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Statistical Methods for Identifying Sequence Motifs Affecting Point Mutations
<p>Scripts and derived data for the indicated paper. Links to the <a href="https://zenodo.org/record/1204695">original data</a> and <a href="https://zenodo.org/record/3497585">library source code</a> used to generate this material. Inflate the ENU_mutation_classification.tar.gz archive, remove the ENU_mutation_classification/classifier directory (this will be replaced). Move all others archives into the ENU_mutation_classification directory and inflate them.</p>
Figs.: 1–4. Nectarinella manauara sp. nov. (1) Head, anterior view; (2) posterior view, red arrow points to vestigial occipital carina; (3) mesosoma, dorsal view, (4) lateral view; (5) head of N. championi, posterior view, red arrow points to vestigial occipital carina; (6) head of paratype of N. xavantinensis, anterior view; approximately same scale as (5). in Nectarinella manauara, new species and record of the genus from Brazilian Amazonia (Hymenoptera, Vespidae, Polistinae)
Figs.: 1–4. Nectarinella manauara sp. nov. (1) Head, anterior view; (2) posterior view, red arrow points to vestigial occipital carina; (3) mesosoma, dorsal view, (4) lateral view; (5) head of N. championi, posterior view, red arrow points to vestigial occipital carina; (6) head of paratype of N. xavantinensis, anterior view; approximately same scale as (5).
Text-fig. 2. Eospondylus primigenius (STÜRTZ) Bundenbach, Eschenbach-Bocksberg quarry, Lower Devonian, Lower Emsian (Zlichovian), Hunsrück Slate,, NM S 4764, x 3. Specimen with ventral arm coiling. The specimen is on its dorsum in slate with all five rays curled ventrally inward toward mouth area on underside of disk. Barely visible are tips of two jaws; slightly exposed are proximal parts of rays in oral view extending outward from disk. The location of abrupt ventral bending of rays is indicated by emergence from slate of five rays in aboral view that point inward toward buried disk. Based on ventral bending of rays and intimate association with crinoids Eospondylus has been interpreted as stratigraphic first occurrence of Order Euryalida, which contains epizoic gorgonocephalid and euryalid basket-stars of modern oceans. This status is rejected using new evidence from isolated vertebrae. [Photo by Alexander Glass]. in Isolated Ossicles Of The Family Eospondylidae Spencer Wright, 1966, In The Lower Devonian Of Bohemia (Czech Republic) And Correction Of The Systematic Position Of Eospondylid Brittlestars (Echinodermata: Ophiuroidea: Oegophiurida)
Text-fig. 2. Eospondylus primigenius (STÜRTZ) Bundenbach, Eschenbach-Bocksberg quarry, Lower Devonian, Lower Emsian (Zlichovian), Hunsrück Slate,, NM S 4764, x 3. Specimen with ventral arm coiling. The specimen is on its dorsum in slate with all five rays curled ventrally inward toward mouth area on underside of disk. Barely visible are tips of two jaws; slightly exposed are proximal parts of rays in oral view extending outward from disk. The location of abrupt ventral bending of rays is indicated by emergence from slate of five rays in aboral view that point inward toward buried disk. Based on ventral bending of rays and intimate association with crinoids Eospondylus has been interpreted as stratigraphic first occurrence of Order Euryalida, which contains epizoic gorgonocephalid and euryalid basket-stars of modern oceans. This status is rejected using new evidence from isolated vertebrae. [Photo by Alexander Glass].
Fig. 1 in Impact of host plant resistance on emergence, body parameters, and supercooling point of Cylas formicarius elegantulus (Coleoptera: Brentidae)
Fig. 1. Daily (Mean ± SE) sweetpotato weevil emergence 30 d afer oviposition from individual storage roots of sweetpotato cultivars 'Beauregard,' 'Evangeline,' and 'Murasaki.'
Fig. 12 in Shelly fossils from the lower Cambrian White Point Conglomerate, Kangaroo Island, South Australia
Fig. 12. Shell microstructures of Cordatia erinae Brock and Claybourn gen. et sp. nov. from the lower Cambrian White Point Conglomerate, Kangaroo Island, South Australia. A. SAM P57308, ventral valve in oblique internal view (A1); A2–A4, details of laminar shell microstructure. B. SAM P57309, dorsal valve in oblique internal view (B1); B2, detail of laminar shell microstructure. C. SAM P57310, shell fragment in oblique internal view (C1); C2, detail of laminar shell microstructure.
Fig. 8 in Shelly fossils from the lower Cambrian White Point Conglomerate, Kangaroo Island, South Australia
Fig. 8. The lingulid brachiopod Curdus pararaensis Holmer and Ushatinskaya in Gravestock et al., 2001 from the lower Cambrian White Point Conglomerate, Kangaroo Island, South Australia. Dorsal (A, B, E, G, H) and ventral (C, D, F) valves. A. SAM P57262 in external view. B. SAM P57263 in external view. C. SAM P57264 in external (C1) and oblique (posterior) (C2) views; C3 shows external ornament of faint concentric growth lines. D. SAM P57265 in internal view. E. SAM P57266 in internal view. F. SAM P57267 in internal view. G. SAM P57268 in internal view. H. SAM P57269 in internal view.
Fig. 5 in Shelly fossils from the lower Cambrian White Point Conglomerate, Kangaroo Island, South Australia
Fig. 5. Spines of the bradoriid arthropod Mongolitubulus squamifer Missarzhevsky, 1977 from the lower Cambrian White Point Conglomerate, Kangaroo Island, South Australia. A. SAM P57227. B. SAM P57228. C. SAM P57229. D. SAM P57230. E. SAM P57231. F. SAM P57232, fragment with flared base. G. SAM P57233. H. SAM P57234, close-up of rhomboid scales.
Fig. 11 in Shelly fossils from the lower Cambrian White Point Conglomerate, Kangaroo Island, South Australia
Fig. 11. The lingulid brachiopod Cordatia erinae Brock and Claybourn gen. et sp. nov. from the lower Cambrian of South Australia, Ajax Limestone, Flinders Ranges (AJX-M/415) (A–E) and White Point Conglomerate, Kangaroo Island (F–S). Ventral (A, D, G) and dorsal (B, C, E, F, H–S) valves. A. SAM P53644, holotype in internal (A1) and oblique (A2) views; A3, detail of the delthyrium, propareas, and muscle field. B. SAM P57290 in internal view. C. SAM P57291 in external view (C1); C1, detail of the metamorphic shell. D. SAM P57292 in external view. E. SAM P57293, detail of external ornament. F. SAM P57294 in oblique internal view. G. SAM P57295 in internal view. H. SAM P57296 in external oblique view. I. SAM P57297 in external view. J. SAM P57298 in internal view. K. SAM P57299 in internal view. L. SAM P57300 in internal view. M. SAM P57301 in internal view. N. SAM P57302 in internal view. O. SAM P57303 in external view. P. SAM P57304 in external view. Q. SAM P57305 in external view. R. SAM P57306 in external view. S. SAM P57307 in external view.
Fig. 1 in Shelly fossils from the lower Cambrian White Point Conglomerate, Kangaroo Island, South Australia
Fig. 1. Map showing study area on northern Kangaroo Island, Australia. Dashed line indicates Stansbury Basin extent.
Fig. 4 in Shelly fossils from the lower Cambrian White Point Conglomerate, Kangaroo Island, South Australia
Fig. 4. The solenopleurid trilobite Trachoparia? sp. from the lower Cambrian White Point Conglomerate, Kangaroo Island, South Australia. Partial testate cranidia in dorsal views. A. SAM P57222 showing short (sag., exsag.) anterior border. B. SAM P57223 showing faint eye ridge and palpebral lobe. C. SAM P57224 showing wide axial and posterior border furrows. D. SAM P57225 showing deep occipital furrow and subquadrate occipital ring. E. SAM P57226 showing strongly tapered glabella and subquadrate occipital ring.
Fig. 7 in Shelly fossils from the lower Cambrian White Point Conglomerate, Kangaroo Island, South Australia
Fig. 7. The lingulid brachiopods Eoobolus sp. (A–C) and Kyrshabaktella davidi Holmer and Ushatinskaya in Gravestock et al., 2001 (D–T) from the lower Cambrian White Point Conglomerate, Kangaroo Island, South Australia. Ventral (A–H, N, Q–T) and dorsal (I–M, O, P) valves. A. SAM P57242 in internal view. B. SAM P57243 in internal view. C. SAM P57244, in external view (C1); C2, detail of post larval shell. D. SAM P57245 in internal view. E. SAM P57246 in oblique view. F. SAM P57247 in internal view. G. SAM P57248 in internal view. H. SAM P57249 in internal view (H1); H2, detail of the interarea. I. SAM P57250 in internal view. J. SAM P57251 in internal view. K. SAM P57252 in internal view. L. SAM P57253 in internal view. M. SAM P57254 in internal view. N. SAM P57255 in external view. O. SAM P57256 in external view (O1); O2, detail of external radial and concentric ornament. P. SAM P57257 in external view. Q. SAM P57258 in external view. R. SAM P57259 in external view. S. SAM P57260 in internal view. T. SAM P57261 in internal view.
Fig. 19 in Shelly fossils from the lower Cambrian White Point Conglomerate, Kangaroo Island, South Australia
Fig. 19. The hyolithelminth tubes from the lower Cambrian White Point Conglomerate, Kangaroo Island, South Australia. Sphenothallus-like tubes (A, SAM P57368; B, SAM P57369). Tubes with circular cross-section (C, SAM P57370; D, SAM P57371; E, SAM P57372; F, SAM P57373). Expanding tubes G, SAM P57374; H, SAM P57375; I, SAM P57376).
Fig. 16. C1 in Shelly fossils from the lower Cambrian White Point Conglomerate, Kangaroo Island, South Australia
Fig. 16. C1 sclerites of the camenellan tommotiid Dailyatia decobruta Betts sp. nov. from the lower Cambrian White Point Conglomerate, Kangaroo Island, South Australia. A. SAM P57340 in ventral view. B. SAM P57341 in ventral view. C. SAM P57342 in ventral view shows shortened ventral field (C1) and in oblique view (C2). D. SAM P57343 in dorsal view (D1); D2, apical view oriented to show overall convexity of sclerite. E. SAM P57344 in apical view. F. SAM P57345 in apical view. G. SAM P57346 in oblique view showing shortened ventral field (G1) and in ventral view (G2). H. SAM P57347 in dorsal view; H1–H3, show convex dorsal field with very weak plication. I. SAM P57348 in oblique dorsal view (I1); I2 shows convexity. J. SAM P57349 in oblique dorsal view; J1 shows curvature of sclerite in side view; J2 shows dorsal surface. K. SAM P57350 in dorsal view. L. SAM P57351 in oblique ventral view.
Fig. 18. C2a in Shelly fossils from the lower Cambrian White Point Conglomerate, Kangaroo Island, South Australia
Fig. 18. C2a sclerites of the camenellan tommotiid Dailyatia decobruta Betts sp. nov. from the lower Cambrian White Point Conglomerate, Kangaroo Island, South Australia. A. SAM P57360 in ventral view; A1–A3, multiple views showing strong convexity and compression of sclerite. B. SAM P57361 in lateral view. C. SAM P573762 in oblique ventral view (C1); C2, slightly rotated view showing extreme compression of sclerite. D. SAM P57363 in dorsal view; D1, D2, different views showing strong curvature of sclerite and weak plication on dorsal surface. E. SAM P57364 in dorsal view, E1, E2, multiple views showing strong curvature (including weak torsion). F. SAM P57365 in ventral view. G. SAM P57359, holotype in dorsal view. H. SAM P57366 in ventral view. I. SAM P57367 in oblique ventral view.
Fig. 17. C2 in Shelly fossils from the lower Cambrian White Point Conglomerate, Kangaroo Island, South Australia
Fig. 17. C2 sclerites of the camenellan tommotiid Dailyatia decobruta Betts sp. nov. from the lower Cambrian White Point Conglomerate, Kangaroo Island, South Australia. A. SAM P57352 in lateral view; A1, A2 show slightly different angles to capture three dimensionality of sclerite. B. SAM P57353 in lateral view. C. SAM P57354 in dorsal view; C1, C2 show slightly different angles to capture three dimensionality of sclerite. D. SAM P57355 in ventral view. E. SAM P57356 in ventral view. F. SAM P57357 in ventral view. G. SAM P57358, G1–G3, close ups of external ornament. H. SAM P57348, close up of external ornament. I. SAM P57359, holotype; I1, I2, close ups of external ornament.
Fig. 10 in Shelly fossils from the lower Cambrian White Point Conglomerate, Kangaroo Island, South Australia
Fig. 10. The lingulid brachiopod Eohadrotreta sp. cf. E. zhenbaensis Li and Holmer, 2004 from the lower Cambrian White Point Conglomerate, Kangaroo Island, South Australia. Dorsal (A, B, H–J, M, N) and ventral (C–G, K, L) valves. A. SAM P57276 in external view (A1); A2, detail of the larval shell. B. SAM P57277 in external view. C. SAM P57278 in internal view. D. SAM P57279 in internal view. E. SAM P57280 in external view. F. SAM P57281 in external view, tilted to show intertrough (F1); F2, detail of the foramen. G. SAM P57282 in external view, tilted to show intertrough (G1); detail of the foramen (G2) showing the intertrough. H. SAM P57283 in internal view. I. SAM P57284 in internal view; I2, close up of interarea; I3, detail of shell microstructre. J. SAM P57285 in internal view. K. SAM P57286 in internal view. L. SAM P57287 in internal view. M. SAM P57288 in internal view. N. SAM P57289 in internal view.
Fig. 9 in Shelly fossils from the lower Cambrian White Point Conglomerate, Kangaroo Island, South Australia
Fig. 9. The lingulid brachiopod Schizopholis yorkensis (Holmer and Ushatinskaya in Gravestock et al., 2001) from the lower Cambrian White Point Conglomerate, Kangaroo Island, South Australia. Dorsal (A–C, E) and ventral (D, F) valves. A. SAM P57270 in external view. B. SAM P57271 in external view. C. SAM P57272 in external view (C1); C2, detail of the larval shell; C3, external pustulose ornament. D. SAM P57273 in external view (D1); D2, detail of the larval shell. E. SAM P57274 in internal view. F. SAM P57275 in external view (F1); F2, detail of the larval shell.
Fig. 15. The A1 in Shelly fossils from the lower Cambrian White Point Conglomerate, Kangaroo Island, South Australia
Fig. 15. The A1 sclerites of the camenellan tommotiid Dailyatia decobruta Betts sp. nov. from the lower Cambrian White Point Conglomerate, Kangaroo Island, South Australia. A. SAM P57329 in apical view. B. SAM P57330 in apical view (B1); B2 shows the broad, convex deltoid. C. SAM P57331 in anterior view. D. SAM P57332 in apical view. E. SAM P57333 in apical view. F. SAM P57334 in apical view. G. SAM P57335 in apical view (G1); G2 shows the concentric, wrinkled ornament on the anterior field. H. SAM P57336 in apical view. I. SAM P57337 in apical view. J. SAM P57338 in oblique lateral view. K. SAM P57339 in oblique lateral view.
Fig. 14 in Shelly fossils from the lower Cambrian White Point Conglomerate, Kangaroo Island, South Australia
Fig. 14. The camenellan tommotiid Dailyatia odyssei Evans and Rowell, 1990 from the lower Cambrian White Point Conglomerate, Kangaroo Island, South Australia. A. SAM P57326, A2 sclerite in apical view (A1); A2, detail of the double perforations in the apex. B. SAM P57327, A2 sclerite in apical view, tilted to show deltoid. C. SAM P57328, C2 sclerite in dorsal view.
Fig. 6 in Shelly fossils from the lower Cambrian White Point Conglomerate, Kangaroo Island, South Australia
Fig. 6. The lingulid brachiopod Eodicellomus elkaniiformis Holmer and Ushatinskaya in Gravestock et al., 2001 from the lower Cambrian White Point Conglomerate, Kangaroo Island, South Australia. Dorsal (A–D) and ventral (E–G) valves. A. SAM P57235 in interior view. B. SAM P57236 in interior view. C. SAM P57237 in interior view. D. SAM P57238 in interior view. E. SAM P57240 in interior (E1) and oblique (E2) views. F. SAM P57241 in oblique view. G. SAM P57239 in oblique view.
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