Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
41
datasets available to search
ShareScore release 0.9.0
Dataset results
41 results for “Didymosphaeriaceae”
Supplementary data for draft genome of a member of the ascomycotal fungal genus Pseudopithomyces (family Didymosphaeriaceae)
<p><span lang="EN-US">We update our previous draft genome of a member of genus <em>Pseudopithomyces</em> (previously annotated as <em>Pseudopithomyces maydicus</em> strain SBW1, now reannotated as <em>Pseudopithomyces sp</em>. strain SBW1. The new draft genome is based on a hybrid assembly utilising both ONT and Illumina data. The draft genome is comprised of 43 contigs with a total length of 39.65Mbp. We predict 13,669 protein coding gene models, of which 4241 (31%) were annotated to KEGG Orthology. Taxonomic assignment to <em>Pseudopithomyces sp.</em> was supported by comparative analysis of extracted ITS regions, mitochondrial DNA sequence and whole genome comparisons using <em>k</em>-mer sketches. </span></p> <p> </p> <p><span lang="EN-US">The following items of Additional Data Files are made available in this repository:</span></p> <p><span lang="EN-US">Additional Data File 1: contigs.fasta</span></p> <p><span lang="EN-US">FASTA file of entire assembly. </span><span lang="EN-US"> </span></p> <p> </p> <p><span lang="EN-US">Additional Data File 2: draft_genome.fasta</span></p> <p><span lang="EN-US">FASTA file of draft whole genome sequence.</span></p> <p> </p> <p><span lang="EN-US">Additional Data File 3: ITS_full.fasta</span></p> <p><span lang="EN-US">FASTA file containing full length ITS sequences from contig 23 and contig 42.</span></p> <p><span lang="EN-US"> </span></p> <p><span lang="EN-US">Additional Data File 4: 2NJ47W4U013-Alignment.txt</span></p> <p><span lang="EN-US">Text file containing BLASTN alignments for ITS region contained on contig 23</span></p> <p><span lang="EN-US"> </span></p> <p><span lang="EN-US">Additional Data File 5: 2NJXH2GE013-Alignment.txt</span></p> <p><span lang="EN-US">Text file containing BLASTN alignments for ITS region contained on contig 42</span></p> <p><span lang="EN-US"> </span></p> <p><span lang="EN-US">Additional Data File 6: 2NM79EUG016-Alignment.txt</span></p> <p><span lang="EN-US">Text file containing BLASTN alignments for the mitochondrial genome from contig 40 </span></p> <p><span lang="EN-US"> </span></p> <p><span lang="EN-US">Additional Data File 6: sourmash_bc10_hy_pm1_3.txt</span></p> <p><span lang="EN-US">Text file containing the MASH similarities of the draft genome compared to 18,883 fungal genomes.</span></p>
Supplementary material 1 from: Wanasinghe DN, Nimalrathna TS, Qin Xian L, Faraj TK, Xu J, Mortimer PE (2024) Taxonomic novelties and global biogeography of Montagnula (Ascomycota, Didymosphaeriaceae). MycoKeys 101: 191-232. https://doi.org/10.3897/mycokeys.101.113259
The biogeography, substrate and habitat affinity of Montagnula inferred from the GlobalFungi database
FIGURE 2 in Molecular phylogeny and diversity of Laburnicola (Didymosphaeriaceae): a new species from Uzbekistan
FIGURE 2. Laburnicola zaaminensis (holotype, TASM 6152). a,b Appearance of conidiomata on host substrate. c Section through conidiomata. d Peridium. e Conidia on the conidiogenous cells. f–g Conidia. Scale bars: a, b = 500 µm. c = 50 µm. d = 10 µm. e, f, g= 5 µm.
FIGURE 2 in The taxonomy and phylogeny of Austropleospora ochracea sp. nov. (Didymosphaeriaceae) from Guizhou, China
FIGURE 2. Austropleospora ochracea (HMAS 248367, holotype). a, b. Ascomata on host substrate, c, d. Vertical sections of ascomata, e. Peridium, f. Pseudoparaphyses, g−j. Asci, k−n. Ascospores, o. Germinating ascospore, p. Culture on PDA from above. Scale bars: c, d = 100 µm, e = 10 µm, f = 4 µm, g−j = 20 µm, k−o = 5 µm.
FIGURE 1 in A new species of the conidial fungal genus Spegazzinia (Pleosporales, Didymosphaeriaceae) collected on sugarcane in Cuba
FIGURE 1. Spegazzinia affinis (holotype HACM 8980). Conidiophores mother cells, basauxic conidiophores and conidia of types "a" and "b". Drawing by Gustavo Vega.
FIGURE 3 in Multi-locus phylogeny reveals Phaeodothis mori sp. nov. (Didymosphaeriaceae, Pleosporales) from dead leaves of Morus australis
FIGURE 3. Phaeodothis tricuspidis (SF125876, holotype) a. Herbarium packet and specimen. b. Ascomata on host. c. Close up of ascoma. d, e. Sections through ascomata. f. Peridium comprising hyaline compressed cells. g–j. Mature and immature asci surrounded by pseudoparaphyses. k–n. ascospores. Scale bars: c = 1000 µm, d, e = 100 µm, f = 20 µm, g–j = 30 µm, k–n = 5 µm.
FIGURE 2 in Multi-locus phylogeny reveals Phaeodothis mori sp. nov. (Didymosphaeriaceae, Pleosporales) from dead leaves of Morus australis
FIGURE 2. Phaeodothis mori (holotype, MFLU 18-2612) a, b. Appearance of ascomata on the host. c. Section of ascoma. d. Section of peridium. e. Pseudoparaphyses. f–i. Asci. j–l. Ascospores. m. Ascospores stained in Indian ink showing mucilaginous sheath. n. Germinated ascospore. o. Colony from below. p. Colony from above. Scale bars: c = 50 µm, d = 10 µm, e–i = 20 µm, j–n = 5 µm.
FIGURE 1 in Multi-locus phylogeny reveals Phaeodothis mori sp. nov. (Didymosphaeriaceae, Pleosporales) from dead leaves of Morus australis
FIGURE 1. RAxML tree based on a combined dataset of ITS, LSU, SSU and tef1- α partial sequences of 84 taxa of the family Didymosphaeriaceae. Bootstrap support values for maximum likelihood (ML), maximum parsimony (MP) values higher than 60% and Bayesian posterior probabilities (BYPP) greater than 0.90 are given above each branch respectively. The new isolates are in red. Ex-type strains are in bold. The tree is rooted by Pleospora herbarum (CBS 191.86, IT 956) and P. tarda (CBS 714.68).
FIGURE 5 in Confusion surrounding Didymosphaeria-phylogenetic and morphological evidence suggest Didymosphaeriaceae is not a distinct family
FIGURE 5. Phaeodothis tricuspidis (holotype) a. Herbarium packet and specimen. b. Close-up of ascomata. c–d. Sections through ascoma. e. Peridium comprising hyaline compressed cells. f–h. Mature and immature asci surrounded by pseudoparaphyses. i–l. Fusiform, olivaceous-brown ascospores. Scale bars: c–d = 100 µm, e = 50 µm, f–h = 25 µm, i–l = 5 µm.
FIGURE 4 in Confusion surrounding Didymosphaeria-phylogenetic and morphological evidence suggest Didymosphaeriaceae is not a distinct family
FIGURE 4. Didymosphaeria rubi-ulmifolii (holotype). a. Immersed ascomata on the host surface b. Close-up of the ascomata c. Section of an ascoma. d. Close-up of peridium. e. Trabeculate, anastomosing and branching pseudoparaphyses. f–h. Asci with 8 spores. i–l. Brown, 1-septate ascospores with granulate ornamentation. Scale bars: c = 100 µm, d = 20 µm, e = 10 µm f–h = 30 µm, i–l = 10 µm.
FIGURE 3 in Confusion surrounding Didymosphaeria-phylogenetic and morphological evidence suggest Didymosphaeriaceae is not a distinct family
FIGURE 3. Didymosphaeria decolorans (holotype). a. Herbarium packet and specimen. b–c. Close up of the ascomata. d. Section through ascoma. e. Close-up of the ostiole g. Long trabeculate pseudoparaphyses. h–l. Immature and mature asci. m–r. Immature and mature ascospores with smooth wall. Scale bars: b = 500 µm, c = 200 µm, d = 50 µm, h–l = 20 µm, e, f = 10 µm, g, m–r = 5 µm.
FIGURE 1 in Confusion surrounding Didymosphaeria-phylogenetic and morphological evidence suggest Didymosphaeriaceae is not a distinct family
FIGURE 1. Best scoring RAxML tree based on a combined dataset of SSU and LSU with bootstrap support values for maximum likelihood (red) and minimum evolution (green) greater than 50% given below and above the nodes. Dothidea sambuci is the out group taxon. The original isolate numbers are noted after the species names.
FIGURE 2 in Confusion surrounding Didymosphaeria-phylogenetic and morphological evidence suggest Didymosphaeriaceae is not a distinct family
FIGURE 2. Didymosphaeria futilis (holotype) a–b. Herbarium packet and specimen. c. Close-up of ascomata. d. Section through ascoma. e. Close-up of peridium. f. Arrangement of asci and pseudoparaphyses in hamathecium. g. Broad, long trabeculate pseudoparaphyses, anastomosing mostly above the asci. h–k. Cylindrical asci with an indistinct ocular chamber. l–o. Ascospores with distinct spinulose ornamentation. Scale bars: c = 100 µm, d–g = 10 µm, h–k = 20 µm, l–0 = 5 µm.
FIGURE 2 in Spegazzinia camelliae sp. nov. (Didymosphaeriaceae, Pleosprales), a new endophytic fungus from northern Thailand
FIGURE 2. Spegazzinia camelliae (SDBR-CMU328, holotype). A–C. Colonies on different agar media A. Potato dextrose agar. B. Malt extract agar. C. Oatmeal agar. D, E. Conidiophores mother cells. F−J. α conidia. K−N. β conidia. Scale bars: A−C = 10 mm; D, E = 5 μm; F, G = 10 μm and H−N = 5 μm.
FIGURE 1 in Spegazzinia camelliae sp. nov. (Didymosphaeriaceae, Pleosprales), a new endophytic fungus from northern Thailand
FIGURE 1. Phylogram derived from maximum likelihood (RAxML) analysis of the combined SSU, ITS, LSU and tef1 sequence dataset of 28 taxa. Sequences of Flavomyces fulophazii and Periconia macrospinosa were used as outgroup. The numbers above branches represent maximum likelihood bootstrap percentages (left) and Bayesian posterior probabilities (right). Bootstrap values ≥ 70% and Bayesian posterior probabilities ≥ 0.90 are shown. The scale bar represents the expected number of nucleotide substitutions per site. Sequences of fungal species obtained in this study are in bold. The superscript "T" means type strains.
FIGURE 2 in Bimuria omanensis sp. nov. (Didymosphaeriaceae, Pleosporales) from Oman
FIGURE 2. Bimuria omanensis (SQU H-115, Holotype) a. Hyphae. b–c. Sporulating conidiomata in culture media d. Conidioma wall. e–i. Conidiogenous cells. j–n. Conidia. Scale bars: d = 20 μm, h–i = 10 μm, e–g, j–n = 5 μm.
FIGURE 1 in Bimuria omanensis sp. nov. (Didymosphaeriaceae, Pleosporales) from Oman
FIGURE 1. RAxML tree based on analysis of a combined dataset of LSU, ITS and TEF1-α partial sequence data. Bootstrap support values for ML and MP equal to or greater than 60 %, Bayesian posterior probabilities (PP) equal to or greater than 0.95 are defined as ML/PP/MP above the nodes. Genera, where known are indicated with coloured blocks. The new isolate is in blue. The type strains are in bold. The scale bar represents the expected number of nucleotide substitutions per site. Bambusistroma didymosporum (MFLU 15-0057, MFLU 15-0058) is used as the outgroup taxon.
Figure 2 from: Samarakoon BC, Phookamsak R, Wanasinghe DN, Chomnunti P, Hyde KD, Mckenzie EHC, Promputtha I, Xu J-C, Li Y-J (2020) Taxonomy and phylogenetic appraisal of Spegazzinia musae sp. nov. and S. deightonii (Didymosphaeriaceae, Pleosporales) on Musaceae from Thailand. MycoKeys 70: 19-37. https://doi.org/10.3897/mycokeys.70.52043
Figure 2 Spegazzinia deightonii (MFLU 19-2908) a–c fungal colonies on host surface d conidiophore mother cell of α conidia e–g α conidia i a developmental stage of β conidia h, k conidia l colonies on PDA after 28 days showing sporulation j, m–p β conidia. Scale bars: 500μm (a), 200μm (b), 50 μm (c), 20μm (e–h), 10μm (d, k, m–p), 5 μm (i, j).
Figure 1 from: Samarakoon BC, Phookamsak R, Wanasinghe DN, Chomnunti P, Hyde KD, Mckenzie EHC, Promputtha I, Xu J-C, Li Y-J (2020) Taxonomy and phylogenetic appraisal of Spegazzinia musae sp. nov. and S. deightonii (Didymosphaeriaceae, Pleosporales) on Musaceae from Thailand. MycoKeys 70: 19-37. https://doi.org/10.3897/mycokeys.70.52043
Figure 1 Maximum likelihood tree revealed by RAxML from an analysis of SSU, LSU and ITS and TEF1-α sequence data of selected genera of family Didymosphaeriaceae, showing the phylogenetic position of Spegazzinia musae (MFLUCC 20-0001) and S. deightonii (MFLUCC 20-0002). ML bootstrap supports (≥60 %) and Bayesian posterior probabilities (≥ 0.95 BYPP) are given above in the branches, respectively. The tree was rooted with Pleospora herbarum and Stemphylium botryosum (Pleosporaceae). Strains generated in this study are indicated in red-bold. Ex-type species are indicated in bold. The scale bar represents the expected number of nucleotide substitutions per site. A best scoring RAxML tree is shown with a final ML optimization likelihood value of -13516.66. The matrix had 795 distinct alignment patterns, with 33.60% of undetermined characters or gaps. Estimated base frequencies were: A = 0.239862, C = 0.245185, G = 0.277025, T = 0.237927; substitution rates AC = 1.626982, AG = 2.468452, AT = 1.211822, CG = 1.092437, CT = 6.295657, GT = 1.000000; proportion of invariable sites I = 0.484119; gamma distribution shape parameter α = 0.445929.
Figure 3 from: Samarakoon BC, Phookamsak R, Wanasinghe DN, Chomnunti P, Hyde KD, Mckenzie EHC, Promputtha I, Xu J-C, Li Y-J (2020) Taxonomy and phylogenetic appraisal of Spegazzinia musae sp. nov. and S. deightonii (Didymosphaeriaceae, Pleosporales) on Musaceae from Thailand. MycoKeys 70: 19-37. https://doi.org/10.3897/mycokeys.70.52043
Figure 3 Spegazzinia musae (MFLU 19-2907, holotype) a–c fungal colonies on host surface d mature conidia e conidiophore of α conidia with the mother cell f, g α conidia h–q β conidia r colony on PDA after 28 days. Scale bars: 200 μm (a–c), 20 μm (d–g, j), 10 μm (h, i, k–q).
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.