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174 results for “bee diversity”
Colony fitness increases in the honey bee at queen mating frequencies higher than genetic diversity asymptote
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Different types of semi-natural habitat are required to sustain diverse wild bee communities across agricultural landscapes
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Data from: Global taxonomic, functional, and phylogenetic diversity of bees in apple orchards
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Disentangling the effects of latitudinal and elevational gradients on bee, wasp, and ant diversity in an ancient Neotropical mountain range
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Data from: Multitrophic assembly influences β-diversity across a tripartite system of flowering plants, bees, and bee-gut microbiomes
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Data from: Plant traits associated with nesting resources and flower availability determine bee’s functional trait diversity in a highly diverse tropical Amazon Forest
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Generalised bumblebee-flower interactions demonstrate weak floral niche partitioning despite a high bee diversity
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Data from: Individual-based networks reveal the importance of bee fly (Bombyliidae) pollination in a diverse co-flowering community
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Functional diversity of farmland bees across rural-urban landscapes in a tropical megacity
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Wildfire severity alters drivers of interaction beta-diversity in plant-bee networks
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Bee diversity and abundance during peach bloom in South Carolina, United States
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Data from: Floral diversity enhances winter survival of honey bee colonies across climatic regions
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Data from: Tillage in southeastern U.S. row crops reduces ground-nesting bee incidence and diversity compared to field edges
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Tree diversity drives multiple facets of bee diversity via microenvironment
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Wild bee functional diversity and plant associations in native and conventional plant nurseries
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Diversity and turnover of wild bee and ornamental plant assemblages in commercial plant nurseries
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Bioinformatic pipeline: Vast differences in strain-level diversity in the gut microbiota of two closely related honey bee species
<p>This data-set contains the full bioinformatic pipeline used to analyze metagenomic samples in the study "Vast differences in strain-level diversity in the gut microbiota of two closely related honey bee species" (Ellegaard et al. 2020, Current Biology). </p> <p>New metagenomic samples were generated for the study, for which the raw data is available on the NCBI Sequence Read Achive, under accession: PRJNA59809.</p> <p>The data of this submission consist of 9 tar-balls, as further described here below. Download and unpack to view the contents (tar -zxvf filename.tar.gz). For each tarball, all directories contain README.txt files, describing the contents of the directory. Due to size constraints, some intermediate files have been omitted, and some workflows are demonstrated for a subset of the data. However, the full analysis can be reproduced from the raw data, using the provided scripts.</p> <p>All scripts are included within the directories where they were applied. Perl-scripts contain documentation, which can be viewed by typing: "perl script_name.pl -h". For R scripts, the usage is indicated as a comment in the top lines of each script. Note that many of the scripts require specific input-files to be present in the run-directory. Their usage is demonstrated within the workflow directories in bash-scripts (*.sh). Commands used for generating plots and some statistics are given within workflow directories in text-files "R.commands" when applicable.</p> <p>Aside from custom code, the pipeline also utilizes various open-source Software packages, which are detailed in the file "software_dependencies.txt". Note, while many of the scripts will run fast on any computer, some steps of the pipeline are computationally demanding, and will require significant computing time, as well as storage space. When scripts are known to be time-consuming, this is indicated in the script help message.</p> <p>Description of tarballs.</p> <p>raw_data_processing.tar.gz: Describes the quality-control and trimming of raw data, and includes info on the sequencing run.</p> <p>databases.tar.gz: Contains all databases used for analysis, in addition to relevant meta-data.</p> <p>mapping_stats.tar.gz: Contains a file with the number of reads mapped to the honey bee gut microbiota database and the host genomes, for each sample. Bash-scripts are provided, detailing how the mapping was done and quantified.</p> <p>orthologs_phylogenies.tar.gz: Contains the pipeline for inferring orthologous gene-families and core genome phylogenies, as well as scripts for filtering of single-copy core gene families.</p> <p>assemblies.tar.gz: Contains the final de novo metagenome assembly files (contig fasta-files), gener<br> ated for both complete and rarefied read subsets. Bash-scripts detailing the assembly commands are also provided.</p> <p>SDP_validation.tar.gz: Contains the pipeline for metagenomic validation of candidate SDPs. Final output-files, containing the percentage identity of recruited metagenomic ORFs to database core genes, are provided for each candidate SDP. Additionally, a small example dataset is provided, where the intermediate result-files can be viewed.</p> <p>community_profiling.tar.gz: Contains the pipeline for community profiling, i.e. the quantification of individual community members (SDPs) across samples. Final output files are provided, including mapped read coverage on core gene families and corresponding plots. A small bam-file (containing data from a single subset sample), is also provided, in order to demonstrate the pipeline, together with all scripts used.</p> <p>snv_profiling.tar.gz: Contains the pipeline used for SNV profiling, including filtering and analysis. Final filtered vcf-files are provided for each SDP. Analytical output files are also provided, including data on shared SNV fractions, distance matrices, and cumulative curves.</p> <p>metagenomic_ORF_analyses.tar.gz: Contains the pipeline for analysis of metagenomic ORFs. This includes prediction of ORFs, clustering, annotation and functional characterization. ORF sequences, annotation files, and cluster-files are provided.</p>
Data from: Islands in the desert for cavity-nesting bees and wasps: ecology, patterns of diversity, and conservation at oases of Baja California peninsula
<p>Aims: The oases of Baja California peninsula (BCP) have been proposed as important hotspots of biodiversity that hold an exceptional richness in the middle of desert conditions. We provide the effect of habitat, climatic, biogeographic and anthropogenic disturbance on communities of cavity nesting taxa, emphasizing on bees, wasps and their natural enemies. Location: Baja California Peninsula, Northwest Mexico.</p> <p>Methods: In oases of BCP and desert neighbor environments, trap-nesting taxa were evaluated in response to factors affecting the nest abundance, richness, and community structure. We used statistical models to find the variables controlling the nest abundance and ecological analyses to determine the habitat effect on diversity under different scenarios of disturbance and latitude.</p> <p>Results: The nest abundance varied between bees and wasps, but solar irradiation and relative humidity influenced the abundance of both groups. In general, abundance and richness were higher in oases. Bees did not discriminate between oasis and desert habitats to nest and mud-daubing wasps were highly dependent of oases. However, there were exceptions in both groups. The degree of anthropogenic disturbance affected the species composition, richness, and natural enemies.</p> <p>Main conclusions: The oases of Baja California seem to be functioning as mesic islands into the desert, each oasis hosting a great and unique richness of cavity-nesting taxa. About 65% of nest abundance and 50% of species occurred exclusively in the oasis. Thus, at least 21 species could be threatened if the oases of BCP disappear in the future. Local conditions are shaping the community structure of species, but also large-scale factors, e.g. climate and biogeographic patterns seem to be influencing the community structure. Since habitat loss and fragmentation can be a major problem in most oases, strategies to maintain the ecosystem services of pollinators and predators should be included in the conservation programs of these fragile habitats.</p>
Heterogeneous agroecosystems support high diversity and abundance of trap nesting bees and wasps amongst tropical crops
<p>Land-use intensification for agricultural purposes modifies the structure of natural environments in various ways and at different spatial scales. These modifications can affect ecological processes and the community structure of multi-environment users such as solitary bees and wasps. Understanding the role of distinct habitat descriptors in promoting such changes is one of the major challenges of empirical studies. In this study, we use a multi-scale approach to evaluate how landscape compositional and configurational heterogeneity, vegetation structural complexity, and the proportion of agricultural landscape composition affect communities of bees and wasps that nest in pre-existing cavities in remnants of native vegetation bordering agroecosystems. We selected 25 sampling points along a gradient of amount of surrounding agriculture and landscape diversity within natural physiognomies located in Chapada Diamantina, Bahia, Brazil. Through model selection using Akaike's information criterion, we verified the complementary roles of landscape heterogeneity and local vegetation in structuring these hymenopteran communities. Abundance in the groups showed different tendencies depending on the descriptors employed, pointing to the importance of evaluating within-group specificity. Furthermore, bees and wasps presented differential responses to landscape composition, but they did not differ in relation to configurational complexity. In more heterogeneous landscapes or sites with more complex local vegetation, the proportion of agriculture had a positive influence on the response evaluated. Efficient management of agricultural landscapes therefore requires increased landscape heterogeneity and conservation or restoration of native vegetation remnants at the local scale.</p>
Data from: Maize-dominated landscapes reduce bumble bee colony growth through pollen diversity loss
1. Bumble bees are important pollinators for a wide range of crops and wild plants. Performance of their colonies depends on pollen and nectar as food resources, but flowering plants are scarce in modern agricultural landscapes. It is well-known that semi-natural habitats can enhance floral resources and bumble bee abundance, but the impact of different crop types and their heterogeneity at the landscape scale remains unclear. 2. We tested the effect of two different crop types (oilseed rape (OSR) and maize) and of configurational (field border density) and compositional heterogeneity (crop diversity) on weight gain of buff-tailed bumble bee colonies (Bombus terrestris) colonies and the pollen diversity collected by them in 20 landscapes in Central Germany. 3. We found that augmenting maize cover had a detrimental effect on pollen diversity collected by the bumble bees, probably due to intensive management resulting in low plant diversity. This low pollen diversity translated into reduced colony growth, since colonies with high pollen diversity gained more weight than colonies with low pollen diversity. 4. In contrast, OSR cover, configurational and compositional heterogeneity did neither affect colony growth nor pollen diversity. However, for OSR the timing of the flowering period was important. When OSR fields had a high flower cover at the end of the OSR blooming period, colonies showed increased growth rates. 5. Synthesis and applications. Our results complement previous laboratory studies by showing that high pollen diversity leads to better colony performance under field conditions. Therefore, the maintenance of floral diversity in agricultural landscapes is crucial to ensure that bumble bees can fulfil their nutritional needs. However, the heterogeneity of crops, at least under the currently very low levels of crop rotation, does not contribute to this aim. In contrast, crop identity and timing of mass-flowering crops turned out to be important factors, as maize reduced pollen resources, while late blooming OSR oilseed rape was beneficial for bumble bee colonies. Hence, maize cover per landscape should be reduced and strategies to enhance landscape wide flower diversity, especially towards and after the end of oilseed rape bloom should be promoted to support bumble bee colonies that provide important pollination services.
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Allen Brain Atlas
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DANDI Archive for NWB datasets
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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.