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Figures 7-9 from: Bossert S (2015) Recognition and identification of bumblebee species in the Bombus lucorum-complex (Hymenoptera, Apidae) – A review and outlook. Deutsche Entomologische Zeitschrift 62(1): 19-28. https://doi.org/10.3897/dez.62.9000
Figures 7-9 - Labrum characters in frontal view. 7. Bombus lucorum; 8. Bombus cryptarum 9. Bombus magnus. The drawings were provided by Johann Neumayer and are based on Rasmont (1984).
Supplementary material 3 from: Thanoosing C, Orr MC, Warrit N, Vogler AP, Williams PH (2023) A taxonomic re-assessment of the widespread oriental bumblebee Bombus flavescens (Hymenoptera, Apidae). Journal of Hymenoptera Research 96: 507-541. https://doi.org/10.3897/jhr.96.104715
Primer testing with gradient annealing temperatures
Supplementary material 2 from: Thanoosing C, Orr MC, Warrit N, Vogler AP, Williams PH (2023) A taxonomic re-assessment of the widespread oriental bumblebee Bombus flavescens (Hymenoptera, Apidae). Journal of Hymenoptera Research 96: 507-541. https://doi.org/10.3897/jhr.96.104715
Primer testing
Supplementary material 7 from: Thanoosing C, Orr MC, Warrit N, Vogler AP, Williams PH (2023) A taxonomic re-assessment of the widespread oriental bumblebee Bombus flavescens (Hymenoptera, Apidae). Journal of Hymenoptera Research 96: 507-541. https://doi.org/10.3897/jhr.96.104715
Ancestral area reconstruction model selection, estimated in BioGeoBEARS
Supplementary material 4 from: Thanoosing C, Orr MC, Warrit N, Vogler AP, Williams PH (2023) A taxonomic re-assessment of the widespread oriental bumblebee Bombus flavescens (Hymenoptera, Apidae). Journal of Hymenoptera Research 96: 507-541. https://doi.org/10.3897/jhr.96.104715
Polymerase chain reaction temperature profile of different pairs of primers in this study
Supplementary material 7 from: Kolter A, Husemann M, Podsiadlowski L, Gemeinholzer B (2023) Pollen metabarcoding of museum specimens and recently collected bumblebees (Bombus) indicates foraging shifts. Metabarcoding and Metagenomics 7: e86883. https://doi.org/10.3897/mbmg.7.86883
Raw ASV data
Supplementary material 1 from: Kolter A, Husemann M, Podsiadlowski L, Gemeinholzer B (2023) Pollen metabarcoding of museum specimens and recently collected bumblebees (Bombus) indicates foraging shifts. Metabarcoding and Metagenomics 7: e86883. https://doi.org/10.3897/mbmg.7.86883
Optimizations
Supplementary material 6 from: Kolter A, Husemann M, Podsiadlowski L, Gemeinholzer B (2023) Pollen metabarcoding of museum specimens and recently collected bumblebees (Bombus) indicates foraging shifts. Metabarcoding and Metagenomics 7: e86883. https://doi.org/10.3897/mbmg.7.86883
R pipeline and reference database
Supplementary material 3 from: Kolter A, Husemann M, Podsiadlowski L, Gemeinholzer B (2023) Pollen metabarcoding of museum specimens and recently collected bumblebees (Bombus) indicates foraging shifts. Metabarcoding and Metagenomics 7: e86883. https://doi.org/10.3897/mbmg.7.86883
trnL-P6 protocol - primer sequences
Supplementary material 4 from: Kolter A, Husemann M, Podsiadlowski L, Gemeinholzer B (2023) Pollen metabarcoding of museum specimens and recently collected bumblebees (Bombus) indicates foraging shifts. Metabarcoding and Metagenomics 7: e86883. https://doi.org/10.3897/mbmg.7.86883
Reference database protocol
Supplementary material 2 from: Kolter A, Husemann M, Podsiadlowski L, Gemeinholzer B (2023) Pollen metabarcoding of museum specimens and recently collected bumblebees (Bombus) indicates foraging shifts. Metabarcoding and Metagenomics 7: e86883. https://doi.org/10.3897/mbmg.7.86883
DNA extraction protocol
Supplementary material 5 from: Kolter A, Husemann M, Podsiadlowski L, Gemeinholzer B (2023) Pollen metabarcoding of museum specimens and recently collected bumblebees (Bombus) indicates foraging shifts. Metabarcoding and Metagenomics 7: e86883. https://doi.org/10.3897/mbmg.7.86883
Sequence processing workflow
Fig. 9 in Can biogeography help bumblebee conservation?
Fig. 9. History of dispersal for the two principal bumblebee groups. Principal outward dispersal corridors for Lowland Grassland (LG, green) and Montane Grassland (MG, blue) bumblebees (groups as in Fig. 6), showing some of the changing barriers as grey rectangles (Williams et al. 2017b; Williams et al. 2022b) (dispersal patterns estimated using DIVALIKE+J in BioGeoBEARS fitted with Bayesian methods). For simplicity, dispersals in the reverse directions are not shown. Background map as in Fig. 1.
Fig. 11 in Bumblebees with big teeth: revising the subgenus Alpigenobombus with the good, the bad and the ugly of numts (Hymenoptera: Apidae)
Fig. 11. Re-interpretation of sequences from Fig. 10, re-drawn with the percentage of nucleotides A and T at codon position 3 (AT3%) for each sequence given after the sequence label. Sequences are classified: (a) in purple – earlier-diverging groups of sequences without unique morphology that often have lower AT3% and shorter sequences that appear to duplicate species as pseudospecies in Fig. 10 – these sequences are interpreted as older, more divergent numts; (b) red – remaining sequences with low AT3% (<95%) – these are interpreted as younger, less divergent numts; (c) orange – sequences from the red group but with the highest AT3% available for some taxa, selected to retain these taxa in the analysis; (d) grey and brown – sequences that are duplicate haplotypes for the black and orange sequences above and often shorter; (e) black – likely orthologous sequences with high AT3% (≥ 95%) and unique haplotypes.
Fig. 10 in Bumblebees with big teeth: revising the subgenus Alpigenobombus with the good, the bad and the ugly of numts (Hymenoptera: Apidae)
Fig. 10. Default interpretation of MrBayes estimate of phylogeny as a metric tree (outgroup B. festivus Smith, 1861, not shown) for the subgenus Alpigenobombus Skorikov, 1914, from COI-like sequences from GenBank and BOLD databases with additions from the authors, analysed with Bayesian Poissontree-process (PTP) models for assessing support for species' gene coalescents by maximum likelihood (PTP scores are shown above branches: scores approaching 1, and where branches change from blue to red, indicates where the most likely species' gene coalescents are identified for 17 candidate species). The scale bar is calibrated in substitutions per nucleotide site. Each sequence is labelled with: sequence length; a morphological taxon name; a code consisting of a sequence identifier from the project database and a specimen identifier from the online database; its country and (for larger countries) state or province of origin.
Fig. 18 in Bumblebees with big teeth: revising the subgenus Alpigenobombus with the good, the bad and the ugly of numts (Hymenoptera: Apidae)
Fig. 18. Most likely ancestral ranges reconstructed for all extant currently recognised species from the dispersal model in Fig. 17, using the model DIVALIKE+J in S-BioGeoBEARS from a sample of 10000 trees from BEAST used to make the estimates of species phylogenies from the six genes in Fig. 16. Letters represent the area units in Fig. 17: letter combinations at terminals show species' current distributions (key lower left show the colour codes used for the principal areas of endemism, other colours not in the key represent combinations of areas e.g., darker green for area combination CDE, with black for a mixture of other areas); letter combinations at nodes show the most likely reconstructions for ancestral distributions; pies at nodes indicate the percentage of solutions for that node in which solutions occur (area E does not occur alone in any ancestor distribution). Numbers on the x-axis are ages in Ma before present. Outgroup shown in grey.
Data from: Temporal changes in genetic variability in three bumblebee species from Rio Grande do Sul, South Brazil
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Data from: Chronic neonicotinoid pesticide exposure and parasite stress differentially affects learning in honeybees and bumblebees
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Data from: Robustness of the outcome of adult bumblebee infection with a trypanosome parasite after varied parasite exposures during larval development
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Data from: Impact of controlled neonicotinoid exposure on bumblebees in a realistic field setting
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Allen Brain Atlas
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OpenNeuro
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