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  • 1
    Online-Ressource
    Online-Ressource
    Springer Science and Business Media LLC ; 2016
    In:  Plant and Soil Vol. 398, No. 1-2 ( 2016-1), p. 351-365
    In: Plant and Soil, Springer Science and Business Media LLC, Vol. 398, No. 1-2 ( 2016-1), p. 351-365
    Materialart: Online-Ressource
    ISSN: 0032-079X , 1573-5036
    Sprache: Englisch
    Verlag: Springer Science and Business Media LLC
    Publikationsdatum: 2016
    ZDB Id: 1478535-3
    ZDB Id: 208908-7
    SSG: 12
    Bibliothek Standort Signatur Band/Heft/Jahr Verfügbarkeit
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  • 2
    In: Haemophilia, Wiley, Vol. 29, No. 2 ( 2023-03), p. 648-657
    Kurzfassung: People with haemophilia (PwH) suffer from knee and ankle joint pain, but the association with structural damage remains underexplored. They report activity limitations but it is unclear which factors contribute to lower limb activity limitations (LL‐AL). Aims This study aimed (i) to analyse the association between ankle joint pain and structure and (ii) explore the contribution of haemophilia‐related, individual and psychological factors to LL‐AL in PwH. Methods This study included 104 moderate/severe PwH. Ankle pain intensity was assessed with a numeric rating scale and pain sensitivity with algometry (pressure pain threshold (PPT A )). Ankle structure was assessed with MRI (IPSG‐MRI) and ultrasound (HEAD‐US), joint health with the Haemophilia Joint Health Score (HJHS). The HAL‐LOWCOM subscore evaluated LL‐AL. A Spearman correlation analysed the correlation between ankle pain and structure. The contribution of haemophilia‐related factors (joint health, overall pain (Brief Pain Inventory‐Pain Severity (BPI‐PS)), functional status (2‐Minute‐Walking‐Distance, Timed Up and Go); individual factors (age, BMI) and psychological factors (fear and avoidance beliefs over physical activity (FABQ‐PA) and work (FABQ‐Work), anxiety and depression) to LL‐AL was explored using a regression analysis. Results Only low correlations were found between ankle pain intensity and structure (IPSG‐MRI, HEAD‐US). PPT A was unrelated to structure. Altogether, HJHS, overall pain (BPI‐PS), FABQ‐Work and age explained 69% of HAL‐LOWCOM variance, with 65% explained by the combination of HJHS and BPI‐PS. Conclusion No meaningful associations were found between ankle pain and structural damage, suggesting that other factors may contribute to PwH's ankle pain. In contrast, mainly haemophilia‐related factors explained LL‐AL variance.
    Materialart: Online-Ressource
    ISSN: 1351-8216 , 1365-2516
    URL: Issue
    Sprache: Englisch
    Verlag: Wiley
    Publikationsdatum: 2023
    ZDB Id: 2006344-1
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  • 3
    Online-Ressource
    Online-Ressource
    Annual Reviews ; 2016
    In:  Annual Review of Plant Biology Vol. 67, No. 1 ( 2016-04-29), p. 619-642
    In: Annual Review of Plant Biology, Annual Reviews, Vol. 67, No. 1 ( 2016-04-29), p. 619-642
    Kurzfassung: The plant root system traverses one of the most complex environments on earth. Understanding how roots support plant life on land requires knowing how soil properties affect the availability of nutrients and water and how roots manipulate the soil environment to optimize acquisition of these resources. Imaging of roots in soil allows the integrated analysis and modeling of environmental interactions occurring at micro- to macroscales. Advances in phenotyping of root systems is driving innovation in cross-platform-compatible methods for data analysis. Root systems acclimate to the environment through architectural changes that act at the root-type level as well as through tissue-specific changes that affect the metabolic needs of the root and the efficiency of nutrient uptake. A molecular understanding of the signaling mechanisms that guide local and systemic signaling is providing insight into the regulatory logic of environmental responses and has identified points where crosstalk between pathways occurs.
    Materialart: Online-Ressource
    ISSN: 1543-5008 , 1545-2123
    URL: Issue
    Sprache: Englisch
    Verlag: Annual Reviews
    Publikationsdatum: 2016
    ZDB Id: 2098209-4
    SSG: 12
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  • 4
    Online-Ressource
    Online-Ressource
    Wiley ; 2019
    In:  Methods in Ecology and Evolution Vol. 10, No. 5 ( 2019-05), p. 702-711
    In: Methods in Ecology and Evolution, Wiley, Vol. 10, No. 5 ( 2019-05), p. 702-711
    Kurzfassung: Funktionelle Wurzelmerkmale finden verstärkte Beachtung als Äquivalente zu oberirdischen Merkmalen. Bildanalysesoftware, wie WinRhizo ™ und IJ_Rhizo, vereinfachen die Analyse. Delory et al. ( ) vergleichen die Genauigkeit dieser beiden Programme bezüglich der Messung von Wurzellängen. Wir ergänzen diese Analyse mit einem Vergleich der Präzision der Durchmesser‐ und Volumenmessungen bei unterschiedlichen Bildauflösungen sowohl mit manuellem als auch automatisch gesetztem Schwellenwert zur Unterscheidung von Wurzel und Hintergrund. Wir haben 100 Bilddateien mit WinRhizo ™ und IJ_Rhizo analysiert, welche mit dem Wurzelmodel ArchiSimple erstellt wurden. Für jedes Bild waren Durchmesser, Länge und Volumen des Wurzelsystems bekannt und konnten mit den Messwerten der Programme verglichen werden. In einem zweiten Schritt haben wir die Abhängigkeit der relativen Fehler aller Parameter von Bildeigenschaften und Wurzelsystemeigenschaften überprüft. Bei einer Bildauflösung von 1,200 und 800 dpi war die Genauigkeit der beiden Programme vergleichbar. Die Fehler der Durchmessermessungen waren balanciert. Die Volumenmessungen waren durch einen systematischen Fehler beeinflusst, der durch die Annahme von konstanten Durchmessern verursacht wird. In Falle von WinRhizo ™ kann dieser Fehler vermieden werden. Bei einer Auflösung von 1,200 dpi war IJ_Rhizo nicht in der Lage automatisch einen angemessenen Schwellenwert zu finden, was zu erheblichen Fehlern führte. Bei der Analyse mit IJ_Rhizo nahmen die Fehler der Durchmesser mit zunehmender Überlappung der Wurzeln zu. Im Falle von WinRhizo ™ , stiegen die Fehler der Wurzellänge mit der Gesamtwurzellänge, der Überlappung und der Wurzellängendichte in den Bildern an, während die relativen Fehler der Volumina mit steigendem Gesamtvolumen abnahmen. Alle Fehler nahmen bei verringerter Bildauflösung zu. Unsere Ergebnisse bestätigen die Ergebnisse von Delory et al. ( ) bezüglich der Genauigkeit der Wurzellängenmessungen. Sie bestärken außerdem die Schlussfolgerung, dass Messungen, die mit verschiedenen Programmen oder bei verschiedenen Auflösungen gemacht wurden, nicht direkt vergleichbar sind. Die Eigenschaften von Bildern sollten möglichst weitgehend standardisiert werden. Die Abhängigkeit der Fehler von der Antwortvariable kann sowohl die Effektgröße als auch die Fehlerwahrscheinlichkeit beeinflussen. Dementsprechend sollte jede Validierung der Methoden datensatzspezifisch erfolgen. Neue Analysemethoden sollten anhand direkter Referenzwerte, nicht nur anderer Programme, getestet werden.
    Materialart: Online-Ressource
    ISSN: 2041-210X , 2041-210X
    URL: Issue
    Sprache: Englisch
    Verlag: Wiley
    Publikationsdatum: 2019
    ZDB Id: 2528492-7
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  • 5
    In: eLife, eLife Sciences Publications, Ltd, Vol. 11 ( 2022-09-01)
    Kurzfassung: The plant kingdom contains a stunning array of complex morphologies easily observed above-ground, but more challenging to visualize below-ground. Understanding the magnitude of diversity in root distribution within the soil, termed root system architecture (RSA), is fundamental in determining how this trait contributes to species adaptation in local environments. Roots are the interface between the soil environment and the shoot system and therefore play a key role in anchorage, resource uptake, and stress resilience. Previously, we presented the GLO-Roots (Growth and Luminescence Observatory for Roots) system to study the RSA of soil-grown Arabidopsis thaliana plants from germination to maturity (Rellán-Álvarez et al., 2015). In this study, we present the automation of GLO-Roots using robotics and the development of image analysis pipelines in order to examine the temporal dynamic regulation of RSA and the broader natural variation of RSA in Arabidopsis , over time. These datasets describe the developmental dynamics of two independent panels of accessions and reveal highly complex and polygenic RSA traits that show significant correlation with climate variables of the accessions’ respective origins.
    Materialart: Online-Ressource
    ISSN: 2050-084X
    Sprache: Englisch
    Verlag: eLife Sciences Publications, Ltd
    Publikationsdatum: 2022
    ZDB Id: 2687154-3
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  • 6
    Online-Ressource
    Online-Ressource
    Wiley ; 2021
    In:  Ecology and Evolution Vol. 11, No. 8 ( 2021-04), p. 3516-3526
    In: Ecology and Evolution, Wiley, Vol. 11, No. 8 ( 2021-04), p. 3516-3526
    Kurzfassung: Learning biology, and in particular systematics, requires learning a substantial amount of specific vocabulary, both for botanical and zoological studies. While crucial, the precise identification of structures serving as evolutionary traits and systematic criteria is not per se a highly motivating task for students. Teaching this in a traditional teaching setting is quite challenging especially with a large crowd of students to be kept engaged. This is even more difficult if, as during the COVID‐19 crisis, students are not allowed to access laboratories for hands‐on observation on fresh specimens and sometimes restricted to short‐range movements outside their home. Here, we present QuoVidi, a new open‐source web platform for the organization of large‐scale treasure hunts. The platform works as follows: students, organized in teams, receive a list of quests that contain morphologic, ecologic, or systematic terms. They have to first understand the meaning of the quests, then go and find them in the environment. Once they find the organism corresponding to a quest, they upload a geotagged picture of their finding and submit this on the platform. The correctness of each submission is evaluated by the staff. During the COVID‐19 lockdown, previously validated pictures were also submitted for evaluation to students that were locked in low‐biodiversity areas. From a research perspective, the system enables the creation of large image databases by the students, similar to citizen science projects. Beside the enhanced motivation of students to learn the vocabulary and perform observations on self‐found specimens, this system allows instructors to remotely follow and assess the work performed by large numbers of students. The interface is freely available, open‐source and customizable. Unlike existing naturalist platforms, allows the educators to fully customize the quests of interest. This enables the creation of multiple teaching scenarios, without being bound to a fixed scope. QuoVidi can be used in other disciplines with adapted quests and we expect it to be of interest in many classroom settings.
    Materialart: Online-Ressource
    ISSN: 2045-7758 , 2045-7758
    URL: Issue
    Sprache: Englisch
    Verlag: Wiley
    Publikationsdatum: 2021
    ZDB Id: 2635675-2
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  • 7
    Online-Ressource
    Online-Ressource
    Springer Science and Business Media LLC ; 2016
    In:  Scientific Reports Vol. 6, No. 1 ( 2016-06-29)
    In: Scientific Reports, Springer Science and Business Media LLC, Vol. 6, No. 1 ( 2016-06-29)
    Kurzfassung: Molecular data concerning the involvement of roots in the genetic pathways regulating floral transition are lacking. In this study, we performed global analyses of the root transcriptome in Arabidopsis in order to identify flowering time genes that are expressed in the roots and genes that are differentially expressed in the roots during the induction of flowering. Data mining of public microarray experiments uncovered that about 200 genes whose mutations are reported to alter flowering time are expressed in the roots ( i.e. were detected in more than 50% of the microarrays). However, only a few flowering integrator genes passed the analysis cutoff. Comparison of root transcriptome in short days and during synchronized induction of flowering by a single 22-h long day revealed that 595 genes were differentially expressed. Enrichment analyses of differentially expressed genes in root tissues, gene ontology categories, and cis-regulatory elements converged towards sugar signaling. We concluded that roots are integrated in systemic signaling, whereby carbon supply coordinates growth at the whole plant level during the induction of flowering. This coordination could involve the root circadian clock and cytokinin biosynthesis as a feed forward loop towards the shoot.
    Materialart: Online-Ressource
    ISSN: 2045-2322
    Sprache: Englisch
    Verlag: Springer Science and Business Media LLC
    Publikationsdatum: 2016
    ZDB Id: 2615211-3
    Bibliothek Standort Signatur Band/Heft/Jahr Verfügbarkeit
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  • 8
    In: in silico Plants, Oxford University Press (OUP), Vol. 4, No. 1 ( 2022-01-01)
    Kurzfassung: Plant phenotyping platforms generate large amounts of high-dimensional data at different scales of plant organization. The possibility to use this information as inputs of models is an opportunity to develop models that integrate new processes and genetic inputs. We assessed to what extent the phenomics and modelling communities can address the issues of interoperability and data exchange, using a science mapping approach (i.e. visualization and analysis of a broad range of scientific and technological activities as a whole). In this paper, we (i) evaluate connections, (ii) identify compatible and connectable research topics and (iii) propose strategies to facilitate connection across communities. We applied a science mapping approach based on reference and term analyses to a set of 4332 scientific papers published by the plant phenomics and modelling communities from 1980 to 2019, retrieved using the Elsevier’s Scopus database and the quantitative-plant.org website. The number of papers on phenotyping and modelling dramatically increased during the past decade, boosted by progress in phenotyping technologies and by key developments at hardware and software levels. The science mapping approach indicated a large diversity of research topics studied in each community. Despite compatibilities of research topics, the level of connection between the phenomics and modelling communities was low. Although phenomics and modelling crucially need to exchange data, the two communities appeared to be weakly connected. We encourage these communities to work on ontologies, harmonized formats, translators and connectors to facilitate transparent data exchange.
    Materialart: Online-Ressource
    ISSN: 2517-5025
    Sprache: Englisch
    Verlag: Oxford University Press (OUP)
    Publikationsdatum: 2022
    ZDB Id: 3019806-9
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  • 9
    Online-Ressource
    Online-Ressource
    American Association for the Advancement of Science (AAAS) ; 2022
    In:  Plant Phenomics Vol. 2022 ( 2022-01)
    In: Plant Phenomics, American Association for the Advancement of Science (AAAS), Vol. 2022 ( 2022-01)
    Kurzfassung: Root systems of crops play a significant role in agroecosystems. The root system is essential for water and nutrient uptake, plant stability, symbiosis with microbes, and a good soil structure. Minirhizotrons have shown to be effective to noninvasively investigate the root system. Root traits, like root length, can therefore be obtained throughout the crop growing season. Analyzing datasets from minirhizotrons using common manual annotation methods, with conventional software tools, is time-consuming and labor-intensive. Therefore, an objective method for high-throughput image analysis that provides data for field root phenotyping is necessary. In this study, we developed a pipeline combining state-of-the-art software tools, using deep neural networks and automated feature extraction. This pipeline consists of two major components and was applied to large root image datasets from minirhizotrons. First, a segmentation by a neural network model, trained with a small image sample, is performed. Training and segmentation are done using “RootPainter.” Then, an automated feature extraction from the segments is carried out by “RhizoVision Explorer.” To validate the results of our automated analysis pipeline, a comparison of root length between manually annotated and automatically processed data was realized with more than 36,500 images. Mainly the results show a high correlation ( r = 0.9 ) between manually and automatically determined root lengths. With respect to the processing time, our new pipeline outperforms manual annotation by 98.1-99.6%. Our pipeline, combining state-of-the-art software tools, significantly reduces the processing time for minirhizotron images. Thus, image analysis is no longer the bottle-neck in high-throughput phenotyping approaches.
    Materialart: Online-Ressource
    ISSN: 2643-6515
    Sprache: Englisch
    Verlag: American Association for the Advancement of Science (AAAS)
    Publikationsdatum: 2022
    ZDB Id: 2968615-5
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  • 10
    Online-Ressource
    Online-Ressource
    Oxford University Press (OUP) ; 2020
    In:  Plant Physiology Vol. 182, No. 2 ( 2020-02), p. 707-720
    In: Plant Physiology, Oxford University Press (OUP), Vol. 182, No. 2 ( 2020-02), p. 707-720
    Materialart: Online-Ressource
    ISSN: 0032-0889 , 1532-2548
    RVK:
    Sprache: Englisch
    Verlag: Oxford University Press (OUP)
    Publikationsdatum: 2020
    ZDB Id: 2004346-6
    ZDB Id: 208914-2
    SSG: 12
    Bibliothek Standort Signatur Band/Heft/Jahr Verfügbarkeit
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