch layers from three time periods: 2010 (Darling et al. 2023), 1939 (Fahey and Casali 2017), and 1830 (McBride and Halsey 2015) to quantify the disturbance history of forest patches. We classified patch history by assessing the overlap of current patches with the 1939 and 1830 layers. History types were defined as: remnant (forested in all three time periods), regrowth (forested in 2010 and 1830 but not 1939) and novel (currently forested but not forested in the pre-colonial era). It also differentiates between forest cores and edges, with edges being forested area that is within 15 m of the patch edge. This layer was created as part of the paper "Ecological and developmental history impacts the equitable distribution of services".

opencc-by-4.0Oct 2023View details →

An investigation into grazing impacts by New Forest herbivores on inclosure and open woodland patch areas

Data set + R-code for: An investigation into grazing impacts by New Forest herbivores on inclosure and open woodland patch areas