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429 results for “multiple genes”
FIGURE 27 in Hybothoracaphis, a new genus of Nipponaphidini (Hemiptera, Aphididae, Hormaphidinae) from China and its phylogenetic placement based on multiple genes
FIGURE 27. Bayesian tree showing phylogenetic relationships of sampled Nipponaphidini species. Numbers above the branches indicate Bayesian posterior probabilities (PP) values (>0.70).
FIGURE 26 in Hybothoracaphis, a new genus of Nipponaphidini (Hemiptera, Aphididae, Hormaphidinae) from China and its phylogenetic placement based on multiple genes
FIGURE 26. Maximum likelihood tree showing phylogenetic relationships of sampled Nipponaphidini species. Numbers above the branches indicate ML bootstrap values (>50%).
FIGURES 22–25 in Hybothoracaphis, a new genus of Nipponaphidini (Hemiptera, Aphididae, Hormaphidinae) from China and its phylogenetic placement based on multiple genes
FIGURES 22–25. Hybothoracaphis laevigata sp. nov. Aphid colonies on the undersides of leaves of Quercus aquifolioides: 22, 23. aphids sitting along the leaf veins; 24. apterous adults; 25. nymphs bearing a little white wax.
FIGURES 11–21 in Hybothoracaphis, a new genus of Nipponaphidini (Hemiptera, Aphididae, Hormaphidinae) from China and its phylogenetic placement based on multiple genes
FIGURES 11–21. Hybothoracaphis laevigata sp. nov. Apterous viviparous female: 11. dorsal view of body; 12. pustule clusters along central axis of dorsal prosoma and muscle attachment plates; 13. pustule cluster on anterior area of head; 14. transversely striped band on margin of prosoma; 15. thoracic spiracle surrounded by mosaic-like ornamentation; 16. antenna; 17. ultimate rostral segment; 18. siphunculus; 19. cauda; 20. anal plate; 21. genital plate. Scale bars = 0.10 mm.
FIGURES 1–10 in Hybothoracaphis, a new genus of Nipponaphidini (Hemiptera, Aphididae, Hormaphidinae) from China and its phylogenetic placement based on multiple genes
FIGURES 1–10. Hybothoracaphis laevigata sp. nov. Apterous viviparous female: 1. dorsal view of body (arrows indicate thoracic spiracles on one side of body); 2. pustule cluster on anterior area of head; 3. transversely striped band on margin of prosoma; 4. mosaic-like ornamentation on marginal vertical area of body; 5. antenna; 6. ultimate rostral segment; 7. siphunculus; 8. cauda; 9. anal plate; 10. genital plate. Scale bars = 0.10 mm.
Elucidating gene expression patterns across multiple biological contexts through a large-scale investigation of transcriptomic datasets
<p>This contains data for described in detail in our paper, "Elucidating gene expression patterns across multiple biological contexts through a large-scale investigation of transcriptomic datasets" (Figueiredo <em>et al.</em>, 2022) which aims at revealing common and specific biological processes and mechanisms across contexts by identifying transcriptional patterns that are unique to various cell types, tissues, and cell lines, as well as patterns which are consistent across them.</p>
Aminoacyl-tRNA synthetase gene alignments from multiple Sileneae species generated from full-length transcripts using Iso-Seq and raw microscopy image files
<p>Trimmed and untrimmed alignments for the final aminoacyl-tRNA synthetases in <em>Sileneae </em>species and <em>Arabidopsis thaliana. W</em>e investigated the evolution of subcellular localization of aaRS enzymes in five different species from the plant lineage <em>Sileneae</em> that has experienced extensive and rapid mitochondrial tRNA loss. By analyzing full-length mRNA transcripts with single-molecule sequencing technology (PacBio Iso-Seq) and searching genome sequences, we found instances of predicted retargeting of an ancestrally cytosolic aaRS to the mitochondrion as well as scenarios where enzyme localization does not appear to change despite functional tRNA replacement.</p> <p>Nikon .nd2 raw microscopy files for the transient expression and imaging of predicted transit peptides and colocalization assays in <em>N. benthamiana</em> epithelial cells. The amino acid sequence plus 10 upstream amino acids of the protein body were fused to GFP and co-transfected with an eqFP611-tagged transit peptide from a known mitochondrially localized protein (isovaleryl-CoA dehydrogenase).</p>
FIGURE 1 in A multiple gene genealogy reveals the phylogenetic placement of Iodosphaeria tongrenensis sp. nov. in Iodosphaeriaceae (Xylariales)
FIGURE 1. MP tree based on dataset of LSU, ITS and SSU sequences. Bootstrap support values for maximum parsimony (MP) greater than 50% are given above the nodes. The strains numbers are given after the species names. The tree is rooted to Botryosphaeria ribis. All sequences from type strains are shown in bold face.
FIGURE 2 in A multiple gene genealogy reveals the phylogenetic placement of Iodosphaeria tongrenensis sp. nov. in Iodosphaeriaceae (Xylariales)
FIGURE 2. Iodosphaeria tongrenensis (holotype). A. Herbarium material. B, C. Ascomata on the surface of host. D. Section of ascoma. E. Peridium. F,G. Ascus apical apparatus (stained in Melzer´s reagent). H–J. Mature asci with ascospores. K. Ceratosporium -like conidia. L–O. Ascospores (N, O stained in India ink). Scale bars: B=1 mm, C=300 μm, D=50 μm, E=10 μm, F, G=5 μm, H–K=10 μm, L–O=5 μm.
FIGURE 5 in Chlamydomonas schloesseri sp. nov. (Chlamydophyceae, Chlorophyta) revealed by morphology, autolysin cross experiments, and multiple gene analyses
FIGURE 5. Secondary structures of ITS-1 rDNA sequences among the species of Chlamydomonas, A. C. schloesseri, B. C. incerta, and C. C. reinhardtii. CBCs and HCBCs are marked in black and grey, respectively.
FIGURE 1 in Chlamydomonas schloesseri sp. nov. (Chlamydophyceae, Chlorophyta) revealed by morphology, autolysin cross experiments, and multiple gene analyses
FIGURE 1. Morphology and phenotypic plasticity of Chlamydomonas schloesseri sp. nov. A–J. vegetative cells, arrow in F. marked the eyespot; K–O. different sporangia; scale bar = 10 μm.
FIGURE 8 in Chlamydomonas schloesseri sp. nov. (Chlamydophyceae, Chlorophyta) revealed by morphology, autolysin cross experiments, and multiple gene analyses
FIGURE 8. Comparison of the amino acid composition of the rbcL gene among the species of Chlamydomonas. The IUPAC symbols were used for the amino acids.
FIGURE 4 in Chlamydomonas schloesseri sp. nov. (Chlamydophyceae, Chlorophyta) revealed by morphology, autolysin cross experiments, and multiple gene analyses
FIGURE 4. Molecular phylogeny of Chlamydomonas and representatives belonging to the Tetrabaenaceae and Goniaceae based on rbcL and ITS rDNA sequence comparisons. The phylogenetic trees shown were inferred using the maximum likelihood method based on the data sets (29 taxa: 915 aligned positions for ITS, 1128 for rbcL) using PAUP 4.0b10. For the analyses the best model was calculated by Modeltest 3.7. The setting of the best model was given as follows: (ITS) GTR+I+G (base frequencies: A 0.2634, C 0.2225, G 0.2192, T 0.2949; rate matrix A-C 1.2503, A-G 2.1014, A-U 2.0643, C-G 0.3957, C-U 3.3009, G-U 1.0000) with the proportion of invariable sites (I = 0.2682) and gamma shape parameter (G = 0.6858); (rbcL) GTR+I+G (base frequencies: A 0.2777, C 0.1688, G 0.2048, T 0.3487; rate matrix A-C 0.2771, A-G 3.5238, A-U 4.0693, C-G 0.6646, C-U 7.4921, G-U 1.0000) with the proportion of invariable sites (I = 0.5523) and gamma shape parameter (G = 0.6480). The branches in bold are highly supported in all analyses (Bayesian values> 0.95 calculated with PHASE and MrBayes; bootstrap values> 70% calculated with PAUP using maximum likelihood, neighbor-joining, maximum parsimony and RAxML using maximum likelihood). The Goniaceae are only weakly supported in bootstrap and Bayesian analyses, which is indicated by an asterisk.
FIGURE 7 in Chlamydomonas schloesseri sp. nov. (Chlamydophyceae, Chlorophyta) revealed by morphology, autolysin cross experiments, and multiple gene analyses
FIGURE 7. Comparison of the conserved region of ITS-2 among the species of Chlamydomonas. Extraction of this region and translation into a number code for its usage as barcode (extracted bases highlighted with an asterisk). Number code for each base pair: 1 = A-U; 2 = U-A; 3 = G-C; 4 = C-G; 5 = G•U; 6 = U•G; 7 = mismatch.
FIGURE 6 in Chlamydomonas schloesseri sp. nov. (Chlamydophyceae, Chlorophyta) revealed by morphology, autolysin cross experiments, and multiple gene analyses
FIGURE 6. Secondary structures of ITS-2 rDNA sequences among the species of Chlamydomonas, A. C. schloesseri, B. C. incerta, and C. C. reinhardtii. CBCs and HCBCs are marked in black and grey, respectively.
FIGURE 3 in Chlamydomonas schloesseri sp. nov. (Chlamydophyceae, Chlorophyta) revealed by morphology, autolysin cross experiments, and multiple gene analyses
FIGURE 3. Molecular phylogeny of Chlamydomonas and representatives belonging to the Tetrabaenaceae, Goniaceae and Volvocaceae based on SSU and ITS rDNA sequence comparisons. The phylogenetic trees shown were inferred using the maximum likelihood method based on the data sets (2688 aligned positions of 75 taxa) using PAUP 4.0b10. For the analyses the best model was calculated by Modeltest 3.7. The setting of the best model was given as follows: GTR+I+G (base frequencies: A 0.2516, C 0.2232, G 0.2514, T 0.2738; rate matrix A-C 1.3107, A-G 2.3565, A-U 2.4706, C-G 0.4123, C-U 4.2284, G-U 1.0000) with the proportion of invariable sites (I = 0.6048) and gamma shape parameter (G = 0.3904). The branches in bold are highly supported in all analyses (Bayesian values> 0.95 calculated with PHASE and MrBayes; bootstrap values> 70% calculated with PAUP using maximum likelihood, neighbor-joining, maximum parsimony and RAxML using maximum likelihood). The Goniaceae are only moderated supported in bootstrap and Bayesian analyses, which is indicated by an asterisk.
FIGURE 2 in Chlamydomonas schloesseri sp. nov. (Chlamydophyceae, Chlorophyta) revealed by morphology, autolysin cross experiments, and multiple gene analyses
FIGURE 2. Lysis of sporangium cell wall under influence of the VLE autolysin in Chlamydomonas schloesseri (SAG 2485); scale bar = 10 μm.
Data from: Multiple large inversions and breakpoint rewiring of gene expression in the evolution of the fire ant social supergene
Supergenes consist of co-adapted loci that segregate together and are associated with adaptive traits. In the fire ant Solenopsis invicta, two 'social' supergene variants regulate differences in colony queen number and other traits. Suppressed recombination in this system is maintained, in part, by a >9 Mb inversion, but the supergene is larger. Has the supergene in S. invicta undergone multiple large inversions? The initial gene content of the inverted allele of a supergene would be the same as that of the wild-type allele. So, how did the inversion increase in frequency? To address these questions, we cloned one extreme breakpoint in the fire ant supergene. In doing so, we found a second large (>800 Kb) rearrangement. Furthermore, we determined the temporal order of the two big inversions based on the translocation pattern of a third small fragment. Because the S. invicta supergene lacks evolutionary strata, our finding of multiple inversions may support an introgression model of the supergene. Finally, we showed that one of the inversions swapped the promoter of a breakpoint-adjacent gene, which might have conferred a selective advantage relative to the non-inverted allele. Our findings provide a rare example of gene alterations arising directly from an inversion event.
FIGURE 3 in A multiple gene genealogy reveals phylogenetic placement of Rhopalostroma lekae
FIGURE 3. Rhopalostroma lekae in OA after 2 weeks (MFLUCC 13-0123). A: Averse showing melanized pigments and central mycelia. B: Reverse side of culture. C: Development of stromatal primordia in the culture. D: Melanized mycelia at the centre. E–G: Conidiophores from simple to more complex structure. H–J: Development of conidia and conidiogenesis cells. K: Conidia. Bars: c–d 1mm; e–k 50 µm.
FIGURE 2 in A multiple gene genealogy reveals phylogenetic placement of Rhopalostroma lekae
FIGURE 2. Rhopalostroma lekae (MFLU 13-0440). A: Habit on bark. B: Separated mature stromata. C: Stromata with dark purplish pigments in head part. D: Longitudinal section of stroma showing perithecial alignment in the periphery of stroma. E: Cross section of the stroma (head) showing perithecia. F and G: Mature ascus in water. H: Ascus in Melzer's reagent, Note the lack of an apical apparatus. I: KOH extractable pigments of stroma (left-head, right–stipe). J–l: Mature ascospores in water. Bars: a–b 5 mm; c–d 1 mm; e 2 mm; f–l 10 µm.
ScienceDex guides
Understand access before you commit
These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
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.