cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Parmaturus Garman 1906
Creators: name: Ebert, David A.
Publisher: name: Zenodo
Year: 2018
Subjects: Biodiversity
Taxonomy
Animalia
Chordata
Chondrichthyes
Carcharhiniformes
Scyliorhinidae
Parmaturus

description: Key to Parmaturus species in the Indo-Pacific region
1a. Caudal crests without enlarged dermal denticles............................................................ 2.
1b. Caudal crests with enlarged dermal denticles............................................................... 3.
2a. Tooth rows in jaws 130; pre-pelvic length about 47% TL; pre-vent length 52%; and head shorter than abdomen................................................................................. ParmaturuS albipeniS (New Caledonia)
2b. Tooth rows in jaws about 90; pre-pelvic length 40% TL; pre-vent length 44%; and head longer than abdomen........................................................................................ ParmaturuS lanatuS (Indonesia)
3a. First dorsal fin noticeably smaller than much larger second dorsal fin............................................ 4.
3b. First dorsal fin larger than or nearly equal to second dorsal fin................................................. 6.
4a. Head longer than abdomen............... ParmaturuS melanobranchiuS (Hong Kong, Taiwan, & Ryu-Kyu Islands, Japan)
4b. Head much shorter than abdomen........................................................................ 5.
5a. Pectoral pelvic length long (about 29 % total length)........................... ParmaturuS macmillani (New Zealand)
5b. Pectoral pelvic length short (about 21 % total length)........................... ParmaturuS piloSuS (Japan & Taiwan)
6a. Lower labial furrows much longer than uppers; tooth counts>90 upper and lower rows............................. 7.
6b. Lower labial furrows about equal length; tooth counts <60 upper and lower rows................................................................................................. ParmaturuS nigripalatum new species (Indonesia)
7a. Precaudal length 78% TL; Pre-anal length 59% TL; dorsal-caudal space 2.8%; tooth rows 92.......................................................................................... ParmaturuS albimarginatuS (New Caledonia)
7b. Precaudal length 84% TL; Pre-anal length 52% TL; dorsal-caudal space 5.7%; tooth rows 120............................................................................................ ParmaturuS biguS (northeastern Australia)
description: Published as part of Ebert, David A., 2018, Parmaturus nigripalatum n. sp., a new species of deep-sea catshark (Chondrichthyes: Carcharhiniformes: Scyliorhinidae) from Indonesia, pp. 531-540 in Zootaxa 4413 (3) on page 540, DOI: 10.11646/zootaxa.4413.3.7, http://zenodo.org/record/1227963
Suppression of nematicity by tensile strain in multilayer FeSe/SrTiO3 films
Creators: name: Lou, Rui
name: Suvorov, Oleksandr
name: Grafe, Hans-Joachim
name: Kuibarov, Andrii
name: Krivenkov, Maxim
name: Rader, Oliver
name: Büchner, Bernd
name: Borisenko, Sergey
name: Fedorov, Alexander
Publisher: name: College Park, MD : APS
Year: 2023
Subjects: subject: Iron compounds
subject: Molecular beam epitaxy
subject: Monolayers
subject: Multilayer films
subject: Multilayers
subject: Nuclear magnetic resonance spectroscopy
subject: Photoelectron spectroscopy
subject: Scanning tunneling microscopy
subject: Strontium titanates
subject: Tensile strain
subject: Titanium compounds
subject: Angle resolved photoemission spectroscopy
subject: Bulk value
subject: Film-thickness
subject: Molecular-beam epitaxy
subject: Nematic ordering
subject: Nematics
subject: Property
subject: SrTiO3 films
subject: Selenium compounds
subject: 530

description: The nematicity in multilayer FeSe/SrTiO3 films has been previously suggested to be enhanced with decreasing film thickness. Motivated by this, there have been many discussions about the competing relation between nematicity and superconductivity. However, the criterion for determining the nematicity strength in FeSe remains highly debated. The understanding of nematicity as well as its relation to superconductivity in FeSe films is therefore still controversial. Here, we fabricate multilayer FeSe/SrTiO3 films using molecular beam epitaxy and study the nematic properties by combining angle-resolved photoemission spectroscopy, Se77 nuclear magnetic resonance, and scanning tunneling microscopy experiments. We unambiguously demonstrate that, near the interface, the nematic order is suppressed by the SrTiO3-induced tensile strain; in the bulk region further away from the interface, the strength of nematicity recovers to the bulk value. Our results not only solve the recent controversy about the nematicity in multilayer FeSe films, but also offer valuable insights into the relationship between nematicity and superconductivity.
Tetilla laminaris George and Wilson 1919
Creators: name: Rützler, Klaus
name: Piantoni, Carla
name: Van, Rob W. M.
name: Díaz, Cristina
Publisher: name: Zenodo
Year: 2014
Subjects: Biodiversity
Taxonomy
Animalia
Porifera
Demospongiae
Spirophorida
Tetillidae
Tetilla
Tetilla laminaris

description: Tetilla laminaris George and Wilson, 1919
Synonymy and references. Tetilla laminaris George and Wilson, 1919: 142, pl. 58: 14, 59: 17, 66: 54a-h.
Material. USNM 1228910, Carrie Bow Cay, back reef near crest, inside and underside of Acorpora palmata coral rubble, 0.3 m. K. Ruetzler, col. 23 Apr 1974.
External morphology. A crust and thin cushion spreading over about 30 cm are, also penetrating cavities in the substratum; up to 10 mm thick. Smooth surface, scattered oscula of 1 mm diameter or less, firm consistency. Live color grayish brown, which stays about the same in alcohol.
Skeleton structure. Radial brushes of megascleres, including many protriaenes, in the ectosome. Spicule tracts in the choanosome, many arching toward the surface; loose megascleres scattered throughout.
Spicules. Two kinds of oxeas, one is symmetrically ended, the other has one sharp and one dull point. Oxeas I: 820– 2050 x 5–25 (1446 x 16) Μm; oxeas II: 900– 1800 x 5–23 (1170 x 11) Μm. Protriaenes (rhabdomes mostly broken): 1050– 2000 x 2–10 (1511 x 6) Μm, with clad length 40–130 (91) Μm. Anatriaenes (very common): 1300– 2018 x 3–6 (1662 x 5) Μm, clad length 20–50 (38) Μm. Sigmaspires: 10–15 (13) Μm.
Ecology. Cryptic on coral rubble, elsewhere on rocky bottom, <1m.
Distribution. First described from North Carolina, now extended into the Caribbean (Belize).
Comments. This species is difficult to identify with confidence because of great variation of spicule types and sizes, many broken during preparation, and accumulation of varied foreign spicules. Study of additional specimens would be desirable. Color, shape (in part), and spicule types, however, agree well with description of the type from North Carolina.
description: Published as part of Rützler, Klaus, Piantoni, Carla, Van, Rob W. M. & Díaz, Cristina, 2014, Diversity of sponges (Porifera) from cryptic habitats on the Belize barrier reef near Carrie Bow Cay, pp. 1-129 in Zootaxa 3805 (1) on page 19, DOI: 10.11646/zootaxa.3805.1.1, http://zenodo.org/record/249983
Additional file 1: of Effective strategies to reduce commercial tobacco use in Indigenous communities globally: A systematic review
Creators: name: Minichiello, Alexa
name: Lefkowitz, Ayla
name: Firestone, Michelle
name: Smylie, Janet
name: Schwartz, Robert
Publisher: name: Figshare
Year: 2016
Subjects: subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Developmental Biology
subject: Science Policy

description: Search Strategy. Example of the studies search strategy using the EMBASE database. (PDF 53 kb)
FARMATSEVTIKA TA'LIM SOHASIDA FIZIKA  O'QITISHNING AHAMIYATI
Creators: name: Berdiyeva, Mahbuba
Publisher: name: Zenodo
Year: 2024

description: Ushbu maqolada farmatsevtika ta'limi sohasida fizika fanining o'qitilishining ahamiyati va uning o'quv jarayonidagi o'rni ko'rib chiqiladi. Farmatsevtika sohasida dori vositalarining samarali ishlab chiqilishi, tayyorlanishi va organizmda ta'sirini o'rganish uchun fizika bilimlari zarur. Fizika, ayniqsa, dori moddalari va ularning fizikaviy xususiyatlarini, farmakokinetika va farmakodinamika jarayonlarini tushunishda muhim rol o'ynaydi. Maqolada fizikaning farmatsevtika sohasidagi amaliy ahamiyati, yangi texnologiyalarni ishlab chiqish, dori vositalarining sifatini aniqlash, diagnostika metodlarini rivojlantirish va samarali davolash usullarini ishlab chiqishdagi o'rni tahlil qilingan. Farmatsevtika ta'limida fizika o'qitish, talabalarni nafaqat nazariy bilimlar, balki amaliy ko'nikmalar bilan ham ta'minlaydi, bu esa ularning kasbiy faoliyatini samarali va sifatli amalga oshirishlariga yordam beradi. Maqola, shuningdek, fizikaning farmatsevtika ta'limida integratsiyasining ilmiy tadqiqotlar va innovatsiyalarni rivojlantirishga yordam berishini ko'rsatadi.
Samus anonymus Gray 1867
Creators: name: Rützler, Klaus
name: Piantoni, Carla
name: Van, Rob W. M.
name: Díaz, Cristina
Publisher: name: Zenodo
Year: 2014
Subjects: Biodiversity
Taxonomy
Animalia
Porifera
Demospongiae
Spirophorida
Samidae
Samus
Samus anonymus

description: Samus anonymus Gray, 1867
(Figure 9)
Synonymy and references. Samus anonymus Gray, 1867: van Soest and Hooper (2002): 100, fig.1.
Material. USNM 1228911, Columbus Cay cave, 18–25 m; G. Hendler, I. Macintyre, P. Kier, T. Rath & C. Clark col. 21 Mar 1979.
External morphology. Excavating and filling crevices in and between vacated serpulid worm tubes (“pseudostalactites”). Color in life yellowish tan.
Skeleton structure. Megascleres (triaenes) and microscleres (sigmaspires) dispersed throughout the tissue, without organization. Abundance of foreign spicules accumulated from the sediment.
Spicules. The megascleres are essentially variants of short-shafted amphitriaenes, some symmetrical, others asymmetrical in branching patterns (dichotomous or trichotromous); smaller (possibly developing) spicules are microspined: 44–117 x 35 –103 (71 x 65) Μm; sigmaspires with few but long, hook-like spines: 9–13 (11) Μm. Ecology. Common but inconspicuous in many cryptic habitats, to 25 m or more.
Distribution. First described from off Brazil, the species is reported worldwide, primarily from tropical and subtropical locations. Previos reports of this species do not mention microspined amphitriaenes, but the spination may have been overlooked or can be attributed to developmental stages of these spicules.
description: Published as part of Rützler, Klaus, Piantoni, Carla, Van, Rob W. M. & Díaz, Cristina, 2014, Diversity of sponges (Porifera) from cryptic habitats on the Belize barrier reef near Carrie Bow Cay, pp. 1-129 in Zootaxa 3805 (1) on pages 19-20, DOI: 10.11646/zootaxa.3805.1.1, http://zenodo.org/record/249983
Vinogradovopleustes Labay 2018, n. gen.
Creators: name: Labay, Vjacheslav S.
Publisher: name: Zenodo
Year: 2018
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Malacostraca
Amphipoda
Pleustidae
Vinogradovopleustes

description: Genus Vinogradovopleustes n. gen.
Figures 2–7.
Type material: Holotype: X 47110 Cr 2210. Paratypes X 47111 Cr 2211, X 47112 Cr 2212, X 47113 Cr 2213.
Type locality: Okhotsk Sea, Far East of Russia (55°00'00''N 142°02'40''E, 130 m).
Type species. Vinogradovopleustes punctatum sp. nov.
Species. Vinogradovopleustes punctatum sp. nov. from the shelf of north-east Sakhalin Island (Okhotsk sea).
Diagnosis. Pereon, pleon, and urosome 1 carinate middorsally. Urosome segment 2 occluded dorsally. Head, rostrum strong. Antenna 1, peduncular segment 1 enlarged, with small anterodistal and posterodistal acute processes. Antenna 2, peduncular segment 2 with long sharp posterodistal process. Upper lip, apical lobes slightly asymmetric. Mandible, left lacinia 10–11 dentate, right lacinia lacking; molar strong, columnar; blades 5–6 on left, 9–10 on right. Maxilla 2, inner plate with subapical inner marginal seta. Coxae 1–3 each with few (3–5) posterodistal cusps; coxae 5–6 posterolobate; coxa 5 with lateral posteror protrusion (stopper). Pereopods 1 & 2 (gnathopods 1 & 2), pereopod 2 slightly the larger. Palmar margin of propodus smoothly oblique; carpus, posterior lobe medium, merus without distinct posterodistal tooth. Pereopods 5–7 unequal in form; pereopod 5 shortest; basis of pereopod 5 linear, without posterior lobe; basis of pereopod 6 with narrow posterior lobe; basis of pereopod 7 broadened. Pleon plates 1–3 acutely produced postero-ventrally. Telson medium long, distally rounded, without paired pennicilate setae.
Distribution. The shelf of northern Sakhalin, Okhotsk Sea.
Relationships: Vinogradovopleustes n. gen. is similar to the genus Rhinopleustes Hendrycks & Bousfield, 2004 by the presence of a dorsal carination. Vinogradovopleustes differs from Rhinopleustes by the following combination of character states: antenna 1, peduncular segment 1 without strong anterodistal processes; coxae 1–3, posterodistal cusps multiple; pereopod 5, base linear (see also key).
Etymology: The genus Vinogradovopleustes is named in the memory of the famous Russian carcinologist Michail Vinogradov, combined with the older genus name Pleustes. The name is masculine in gender.
description: Published as part of Labay, Vjacheslav S., 2018, Vinogradovopleustes punctatum, new genus, new species, a pleustid amphipod from the Okhotsk Sea (Crustacea: Amphipoda: Gammaridea: Pleustidae: Pleusymtinae), pp. 159-168 in Zootaxa 4392 (1) on page 160, DOI: 10.11646/zootaxa.4392.1.8, http://zenodo.org/record/1195284
Additional file 2: of Effective strategies to reduce commercial tobacco use in Indigenous communities globally: A systematic review
Creators: name: Minichiello, Alexa
name: Lefkowitz, Ayla
name: Firestone, Michelle
name: Smylie, Janet
name: Schwartz, Robert
Publisher: name: Figshare
Year: 2016
Subjects: subject: Medicine
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Science Policy

description: Intervention Characteristics. Description of data: A table detailing the location, population, length and activities of each intervention as well as study design, sample size, outcomes and quality score [22â  77, 81, 82, 84â  112]. (PDF 296 kb)
Acid Treatments of Ti-Based Metallic Glasses for Improving Corrosion Resistance in Implant Applications
Creators: name: Fernández-Navas, Nora
name: Shtefan, Viktoriia
name: Hantusch, Martin
name: Gebert, Annett
Publisher: name: Basel : MDPI
Year: 2024
Subjects: subject: corrosion
subject: metallic glass
subject: pitting
subject: surface treatment
subject: Ti alloy
subject: 530

description: Ti-based bulk metallic glasses are promising materials for metallic bone implants, mainly due to their mechanical biofunctionality. A major drawback is their limited corrosion resistance, with high sensitivity to pitting. Thus, effective surface treatments for these alloys must be developed. This work investigates the electrochemical treatment feasibility of nitric acid (HNO3) solution for two bulk glass-forming alloys. The surface states obtained at different anodic potentials are characterized with electron microscopy and Auger electron spectroscopy. The corrosion behavior of the treated glassy alloys is analyzed via comparison to non-treated states in phosphate-buffered saline solution (PBS) at 37 °C. For the glassy Ti47Zr7.5Cu38Fe2.5Sn2Si1Ag2 alloy, the pre-treatment causes pseudo-dealloying, with a transformation from naturally passivated surfaces to Ti- and Zr-oxide nanoporous layers and Cu-species removal from the near-surface regions. This results in effective suppression of chloride-induced pitting in PBS. The glassy Ti40Zr10Cu34Pd14Sn2 alloy shows lower free corrosion activity in HNO3 and PBS due to Pd stabilizing its strong passivity. However, this alloy undergoes pitting under anodic conditions. Surface pre-treatment results in Cu depletion but causes enrichment of Pd species and non-homogeneous surface oxidation. Therefore, for this glassy alloy, pitting cannot be completely inhibited in PBS. Concluding, anodic treatments in HNO3 are more suitable for Pd-free glassy Ti-based alloys.
Additional file 3: of Studying the consumption and health outcomes of fiscal interventions (taxes and subsidies) on food and beverages in countries of different income classifications; a systematic review
Creators: name: AMAAP Alagiyawanna
name: Townsend, Nick
name: Mytton, Oli
name: Scarborough, Pete
name: Roberts, Nia
name: Rayner, Mike
Publisher: name: Figshare
Year: 2015
Subjects: subject: Medicine
subject: Biotechnology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Science Policy

description: Description of the intervention and quality assessment of study. (DOC 106Â kb)
Additional file 1: of Studying the consumption and health outcomes of fiscal interventions (taxes and subsidies) on food and beverages in countries of different income classifications; a systematic review
Creators: name: AMAAP Alagiyawanna
name: Townsend, Nick
name: Mytton, Oli
name: Scarborough, Pete
name: Roberts, Nia
name: Rayner, Mike
Publisher: name: Figshare
Year: 2015
Subjects: subject: Medicine
subject: Biotechnology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Cancer
subject: Science Policy
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Search strategy. (PDF 229Â kb)
Additional file 4: of Studying the consumption and health outcomes of fiscal interventions (taxes and subsidies) on food and beverages in countries of different income classifications; a systematic review
Creators: name: AMAAP Alagiyawanna
name: Townsend, Nick
name: Mytton, Oli
name: Scarborough, Pete
name: Roberts, Nia
name: Rayner, Mike
Publisher: name: Figshare
Year: 2015
Subjects: subject: Medicine
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Science Policy

description: PRISMA 2009 checklist. (PDF 301Â kb)
Additional file 2: of Studying the consumption and health outcomes of fiscal interventions (taxes and subsidies) on food and beverages in countries of different income classifications; a systematic review
Creators: name: AMAAP Alagiyawanna
name: Townsend, Nick
name: Mytton, Oli
name: Scarborough, Pete
name: Roberts, Nia
name: Rayner, Mike
Publisher: name: Figshare
Year: 2015
Subjects: subject: Medicine
subject: Biotechnology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Science Policy

description: Adjusted criteria for the quality assessment tool for quantitative studies. (PDF 88Â kb)
Additional file 8: of The Golgi apparatus acts as a platform for TBK1 activation after viral RNA sensing
Creators: name: Pourcelot, Marie
name: Zemirli, Naima
name: Costa, Leandro Silva Da
name: Loyant, Roxane
name: Garcin, Dominique
name: Vitour, Damien
name: Munitic, Ivana
name: AimĂŠ Vazquez
name: Arnoult, Damien
Publisher: name: Figshare
Year: 2016
Subjects: subject: Biochemistry
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Immunology
subject: FOS: Clinical medicine
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology
subject: 60506 Virology

description: Working model. After infection, viral RNAs are sensed by RIG-I in the cytosol or TLR3 in the endosomes. The corresponding adaptors, MAVS and TRIF, trigger the formation of specific signalosomes leading to the ubiquitination of TBK1. At the Golgi apparatus, OPTN recruits ubiquitinated TBK1 via its UBD, leading to the trans-autoactivation of this kinase. Activated TBK1 then phosphorylates IRF3, leading to the production of type I IFNs. (PDF 912 kb)
Cryptosyringa membranophila Vacelet 1979
Creators: name: Rützler, Klaus
name: Piantoni, Carla
name: Van, Rob W. M.
name: Díaz, Cristina
Publisher: name: Zenodo
Year: 2014
Subjects: Biodiversity
Taxonomy
Animalia
Porifera
Demospongiae
Astrophorida
Ancorinidae
Cryptosyringa
Cryptosyringa membranophila

description: Cryptosyringa membranophila Vacelet, 1979
(Figure 2 d)
Synonymy and references. Cryptosyringa membranophila Vacelet, 1979: 33, figs. 1, 2; pl. I. Uriz (2002a): 111, figs. 2, 3.
Material. USNM 1191345, Forereef cave rock just east of Carrie Bow Cay, 26 m; K. Ruetzler coll. 22 May 1975.
External morphology. The tiny pyriform, off-white specimens (4.5 x 3 mm maximum dimensions), are attached to and penetrate leathery membranes at their thicker end. The membranes, which coat burrows in coral rock, are presumed to be remnants of boring polychaetes. The incurrent and exhalant openings are at opposite ends of the longer axis. Longitudinal inhalant-exhalant canals extend from the narrow end, where the ostia are located, to the sieve-like base that serves as the osculum.
Skeleton structure. Dichotriaenes are at the periphery, with a tangential cladome and the rhabdome directed inward. Tylotes/strongyles and oxeas are arranged in longitudinal and radial directions. Microscleres are concentrated in the ectosome (tylasters) and near the base (oscular region) of the sponge (oxyasters).
Spicules. Dichotriaenes with clads and rhabdome ending in rounded points or asymmetrical knobs. The overall diameter of the cladome is 240–360 (323) Μm, protoclads measure 40–50 (44) Μm, deuteroclads 90–180 (129) Μm, the rhabdome 590–820 (693) Μm in length; thickest diameters are 8–10 (9) Μm. Most diactines are strongyles, thickest in the center, but many have terminal swelling (tylostyles; some quadrilobate), and a few are modified to pointed ends (oxeas): 530–880 x 5–10 (703 x 8) Μm. Among the microscleres there are tiny tylasters, 8 –10 (9) Μm and larger oxyasters, 23–36 (30) Μm in diameter; the latter with a center that takes up 20–30% of the total diameter.
Ecology. Approximately 10 specimens were retrieved from burrows in dead, platy coral (Montastraea annularis) in a small cave in 26 m depth. The sponges are attached to chitinous membranes presumed to have been secreted by eunicid polychaetes that produced the burrows.
Distribution. Only known from the type locality (Jamaica) and the present record (Belize).
Comments. It is still unknown what causes the attraction of these sponges to the organic bore-hole coatings presumably secreted by polychaetes. Finding this species in Belize under the same conditions and in the same kind of habitat as the type material in Jamaica indicates that there is a still enigmatic ecophysiological process involved.
description: Published as part of Rützler, Klaus, Piantoni, Carla, Van, Rob W. M. & Díaz, Cristina, 2014, Diversity of sponges (Porifera) from cryptic habitats on the Belize barrier reef near Carrie Bow Cay, pp. 1-129 in Zootaxa 3805 (1) on page 22, DOI: 10.11646/zootaxa.3805.1.1, http://zenodo.org/record/249983
Additional file 1: of The Golgi apparatus acts as a platform for TBK1 activation after viral RNA sensing
Creators: name: Pourcelot, Marie
name: Zemirli, Naima
name: Costa, Leandro Silva Da
name: Loyant, Roxane
name: Garcin, Dominique
name: Vitour, Damien
name: Munitic, Ivana
name: Vazquez, Aimé
name: Arnoult, Damien
Publisher: name: Figshare
Year: 2016
Subjects: subject: Biochemistry
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Molecular Biology
subject: Immunology
subject: FOS: Clinical medicine
subject: Developmental Biology
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: 60506 Virology
subject: Computational Biology

description: p-TBK1S172 localizes to the Golgi apparatus then migrates to the centrosome after RLR activation. (A) Scheme of the subcellular fractionation procedure for obtaining the various membrane fractions in Figs. 1a, 2a, and Additional file 2A. (B) MEFs were either left unstimulated (control) or infected with Sendai virus (SeV) for 6 h (+ SeV). p-TBK1S172 staining was then analyzed by immunofluorescence. The Golgi apparatus was identified by labeling with an antibody raised against giantin. Scale bars, 10 μm. On the right, enlargement of the framed zone in the overlay. (C) Isolated Golgi membranes from uninfected or SeV-infected MEFs were analyzed by immunoblotting with antibodies against the indicated proteins. ° Corresponds to the p-TBK1 detection from a previous immunoblot. (D) MEFs were either left unstimulated (control) or infected with SeV for 6 or 9 h (+ SeV). p-TBK1S172 staining was then analyzed by immunofluorescence. The Golgi apparatus was identified by labeling with an antibody raised against GM130. Scale bars, 10 μm. On the right, enlargement of the framed zone in the overlay. (E) MEFs were either left unstimulated (control) or infected with SeV for 9 h (+ SeV). p-TBK1S172 staining was then analyzed by immunofluorescence. The centrosomes were stained with an antibody raised against pericentrin. Scale bars, 10 μm. On the right, enlargement of the framed zone in the overlay. (PDF 759 kb)
Sinops
Creators: name: Zhang, Junhua
name: Yang, Ding
name: Mathis, Wayne N.
Publisher: name: Zenodo
Year: 2005
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Diptera
Ephydridae
Sinops

description: Key to Species of Sinops
1. Face distinctly bicolored and protrudent on ventral ½, dorsal surface of protrusion with some metallic blue coloration, ventral portion along oral margin densely microto­ mentose, whitish gray (Nepal) ..................................................... S. kaskiensis (Mathis)
­ Face either unicolorous or with coloration changes gradual, anterior surface of ventral ½ nearly flat, not conspicuously protrudent.................................................................. 2
2. Dorsocentral setae 4, anterior seta presutural; overall length 2.9–3.4 mm (Nepal)........ .................................................................................................... S. nepalensis (Mathis)
­ Dorsocentral setae 3, all postsutural; overall length 2.0– 2.6 mm ................................. 3
3. Apex of gonite dentate (China: Sichuan) .................................. S. sichuanensis sp. nov.
­ Apex of gonite smooth, not dentate (Japan and Ryukyu Islands) ... S. fluvialis (Miyagi)
description: Published as part of Zhang, Junhua, Yang, Ding & Mathis, Wayne N., 2005, A new genus and species of Ephydridae (Diptera) from the Oriental Region, pp. 31-43 in Zootaxa 1040 on page 35, DOI: 10.5281/zenodo.169819
Additional file 7: of The Golgi apparatus acts as a platform for TBK1 activation after viral RNA sensing
Creators: name: Pourcelot, Marie
name: Zemirli, Naima
name: Costa, Leandro Silva Da
name: Loyant, Roxane
name: Garcin, Dominique
name: Vitour, Damien
name: Munitic, Ivana
name: AimĂŠ Vazquez
name: Arnoult, Damien
Publisher: name: Figshare
Year: 2016
Subjects: subject: Biochemistry
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Molecular Biology
subject: Immunology
subject: FOS: Clinical medicine
subject: Developmental Biology
subject: 111714 Mental Health
subject: FOS: Health sciences
subject: 110309 Infectious Diseases
subject: Plant Biology
subject: 60506 Virology

description: OPTN deficiency does not affect TBK1 ubiquitination. WT or OPTN knockout HeLa cells were either left unstimulated or infected with Sendai virus (SeV) for 6 or 8Â h. Cell lysates (Lys.) were subjected to immunoprecipitation (IP) with an antibody against TBK1. Samples were then analyzed by immunoblotting with antibodies against the indicated proteins. Â° Corresponds to OPTN detection from a previous immunoblot. (PDF 392 kb)
Additional file 6: of The Golgi apparatus acts as a platform for TBK1 activation after viral RNA sensing
Creators: name: Pourcelot, Marie
name: Zemirli, Naima
name: Costa, Leandro Silva Da
name: Loyant, Roxane
name: Garcin, Dominique
name: Vitour, Damien
name: Munitic, Ivana
name: Vazquez, Aimé
name: Arnoult, Damien
Publisher: name: Figshare
Year: 2016
Subjects: subject: Biochemistry
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Genetics
subject: Molecular Biology
subject: Physiology
subject: Immunology
subject: FOS: Clinical medicine
subject: Developmental Biology
subject: Cancer
subject: Hematology
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology
subject: 60506 Virology

description: OPTN silencing impairs IRF3 signaling after RLR or TLR3 activation. (A) HEK293T cells were transfected with a control nonspecific siRNA (NS) or with five individual OPTNspecific siRNAs (OPTN A, B, C, D and E) or a NEMO-specific siRNA. The cells were then transfected, 48 h later, with an IFNβ promoter reporter or with a NF-κB reporter and the Renilla luciferase gene as an internal control. Then, 24 h after transfection, cells were either left unstimulated (Unstim) or infected with Sendai virus (+SeV) for 7 h. Luciferase assays were performed and the results were normalized against Renilla luciferase activity. The data shown are means ± SD from three independent experiments (analysis of variance and comparison with NS siRNA-transfected cells in Student’s t-test). RLU, relative luminescence units. ns, not significant. (B) HEK293T cells were transfected with a control nonspecific siRNA (NS) or with two individual OPTN-specific siRNAs (OPTN A and OPTN B) or a NEMO-specific siRNA. Then, 72 h later, cells were either left unstimulated or infected with Sendai virus (SeV) for 6 or 8 h. Cell lysates were analyzed by immunoblotting with antibodies against the indicated proteins. * indicates nonspecific bands. (C) As in (B) but with HeLa cells. (D) HEK293T cells were transfected with a control nonspecific siRNA (NS) or with two individual OPTN-specific siRNAs (OPTN A and OPTN B) or a NEMO-specific siRNA. Cells were either left unstimulated (Unstim) or infected with VSV (+VSV) for 7 h. Luciferase assays were performed and the results were normalized against Renilla luciferase activity. (E) As in (B) but HEK293T cells were infected with VSV. (F) HEK293T-TLR3 cells were transfected as in (A). Cells were either left unstimulated (Unstim) or stimulated with poly(I:C) (10 μg/ml) for 7 h. Luciferase assays were then performed. (PDF 703 kb)
Jaspis
Creators: name: Rützler, Klaus
name: Piantoni, Carla
name: Van, Rob W. M.
name: Díaz, Cristina
Publisher: name: Zenodo
Year: 2014
Subjects: Biodiversity
Taxonomy
Animalia
Porifera
Demospongiae
Astrophorida
Ancorinidae
Jaspis

description: Jaspis sp.
Synonymy and references. Stelettinopsis sp.: Macintyre et al. (1982): 134; Jaspis Gray, 1867: Uriz (2002a): 114, fig. 7.
Material. USNM 32861 Columbus Cay cave, ceiling, 10–15 m from entrance, 18–21 m depth; I. Macintyre col. 26 Apr 1979.
External morphology. Thinly coating and permeating dead serpulid polychaete worm tubes that are cemented together as “pseudostalactites” (Macintyre et al., 1982). Color whitish, both live and preserved.
Skeleton structure. Larger oxeas in disorganized arrangement in the choanosome, smaller oxeas more or less tangential in the ectosome, microscleres (oxyasters) throughout the tissue.
Spicules. Oxeas I, slightly bent, some double-bent, with sharp points: 450–780 x 10–14 (643 x 12) Μm; oxeas II, gently bent, many are kinked twice, in same or opposite directions, sharp points: 55–120 x 2–4 (86 x 3) Μm; oxyasters, with very small center and microspined, pointed rays: 10–18 (13) Μm.
Ecology. Encrusting and permeating one sample of serpulid tubes (“pseudostalactites”) protruding from the roof of a submersed karst cave, 12 m distant from the sink-hole entrance; 21 m water depth.
Distribution. Belize.
Comments. This is probably an undescribed species but the small amount of material of a single specimen makes it impossible to confirm this. Similar species from the region are Jaspis salvadori Boury-Esnault, 1973 from Brazil and Stelletinopsis (sic) (= Jaspis) velezi Wintermann-Kilian and Kilian, 1984 from Colombia. However, J. salvadori is black, has blunt microxeas, and very small oxyasters (<7 µm); J. velezi is yellow and the oxyasters occur in two size groups, the larger one ranging 36–46 µm.
description: Published as part of Rützler, Klaus, Piantoni, Carla, Van, Rob W. M. & Díaz, Cristina, 2014, Diversity of sponges (Porifera) from cryptic habitats on the Belize barrier reef near Carrie Bow Cay, pp. 1-129 in Zootaxa 3805 (1) on pages 22-23, DOI: 10.11646/zootaxa.3805.1.1, http://zenodo.org/record/249983
Additional file 2: of The Golgi apparatus acts as a platform for TBK1 activation after viral RNA sensing
Creators: name: Pourcelot, Marie
name: Zemirli, Naima
name: Costa, Leandro Silva Da
name: Loyant, Roxane
name: Garcin, Dominique
name: Vitour, Damien
name: Munitic, Ivana
name: Vazquez, Aimé
name: Arnoult, Damien
Publisher: name: Figshare
Year: 2016
Subjects: subject: Biochemistry
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Molecular Biology
subject: Immunology
subject: FOS: Clinical medicine
subject: Developmental Biology
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology

description: The active form of TBK1 localizes to the Golgi apparatus after RLR stimulation. (A) HeLa cells were either left unstimulated or infected with Sendai virus (SeV) for 6 or 8 h. Cells were then fractionated as described in Additional file 1A, and samples were analyzed by immunoblotting with antibodies against the indicated proteins. EEA1, kinectin, LAMP2, GAPDH, syntaxin-6, and VDAC served as loading and purity controls for endosomes, the endoplasmic reticulum, lysosomes, the cytosol, the Golgi apparatus, and mitochondria, respectively. (Ub)n, polyubiquitin. * Indicates non-specific bands. (B–E) HeLa cells were either left unstimulated (control) or infected with SeV for 6 h (+ SeV). The indicated proteins were then analyzed by immunofluorescence staining. The Golgi apparatus was labeled with an antibody against GM130, whereas the mitochondria were identified by immunostaining for cytochrome c. Scale bars, 10 μm. On the right, enlargement of the framed zone in the overlay. (F) HeLa cells were either left unstimulated or infected with SeV for 6 or 8 h. Cell lysates (Lys.) were then subjected to immunoprecipitation (IP) with an antibody against TBK1. Samples were then analyzed by immunoblotting with antibodies against the indicated proteins. * Indicates non-specific bands. (PDF 2378 kb)
Additional file 5: of The Golgi apparatus acts as a platform for TBK1 activation after viral RNA sensing
Creators: name: Pourcelot, Marie
name: Zemirli, Naima
name: Costa, Leandro Silva Da
name: Loyant, Roxane
name: Garcin, Dominique
name: Vitour, Damien
name: Munitic, Ivana
name: Vazquez, Aimé
name: Arnoult, Damien
Publisher: name: Figshare
Year: 2016
Subjects: subject: Biochemistry
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Genetics
subject: Molecular Biology
subject: Physiology
subject: Developmental Biology
subject: Hematology
subject: Computational Biology
subject: Cardiology

description: OPTN, NAP1 and SINTBAD are present at the Golgi apparatus where OPTN is in complex with active TBK1 after RLR activation. (A, C) The indicated proteins were analyzed by immunofluorescence with specific antibodies in HeLa cells. Anti-OPTN (a), rabbit polyclonal anti-OPTN from Cayman Corp; anti-OPTN (b), rabbit polyclonal anti-OPTN from Abcam; anti-OPTN (c), mouse monoclonal anti-OPTN from Santa Cruz. The Golgi apparatus was stained with a mouse monoclonal anti-GM130 antibody or with a rabbit polyclonal anti-giantin antibody. Scale bars, 10 μm. (B) HEK293T cells were either left unstimulated or infected with Sendai virus (SeV) for 6 and 8 h. Golgi-enriched fractions were then subjected to immunoprecipitation (IP) with an antibody against OPTN. Samples were then analyzed by immunoblotting with antibodies against the indicated proteins. * Indicates non-specific bands. (PDF 1007 kb)
Pogonomicola Smales, 2013, new genus
Creators: name: Smales, L. R.
Publisher: name: Zenodo
Year: 2013
Subjects: Biodiversity
Taxonomy
Animalia
Nematoda
Secernentea
Ascaridida
Oxyuridae
Pogonomicola

description: Pogonomicola new genus
Diagnosis. Oxyuridae: Syphaciinae: Syphaciini. Males markedly smaller than females. Cephalic end with cephalic plate, 4 cephalic papillae and 2 amphids. Mouth opening surrounded by 3 well-defined lips without visible posterior edge. Oesophagus with distinct isthmus and spherical bulb. Cervical alae each divided into more than 2 longitudinal folds. Male with single weakly defined mamelon; genital papillae forming anterior group around cloaca and posterior pair on tail. Tail conical without elongated tip. Female vulva in anterior third of body, monodelphic, vagina directed posteriorly. Eggs oval, asymmetrical, with small lateral operculum.
Type species Pogonomicola rugala
Etymology. The genus is named after the genus of the host, Pogonomys.
description: Published as part of Smales, L. R., 2013, Nematodes from the caecum and colon of Pogonomys (Muridae: Anisomyini) from Papua New Guinea with the descriptions of a new genus of Oxyuridae (Nematoda: Oxyurida) and a new species of Trichuridae (Nematoda: Enoplida), pp. 577-587 in Zootaxa 3599 (6) on page 580, DOI: 10.11646/zootaxa.3599.6.6, http://zenodo.org/record/219918
Erylus formosus Sollas 1886
Creators: name: Rützler, Klaus
name: Piantoni, Carla
name: Van, Rob W. M.
name: Díaz, Cristina
Publisher: name: Zenodo
Year: 2014
Subjects: Biodiversity
Taxonomy
Animalia
Porifera
Demospongiae
Astrophorida
Geodiidae
Erylus
Erylus formosus

description: Erylus formosus Sollas, 1886
Synonymy and references. Erylus formosus Sollas, 1886: Wiedenmayer (1977): 181, fig. 174, pl. 39: 4, 40: 1, 2, 4, 5; Cardenas et al. (2009): 25, fig. 13.
Material. USNM 1228916, Carrie Bow Cay, forereef slope, coral rock underside, 30 m; K. Ruetzler col. 26 Apr 1974.
External morphology. A 10–15 mm thick crust covering about 60 cm 2 of the rock. Surface smooth, except for a few serpulid worm tubes and small bryozoans crusts, but bumpy, with scattered, elevated oscula (2–3mm) and numerous single pores (<0.2 mm). Live color was light bluish gray.
Skeleton structure. There is a cortex of aspidasters and microrhabds, followed underneath by radially arranged triaenes and bundles of oxeas. In the choanosome below, there are more oxeas, more or less tangential or without orientation, along with microspined tylasters and more microrhabds
Spicules. The megascleres are oxeas, slightly bent and with sharp points, a few modified to styloids: 900– 1100 x 20–30 (992 x 28) Μm; and plagiotriaenes, many grading into orthotriaenes: 330–600 x 15–35 (496 x 20) Μm for rhabds, 180–270 x 10–16 (227 x 12) Μm for clads. Microscleres include aspidasters, rod- to oval-shaped: 190–220 x 40 –100 (206 x 78) Μm; microrhabs, which are centrotylote and vary from oxeate to strongyloxeate, 55–100 x 4–7 (71 x 5) Μm; and miscrospined tylaster, a few grading to oxyasters: 15–38 (30) Μm.
Ecology. A common shallow-reef species in 3–6 m, also found in cryptic habitats to 30 m.
Distribution. Caribbean and Brazil.
Comments. The color of this species when found in full light exposure is purplish gray to brown or nearly black.
description: Published as part of Rützler, Klaus, Piantoni, Carla, Van, Rob W. M. & Díaz, Cristina, 2014, Diversity of sponges (Porifera) from cryptic habitats on the Belize barrier reef near Carrie Bow Cay, pp. 1-129 in Zootaxa 3805 (1) on page 23, DOI: 10.11646/zootaxa.3805.1.1, http://zenodo.org/record/249983
Additional file 3: of The Golgi apparatus acts as a platform for TBK1 activation after viral RNA sensing
Creators: name: Pourcelot, Marie
name: Zemirli, Naima
name: Costa, Leandro Silva Da
name: Loyant, Roxane
name: Garcin, Dominique
name: Vitour, Damien
name: Munitic, Ivana
name: Vazquez, Aimé
name: Arnoult, Damien
Publisher: name: Figshare
Year: 2016
Subjects: subject: Biochemistry
subject: Cell Biology
subject: Molecular Biology
subject: Physiology
subject: FOS: Biological sciences
subject: Immunology
subject: FOS: Clinical medicine
subject: Developmental Biology
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: 111714 Mental Health
subject: FOS: Health sciences
subject: Hematology
subject: 110309 Infectious Diseases
subject: 60506 Virology
subject: Computational Biology

description: Transfection of MEFs with poly(I:C) triggers TBK1 accumulation at the centrosome at late time points. (A) MEFs were either left untreated (MOCK) or transfected with LMW poly(I:C) (5 μg/mL) for 4 h (trPoly(I:C)). TBK1 staining was then analyzed by immunofluorescence. The Golgi apparatus was labeled with an antibody against GM130, whereas TBK1 was detected with a rabbit monoclonal antibody. Scale bars, 10 μm. (B–E) MEFs were either left untreated (MOCK) or transfected with HMW poly(I:C) (5 μg/mL) for 4 h (trPoly(I:C)). The indicated proteins were analyzed by immunofluorescence staining with specific antibodies. The Golgi apparatus was labeled with an antibody against GM130, whereas centrosomes were labeled with an antibody against pericentrin. Scale bars, 10 μm. On the right, enlargement of the framed zone in the overlay. (PDF 1624 kb)
Spiroxya spiralis Johnson 1899
Creators: name: Rützler, Klaus
name: Piantoni, Carla
name: Van, Rob W. M.
name: Díaz, Cristina
Publisher: name: Zenodo
Year: 2014
Subjects: Biodiversity
Taxonomy
Animalia
Porifera
Demospongiae
Hadromerida
Clionaidae
Spiroxya
Spiroxya spiralis

description: Spiroxya spiralis (Johnson, 1899)
(Figure 12)
Synonymy and References. Scantilla spiralis Johnson, 1899: 462, pl. 6: 5, 5a.
Material. USNM 1228921, Carrie Bow Cay East, outer reef ridge cave, in Agaricia coral rubble, 12 m; K. Ruetzler col. 12 May 1975.
Examined in the field (not preserved, 12-24B): Curlew Bank, forereef slope (wall), 50-150 cm inside framework cave, ceiling, 20 m; C. Piantoni & M. Parrish, col. 22 Aug 2012.
External morphology. No papillar structures were observed on the substratum surface, only ovoid chambers filled with tissue, measuring 1.5–5 mm in diameter but may be confluent, following the porous structure of the substratum. Soft consistency, tan color (live as well as in alcohol).
Skeleton structure. Oxeas throughout the choanosome, some in bundles but most without orientation, accompanied by numerous spiral microscleres. Abundant tylostyles are foreign, apparently incorporated from other, neighboring clionaids.
Spicules. Oxeas are rather thick and blunt, a few have one rounded (styloid) end, many are bent sharply in the center: 380–520 x 15–28 (471 x 22) Μm; microscleres are microspined spirasters (spines only detectable by SEM, measuring about 0.2 Μm at the base and in height), with spination mainly on the convex sides and at the end of the spirals: 23– 80 x 2–7 (47 x 3) Μm (length by thickness of axis), 7–11 Μm overall width, and 4–7 turns. Ecology. Found in various calcareous substrata (oyster shells, coral rubble) to about 30 m depth. Distribution. Eastern Atlantic, off West Africa (Madeira, Canary Islands, Azores); now Caribbean (Belize). Comments. We did not examine the type specimen but the oxeas described by the original author (Johnson, 1899) seem to be more slender and acerate than ours and occur in two size classes. More material and study will be needed to confirm conspecificity.
Spiroxya spiralis was synonymized with S. levispira (Topsent) by Rosell & Uriz (1997) and van Soest & Beglinger (2009), who assumed that Johnson’s description was incomplete as it does not mention acanthomicrorhabds. However, absence of spiny, amphiaster-like rhabds in our material seems to confirm the original description.
description: Published as part of Rützler, Klaus, Piantoni, Carla, Van, Rob W. M. & Díaz, Cristina, 2014, Diversity of sponges (Porifera) from cryptic habitats on the Belize barrier reef near Carrie Bow Cay, pp. 1-129 in Zootaxa 3805 (1) on pages 26-27, DOI: 10.11646/zootaxa.3805.1.1, http://zenodo.org/record/249983
Cliona amplicavata Rutzler 1974
Creators: name: Rützler, Klaus
name: Piantoni, Carla
name: Van, Rob W. M.
name: Díaz, Cristina
Publisher: name: Zenodo
Year: 2014
Subjects: Biodiversity
Taxonomy
Animalia
Porifera
Demospongiae
Hadromerida
Clionaidae
Cliona
Cliona amplicavata

description: Cliona amplicavata Rützler, 1974
Synonymy and references. Cliona amplicavata Rützler, 1974: 26, figs. 21–23.
Material. USNM 1228922, Carrie Bow Cay, South of boat dock, inside dead conch shell, 1 m; K. Ruetzler col. 26 Apr 1974. USNM 1228923, Carrie Bow Cay, South reef, inside dead conch shell, 1 m; K. Ruetzler col. 4 Aug 2001. USNM 1228924, 1228925 Carrie Bow Cay, back reef and reef flat, inside dead conch shell, 0.5–1 m; K. Ruetzler and C. Piantoni col. 23 Feb 2006.
External morphology. Fairly large, circular papillae, 1–4 mm in diameter, unevenly spaced. Large excavation chambers, 6–12 mm, many confluent, thus reaching up to 10 x 30 mm, filled with soft, slightly mucous tissue. Live color of both papillae and choanosome deep yolk yellow.
Skeleton structure. Spicules in the ectosome (papillae) tend to be packed radially, with points toward and penetrating the surface, in the choanosome they are without orientation.
Spicules. Tylostyles, with raphids as only microscleres. Tylostyles are slightly bent midway their length, have a sharp point and a spherical head that tends to be slightly subterminal, making it drop-shaped. Most heads seem to enclose a small bubble (in transmitted light), a remnant of the axial canal which, in some spicules, is seen extending through most of the length of the shaft; dimensions: 270–350 x 8–12 (310 x 10) Μm. Raphids: 90–160 (107) Μm long,>1Μm thick.
Ecology. In this survey only found inside dead conch shells, 0.5–1 m; observed also on the reef, to 30 m.
Distribution. Bermuda, Netherlands Antilles (Kobluk and van Soest, 1989), and Belize, probably throughout the entire Caribbean region.
Comments. In the field, without a microscope, this sponge is easily confused with Cliona flavifodina Rützler because color and papillae size and distribution, and chambers are very similar. The tissue of the latter, however, feels “dry” (not mucous, soft) when touched.
description: Published as part of Rützler, Klaus, Piantoni, Carla, Van, Rob W. M. & Díaz, Cristina, 2014, Diversity of sponges (Porifera) from cryptic habitats on the Belize barrier reef near Carrie Bow Cay, pp. 1-129 in Zootaxa 3805 (1) on page 27, DOI: 10.11646/zootaxa.3805.1.1, http://zenodo.org/record/249983