Find research datasets worth reusing

Spatiotemporal variability of stable isotopes in precipitation and stream water in a high elevation tropical catchment in the Central Andes of Colombia

Stable isotopes data set for the manuscript "Spatio-temporal variability of stable isotopes in precipitation and stream water of a high elevation tropical catchment in the Central Andes of Colombia". Data also used by Andrés Tangarife-Escobar for the thesis "Analysis of the spatial and temporal distribution of stable isotopes and their driving factors in the Upper Claro River Basin, Colombian Andes" to obtain the title of MSc in "Tropical Hydrogeology and Environmental Engineering" at the Technische Universität Darmstadt (Germany) in 2019.  Samples collected by Jorge Ceballos from IDEAM (Colombia) and analyzed by the Servicio Geologico Colombiano.

opencc-by-4.0Dec 2022View details →

Social survey on climate change perception in tropical areas.

Results of the survey conducted among farmers in the Upper Huallaga Valley regarding their perception of climate change.

dryad40/100

Data from: Seasonality and growth in tropical freshwater ectotherm vertebrates: results from one-year experimentation in the African grey bichir, giraffe catfish, and the West African mud turtle

Growth in ectotherm vertebrates is strongly rhythmed by seasonal variation in environmental parameters. To track the seasonal variation in ancient times in a continental and tropical context, we aim to develop a method based on the use of the growth rate of fossil ectotherm vertebrates (actinopterygians and chelonians) influenced by seasonal environmental fluctuations they experienced in their lifetime. However, the impact of environmental parameters on growth, positive or negative, and its intensity, depends on the taxa considered and data are scarce for tropical species. For one year, an experiment was conducted to better understand the effect of seasonal variation in environmental parameters (food abundance, temperature, and photoperiod) on the somatic growth rate of three species of tropical freshwater ectotherm vertebrates: the fishes Polypterus senegalus and Auchenoglanis occidentalis and the turtle Pelusios castaneus. Mimicking seasonal shifts expected to be experienced by the animals in the wild, the experiment highlighted the preponderant effect of food abundance on the growth rate of those three species. Water temperature variation had a significant effect on the growth rate of Po. senegalus and Pe. castaneus. Moreover, the photoperiod demonstrated no significant effect on the growth of the three species. The duration of application of starvation or cool water conditions, ranging from 1 to 3 months, did not affect the growth rate of the animals. However, Pe. castaneus showed a temporary sensitivity to the return of ad libitum feeding or of warm water, after a period of starvation or cool water, by a period of compensatory growth. Finally, this experiment revealed, in the three species, fluctuations in the growth rate under controlled and constant conditions. This variation, similar to the variation in precipitation and temperature observed in their native environment, could be linked to a strong effect of an internal rhythm controlling somatic growth rate.

'Does crown sheltering effect the vulnerability of trees to wind damage in tropical forests? ' project dataset

The manually delineated tree crowns, polygon-based sheltering indices, canopy height model (CHM) and digital surface model (DSM) generated to investigate the effects of local crown sheltering on wind vulnerability in Barro Colorado Island, Panama. Files include both circular and directional indices at 10m, 20m, 50m and 2 x canopy radius.

Kilometer-scale global warming simulations and active sensors reveal changes of tropical deep convection

This zip file contains data and codes to reproduce the figures of a manuscript on X-SHiELD. Contact mbolot@princeton.edu for questions.

NTDs2RDF: A heterogeneous and integrated knowledge graph for the exploration of neglected tropical diseases

Neglected tropical diseases (NTDs) are a heterogeneous group of 20 bacterial, viral, parasitic, and fungal conditions that generally occur in developing tropical countries in the Americas, Africa, and Asia. NTDs mainly affect poor populations that do not have access to safe water, sanitation, and high-quality healthcare. Because of the severe effects of NTDs (i.e., they can cause long-lasting disabilities), they reinforce the cycle of poverty in vulnerable communities. The NTDs2RDF project aimed to create a knowledge graph (KG) of genes, proteins, metabolic pathways, gene ontologies, single nucleotide variants, drugs, and other relevant data for three NTDs (Chagas disease, leishmaniasis, and African trypanosomiasis), integrating all the information in a single data structure that can be explored through a query interface implemented with a Streamlit web application. This software provides a user-friendly platform to extract information from the KG using SPARQL queries. The project represents an initial step towards the creation of a heterogeneous database for different NTDs with several potential applications in advancing the understanding of NTDs biology and providing insights that cannot be obtained through alternative resources.

Suppl. figures of otoliths of pelagic shorefish larvae captured over the Galapagos Rift for Victor, B.C. (2023) Rapid long-distance multispecies transport of shorefish larvae to the oceanic tropical eastern Pacific, revealed by DNA-barcodes and otolith aging of larvae captured over the Galapagos Rift

Supplementary figures of otoliths of pelagic shorefish larvae captured over the Galapagos Rift Victor, B.C. (2023) Rapid long-distance multispecies transport of shorefish larvae to the oceanic tropical eastern Pacific, revealed by DNA-barcodes and otolith aging of larvae captured over the Galapagos Rift in volume: Early Life History and Biology of Marine Fishes: Research inspired by the work of H Geoffrey Moser Figure Sup A1 Sagittal otolith of 5.9 mm SL Stegastes sp. fish larva (Pomacentridae) captured over the Galapagos Rift, age since hatching is 23 days.

Suppl. figures of pelagic shorefish larvae captured over the Galapagos Rift for Victor, B.C. (2023) Rapid long-distance multispecies transport of shorefish larvae to the oceanic tropical eastern Pacific, revealed by DNA-barcodes and otolith aging of larvae captured over the Galapagos Rift

Supplementary figures of pelagic shorefish larvae captured over the Galapagos Rift Victor, B.C. (2023) Rapid long-distance multispecies transport of shorefish larvae to the oceanic tropical eastern Pacific, revealed by DNA-barcodes and otolith aging of larvae captured over the Galapagos Rift in volume: Early Life History and Biology of Marine Fishes: Research inspired by the work of H Geoffrey Moser Figure S1 Gobioid fish larvae captured over the Galapagos Rift. Figure S2 Labrid fish larvae captured over the Galapagos Rift. Figure S2. Pomacentrid fish larvae captured over the Galapagos Rift. Figure S4 Lythrypnus sp 5.4 mm SL fish larva captured over the Galapagos Rift. Figure S4a Lythrypnus sp 5.4 mm SL fish larva (head) captured over the Galapagos Rift. Figure S5 Abudefduf troschelii 7.3 mm SL fish larva captured over the Galapagos Rift. Figure S6 Chaetodon humeralis 8.9 mm SL fish larva captured over the Galapagos Rift. Figure S7 Gerreidae 10.6 mm SL fish larva captured over the Galapagos Rift. Figure S8 Neoniphon suborbitalis 6.8 mm SL fish larva captured over the Galapagos Rift. Figure S9 Ophioblennius steindachneri 10.6 mm SL fish larva captured over the Galapagos Rift. Figure S9a Ophioblennius steindachneri 10.6 mm SL fish larva (head) captured over the Galapagos Rift. Figure S9b Ophioblennius steindachneri 10.6 mm SL fish larva (ventral) captured over the Galapagos Rift. Figure Sup10 Sphoeroides lobatus 12.0 mm SL fish larva captured over the Galapagos Rift.

opencc-by-4.0Apr 2023View details →

Highly cited tropical medicine articles in the early COVID 19 pandemic. Original Excel data on citation and subjects

ORIGINAL DATA SET FOR STUDY OF PUBLICATION AND CITATION TRENDS, TROPICAL MEDICINE, EARLY COVID 19 PANDEMIC. Background: An adequate response to health needs includes the identification of research patterns about the large number of people living in the tropics and subjected to tropical diseases. Studies have shown that research does not always match the real needs of those populations, and that citation reflects mostly the amount of money behind particular publications. Here we test the hypothesis that research from richer institutions is published in better-indexed journals, and thus has greater citation rates. Methods: The data in this study was extracted from the Science Citation Index Expanded database; the 2020 journal Impact Factor (IF2020) was updated to 30 June 2021. We considered places, subjects, institutions and journals. Results: We identified 1 041 highly cited articles with 100 citations or more in the category of tropical medicine. About a decade is needed for an article to reach peak citation. Only two Covid-19 related were highly cited in the last three years. Most cited articles were published by the journals Memorias Do Instituto Oswaldo Cruz (Brazil), Acta Tropica (Switzerland), and PLoS Neglected Tropical Diseases (USA). The USA dominated five of the six publication indicators. International collaboration articles had more citations than single-country articles. The UK, South Africa, and Switzerland had high citation rates, as did the London School of Hygiene and Tropical Medicine in the UK, the Centers for Disease Control and Prevention in the USA, and the WHO in Switzerland. Conclusions: About ten years of accumulated citations are needed to get 100 citations or more as highly cited articles in the Web of Science category of tropical medicine. Six publication and citation indicators, including authors’ publication potential and characteristics evaluated by Y-index, indicate that the currently available indexing system places tropical researchers at a disadvantage against their colleagues in temperate countries, and suggest that, to progress towards better control of tropical diseases, international collaboration should increase, and other tropical countries should follow the example of Brazil, which provides significant financing to its scientific community.Julián Monge-Nájera1, and Yuh-Shan Ho2* 1Laboratorio de Ecología Urbana, Vicerrectoría de Investigación, Universidad Estatal a Distancia, 2050 San José, Costa Rica; <a href="mailto:julianmonge@gmail.com">julianmonge@gmail.com</a> (https://orcid.org/0000-0001-7764-2966) *Corresponding author: Trend Research Centre, Asia University, No. 500 Lioufeng Road, Wufeng, Taichung 41354, Taiwan; <a href="mailto:ysho@asia.edu.tw">ysho@asia.edu.tw</a> (https://orcid.org/0000-0002-2557-8736)

opencc-zeroNov 2021View details →

FIG. 1. — A, B. Cryptothecia duplofluorescens Aptroot & M.F in New crustose lichens from a tropical coastal area in Paraná (Brazil)

FIG. 1. — A, B. Cryptothecia duplofluorescens Aptroot & M.F. Souza, sp. nov.: A, thallus; B, thallus under UV light; C, soredia; D-F, Myriostigma xanthominiatum Aptroot & M.F. Souza, sp. nov.: D, thallus; E, thallus under UV light; F, ascus with ascospores; G, H, Herpothallon purpureum Aptroot & M.F. Souza, sp. nov.: G, hypophyllous thallus; H epiphyllous thallus; I, J, Wirthiotrema xanthopustulatum Aptroot & M.F. Souza, sp. nov.: I, thallus; J, thallus under UV light. All from holotypes. Scales: A, B, 4 mm; C, 30 µm; D, E, 5 mm; F, 80 µm; G, 7 mm, H-J, 5 mm.

FIG. 11. — Russula shoreae D.Chakr., A.Ghosh, K in Three new species of genus Russula Pers. from Sal dominated forests of tropical India based on morphotaxonomy and multigene phylogenetic analysis

FIG. 11. — Russula shoreae D.Chakr., A.Ghosh, K.Das & Buyck, sp. nov. (from holotype): A-C, fresh and dissected basidiomata in the field and basecamp; D, E, transverse section through pileipellis showing elements; F, transverse section through lamellae showing basidia; G, H, transverse section through lamellae showing hymenial cystidia near the lamellae edges; I-M, transverse section through lamellae showing hymenial cystidia near the lamellae sides. Scale bars: A, B, 20 mm; D, 20 μm; E-M, 10 μm.

FIG. 9. — Russula pseudoflavida A in Three new species of genus Russula Pers. from Sal dominated forests of tropical India based on morphotaxonomy and multigene phylogenetic analysis

FIG. 9. — Russula pseudoflavida A.Ghosh, Hembrom, I.Bera & Buyck, sp. nov. (from holotype): A, basidiospore; B, basidia; C, hymenial gloeocystidia near the lamellae edges; D, hymenial gloeocystidia near the lamellae sides; E, marginal cells; F, elements of the pileipellis near the pileus margin: hyphal terminations; G, elements of the pileipellis near the pileus centre: hyphal terminations; H, doubtfull primordial hyphae. Scale bars: 10 µm.

FIG. 4 in Three new species of genus Russula Pers. from Sal dominated forests of tropical India based on morphotaxonomy and multigene phylogenetic analysis

FIG. 4. — Phylogram generated by Maximum Likelihood analysis based on nrITS sequence data of Russula boddingii Hembrom, D.Chakr., A.Ghosh & K.Das, sp. nov. and allied species. Maximum Likelihood bootstrap support values (MLbs) ≥ 70% are shown on the left of "/" and Bayesian Posterior Probabilities (BPP) ≥ 0.95 are shown on the right above or below the branches at nodes. Russula boddingii Hembrom, D.Chakr., A.Ghosh & K.Das, sp. nov. is placed in red font to highlight its phylogenetic position in the tree.

FIG. 2 in Three new species of genus Russula Pers. from Sal dominated forests of tropical India based on morphotaxonomy and multigene phylogenetic analysis

FIG. 2. — SEM micrographs of basidiospores: A, B, Russula boddingii Hembrom, D.Chakr., A.Ghosh & K.Das, sp. nov.; C, D, R. pseudoflavida A.Ghosh, Hembrom, I.Bera & Buyck, sp. nov.; E, F, R. shoreae D.Chakr., A.Ghosh, K.Das & Buyck, sp. nov. Scale bars: A-C, E, F, 2 μm; D, 1 μm.

FIG. 6 in Three new species of genus Russula Pers. from Sal dominated forests of tropical India based on morphotaxonomy and multigene phylogenetic analysis

FIG. 6. — Russula boddingii Hembrom, D.Chakr., A.Ghosh & K.Das, sp. nov. (from holotype): A, basidiospore; B, hymenial gloeocystidia near the lamellae edges; C, elements of the pileipellis near the pileus centre: hyphal terminations; D, basidia; E, hymenial gloeocystidia near the lamellae sides; F, elements of the pileipellis near the pileus margin: hyphal terminations. Scale bars: 10 µm.

FIG. 8. — Russula pseudoflavida A in Three new species of genus Russula Pers. from Sal dominated forests of tropical India based on morphotaxonomy and multigene phylogenetic analysis

FIG. 8. — Russula pseudoflavida A.Ghosh, Hembrom, I.Bera & Buyck, sp. nov. (from holotype): A-C, fresh and dissected basidiomata in the field and basecamp; D-F, transverse section through pileipellis showing elements; G, primordial hyphae in carbolfuchsine; H-J, transverse section through lamellae showing hymenial gloeocystidia near the lamellae sides; K, transverse section through lamellae showing hymenial gloeocystidia near the lamellae edges. Scale bars: A, B, 20 mm; D, E, G, 20 μm; F, H-K, 10 μm.

FIG. 10 in Three new species of genus Russula Pers. from Sal dominated forests of tropical India based on morphotaxonomy and multigene phylogenetic analysis

FIG. 10. — Phylogram generated by Maximum Likelihood analysis based on nrITS sequence data of Russula shorae D.Chakr., A.Ghosh, K.Das & Buyck, sp. nov. and their allied species. Maximum Likelihood bootstrap support values (MLbs) ≥ 70% are shown on the left of "/" and Bayesian Posterior Probabilities (BPP) ≥ 0.95 are shown on the right above or below the branches at nodes. Russula shorae D.Chakr., A.Ghosh, K.Das & Buyck, sp. nov. is placed in red font to highlight their phylogenetic positions in the tree.

FIG. 1 in Three new species of genus Russula Pers. from Sal dominated forests of tropical India based on morphotaxonomy and multigene phylogenetic analysis

FIG. 1. — Distributional map and habitat of Russula boddingii Hembrom, D.Chakr., A.Ghosh & K.Das, sp. nov., R. pseudoflavida A.Ghosh, Hembrom, I.Bera & Buyck, sp. nov. and R. shoreae D.Chakr., A.Ghosh, K.Das & Buyck, sp. nov. in India.

FIG. 7 in Three new species of genus Russula Pers. from Sal dominated forests of tropical India based on morphotaxonomy and multigene phylogenetic analysis

FIG. 7. — Phylogram generated by Maximum Likelihood analysis based on nrITS sequence data of Russula pseudoflavida A.Ghosh, Hembrom, I.Bera & Buyck, sp. nov. and allied species. Maximum Likelihood bootstrap support values (MLbs) ≥ 70% are shown on the left of "/" and Bayesian Posterior Probabilities (BPP) ≥ 0.95 are shown on the right above or below the branches at nodes. Russula pseudoflavida A.Ghosh, Hembrom, I.Bera & Buyck, sp. nov. is placed in red font to highlight its phylogenetic position in the tree.

FIG. 12. — Russula shoreae D.Chakr., A.Ghosh, K in Three new species of genus Russula Pers. from Sal dominated forests of tropical India based on morphotaxonomy and multigene phylogenetic analysis

FIG. 12. — Russula shoreae D.Chakr., A.Ghosh, K.Das & Buyck, sp. nov. (from holotype): A, basidiospore; B, elements of the pileipellis near the pileus margin: hyphal terminations and pileocystidia; C, hymenial cystidia near the lamellae sides; D, basidia; E, hymenial cystidia near the lamellae edges; F, elements of the pileipellis near the pileus centre: hyphal terminations and pileocystidia. Scale bars: 10 µm.