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Fig. 11 in Late Miocene bovids from Şerefköy-2 (SW Turkey) and their position within the sub-Paratethyan biogeographic province
Fig. 11. Scatter plot comparing the basal horn core proportions of Skoufotragus from several sites and Protoryx from Pikermi (Late Miocene, Greece). APDbase, anteroposterior diameter at the base; TDbase, transverse diameter at the base.
Fig. 3 in Late Miocene bovids from Şerefköy-2 (SW Turkey) and their position within the sub-Paratethyan biogeographic province
Fig. 3. Discriminant analysis of the horn core proportions of Gazella deperdita from Luberon (= Cucuron), Late Miocene, SW Europe and Gazella capricornis from Pikermi, Late Miocene, Greece, based on four variables: TD at the base (TDbase), APD at the base (APDbase), TD at 7 cm above the base (TD7) and APD at 7 cm above the base (APD7). Arrows indicate values for the Şerefköy-2 gazelle according to the discriminant function. Abbreviations: APD, anteroposterior diameter; TD, transverse diameter.
Data for "Seed production in a dioecious subcanopy conifer tree Taxus baccata: the positive effect of neighboring males and female heterozygosity"
<p>A spreadsheet contains data for individual trees of Taxus baccata collected within the "Wadernik" reserve, Poland. Data include spatial coordinates (in meters), altitude (in meters), trunk perimeter (in centimeters), canopy closure assessment (0-fully open, 10-complete closure), the observed seed number, sex expression (female/male/undetermined), and genotypes at 20 microsatellite markers.</p>
Faa1 membrane binding drives positive feedback in autophagosome biogenesis via fatty acid activation
<p>Autophagy serves as a stress response pathway by mediating the degradation of cellular material within lysosomes. In autophagy, this material is encapsulated in double-membrane vesicles termed autophagosomes, which form from precursors referred to as phagophores. Phagophores grow by lipid influx from the endoplasmic reticulum into Atg9-positive compartments and local lipid synthesis provides lipids for their expansion. How phagophore nucleation and expansion are coordinated with lipid synthesis is unclear. Here, we show that Faa1, an enzyme activating fatty acids, is recruited to Atg9 vesicles by directly binding to negatively charged membranes with a preference for phosphoinositides such as PI3P and PI4P. We define the membrane-binding surface of Faa1 and show that its direct interaction with the membrane is required for its recruitment to phagophores. Furthermore, the physiological localization of Faa1 is key for its efficient catalysis and promotes phagophore expansion. Our results suggest a positive feedback loop coupling phagophore nucleation and expansion to lipid synthesis.</p>
The data for: LCR in fungi display functional groups and are depleted in positively charged amino-acids
<p>Abstract</p> <p>The dataset consists of a TAB formatted table (Main_Dataset.tsv), that integrates information about protein domains (pfam_scan, GO terms), low complexity regions (SEG), signal peptides (SignalP), and transmembrane elements (TMHMM) for each of the analysed proteins within 183 fungal proteomes. The Main Dataset has been designed to ease further searches with Linux bash commands, for e.g. sorting and subsetting by the aforementioned traits. This resource can be used by users interested in detailed annotation of particular protein families, sets of organisms, low complexity regions, types of proteins (for instance transmembrane proteins). Thanks to its simple and clear format, it may also be easily enriched with additional data.</p> <p>Data types:</p> <p>Main_Dataset.tsv is a TSV table with protein annotations</p> <p>Estimate of dataset size:</p> <p> 245MB<br><br>Readme file:</p> <p>Main_Dataset.tsv is a TSV table with the following columns:</p> <ol> <li> <p>Assembly ID from NCBI</p> </li> <li> <p>Protein ID (NCBI accession)</p> </li> <li> <p>Protein length</p> </li> <li> <p>Presence of protein domains; Boolean</p> </li> <li> <p>symbolic localization of protein domains; 10 bins scaled to sum up to total protein length</p> </li> <li> <p>number of transmembrane elements predicted with TMHMM</p> </li> <li> <p>total length of transmembrane elements</p> </li> <li> <p>Symbolic localization of transmembrane elements; 10 bins scaled to sum up to total protein length</p> </li> <li> <p>Presence of signal peptide; Boolean</p> </li> <li> <p>Total number of LCR</p> </li> <li> <p>Total length of LCR</p> </li> <li> <p>Symbolic localization of LCR; 3 bins: N-termini (0-0.25 of protein length), middle (0.25-0.75 of protein length), and C-term (0.75-1 protein length)</p> </li> <li> <p>Symbolic localization of LCR; 10 bins scaled to sum up to total protein length</p> </li> <li> <p>LCR sequences in the N-terminal part of protein, separated by a comma</p> </li> <li> <p>LCR sequences in the middle part of protein, separated by a comma</p> </li> <li> <p>LCR sequences in the C-terminal part of the protein, separated by a comma</p> </li> <li> <p>Pfam domains overlapping with LCRs (>80% of LCR length)</p> </li> <li> <p>Pfam domains in protein (ordered by domain start)</p> </li> <li> <p>GO terms based on Pfam domains obtained by mapping on pfam2go, separated with the pipe symbol '|'</p> </li> </ol> <p> </p> <p>Acknowledgements</p> <p>This work was supported by National Science Centre grants (#2021/41/B/NZ2/02426 to AM, #2019/35/D/NZ2/03411 to K.S).</p>
Supplementary material for: "Who gets the pole position? Spatial and social behaviour of snowfinches at winter feeders in Alpine habitat"
<p><strong>Abstract</strong></p> <p><span>In collective foraging, an individual’s ability to compete with conspecifics can considerably influence its foraging strategy and success. Strong competitors can fight for prioritised access to food, while weak competitors may avoid aggressions and rather seek out less contested foraging opportunities. However, insecure access to food can be detrimental to weak competitors, especially during periods of low and unpredictable resource availability. Here we investigated individual foraging behaviour of White-winged snowfinches <em>Montifringilla nivalis</em>, specialists of alpine habitats and their strategies for coping with competition for food resources in winter. A difference in condition dependence of survival rates between males and females in this species has made us hypothesise that males may be more dominant in accessing food resources than females. We set up artificial experimental food patches in the Swiss Alps to observe foraging male and female snow finches and recorded their behaviour in interactions with conspecifics and their spatial position relative to the food. We found that individuals frequently occupying positions close to the food resources were more involved in agonistic interactions than individuals staying in more distant positions.</span><span> </span><span>This result suggests that different individuals use different foraging strategies, probably depending on their level of competitiveness. Furthermore, we observed males to forage slightly closer to the food source than females,</span><span> </span><span>which could imply that females may have less access to artificial feeders than males. </span></p>
FIG. 3 in A new species, Lochriea monocarinata n. sp., and its position in the morphospace of the genus Lochriea Scott, 1942 (Conodonta, Mississippian)
FIG. 3. — Morphology of the P1 element of Lochriea Scott, 1942 and the terms for the orientation of the elements (Purnell et al. 2000).
FIG. 6 in A new species, Lochriea monocarinata n. sp., and its position in the morphospace of the genus Lochriea Scott, 1942 (Conodonta, Mississippian)
FIG. 6. — Morphological schemes of sinistral (A-D) and dextral (E-G) P1 elements of Lochriea monocarinata n. sp. and scheme of probable occlusion of sinistral (red) and dextral (green) elements (H). The line drawings are based on the SEM microphotographs (see Fig. 5). D, holotype, specimen 445/12. Abbreviations: d, dextral; s, sinistral.
FIG. 1 in A new species, Lochriea monocarinata n. sp., and its position in the morphospace of the genus Lochriea Scott, 1942 (Conodonta, Mississippian)
FIG. 1. — Location of the studied sections (*): A, general geographical position of the studied area; B, location of the sections: 1, Kamenka section; 2, Izyayu section; 3, Kozhim section; 4, Bolshaya Nadota section.
FIG. 2 in A new species, Lochriea monocarinata n. sp., and its position in the morphospace of the genus Lochriea Scott, 1942 (Conodonta, Mississippian)
FIG. 2. — Correlation of the key sections of the uppermost Viséan-Serpukhovian interval in the North Urals and Cis-Urals (Vevel et al. 2018; Zhuravlev et al. 2023). Abbreviations: m, mudstone; w, wackestones; p, packstone; g, grainstone; f, floatstone; FOD, first occurrence datum; G., Gnathodus Pander, 1856; L., Lochriea Scott, 1942. The stars mark occurrences of Lochriea monocarinata n. sp.
FIG. 5 in A new species, Lochriea monocarinata n. sp., and its position in the morphospace of the genus Lochriea Scott, 1942 (Conodonta, Mississippian)
FIG. 5. — Some advanced Lochriea from the Serpukhovian (Lochriea ziegleri Zone) of North of Urals and Cis-Urals region: A, Lochriea ziegleri Nemirovskaya, Perret-Mirouse, Meischner, 1994, specimen 145/24, sample Iz4-51/98, Izyayu section; B, Lochriea ziegleri Nemirovskaya, Perret & Meischner, 1994, specimen 145/19, sample K99-21/22, Kamenka section; C, Lochriea senckenbergica Nemirovskaya, Perret & Meischner, 1994, specimen 145/22, sample 125-19/22, Kamenka section; D, Lochriea ziegleri Nemirovskaya, Perret & Meischner, 1994, specimen 145/20, sample K99-21/22, Kamenka section; E, Lochriea senckenbergica Nemirovskaya, Perret & Meischner, 1994-Lochriea cruciformis (Clarke, 1960) transition, specimen 145/23, sample Iz4-52/98, Izyayu section; F, Lochriea senckenbergica Nemirovskaya, Perret & Meischner, 1994 – Lochriea cruciformis (Clarke, 1960) transition, specimen 145/27, sample Iz4-53/98, Izyayu section; G, Lochriea mononodosa (Rhodes, Austin & Druce, 1969), specimen 145/15, sample N2-1-11/99, Bolshaya Nadota section; H, Lochriea sp., specimen 145/12,
FIG. 5 in A new species, Lochriea monocarinata n. sp., and its position in the morphospace of the genus Lochriea Scott, 1942 (Conodonta, Mississippian)
FIG. 5. — Some advanced Lochriea from the Serpukhovian (Lochriea ziegleri Zone) of North of Urals and Cis-Urals region: A, Lochriea ziegleri Nemirovskaya, Perret-Mirouse, Meischner, 1994, specimen 145/24, sample Iz4-51/98, Izyayu section; B, Lochriea ziegleri Nemirovskaya, Perret & Meischner, 1994, specimen 145/19, sample K99-21/22, Kamenka section; C, Lochriea senckenbergica Nemirovskaya, Perret & Meischner, 1994, specimen 145/22, sample 125-19/22, Kamenka section; D, Lochriea ziegleri Nemirovskaya, Perret & Meischner, 1994, specimen 145/20, sample K99-21/22, Kamenka section; E, Lochriea senckenbergica Nemirovskaya, Perret & Meischner, 1994-Lochriea cruciformis (Clarke, 1960) transition, specimen 145/23, sample Iz4-52/98, Izyayu section; F, Lochriea senckenbergica Nemirovskaya, Perret & Meischner, 1994 – Lochriea cruciformis (Clarke, 1960) transition, specimen 145/27, sample Iz4-53/98, Izyayu section; G, Lochriea mononodosa (Rhodes, Austin & Druce, 1969), specimen 145/15, sample N2-1-11/99, Bolshaya Nadota section; H, Lochriea sp., specimen 145/12 sample N2-1-7/99, Bolshaya Nadota section; I, Lochriea ziegleri Nemirovskaya, Perret & Meischner, 1994, specimen 145/18, sample K99-21/22, Kamenka section; J, Lochriea monocarinata n. sp.-Lochriea ziegleri Nemirovskaya, Perret & Meischner, 1994 transition, specimen 145/14, sample N2-1-10/99, Bolshaya Nadota section; K, Lochriea monocostata (Pazukhin & Nemirovskaya in Kulagina et al., 1992), specimen 145/4, sample Iz4-53/98, Izyayu section; L, Lochriea mononodosa (Rhodes, Austin & Druce, 1969), specimen 145/8, sample Iz4-52/98, Izyayu section; M, Lochriea ziegleri Nemirovskaya, Perret & Meischner, 1994, specimen 145/21, sample K99-21/22, Kamenka section; N, Lochriea monocarinata n. sp., specimen 145/16, sample N2-1-11/99, Bolshaya Nadota section; O, Lochriea commutata (Branson & Mehl, 1941)-Lochriea mononodosa (Rhodes, Austin & Druce, 1969) transition, specimen 145/11, sample N2-1-5/99, Bolshaya Nadota section; P, Lochriea monocarinata n. sp., specimen 145/17, sample N2-1-11/99, Bolshaya Nadota section; Q, Lochriea mononodosa (Rhodes, Austin & Druce, 1969)-Lochriea monocarinata n. sp. transition, specimen 145/3, sample Iz4-53/98, Izyayu section; R, Lochriea monocarinata n. sp., specimen 145/7, sample Iz4- 52/98, Izyayu section; S, Lochriea monocarinata n. sp., specimen 145/6, sample Iz4-52/98, Izyayu section; T, Lochriea mononodosa (Rhodes, Austin & Druce, 1969)-Lochriea monocarinata n. sp. transition, specimen145/9, sample Iz4-60/98, Izyayu section; U, Lochriea monocarinata n. sp., specimen 145/10, sample N2-1-5/99, Bolshaya Nadota section; V, Lochriea monocarinata n. sp., specimen 145/2, sample Iz4-53/98, Izyayu section; W, Lochriea monocarinata n. sp., specimen 145/1, sample K99-21/22, Kamenka section; X, Lochriea mononodosa (Rhodes, Austin & Druce, 1969), specimen 145/25, sample Iz4-45/98, Izyayu section; Y, Lochriea monocostata (Pazukhin & Nemirovskaya in Kulagina et al., 1992)-Lochriea monocarinata n. sp. transition, specimen 145/13, sample N2-1- 8/99, Bolshaya Nadota section; Z, Lochriea monocarinata n. sp., holotype, specimen 445/12, sample Iz4-52/98, Izyayu section; AA, Lochriea sp., P2 element, specimen 145/26, sample Iz4-51/98, Izyayu section. Scale bar: 0.1 mm.
Fig. 2. – Nematanthus exsertus Chautems. A in Description and phylogenetic position of a new species of Nematanthus (Gesneriaceae) from Bahia, Brazil
Fig. 2. – Nematanthus exsertus Chautems. A. Habit with pendent pedicels in native habitat; B. Flowering shoots; C. Close-up of shoot showing stem and petiole indumentum; D. Close-up of corolla showing exserted stamens and style.
Fig. 1. – Bayesian 50 in Description and phylogenetic position of a new species of Nematanthus (Gesneriaceae) from Bahia, Brazil
Fig. 1. – Bayesian 50 % majority rule consensus tree of Nematanthus resulting from the combined analysis of plastid loci atpB-rbcL, matK, rps16, rpl16, trnT-trnL, trnL-trnF, trnS-trnG, and the nuclear regions ncpGS and ITS. Numbers above branches are Bayesian posterior probabilities. Numbers below branches are maximum likelihood bootstrap when ≥50 %. Asterisks indicate species with funnel-shaped and laterally compressed corollas.
Fig. 1 in Ormocarpopsis anosyana Thulin & Razafim. (Fabaceae), a new species from southern Madagascar and its phylogenetic position
Fig. 1. – Best tree from the RAxML analysis of Ormocarpopsis R. Vig. and allied genera based on ITS data. Bootstrap support values are shown above and Bayesian posterior probabilities below the branches.
Fig. 2 in Ormocarpopsis anosyana Thulin & Razafim. (Fabaceae), a new species from southern Madagascar and its phylogenetic position
Fig. 2. – Ormocarpopsis anosyana Thulin & Razafim. A. Front view of flower; B. Flowering branch; C. Fruiting branch, showing fruit with a single seed developed.
Fig. 6. Bayesian inference tree for 5519 in First Record of Poecilobdella nanjingensis (Hirudinida: Arhynchobdellida: Hirudinidae) from Taiwan and its Molecular Phylogenetic Position within the Family
Fig. 6. Bayesian inference tree for 5519 bp alignment positions of nuclear 18S rRNA, 28S rRNA, mitochondrial cytochrome c oxidase subunit I, and 12S rRNA markers. Numbers on nodes indicate bootstrap values for maximum likelihood and Bayesian inference posterior probabilities.
Fig. 3. Poecilobdella nanjingensis Yang, 1996 in First Record of Poecilobdella nanjingensis (Hirudinida: Arhynchobdellida: Hirudinidae) from Taiwan and its Molecular Phylogenetic Position within the Family
Fig. 3. Poecilobdella nanjingensis Yang, 1996, from Neidong, Wulai, KUZ Z1743. A, dorsal view of reproductive system including ventral nervous system; B, dorsal view of male median reproductive system with outline of prostate gland including positions of ganglia XI and XII; C, left lateral view of schematic drawing of male median reproductive system; D, dorsal view of female reproductive system with outline of prostate gland including position of ganglion XIII; E, lateral view of schematic drawing of female reproductive system. Scale bars: 2 mm (A); 0.5 mm (B, D). Abbreviations: at, atrium; eb, ejaculatory bulb; ep, epididymis; od, oviduct; ov, ovisac; pes, penis sheath; pg, prostate gland; ts, testisac; vd, vaginal duct; vg, vagina.
Fig. 4. Poecilobdella nanjingensis Yang, 1996 in First Record of Poecilobdella nanjingensis (Hirudinida: Arhynchobdellida: Hirudinidae) from Taiwan and its Molecular Phylogenetic Position within the Family
Fig. 4. Poecilobdella nanjingensis Yang, 1996, from Neidong, Wulai, KUZ Z1743. A, dorsal view of live animal; B, live animal found under a stone at the locality. Scale bar: 5 mm (B).
Fig. 1. Poecilobdella nanjingensis Yang, 1996 in First Record of Poecilobdella nanjingensis (Hirudinida: Arhynchobdellida: Hirudinidae) from Taiwan and its Molecular Phylogenetic Position within the Family
Fig. 1. Poecilobdella nanjingensis Yang, 1996, from Neidong, Wulai, KUZ Z1743. A, dorsal view; B, ventral view. Scale bar: 5 mm.
ScienceDex guides
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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.