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1,416 results for “Evidence Base”
Figure 2 from: Tan K, Lu T, Ren M-X (2020) Gesneriaceae in China and Vietnam: Perfection of taxonomy based on comprehensive morphological and molecular evidence. In: Shui Y-M, Chen W-H, Ren M-X, Wen F, Hong X, Qiu Z-J, Wei Y-G, Kang M (Eds) Taxonomy of Gesneriaceae in China and Vietnam. PhytoKeys 157: 7-26. https://doi.org/10.3897/phytokeys.157.34032
Figure 2 Distribution localities of 15 genera of the Asian Gesneriaceae that experienced extensive changes in species compositions.
Figure 5 from: Yang L-H, Wen F, Kong H-H, Sun Z-X, Su L-Y, Kang M (2020) Two new combinations in Oreocharis (Gesneriaceae) based on morphological, molecular and cytological evidence. In: Shui Y-M, Chen W-H, Ren M-X, Wen F, Hong X, Qiu Z-J, Wei Y-G, Kang M (Eds) Taxonomy of Gesneriaceae in China and Vietnam. PhytoKeys 157: 43-58. https://doi.org/10.3897/phytokeys.157.32609
Figure 5 Geographical distribution of Oreocharis guileana (green dot), O. baolianis (red triangle) and O. pilosopetiolata (blue square).
Figure 3 from: Yang L-H, Wen F, Kong H-H, Sun Z-X, Su L-Y, Kang M (2020) Two new combinations in Oreocharis (Gesneriaceae) based on morphological, molecular and cytological evidence. In: Shui Y-M, Chen W-H, Ren M-X, Wen F, Hong X, Qiu Z-J, Wei Y-G, Kang M (Eds) Taxonomy of Gesneriaceae in China and Vietnam. PhytoKeys 157: 43-58. https://doi.org/10.3897/phytokeys.157.32609
Figure 3 Bayesian (> 50%) tree resulting of the combined nuclear (ITS) and plastid (trnL-F) data matrices. Posterior probability (PP) from the BI analysis are indicated above branches and Bootstrap value (BS) from the ML analysis are indicated below. The asterisk indicates a BS < 50. The dash indicates the topological discordance between ML and Bayesian tree. The two species, O. baolianis and O. guileana, are highlighted in bold.
Figure 1 from: Yang L-H, Wen F, Kong H-H, Sun Z-X, Su L-Y, Kang M (2020) Two new combinations in Oreocharis (Gesneriaceae) based on morphological, molecular and cytological evidence. In: Shui Y-M, Chen W-H, Ren M-X, Wen F, Hong X, Qiu Z-J, Wei Y-G, Kang M (Eds) Taxonomy of Gesneriaceae in China and Vietnam. PhytoKeys 157: 43-58. https://doi.org/10.3897/phytokeys.157.32609
Figure 1 Photographs of Oreocharis guileana (A–H), O. pilosopetiolata (I), Boeica ferruginea (J) and Beccarinda tonkinensis (K). A, E, I habit B, C flower D opened corolla, showing stamens and staminodes F pistil G, H, J, K mature fruit.
Figure 4 from: Yang L-H, Wen F, Kong H-H, Sun Z-X, Su L-Y, Kang M (2020) Two new combinations in Oreocharis (Gesneriaceae) based on morphological, molecular and cytological evidence. In: Shui Y-M, Chen W-H, Ren M-X, Wen F, Hong X, Qiu Z-J, Wei Y-G, Kang M (Eds) Taxonomy of Gesneriaceae in China and Vietnam. PhytoKeys 157: 43-58. https://doi.org/10.3897/phytokeys.157.32609
Figure 4 Somatic metaphase chromosome spreads of Oreocharis guileana, 2n = 34 (A), O. baolianis, 2n = 34 (B), Beccarinda tonkinensis, 2n = 20 (C) and Boeica stolonifera, 2n = 20 (D). Scale bar: 10 μm.
Figure 2 from: Yang L-H, Wen F, Kong H-H, Sun Z-X, Su L-Y, Kang M (2020) Two new combinations in Oreocharis (Gesneriaceae) based on morphological, molecular and cytological evidence. In: Shui Y-M, Chen W-H, Ren M-X, Wen F, Hong X, Qiu Z-J, Wei Y-G, Kang M (Eds) Taxonomy of Gesneriaceae in China and Vietnam. PhytoKeys 157: 43-58. https://doi.org/10.3897/phytokeys.157.32609
Figure 2 Photographs of Oreocharis baolianis. A–C Habit D, E flower F, H opened corolla, showing stamens and staminodes G anthers I pistil J mature fruit.
Figure 1 from: Tan K, Lu T, Ren M-X (2020) Gesneriaceae in China and Vietnam: Perfection of taxonomy based on comprehensive morphological and molecular evidence. In: Shui Y-M, Chen W-H, Ren M-X, Wen F, Hong X, Qiu Z-J, Wei Y-G, Kang M (Eds) Taxonomy of Gesneriaceae in China and Vietnam. PhytoKeys 157: 7-26. https://doi.org/10.3897/phytokeys.157.34032
Figure 1 Geographical distribution patterns of the 10 genera of the Asian Gesneriaceae that experienced extensive changes in species compositions.
Figure 4 from: Tan K, Lu T, Ren M-X (2020) Gesneriaceae in China and Vietnam: Perfection of taxonomy based on comprehensive morphological and molecular evidence. In: Shui Y-M, Chen W-H, Ren M-X, Wen F, Hong X, Qiu Z-J, Wei Y-G, Kang M (Eds) Taxonomy of Gesneriaceae in China and Vietnam. PhytoKeys 157: 7-26. https://doi.org/10.3897/phytokeys.157.34032
Figure 4 Genera phylogeny with geographical distribution pattern of the Asian Gesneriaceae. The number in the brackets is the species diversity of the genus. Phylogeny tree was redrawn based on Möller and Clark (2013), Middleton et al. (2015), Puglisi et al. (2016), Möller et al. (2016a), Middleton et al. (2018).
Data from: Leme et al. (2020) New status for the Amazonian Hylaeaicum (Bromeliaceae: Bromelioideae) based on neglected morphological traits and molecular evidence. Phytotaxa (doi: 10.11646/phytotaxa.499.1.1)
<p>DNA sequence alignments as well as the input and output files which specify the different data partitioning schemes used for phylogenetic analyses in Leme et al. (2020) New status for the Amazonian Hylaeaicum (Bromeliaceae: Bromelioideae) based on neglected morphological traits and molecular evidence. Phytotaxa (doi: 10.11646/phytotaxa.499.1.1).</p>
Data: Experimental evidence of warming-induced disease emergence and its prediction by a trait-based mechanistic model
<p>Predicting the effects of seasonality and climate change on the emergence and spread of infectious disease remains difficult, in part because of poorly understood connections between warming and the mechanisms driving disease. Trait-based mechanistic models combined with thermal performance curves arising from the Metabolic Theory of Ecology (MTE) have been highlighted as a promising approach going forward; however, this framework has not been tested under controlled experimental conditions that isolate the role of gradual temporal warming on disease dynamics and emergence. Here, we provide experimental evidence that a slowly warming host – parasite system can be pushed through a critical transition into an epidemic state. We then show that a trait-based mechanistic model with MTE functional forms can predict the critical temperature for disease emergence, subsequent disease dynamics through time, and final infection prevalence in an experimentally warmed system of <i>Daphnia </i>and a microsporidian parasite. Our results serve as a proof of principle that trait-based mechanistic models using MTE sub-functions can predict warming-induced disease emergence in data-rich systems – a critical step towards generalizing the approach to other systems.</p>
Data from: Indirect genetic effects and the genetic bases of social dominance: evidence from cattle
Genetic studies of social behaviour have currently received new impetus from models including indirect genetic effects (IGEs) of social partners. This study aimed at investigating the contribution of conspecifics in social dominance, considered as response of dyadic interaction that is, winning (dominant individual) or losing (subordinate). A genetic correlation of −1 is expected between the attitude to win and the attitude to loose, and because a population always accounts for half winners and half losers, the heritability of the dominant status should be close to zero. Specifically, social dominance was studied in Aosta Chestnut and Aosta Black Pied (Bos taurus) breeds, alpine rustic cattle famous for traditional tournaments where pairs of cows assess dominant status in bloodless fights. The outcomes of 25 590 dyadic interactions performed by 8159 individuals in 11 years were analysed by applying a classical quantitative model and models including indirect effects. Data were analysed via Bayesian approach on a threshold trait. The assessment of variances revealed a genetic correlation of −0.976 between direct and indirect genetic components. The heritability measured on a liability scale was 0.122 for direct phenotype, but decreased to 0.014 when the total heritable variance (TBV) was considered. The trend of estimated breeding values showed that the total TBV was constant over the years, even though its direct component increased and the indirect part decreased. This result confirms the relevance of IGEs on social behaviour and the assumption that the mean individual social dominance cannot evolve within a population, due to the evolutionary constraints imposed by the 'social environment'.
Data from: User-friendly and evidence-based tool to evaluate probability of eradication of aquatic non-indigenous species
1. The gap between practitioners and conservation or environmental management science is difficult to bridge. Managers sometimes use limited scientific information in their decision-making process, mainly because they have little time to review primary literature before making a decision. Making data readily available to managers is expected to improve the overall efficiency of management interventions. Here we present an approach to develop user-friendly applications for evidence-based management and illustrate the concept by presenting a simple computer program designed to evaluate the probability of eradication of aquatic non-indigenous species. 2. We conducted a review of case studies that attempted to control aquatic non-indigenous species and used a statistical model to relate the outcome (eradication or non-eradication) to characteristics of the populations and interventions conducted. Based on a few key variables, the model returned accurate probabilities of eradication as evaluated with a Receiver Operating Characteristic curve and jackknife and cross-validation procedures. 3. We packaged the statistical model in a user-friendly computer program that can be used by managers to 1) rapidly calculate the probability of success of a planned intervention with associated uncertainty, 2) compare the success probabilities of different possible interventions, and 3) prioritize what information should be collected to increase the reliability of estimates. 4. Synthesis and applications. Our decision-support tool is easy to implement, statistically flexible, and could be used for any type of conservation or management intervention, given a sufficient number of case studies available in the literature. We recommend that scientists develop such tools whenever they conduct reviews of effectiveness of intervention. This is likely to result in greater use of data by practitioners, increased reliability of cost–benefit analyses, and an overall increase in efficiency in conservation and environmental management.
Data from: Evidence-based tool surpasses expert opinion in predicting probability of eradication of aquatic nonindigenous species
The main objective of evidence-based management is to promote use of scientific data in the decision-making process of managers, with data either complementing or replacing expert knowledge. It is expected that this will increase the efficiency of environmental interventions. However, the relative accuracy and precision of evidence-based tools and expert knowledge has seldom been evaluated. It is therefore essential to verify whether such tools provide better decision support before advocating their use. We conducted an elicitation survey in which experts were asked to (1) evaluate the influence of various factors on the success of eradication programs for aquatic nonindigenous species and (2) provide probabilities of success for real case studies for which we knew the outcome. The responses of experts were compared with the results and predictions of a newly developed evidence-based tool: a statistical model calibrated with a meta-analysis of case studies designed to evaluate probability of eradication. Experts and the model generally identified the same factors as influencing the probability of success. However, the model provided much more accurate estimates for the probability of eradication than expert opinion, strongly suggesting that an evidence-based approach is superior to expert knowledge in this case. Uncertainty surrounding the predictions of the evidence-based tool was similar to among-expert variability. Finally, a model based on ≥30 case studies returned more accurate predictions than expert opinion. We conclude that decision-making processes based on expert judgment would greatly benefit from incorporating evidence-based tools.
FIGURE 5 in Revalidation of the Brazilian Atlantic Forest dung beetle species Coprophanaeus (Metallophanaeus) machadoi (Pereira & d'Andretta, 1955) (Coleoptera: Scarabaeidae: Scarabaeinae: Phanaeini) based on morphological and distributional evidence
FIGURE 5. Holotype of Coprophanaeus machadoi. 5a) Dorsal view. 5b) Ventral view. 5c) Labels.
FIGURE 8 in Phanoceroides Hinton, 1939: description of new species, morphology of larvae, and revised taxonomic position of the genus (Coleoptera: Elmidae) based on molecular evidence
FIGURE 8. Distribution map, showing collection localities of Phanoceroides fernandesi sp. n.
FIGURE 1 in Phanoceroides Hinton, 1939: description of new species, morphology of larvae, and revised taxonomic position of the genus (Coleoptera: Elmidae) based on molecular evidence
FIGURE 1. Habitus of Phanoceroides species: a) P. aquaticus Hinton, 1939; b) P. fernandesi sp. n.
FIGURE 3 in Parapercis lutevittata, a new cryptic species of Parapercis (Teleostei: Pinguipedidae), from the western Pacific based on morphological evidence and DNA barcoding
FIGURE 3. Parapercis sexfasciata, paralectotype, RMNH 415, 142 mm SL. (photo by R. Ruiter).
FIGURE 2 in CLADISTIC ANALYSIS OF THE ARGENTINIAN SPECIES OF THE GENUS BOSTRYX (GASTROPODA, STYLOMMATOPHORA) BASED ON MORPHOLOGICAL EVIDENCE
FIGURE 2: (A) Character 19. Ventral view of the shell of Bostryx roselleus Miranda & Cuezzo, 2014 (0) and Bostryx reedi (Parodiz, 1947) (1). (B) Character 20. Detail of body whorl sculpture in dorsal view of B. roselleus (0) and Bostryx birabenorum Weyrauch, 1965 (1). (C) Character 21. Detail of body whorl sculpture in dorsal view of Bostryx stelzneri (Dohrn, 1875) (0) and Bostryx peristomatus (Doering, 1879) (1). (D) Character 22. Suture simple in B. stelzneri (0) and crenulated in B. birabenorum (1) (arrows). (E) Character 23. Shell shape aperture in Bostryx catamarcanus (Parodiz, 1956) (0), Bostryx scaber (Parodiz, 1948) (1) and Bostryx cuyanus (Pfeiffer, 1867) (2). (F) Character 24. Ventral view of Bostryx martinezi (Hylton Scott, 1965) (0) and Bostryx mendozanus (Strobel, 1874) (1) showing a parietal callus (arrow).
Supplementary material 4 from: Ya J-D, Wang W-T, Liu Y-L, Jiang H, Han Z-D, Zhang T, Huang H, Cai J, Li D-Z (2023) Five new and noteworthy species of Epidendroideae (Orchidaceae) from southwestern China based on morphological and phylogenetic evidence. PhytoKeys 235: 211-236. https://doi.org/10.3897/phytokeys.235.111230
Summary of publicly available Gastrochilus plastid sequences in this study
Supplementary material 3 from: Ya J-D, Wang W-T, Liu Y-L, Jiang H, Han Z-D, Zhang T, Huang H, Cai J, Li D-Z (2023) Five new and noteworthy species of Epidendroideae (Orchidaceae) from southwestern China based on morphological and phylogenetic evidence. PhytoKeys 235: 211-236. https://doi.org/10.3897/phytokeys.235.111230
Summary of publicly available Gastrochilus plastomes sequences in this study
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.