Find research datasets worth reusing

opencc-by-4.0Nov 2012View details →

Fig. 2 in Notes et contributions à la flore de Corse, XXIV

Fig. 2. – Carte de répartition de Crassula vaillantii (Willd.) Roth. et de Vicia laeta Ces.

opencc-by-4.0Jun 2013View details →

Fig. 1 in August Wulfhorst (1861-1936) and his overlooked contributions on the flora of Angola

Fig. 1. – Original and replacement labels of the holotype of Wulfhorstia spicata C. DC.

opencc-by-4.0Feb 2022View details →

Freshwater viral metagenome assembled genomes (vMAGs) used for vContact2 analysis in publication Genome-resolved metaproteomics decodes the microbial and viral contributions to coupled carbon and nitrogen cycling in river sediments

This dataset contains all freshwater viruses that were mined from publicly available data in an effort to provide biogeographical context to viral communities identified from the Columbia River. These two files include data from: 1) East River, CO (PRJNA579838) 2) A previous study from the Columbia River, WA (PRJNA375338) 3) Prairie Potholes, ND (PRJNA365086) 4) Amazon River (PRJNA237344)   Manuscript title Genome-resolved metaproteomics decodes the microbial and viral contributions to coupled carbon and nitrogen cycling in river sediments

opencc-zeroDec 2021View details →

Data from: Population size mediates the contribution of high-rate and large-benefit mutations to parallel evolution

The study "Population size mediates the contribution of high-rate and large-benefit mutations to parallel evolution" by Schenk et al. explores the phenotypic and genotypic changes in Escherichia coli after 500 generations of laboratory adaptation to increasing concentrations of an antibiotic (CTX). The source data files and scripts pertaining to the figures in the main manuscript and the extended data are available on the publishers webiste. Here we provide the source data files and scripts pertaining to the supplementary materials, organized according the figures in the supplementary material. Data are provided for Figures S2-S4, S6-S8, and S10-S12.

opencc-by-4.0Nov 2021View details →

SiEUGreen_Dataset_for_Monitoring_the_contribution_of_urban_agriculture_to_urban_sustainability:_an_indicator-based_framework

The data was collected for scientific publication: Tapia, C., Randall, L., Wang, S.; Borges, L. A. (2021): Monitoring the contribution of urban agriculture to urban sustainability: an indicator-based framework. Sustainable Cities and Society. In press, <a href="https://doi.org/10.1016/j.scs.2021.103130">https://doi.org/10.1016/j.scs.2021.103130</a> This dataset includes the data from the survey in Brabrand Fallaesgartneriet, which is the study case reported in the article.

Kernel weight contribution to yield genetic gain of maize: A global dataset of maize yield, kernel number, and kernel weight over the last century

Studies characterizing the effect of a century of plant breeding on physiological traits are highly needed to identify candidate traits for future improvement in maize (Zea mays L.). A global evaluation of kernel weight progress over time requires the assembly of large and reliable data documenting genetic improvements in this trait across commercial breeding programs in different regions. We compiled a global dataset of yield and yield components from 34 published and unpublished studies comparing two or more maize cultivars from different decades of commercial release under field conditions. The dataset includes 750 entries of kernel weight data (requirement to be included in the systematic review), of which 642 and 666 include data entries of grain yield and kernel number, respectively. We also extracted the metadata describing experimental site information, agronomic management practices, and genotypic information. This dataset can be useful to identify trends of yield improvement across management conditions, with proper consideration of the trade-off between kernel number and kernel weight in maize.

opencc-by-4.0Apr 2022View details →

Fig. 2 in Data On The Reproductive Biology Of The Satanic Leaf-Tailed Gecko, Uroplatus Phantasticus (Squamata, Gekkonidae), At The Bion Terrarium Center As A Contribution To Ex Situ Offspring Programs

Fig. 2. Copulation process of U. phantasticus.

opencc-by-4.0Apr 2022View details →

Fig. 6. U in Data On The Reproductive Biology Of The Satanic Leaf-Tailed Gecko, Uroplatus Phantasticus (Squamata, Gekkonidae), At The Bion Terrarium Center As A Contribution To Ex Situ Offspring Programs

Fig. 6. U. phantasticus hatchlings; the one in the right corner has not molt yet.

A review of existing and potential blue carbon contributions to climate change mitigation in the Anthropocene

The atmosphere concentration of CO2 is steadily increasing and causing climate change. To achieve the Paris 1.5 or 2 oC target, negative emissions technologies must be deployed in addition to reducing carbon emissions. The ocean is a large carbon sink but the potential of marine primary producers to contribute to carbon neutrality remains unclear. Here we review the alterations to carbon capture and sequestration of marine primary producers (including traditional 'blue carbon' plants, microalgae, and macroalgae) in the Anthropocene, and, for the first time, assess and compare the potential of various marine primary producers to carbon neutrality and climate change mitigation via biogeoengineering approaches. The contributions of marine primary producers to carbon sequestration have been decreasing in the Anthropocene due to the decrease in biomass driven by direct anthropogenic activities and climate change. The potential of blue carbon plants (mangroves, saltmarshes, and seagrasses) is limited by the available areas for their revegetation. Microalgae appear to have a large potential due to their ubiquity but how to enhance their carbon sequestration efficiency is very complex and uncertain. On the other hand, macroalgae can play an essential role in mitigating climate change through extensive offshore cultivation due to higher carbon sequestration capacity and substantial available areas. This approach seems both technically and economically feasible due to the development of offshore aquaculture and a well-established market for macroalgal products. Synthesis and applications: This paper provides new insights and suggests promising directions for utilizing marine primary producers to achieve the Paris temperature target. We propose that macroalgae cultivation can play an essential role in attaining carbon neutrality and climate change mitigation, although its ecological impacts need to be assessed further.

Data from: Fixation and preservation contribute to distortion in vertebrate museum specimens: a ten-year study with the lizard Anolis sagrei

Preservation of museum specimens depends on chemical fixation and preservation, processes that might distort the original material. Relatively few studies have examined preservation effects in potentially susceptible soft-bodied taxa like herpetofauna, and those that have rarely extend over more than a few months. We collected six common morphological measurements from the same set of radiographed specimens of the Neotropical lizard Anolis sagrei over nearly ten years to investigate whether morphometric changes result from fixation in formalin and/or subsequent long-term preservation in ethanol. Snout-vent length (SVL) declined 3.5% on average over 10 years, starting almost immediately with fixation and continuing to decline during fluid preservation, eventually leveling off at 40 weeks and beyond. The mostly-ossified component of SVL, spine length, declined 2% on average, but the decline did not begin until fluid preservation commenced and continued throughout the duration of the study. Other characters showed significant decline over the course of the study. Our findings suggest caution when combining fresh and preserved specimens, or specimens of different preservation ages, as a decline in snout-vent length but not in other allometrically proportional characters will introduce error when correcting characters for body size in preserved animals.

Artificial selection on cis-element of Abl contributes cocoon yield increase in domestic silkworm

The silkworm (Bombyx mori) is an important silk-producing domestic insect. The quality and yield of the silk produced by B. mori exceeds that of its ancestor, the wild silkworm B. mandarina. However, to date little is known about the molecular mechanisms underlying domestication-related increases in silk yield. Here, we identified a gene associated with both domestication and silk-related quantitative trait locus (QTL): Abelson tyrosine protein kinase (Abl). Population genomic data for B. mori and B. mandarina identified obvious signatures of artificial selection in the genomic region bearing the Abl gene. There were two fixed nucleotide substitutions (−244 and −1311) in the transcription factor binding motif of the upstream regulatory region of B. mori Abl. Compared to Abl in the wild silkworm B. mandarina, B. mori Abl exhibited significantly greater promoter activity and was upregulated in the silk gland from the last day of the 5th larval instar to pupal stage (P0). Compared to the wild type, CRISPR/Cas9-generated Abl loss-of-function mutants exhibited a higher sensitivity to diseases, shorter developmental duration, and reductions in economically important silk traits, including cocoon weight, pupal weight, and cocoon layer thickness. Comparison of silk-gland transcriptomes between the wild type and the mutant indicated that genes enriched in ribosome biosynthesis, splicing, RNA transport, and the carbon metabolism were significantly downregulated in the mutants. Weighted gene co-expression network analysis (WGCNA) confirmed that genes related to ribosome biosynthesis were pivotal, driving the significant differentiation in silk yield between B. mori and B. mandarina. Here, we demonstrated that artificial selection acts on the cis-elements of silk-trait QTL gene Abl in a novel case (the domestic silkworm), and that this selection pressure increased Abl promoter activity and expression level. By promoting protein translation and synthesis, artificial selection further enhanced the robustness of silkworm larvae and improved cocoon silk synthesis.

Quantifying eco-evolutionary contributions to trait divergence in spatially structured systems

Ecological and evolutionary processes can occur at similar time scales, and hence influence one another. There has been much progress in developing metrics that quantify contributions of ecological and evolutionary components to trait change over time. However, many empirical evolutionary ecology studies document trait differentiation among populations structured in space. In both time and space, the observed differentiation in trait values among populations and communities can be the result of interactions between non-evolutionary (phenotypic plasticity, changes in the relative abundance of species) and evolutionary (genetic differentiation among populations) processes. However, the tools developed so far to quantify ecological and evolutionary contributions to trait changes are implicitly addressing temporal dynamics because they require directionality of change from an ancestral to a derived state. Identifying directionality from one site to another in spatial studies of eco-evolutionary dynamics is not always possible and often not meaningful. We suggest three modifications to existing partitioning metrics so they allow quantifying ecological and evolutionary contributions to changes in population and community trait values across spatial locations in landscapes. Applying these spatially modified metrics to published empirical examples shows how these metrics can be used to generate new empirical insights and to facilitate future comparative analyses. The possibility to apply eco-evolutionary partitioning metrics to populations and communities in natural landscapes is critical as it will broaden our capacity to quantify eco-evolutionary interactions as they occur in nature.

opencc-by-4.0Apr 2022View details →

Supplementary material for paper "Contribution of the wind and Loop Current Eddies to the circulation in the southern Gulf of Mexico" submitted to journal of Ocean Dynamics

Movie including the time evolution of the daily SSH and surface velocity vector fields in the BoC, the meridional  velocity in the CG zonal section, meridional velocity in the 22°N zonal section, the vq sections at 22°N, the time series of PVF2 and CPFV2 and the time series of daily transport through the CG western arm.

opencc-by-4.0May 2022View details →

Reviewed Articles from the study "Running away to sea: a theoretical model of anthropogenic factors contribution for microplastics transportation from rivers to the ocean".

Table containing the papers reviewed from the study "Running away to sea: a theoretical model of anthropogenic factors contribution for microplastics transportation from rivers to the ocean".

opencc-zeroMay 2022View details →

Ericaceous dwarf shrubs contribute a significant but drought-sensitive fraction of soil respiration in a boreal pine forest

Boreal forests often have a dense understory of ericaceous dwarf shrubs with ecological adaptations that contrast those of the canopy-forming trees. It is therefore important to quantify contributions by understory shrubs to ecosystem processes and disentangle shrub- and tree-driven responses, and their interactions, to climatic factors. We quantified soil respiration driven by the pine canopy and the ericaceous shrub understory over three years, using a factorial pine root-exclusion and shrub-removal experiment in a mature Pinus sylvestris forest. Soil temperature and moisture-related responses of respiration attributed to autotrophic (shrubs, pine roots) and heterotrophs were compared. Additionally, we assessed effects of interactions between these functional groups on soil nitrogen availability and respiration. Understory shrubs accounted for 22 ± 10% of total autotrophic respiration, reflecting the ericaceous proportion of fine root production in the ecosystem. Heterotrophic respiration constituted about half of total soil respiration. Shrub-driven respiration was more susceptible to drought than heterotrophic- and pine-driven autotrophic respiration. While the respiration attributed to canopy and understory remained additive, indicating no competitive release, the plant guilds competed for inorganic N. Ericaceous understory shrubs accounted for a small, yet significant, share of total growing season soil respiration. Overlooking understory respiration may lead to erroneous partitioning and modelling of soil respiration mediated by functional guilds with contrasting responses to soil temperature and moisture. A higher share of activity of both heterotrophs and pine roots, under drought conditions, could have important implications for soil organic matter accumulation and decomposition as the climate changes.

opencc-zeroJun 2022View details →

Data from: Climate matching and anthropogenic factors contribute to the colonisation and extinction of local populations during avian invasions

Concern about the impacts of biological invasions has generated a great deal of interest in understanding factors that determine invasion success. Most of our current knowledge comes from static approaches that use spatial patterns as a proxy of temporal processes. These approaches assume that species are present in areas where environmental conditions are the most favourable. However, this assumption is problematic when applied to dynamic processes such as species expansions when equilibrium has not been reached. In our work, we analyse the roles played by human activities, climatic matching, and spatial connectivity on the two main underlying processes shaping the spread of invasive species (i.e., colonisation and extinction) using a dynamic modelling approach. For this, we used a large dataset that has recorded the occurrence of two invasive bird species -the ring-necked and the monk parakeets- in the Iberian Peninsula from 1991 to 2016.

opencc-zeroJun 2022View details →

Data From: Exploitation of an ancestral pheromone biosynthetic pathway contributes to diversification in Heliconius butterflies

During courtship, male butterflies produce androconial secretions containing male sex pheromones (MSPs) that communicate species identity and affect female choice. MSPs are thus likely candidates as reproductive barriers, yet their role in speciation remains poorly studied. Although Heliconius butterflies are a model system in speciation, their MSPs have not been investigated from a macroevolutionary perspective. We use GC-MS to characterise male androconial secretions in 33 of the 69 species in the Heliconiini tribe. We found these blends to be species-specific, consistent with a role in reproductive isolation. We detected a burst in blend diversification rate at the most speciose genus, Heliconius; a consequence of Heliconius and Eueides species using a fatty acid metabolic pathway to unlock more complex blends than basal Heliconiini species, whose secretions are dominated by plant derivatives. A comparison of 10 sister species pairs demonstrates a striking positive correlation between blend dissimilarity and range overlap, consistent with a scenario of character displacement or reinforcement in sympatry. These results demonstrate for the first time that MSP diversification can promote reproductive isolation across this group of butterflies, showcasing how re-activation of an ancestral trait, the co-option of the fatty acid metabolic pathway for pheromone production, can facilitate rapid speciation.

opencc-by-4.0Jun 2022View details →

Datasets used for Publication "Contribution of Non-Water Ices to Salinity and Electrical Conductivity in Ocean Worlds" - Geophysical Research Letters

These files father the output data used in the figures published in the Geophysical Research paper: Contribution of Non-Water Ices to Salinity and Electrical Conductivity in Ocean Worlds One output file may be used for multiple figures, as indicated in the name of the Excel spreadsheet.

opencc-by-4.0Jun 2022View details →

Electronic Supplementary Data to "Zika vector competence data reveals risks of outbreaks: the contribution of the European ZIKAlliance project"

Electronic Supplementary Data to "Zika vector competence data reveals risks of outbreaks: the contribution of the European ZIKAlliance project"