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FIGURE 209. ITS2 gene tree. Collection stop numbers for G in Crickets of the genus Gryllus in the United States (Orthoptera: Gryllidae: Gryllinae)
FIGURE 209. ITS2 gene tree. Collection stop numbers for G. lightfooti samples (orange): S07-61 (G1099, G1206); S07-66 (G1218); S07-67 (G1222); S07-68 (G1133); S09-55 (G1369); S12-19 (G2253); S12-102 (G2404); S12-103 (G2414); S13-13 (G2518, G2528); S13-16 (G2480, G2513, G2519, G2520); S13-18 (G2484, G2696); S13-19 (G2505, G2527, G2533, G2592); S15-49 (G3104); S15-75 (G3061, G3063); S15-100 (G3340); S15-104 (G3328); S15-105 (G3317, G3332); S15-109 (G3333); S15-110 (G3214, G3228, G3235, G3236, G3237); S16-24 (G3435, G3445, G3448, G3450); S16-31 (G3438, G3444); S16- 33 (G3443). Collection stop numbers for G. sotol samples (purple): S15-77 (G3295); S17-4 (G3493, G3497, G3503, G3505, G3508, G3509, G3510, G3511). Collection stop numbers for G. transpecos samples (blue): S07-36 (G1081); S09-64 (G1370, G1384, G1393); S15-61 (G3189, G3279, G3346); S15-64 (G3314, G3348, G3349); S15-65 (G3117, G3138, G3139, G3274, G3327); S15-68 (G3062); S15-69 (G3067); S15-72 (G3059, G3060, G3065, G3069, G3350); S16-2 (G3376, G3377, G3383, G3384, G3389, G3391); S16-3 (G3379, G3385, G3388, G3395); S16-7 (G3375); S16-8 (G3368, G3417); S16-9 (G3396); S16- 10 (G3369); S16-12 (G3398); S16-14 (G3380). Note the two ITS2 clades of G. sotol.
FIGURE 224. ITS2 gene tree. Collection stop numbers for G in Crickets of the genus Gryllus in the United States (Orthoptera: Gryllidae: Gryllinae)
FIGURE 224. ITS2 gene tree. Collection stop numbers for G. longicercus samples: S09-64 (G1388, G1395); S11-93 (G2175, G2176); S12-23 (G2245, G2247, G2260, G2261); S15-52 (G3086, G3276); S15-56 (G3160, G3179); S15-63 (G3149, G3223, G3303); S15-77 (G3177); S15-110 (G3213); S16-2 (G3418); S16-4 (G3386, G3390, G3392, G3401, G3453); S17-4 (G3522, G3523, G3528). Collection stop numbers for G. vulcanus samples: S07-46 (G1030, G1032, G1033); S07-52 (G1050, G1146); type locality (2016-025).
FIGURE 157. ITS2 gene tree. G in Crickets of the genus Gryllus in the United States (Orthoptera: Gryllidae: Gryllinae)
FIGURE 157. ITS2 gene tree. G. cohni samples: S95-81 (G102); S14-53, 20 km S Mazatlán, Mexico (G2756, G2757, G2776, G2843, G2844, G2846); S15-107 (G3248); S15-108 (G3217); Cordes Junction, Yavapai Co., AZ (2003-294, 2003-295A); Bloody Basin x Pueblo la Plata, Agua Fria National Monument, Yavapai Co., AZ (2006-248). G. vocalis samples: S05-68 (G487); S05- 99 (G505); S11-102 (G2185); S12-20 (G2244); S12-26 (G2265); S13-13 (G2531); S13-14 (G2479); S13-16 (G2481); S15-110 (G3215); S15-111 (G3219, G3224, G3227, G3290, G3291); S16-18 (G3405); S16-28 (G3423); Wet Beaver Creek Campground, Yavapai Co., AZ (2007-172, 2007-174); California State University Northridge, Los Angeles Co., CA (2016-043). G. alogus, type locality, Albuquerque, NM (G3335, G3337).
FIGURE 191. ITS2 gene tree. Collection stop numbers for G in Crickets of the genus Gryllus in the United States (Orthoptera: Gryllidae: Gryllinae)
FIGURE 191. ITS2 gene tree. Collection stop numbers for G. chisosensis: S07-36 (G1192); S16-13 (G3399, G3400). Collection stop numbers for G. veletisoides: S03-21 (G9, G10); S03-23 (G11); S06-30 (G540, G541, G566); S12-41 (G2252); S15-81 (G3167, G3174, 2016-044).
FIGURE 104. 16S gene tree with G in Crickets of the genus Gryllus in the United States (Orthoptera: Gryllidae: Gryllinae)
FIGURE 104. 16S gene tree with G. integer samples in blue and G. armatus samples in purple. Locality information follows all ID numbers. Note the two 16S clades within G. armatus.
FIGURE 98. ITS2 gene tree and distribution map for both G. armatus and G in Crickets of the genus Gryllus in the United States (Orthoptera: Gryllidae: Gryllinae)
FIGURE 98. ITS2 gene tree and distribution map for both G. armatus and G. integer showing both geographic separation and zone of possible hybridization. Collection stop numbers for G. armatus: S04-121 (G358, G359); S05-110 (G511, G512, G513, G515); S07-26 (G1165); S07-33 (G1077); S07-79 (G1228); S10-62 (G1918); S10-63 (G1899); S11-90 (G2172); S12- 36 (G2264); S12-104 (G2411); S13-18 (G2473); S13-46 (G2566); S15-54 (G3096, G3077, G3081); S15-71 (G3101, G3074); S15-73 (G3072); Albuquerque, NM (2003-175); Cordes Junction, AZ (2006-241); Agua Fria, AZ (2006-244). Collection stop numbers for G. integer: S03-100 (G58, G59); S04-36 (G243); S04-40 (G210); S0455 (G245, G246); S04-60 (G218); S04-128 (G370); S05-23 (G477); S05-99 (G499); S06-77 (G629); S09-109 (G1439); S09-114 (G1441, G1445); S11-72 (G2113, G2148); S11-73 (G2143); S12-116 (G2431); S15-80 (G3195, G3316); S15-91 (G3178, G3265); S15-95 (G3292); S16-21 (G3416); S17-6 (G3502, G3525); S16-5 (G3374, G3381); S16-12 (G3366); Hwy 276 mile 30 Sinclair Gas, Garfield Co., UT (2003-038, 2003-039, 2003-041); Winslow, AZ (2003-312, 2012-029, 2012-030, 2012-031, 2012-032).
FIGURE 122. 16S gene tree and distribution map showing two 16S Clades for both G. vernalis and G in Crickets of the genus Gryllus in the United States (Orthoptera: Gryllidae: Gryllinae)
FIGURE 122. 16S gene tree and distribution map showing two 16S Clades for both G. vernalis and G. fultoni (the latter situation is discussed, below, under G. fultoni). G. vernalis samples: S03-56 (G26, G27, G1740); S03-57 (G28, G1700, G1701, G1738); S03-62 (G31, G33, G440); S14-35 (G2754, G2755). G. fultoni samples: S01-47 (G1704); S03-56 (G38, G1703); S03- 62 (G32, G34); S03-64 (G35, G1712); S07-22 (G1020, G1138).
FIGURE 73. ITS2 gene tree. G in Crickets of the genus Gryllus in the United States (Orthoptera: Gryllidae: Gryllinae)
FIGURE 73. ITS2 gene tree. G. rubens samples: Orlando, FL (F122); Lake City & Ocala, FL (Genbank SRA, Berdan et al. 2016); G. regularis samples: S07-2 (G1101); S07-41 (G1085); S15-67 (G3154); S15-102 (G3280); G. texensis samples: S15-43 (G3048); S16-12 (G3382, G3403, G3404, G3421); Uvalde, TX (d102); Bastrop, TX (d1042).
FIGURE 62. ITS2 gene tree. G in Crickets of the genus Gryllus in the United States (Orthoptera: Gryllidae: Gryllinae)
FIGURE 62. ITS2 gene tree. G. assimilis samples: S10-64 (G1901); S16-12 (G3367, G3373); G. multipulsator sample: S03- 41 (G577); 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).
Fig. 2 Coalescent tree reconstruction for all concatenated genes. Only posterior probabilities higher than 0.95 in A multigene phylogeny demonstrates that Tuber aestivum and Tuber uncinatum are conspecific
Fig. 2 Coalescent tree reconstruction for all concatenated genes. Only posterior probabilities higher than 0.95 are indicated. The tree is rooted with MAC (T. macrosporum) and MAG (T. magnatum)
FIG. 6. A majority-rule consensus gene tree reconstructed from mtDNA cytochrome oxidase 1 in Redescription and Recognition of Etheostoma cyanorum from Blue River, Oklahoma
FIG. 6. A majority-rule consensus gene tree reconstructed from mtDNA cytochrome oxidase 1 (CO1) sequence data obtained from the Barcode of Life Database (BOLD). Maximum-likelihood (ML) and Bayesian trees had identical topologies. Branch lengths are proportional to inferred mutations. Shading of lineages represents samples from E. whipplei (outgroup) in black, E. cyanorum in gray, and E. radiosum in white. ML bootstrap proportions/ Bayesian posterior probabilities are reported. See Data Accessibility for tree file.
Fig. 9 Single gene trees and haplotype networks. a, b in Two new bioluminescent Henlea from Siberia and lack of molecular support for Hepatogaster (Annelida, Clitellata, Enchytraeidae)
Fig. 9 Single gene trees and haplotype networks. a, b Gene-trees (a COI, b H3) estimated with Bayesian coalescent analysis in BEAST. Numbers above branches are posterior probabilities. Scales show expected numbers of substitution per site. The specimen shaded in red has a conflict between morphology and COI data. c, d Statistical parsimony
Supplementary phylogenetic trees of Babesia bigemina based on partial sequences of both genes Rap-1a and gp45, with SH-aLRT support values (%), aBayes support, and ultrafast bootstrap support (%).
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FIGURE 1 in South American Fomitiporia (Hymenochaetaceae, Basidiomycota) 'jump on' exotic living trees revealed by multi-gene phylogenetic analysis
FIGURE 1. One of the five 50% majority-rule consensus trees from Bayesian inference of combined ITS, nLSU and tef1-α sequences. BPP is shown above branches. Brown boxes shows two sister clades: Fomitiporia neotropica and Fomitiporia impercepta, clustered together (BPP=0.77). Exotic trees are noted in red and native trees in green. T=type, ARG=Argentina, GUF=French Guiana, BRA=Brasil.
FIGURE 2 in South American Fomitiporia (Hymenochaetaceae, Basidiomycota) 'jump on' exotic living trees revealed by multi-gene phylogenetic analysis
FIGURE 2. Fomitiporia impercepta (CORDC00005289): a. pore surface; b. tube layers. Fomitiporia neotropica (CORDC00005290): c. pore surface; d. tube layers.
FIGURE 4. Maximum likelihood tree showing the seven Moraceae tribes. Unlabeled nodes had 100 in Delimitation of the new tribe Parartocarpeae (Moraceae) is supported by a 333- gene phylogeny and resolves tribal level Moraceae taxonomy
FIGURE 4. Maximum likelihood tree showing the seven Moraceae tribes. Unlabeled nodes had 100% bootstrap support in both analyses. Labeled nodes show support from maximum likelihood analysis, with support from the ASTRAL species tree reconciliation in parentheses.
FIGURE 7 in Combined multi-gene backbone tree for the genus Coniochaeta with two new species from Uzbekistan
FIGURE 7. Coniochaeta coluteae (from isotype culture MFLUCC 17-2299) a. Culture on MEA from above after 4 weeks. b. Culture on MEA from below after 4 weeks. c, d. Hyphal strands on the culture. e–j. Conidiogenous cells on hyphal cells (arrow heads: conidiogenesis). k. Conidia. Scale bars: c,d=200 μm, e–k=5 μm.
FIGURE 6 in Combined multi-gene backbone tree for the genus Coniochaeta with two new species from Uzbekistan
FIGURE 6. Coniochaeta coluteae (holotype TASM 6104) a, b. Ascomata on the substrate. c, d. Vertical section of ascoma. e, f. Ostiole. g. Section of peridium (in water). h. Section of peridium (in 5% KOH). i. Paraphyses. j. Ascus apex in Congo Red. k. Ascospores. l–n. Asci (arrowheads show germ slits in n). Scale bars: a=500 μm, b=200 μm, c=100 μm, d=50 μm, e, f=20 μm, g–i, l–n=10 μm, j, k=5 μm.
FIGURE 3 in Combined multi-gene backbone tree for the genus Coniochaeta with two new species from Uzbekistan
FIGURE 3. Results of the PHI test of closely related species (a C. acaciae, b C. coluteae) using both LogDet transformation and splits decomposition. New species described in this study are indicated in red, type strains are in boldface.
FIGURE 5 in Combined multi-gene backbone tree for the genus Coniochaeta with two new species from Uzbekistan
FIGURE 5. Coniochaeta acaciae (from isotype culture MFLUCC 17-2298) a. Culture on MEA from above after 4 weeks. b. Culture on MEA from below after 4 weeks. c. Hyphal strands on the culture. d–i. Conidiogenous cells on hyphal cells. j. Conidia. Scale bars: c=200 μm, d–j=5 μm.
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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.