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152 results for “ITS2”
Figure 5 from: Jürgenstein S, Kurina O, Põldmaa K (2015)) The Mycetophila ruficollis Meigen (Diptera, Mycetophilidae) group in Europe: elucidating species delimitation with COI and ITS2 sequence data. ZooKeys 508: 15-51. https://doi.org/10.3897/zookeys.508.9814
Figure 5 - Consensus of most parsimonious trees calculated from combined COI and ITS2 rDNA sequence data of the Mycetophila ruficollis species group. Bootstrap support values are presented above the branches and posterior probability values below the branches. For gnats reared from fungal fruitbodies, the host is indicated.
Figure 4 from: Jürgenstein S, Kurina O, Põldmaa K (2015)) The Mycetophila ruficollis Meigen (Diptera, Mycetophilidae) group in Europe: elucidating species delimitation with COI and ITS2 sequence data. ZooKeys 508: 15-51. https://doi.org/10.3897/zookeys.508.9814
Figure 4 - Bayesian consensus tree of the COI regions of Mycetophila ruficollis species group. Posterior probability values are presented above the branches and bootstrap support values below the branches. Scale bar indicates substitutions per site. For gnats reared from fungal fruitbodies, the host is indicated.
Figures 33-38 from: Jürgenstein S, Kurina O, Põldmaa K (2015)) The Mycetophila ruficollis Meigen (Diptera, Mycetophilidae) group in Europe: elucidating species delimitation with COI and ITS2 sequence data. ZooKeys 508: 15-51. https://doi.org/10.3897/zookeys.508.9814
Figures 33-38 - Gonocoxites with aedeagal complex, dorsal view (33, 35, 37) and ventral view (34, 36, 38). 33, 34 Mycetophila britannica 35, 36 Mycetophila idonea 37, 38 Mycetophila ichneumonea. Scale bar = 0.2 mm. Abbreviations: aed = aedeagus; aed ap = aedeagal apodeme; aed gd = aedeagal guide; aed gd li = lateral impression on the aedeagal guide; ej ap = ejaculatory apodeme; ej ap b = base of ejaculatory apodeme; ej tb r = rim of ejaculatory apodeme; gc = gonocoxite; gc ai = anterior impression of gonocoxite; gc pi = posterior impression of gonocoxite; gc pm = posterior margin of gonocoxite.
Figures 45-50 from: Jürgenstein S, Kurina O, Põldmaa K (2015)) The Mycetophila ruficollis Meigen (Diptera, Mycetophilidae) group in Europe: elucidating species delimitation with COI and ITS2 sequence data. ZooKeys 508: 15-51. https://doi.org/10.3897/zookeys.508.9814
Figures 45-50 - Gonocoxites with aedeagal complex, dorsal view (45, 47, 49) and ventral view (46, 48, 50). 45, 46 Mycetophila strobli 47, 48 Mycetophila suffusala 49, 50 Mycetophila uninotata. Scale bar = 0.2 mm.
Figures 21-26 from: Jürgenstein S, Kurina O, Põldmaa K (2015)) The Mycetophila ruficollis Meigen (Diptera, Mycetophilidae) group in Europe: elucidating species delimitation with COI and ITS2 sequence data. ZooKeys 508: 15-51. https://doi.org/10.3897/zookeys.508.9814
Figures 21-26 - Ventral branch of gonostylus, ventral view (21, 23, 25) and internal view (22, 24, 26). 21, 22 Mycetophila evanida 23, 24 Mycetophila ruficollis 25, 26 Mycetophila sepulta. Scale bar = 0.05 mm.
Figures 39-44 from: Jürgenstein S, Kurina O, Põldmaa K (2015)) The Mycetophila ruficollis Meigen (Diptera, Mycetophilidae) group in Europe: elucidating species delimitation with COI and ITS2 sequence data. ZooKeys 508: 15-51. https://doi.org/10.3897/zookeys.508.9814
Figures 39-44 - Gonocoxites with/and aedeagal complex, dorsal view (39, 41, 43) and ventral view (40, 42, 44). 39, 40 Mycetophila evanida 41, 42 Mycetophila ruficollis 43, 44 Mycetophila sepulta. Scale bar = 0.2 mm.
Figures 6-14 from: Jürgenstein S, Kurina O, Põldmaa K (2015)) The Mycetophila ruficollis Meigen (Diptera, Mycetophilidae) group in Europe: elucidating species delimitation with COI and ITS2 sequence data. ZooKeys 508: 15-51. https://doi.org/10.3897/zookeys.508.9814
Figures 6-14 - Dorsal branch of gonostylus. 6 Mycetophila britannica 7 Mycetophila idonea 8 Mycetophila evanida 9 Mycetophila ichneumonea 10 Mycetophila ruficollis 11 Mycetophila sepulta 12 Mycetophila strobli 13 Mycetophila suffusala 14 Mycetophila uninotata. Scale bar = 0.1 mm. Abbreviations: ba = basal angle; bm = basal margin; lm = lateral margin; pm = posterior margin; mb = medial bristle; dpp= distal posterior process; ppp = proximal posterior process.
Figures 15-20 from: Jürgenstein S, Kurina O, Põldmaa K (2015)) The Mycetophila ruficollis Meigen (Diptera, Mycetophilidae) group in Europe: elucidating species delimitation with COI and ITS2 sequence data. ZooKeys 508: 15-51. https://doi.org/10.3897/zookeys.508.9814
Figures 15-20 - Ventral branch of gonostylus, ventral view (15, 17, 19) and internal view (16, 18, 20). 15, 16 Mycetophila britannica 17, 18 Mycetophila idonea 19, 20 Mycetophila ichneumonea. Scale bar = 0.05 mm. Abbreviations: pp = posterior process; sp = posterior spines on the ventral branch of gonostylus.
ITS2 Global database
<p>A Viridiplantae ITS2 reference database created using BCdatabaser with the following parameters:</p> <ul> <li>25 sequences per species</li> <li>sequencing length: 100 - 2000 bp</li> </ul> <p>This database was curated using a curation pipeline workflow available on GitHub.</p> <p>If you use this dataset, please cite Quaresma et al. 2024, Scientific Data, DOI: 10.1038/s41597-024-02962-5</p>
Data from: ITS1 versus ITS2 as DNA metabarcodes for fungi
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16S rRNA gene and ITS2 region amplicon sequencing of GBP5 KO mice and WT littermates
<p>16S rRNA gene (v4) and ITS2 region amplicon sequencing of fecal microbiota of GBP5 KO mice and their littermate WT mice.</p>
Data from: ITS1: a DNA barcode better than ITS2 in eukaryotes?
A DNA barcode is a short piece of DNA sequence used for species determination and discovery. The internal transcribed spacer (ITS/ITS2) region has been proposed as the standard DNA barcode for fungi and seed plants, and has been widely used in DNA barcoding analyses for other biological groups, e.g. algae, protists, and animals. The ITS region consists of both ITS1 and ITS2 regions. Here, a large scale meta-analysis was carried out to compare ITS1 and ITS2 from three aspects: PCR amplification, DNA sequencing and species discrimination, in terms of the presence of DNA barcoding gaps, species discrimination efficiency, sequence length distribution, GC content distribution and primer universality. In total, 85,345 sequence pairs in ten major groups of eukaryotes, including ascomycetes, basidiomycetes, liverworts, mosses, ferns, gymnosperms, monocotyledons, eudicotyledons, insects, and fishes, covering 611 families, 3,694 genera, and 19,060 species, were analyzed. Using similarity-based methods, we calculated species discrimination efficiencies for ITS1 and ITS2 in all major groups, families, and genera. Using Fisher's exact test, we found that ITS1 has significantly higher efficiencies than ITS2 in 17 of the 47 families and 20 of the 49 genera, which are sample-rich. By in silico PCR amplification evaluation, primer universality of the extensively applied ITS1 primers was found superior to that of ITS2 primers. Additionally, shorter length of amplification product and lower GC content were discovered to be two other advantages of ITS1 for sequencing. In summary, ITS1 represents a better DNA barcode than ITS2 for eukaryotic species.
Figure 4 from: Stahls G, Haarto A (2014) When mtDNA COI is misleading: congruent signal of ITS2 molecular marker and morphology for North European Melanostoma Schiner, 1860 (Diptera, Syrphidae). ZooKeys 431: 93-134. https://doi.org/10.3897/zookeys.431.7207
Figure 4 - Antenna. A Melanostoma scalare, male and B Melanostoma certum, male.
Figure 16 from: Stahls G, Haarto A (2014) When mtDNA COI is misleading: congruent signal of ITS2 molecular marker and morphology for North European Melanostoma Schiner, 1860 (Diptera, Syrphidae). ZooKeys 431: 93-134. https://doi.org/10.3897/zookeys.431.7207
Figure 16 - Lateral view of male scutum. A Melanostoma mellinum and B Melanostoma certum.
Figure 15 from: Stahls G, Haarto A (2014) When mtDNA COI is misleading: congruent signal of ITS2 molecular marker and morphology for North European Melanostoma Schiner, 1860 (Diptera, Syrphidae). ZooKeys 431: 93-134. https://doi.org/10.3897/zookeys.431.7207
Figure 15 - Frons of female. A Melanostoma mellinum and B Melanostoma certum.
Figure 1 from: Stahls G, Haarto A (2014) When mtDNA COI is misleading: congruent signal of ITS2 molecular marker and morphology for North European Melanostoma Schiner, 1860 (Diptera, Syrphidae). ZooKeys 431: 93-134. https://doi.org/10.3897/zookeys.431.7207
Figure 1 - Shape of metasternum. A Melanostoma mellarium and B Platycheirus podagratus.
Data from: ITS1: a DNA barcode better than ITS2 in eukaryotes?
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FIGURE 27. ITS2 in Crickets of the genus Gryllus in the United States (Orthoptera: Gryllidae: Gryllinae)
FIGURE 27. ITS2 gene tree showing some separation between Padre Island and Boca Chica samples of G. thinos.
FIGURE 57. ITS2 gene tree. G in Crickets of the genus Gryllus in the United States (Orthoptera: Gryllidae: Gryllinae)
FIGURE 57. ITS2 gene tree. G. veintinueve samples: S02-39 (G134); S07-21 (G1139); S07-27 (G1140, G1211); S09-71 (G1451); OK, Love Co., Hwy 32 at Boggy Creek (2015-055). G. vernalis samples: S03-56 (G27, G1739); S03-62 (G31, G33). G. fultoni samples: S03-62 (G32, G34); S03-64 (G35), S07-22 (G1138). G. veletis samples: S03-58 (G39); S03-60 (G30); S15-9 (G2939); S15-16 (G2927, G2934); S15-21 (G2899); S15-24 (G2936); S15-25 (G2963, G2968, G2983); S15-53 (G3304, G3343).
FIGURE 54. ITS2 gene tree. G in Crickets of the genus Gryllus in the United States (Orthoptera: Gryllidae: Gryllinae)
FIGURE 54. ITS2 gene tree. G. multipulsator sample: S03-41 (G577); G. assimilis samples: S10-64 (G1901); S16-12 (G3367, G3373); G. locorojo sample: type locality (Rainbow Mealworms); G. veintinueve samples: S02-39 (G134); S07-21 (G1139); S07-27 (G1140, G1211); S09-71 (G1451); OK, Love Co., Hwy 32 at Boggy Creek (2015-055).
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