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Fig. 6 in Hiding in plain sight: Integrative analyses uncover a cryptic Salvia species in Europe
Fig. 6. The dated species tree of the studied Salvia L. taxa based on the best model of species delimitation as inferred by SNAPP. Blue bars represent 95% confidence intervals. The geological time chart below the chronogram is presented according to the International Union of Stratigraphy.
Cryptic and extensive hybridization between ancient lineages of American crows
<p><span>Most species and therefore most hybrid zones have historically been defined using phenotypic characters. However, both speciation and hybridization can occur with negligible morphological differentiation. Recently developed genomic tools provide the means to better understand cryptic speciation and hybridization. The Northwestern Crow (</span><i><span>Corvus caurinus</span></i><span>) and American Crow (</span><i><span>Corvus brachyrhynchos</span></i><span>) are continuously distributed sister taxa that lack reliable traditional characters for identification. In this first population genomic study of Northwestern and American crows, we use genomic SNPs (nuDNA) and mtDNA to investigate the degree of genetic differentiation between these crows and the extent to which they may hybridize. Our results indicate that American and Northwestern crows have distinct evolutionary histories, supported by two nuDNA ancestry clusters and two 1.1%-divergent mtDNA clades dating to the late Pleistocene, when glacial advances may have isolated crow populations in separate refugia. We document extensive hybridization, with geographic overlap of mtDNA clades and admixture of nuDNA across </span><span><span>>900 km</span></span><span> of western Washington and western British Columbia. This broad hybrid zone consists of late-generation hybrids and backcrosses, but not recent (e.g., F1) hybrids. </span><span><span>Nuclear DNA and mtDNA clines had concordant widths and were both centered in southwestern British Columbia, farther north than previously postulated.</span></span><span> Overall, our results suggest a history of reticulate evolution in American and Northwestern crows, perhaps due to recurring neutral expansion(s) from Pleistocene glacial refugia followed by lineage fusion(s). However, we do not rule out a contributing role for more recent potential drivers of hybridization, such as expansion into human-modified habitats.</span></p>
Data from: Andriollo T., Michaux J.R., Ruedi M. (2021). Food for everyone: differential feeding habits of cryptic bat species inferred from DNA metabarcoding. Molecular Ecology
<p><strong>Supporting data for:</strong> Andriollo T., Michaux J.R., Ruedi M. (2021). Food for everyone: differential feeding habits of cryptic bat species inferred from DNA metabarcoding. Molecular Ecology. https://doi.org/ 10.1111/mec.16073</p> <p>Raw DNA sequences of prey of <em>Plecotus auritus</em>, <em>P. austriacus</em> and <em>P. macrobullaris</em> with complete sampling information and taxonomic assignations. Data separated by semicolums as follows:</p> <p>Sample name; Dataset; Colony; Bat species; Date; Season; Read numbers (Size); DNA sequence; Lowest taxonomic identification (ID_MOTU); Family; Order; Class; Is the sequence attributable to the diet or not (Diet)</p>
Cryptic Diversity in Cladosporium cladosporioides Resulting from Species Delimitation Analysis
<p><strong>Concatenated loci alignment (.fasta), Maximum-Likelihood, Maximum-Parsimony and Bayesian reconstruction of <em>Cladosporium cladosporioides</em> phylogeny. </strong></p> <p>Files represent dataset of the study: "Cryptic Diversity in Cladosporium cladosporioides Resulting from Species Delimitation Analysis"</p> <p> </p> <p>ABSTRACT</p> <p>Establishing a stable taxonomy is particularly important for understanding fungal biodiversity, as well as the evolution of particular traits related to symbiotic interactions. <em>Cladosporium cladosporioides </em>is an extremely widespread fungus involved in associations ranging from mutualistic to pathogenic, and is the most represented <em>Cladosporium</em> species in genetic sequence databases, such as Genbank. Although the taxonomy of <em>Cladosporium</em> species is subjected to frequent revisions, which nowadays mostly rely on molecular data, few studies explored cryptic diversity of this genus using the recently developed species delimitation methods. Considering a previous study which reported several hypothetical species within <em>C. cladosporioides</em>, here we try to fill the gap of knowledge about phylogenetic relationships for this species and tested four different methods of species delimitation using the combined DNA barcodes ITS, <em>translation elongation factor 1</em> and <em>actin</em>. The analyses involved 105 isolates revealing that currently available sequences of <em>C. cladosporioides</em> in GenBank actually represent more than one species. Moreover, we reported the erroneous taxonomical assignment of several isolates that should be ascribed to <em>C. anthropophilum</em>. Our results revealed a certain degree of discordance among species delimitation methods, which can be efficiently treated using conservative approaches, in order to minimize the risk of considering false positives.</p>
Figures 696–706. Prodilis spp. 696–700 in South American Coccinellidae (Coleoptera), Part XVII: systematic revision of Western Hemisphere Cephaloscymnini (Coccinellinae) with description of a cryptic new genus and species of Coccidulini (Coccinellinae)
Figures 696–706. Prodilis spp. 696–700) Prodilis araguaensis 696) Habitus. 697) Frons. 698) Phallobase ventral. 699) Phallobase lateral. 700) Sipho. 701–706) Prodilis bartletti 701) Habitus. 702) Basal abdominal ventrites. 703) Frons. 704) Phallobase ventral. 705) Phallobase lateral. 706) Sipho.
Figures 686–695. Prodilis spp. 686–687 in South American Coccinellidae (Coleoptera), Part XVII: systematic revision of Western Hemisphere Cephaloscymnini (Coccinellinae) with description of a cryptic new genus and species of Coccidulini (Coccinellinae)
Figures 686–695. Prodilis spp. 686–687) Prodilis guatemalana 686) Habitus. 687) Frons. 688–689) Prodilis dubitalis 688) Habitus. 689) Frons. 690–695) Prodilis pecki 690) Habitus. 691) Basal abdominal ventrites. 692) Frons. 693) Phallobase ventral. 694) Phallobase lateral. 695) Basal portion of sipho.
Figures 642–658. Prodilis spp. 642–647 in South American Coccinellidae (Coleoptera), Part XVII: systematic revision of Western Hemisphere Cephaloscymnini (Coccinellinae) with description of a cryptic new genus and species of Coccidulini (Coccinellinae)
Figures 642–658. Prodilis spp. 642–647) Prodilis alberta 642) Habitus. 643) Basal abdominal ventrites. 644) Frons. 645) Phallobase ventral. 646) Phallobase lateral. 647) Sipho. 648–652) Prodilis monique 648) Habitus. 649) Basal abdominal ventrites. 650) Frons. 651) Phallobase ventral. 652) Phallobase lateral. 653–658) Prodilis jodi 653) Habitus. 654) Basal abdominal ventrites. 655) Frons. 656) Phallobase ventral. 657) Phallobase lateral. 658) Sipho.
Figures 676–685. Prodilis spp. 676–677 in South American Coccinellidae (Coleoptera), Part XVII: systematic revision of Western Hemisphere Cephaloscymnini (Coccinellinae) with description of a cryptic new genus and species of Coccidulini (Coccinellinae)
Figures 676–685. Prodilis spp. 676–677) Prodilis cribrata 676) Habitus. 677) Frons. 678–681) Prodilis unipunctata 678) Habitus. 679) Basal abdominal ventrites. 680) Frons. 681) Female spermathecal capsule. 682–685) Prodilis pubescens 682) Habitus. 683) Basal abdominal ventrites. 684) Frons. 685) Female spermathecal capsule.
Figures 659–675. Prodilis spp. 659–664 in South American Coccinellidae (Coleoptera), Part XVII: systematic revision of Western Hemisphere Cephaloscymnini (Coccinellinae) with description of a cryptic new genus and species of Coccidulini (Coccinellinae)
Figures 659–675. Prodilis spp. 659–664) Prodilis janie 659) Habitus. 660) Basal abdominal ventrites. 661) Frons. 662) Phallobase ventral. 663) Phallobase lateral. 664) Sipho. 665–670) Prodilis maggie 665) Habitus. 666) Basal abdominal ventrites. 667) Frons. 668) Phallobase ventral. 669) Phallobase lateral. 670) Sipho. 671–675) Prodilis sonya 671) Habitus. 672) Basal abdominal ventrite. 673) Frons. 674) Phallobase ventral. 675) Phallobase lateral.
Figures 626–641. Prodilis spp. 626–631 in South American Coccinellidae (Coleoptera), Part XVII: systematic revision of Western Hemisphere Cephaloscymnini (Coccinellinae) with description of a cryptic new genus and species of Coccidulini (Coccinellinae)
Figures 626–641. Prodilis spp. 626–631) Prodilis lola 626) Habitus. 627) Basal abdominal ventrites. 628) Frons. 629) Phallobase ventral. 630) Phallobase lateral. 631) Sipho, apex lost. 632–636) Prodilis amelia 632) Habitus. 633) Basal abdominal ventrites. 634) Frons. 635) Phallobase ventral. 636) Phallobase lateral. 637–641) Prodilis inez 637) Habitus. 638) Basal abdominal ventrite. 639) Frons. 640) Phallobase ventral. 641) Phallobase lateral.
Figures 333–350. Prodilis spp. 333–338 in South American Coccinellidae (Coleoptera), Part XVII: systematic revision of Western Hemisphere Cephaloscymnini (Coccinellinae) with description of a cryptic new genus and species of Coccidulini (Coccinellinae)
Figures 333–350. Prodilis spp. 333–338) Prodilis sherri 333) Habitus. 334) Basal abdominal ventrites. 335) Frons. 336) Phallobase ventral. 337) Phallobase lateral. 338) Sipho. 339–344) Prodilis erika 339) Habitus. 340) Basal abdominal ventrites. 341) Frons. 342) Phallobase ventral. 343) Phallobase lateral. 344) Sipho. 345–350) Prodilis katrina 345) Habitus. 346) Basal abdominal ventrites. 347) Frons. 348) Phallobase lateral. 349) Phallobase lateral. 350) Sipho.
Figures 559–574. Prodilis spp. 559–564 in South American Coccinellidae (Coleoptera), Part XVII: systematic revision of Western Hemisphere Cephaloscymnini (Coccinellinae) with description of a cryptic new genus and species of Coccidulini (Coccinellinae)
Figures 559–574. Prodilis spp. 559–564) Prodilis melody 559) Habitus. 560) Basal abdominal ventrites. 561) Frons. 562) Phallobase ventral. 563) Phallobase lateral. 564) Sipho. 565–570) Prodilis bipunctata 565) Habitus. 566) Basal abdominal ventrites. 567) Frons. 568) Phallobase ventral. 569) Phallobase lateral. 570) Sipho. 571– 574) Prodilis compta 571) Habitus. 572) Basal abdominal ventrites. 573) Frons. 574) Phallobase ventral.
Figures 608–625. Prodilis spp. 608–613 in South American Coccinellidae (Coleoptera), Part XVII: systematic revision of Western Hemisphere Cephaloscymnini (Coccinellinae) with description of a cryptic new genus and species of Coccidulini (Coccinellinae)
Figures 608–625. Prodilis spp. 608–613) Prodilis lynda 608) Habitus. 609) Basal abdominal ventrites. 610) Frons. 611) Phallobase ventral. 612) Phallobase lateral. 613) Sipho. 614–619) Prodilis madeline 614) Habitus. 615) Basal abdominal ventrites. 616) Frons. 617) Phallobase ventral 618) Phallobase lateral. 619) Sipho. 620–625) Prodilis mamie 620) Habitus. 621) Basal abdominal ventrites. 622) Frons. 623) Phallobase ventral. 624) Phallobase lateral. 625) Sipho.
Figures 508–524. Prodilis spp. 508–513 in South American Coccinellidae (Coleoptera), Part XVII: systematic revision of Western Hemisphere Cephaloscymnini (Coccinellinae) with description of a cryptic new genus and species of Coccidulini (Coccinellinae)
Figures 508–524. Prodilis spp. 508–513) Prodilis cecilia 508) Habitus. 509) Basal abdominal ventrites. 510) Frons. 511) Phallobase ventral. 512) Phallobase lateral. 513) Basal portion of sipho. 514–518) Prodilis molly 514) Habitus. 515) Basal abdominal ventrite. 516) Frons. 517) Phallobase ventral. 518) Phallobase lateral. 519–524) Prodilis kristi 519) Habitus. 520) Basal abdominal ventrites. 521) Frons. 522) Phallobase ventral. 523) Phallobase lateral. 524) Basal portion of sipho.
Figures 423–439. Prodilis spp. 433–427 in South American Coccinellidae (Coleoptera), Part XVII: systematic revision of Western Hemisphere Cephaloscymnini (Coccinellinae) with description of a cryptic new genus and species of Coccidulini (Coccinellinae)
Figures 423–439. Prodilis spp. 433–427) Prodilis ada 423) Habitus. 424) Basal abdominal ventrites. 425) Frons. 426) Phallobase ventral. 427) Phallobase lateral. 428– 433) Prodilis natasha 428) Habitus. 429) Basal abdominal ventrites. 430) Frons. 431) Phallobase ventral. 432) Phallobase ventral. 433) Sipho. 424–439) Prodilis susie 434) Habitus. 435) Frons. 436) Phallobase ventral. 437) Phallobase lateral. 438) Sipho. 439) Female spermathecal capsule.
Figures 491–507. Prodilis spp. 491–496 in South American Coccinellidae (Coleoptera), Part XVII: systematic revision of Western Hemisphere Cephaloscymnini (Coccinellinae) with description of a cryptic new genus and species of Coccidulini (Coccinellinae)
Figures 491–507. Prodilis spp. 491–496) Prodilis isabel 491) Habitus. 492) Basal abdominal ventrites. 493) Frons. 494) Phallobase ventral. 495) Phallobase lateral. 496) Basal portion of sipho. 497–501) Prodilis hattie 497) Habitus. 498) Basal abdominal ventrites. 499) Frons. 500) Phallobase ventral. 501) Phallobase lateral. 502–507) Prodilis harriet 502) Habitus. 503) Basal abdominal ventrites. 504) Frons. 505) Phallobase ventral. 506) Phallobase lateral. 507) Sipho.
Figures 177–190. Neaporia spp. 177–181 in South American Coccinellidae (Coleoptera), Part XVII: systematic revision of Western Hemisphere Cephaloscymnini (Coccinellinae) with description of a cryptic new genus and species of Coccidulini (Coccinellinae)
Figures 177–190. Neaporia spp. 177–181) Neaporia priscilla 177) Habitus. 178) Frons. 179) Phallobase ventral. 180) Phallobase lateral. 181) Sipho. 182–186) Neaporia naomi 182) Habitus. 183) Frons. 184) Phallobase ventral. 185) Phallobase lateral. 186) Sipho. 187–190) Neaporia carole 187) Habitus. 188) Frons. 189) Phallobase ventral. 190) Phallobase lateral.
Figures 149–161. Neaporia spp. 149–153 in South American Coccinellidae (Coleoptera), Part XVII: systematic revision of Western Hemisphere Cephaloscymnini (Coccinellinae) with description of a cryptic new genus and species of Coccidulini (Coccinellinae)
Figures 149–161. Neaporia spp. 149–153) Neaporia viridiscens 149) Habitus. 150) Frons. 151) Phallobase ventral. 152) Phallobase lateral. 153) Sipho. 154–158) Neaporia cassandra 154) Habitus. 155) Frons. 156) Phallobase ventral. 157) Phallobase lateral. 158) Sipho. 159–161) Neaporia leah 159) Habitus. 160) Frons. 161) Phallobase lateral.
Figures 82–95. Neaporia spp. 82–87 in South American Coccinellidae (Coleoptera), Part XVII: systematic revision of Western Hemisphere Cephaloscymnini (Coccinellinae) with description of a cryptic new genus and species of Coccidulini (Coccinellinae)
Figures 82–95. Neaporia spp. 82–87) Neaporia marsha 82) Habitus. 83) Abdomen. 84) Pro and mesosternum. 85) Phallobase ventral. 86) Phallobase lateral. 87) Sipho. 88) Neaporia coelestis 88) Habitus. 88a) Prosternum. 88b) Frons. 88c) Phallobase ventral. 88d) Phallobase lateral. 88e) Sipho. 89–95) Neaporia myrtle 89) Habitus. 90) Abdomen. 91) Frons. 92) Pro and mesosternum. 93) Phallobase ventral. 94) Phallobase lateral. 95) Sipho.
Figures 29–44. Cephaloscymnus spp. 29–33 in South American Coccinellidae (Coleoptera), Part XVII: systematic revision of Western Hemisphere Cephaloscymnini (Coccinellinae) with description of a cryptic new genus and species of Coccidulini (Coccinellinae)
Figures 29–44. Cephaloscymnus spp. 29–33) Cephaloscymnus laevis. 29) Habitus. 30) Frons. 31) Phallobase ventral. 32) Phallobase lateral. 33) Sipho. 34–39) Cephaloscymnus beulah. 34) Habitus. 35) Basal abdominal ventrite. 36) Frons. 37) Phallobase ventral. 38) Phallobase lateral. 39) Sipho. 40–44) Cephaloscymnus insulatus. 40) Habitus. 41) Frons. 42) Phallobase ventral. 43) Phallobase lateral. 44) Sipho.
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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.