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Veröffentlichungen der HSWT

Die chronologische Liste zeigt aktuelle Veröffentlichungen aus dem Forschungsbetrieb der Hochschule Weihenstephan-Triesdorf. Zuständig ist das Zentrum für Forschung und Wissenstransfer (ZFW).

8 Ergebnisse

  • Moises Exposito-Alonso, Claude Becker, Verena J. Schuenemann, Ella Reiter, Claudia Setzer, Radka Slovak, Benjamin Brachi, Jörg Hagmann, Prof. Dr. Dominik Grimm, Jiahui Chen, Wolfgang Busch, Joy Bergelson, Rob W. Ness, Detlef Weigel

    • Berechtigungen:  Open Access
    • Berechtigungen:  Peer Reviewed

    The rate and potential relevance of new mutations in a colonizing plant lineage (2018) PLoS Genetics 14 (2). DOI: 10.1371/journal.pgen.1007155

    By following the evolution of populations that are initially genetically homogeneous, much can be learned about core biological principles. For example, it allows for detailed studies of the rate of emergence of de novo mutations and their change in frequency due to drift and selection. Unfortunately, in multicellular organisms with generation times of months or years, it is difficult to set up and carry out such experiments over many generations. An alternative is provided by “natural evolution experiments” that started from colonizations or invasions of new habitats by selfing lineages. With limited or missing gene flow from other lineages, new mutations and their effects can be easily detected. North America has been colonized in historic times by the plant Arabidopsis thaliana, and although multiple intercrossing lineages are found today, many of the individuals belong to a single lineage, HPG1. To determine in this lineage the rate of substitutions—the subset of mutations that survived natural selection and drift–, we have sequenced genomes from plants collected between 1863 and 2006. We identified 73 modern and 27 herbarium specimens that belonged to HPG1. Using the estimated substitution rate, we infer that the last common HPG1 ancestor lived in the early 17th century, when it was most likely introduced by chance from Europe. Mutations in coding regions are depleted in frequency compared to those in other portions of the genome, consistent with purifying selection. Nevertheless, a handful of mutations is found at high frequency in present-day populations. We link these to detectable phenotypic variance in traits of known ecological importance, life history and growth, which could reflect their adaptive value. Our work showcases how, by applying genomics methods to a combination of modern and historic samples from colonizing lineages, we can directly study new mutations and their potential evolutionary relevance.

  • Matteo Togninalli, Ümit Seren, Dazhe Meng, Joffrey Fitz, Magnus Nordborg, Detlef Weigel, Karsten Borgwardt, Arthur Korte, Prof. Dr. Dominik Grimm

    • Berechtigungen:  Open Access
    • Berechtigungen:  Peer Reviewed

    The AraGWAS Catalog: a curated and standardized Arabidopsis thaliana GWAS catalog (2018) Nucleic Acids Research 46 (1), S. 1150-1156. DOI: 10.1093/nar/gkx954

    The abundance of high-quality genotype and phenotype data for the model organism Arabidopsis thaliana enables scientists to study the genetic architecture of many complex traits at an unprecedented level of detail using genome-wide association studies (GWAS). GWAS have been a great success in A. thaliana and many SNP-trait associations have been published. With the AraGWAS Catalog (https://aragwas.1001genomes.org) we provide a publicly available, manually curated and standardized GWAS catalog for all publicly available phenotypes from the central A. thaliana phenotype repository, AraPheno. All GWAS have been recomputed on the latest imputed genotype release of the 1001 Genomes Consortium using a standardized GWAS pipeline to ensure comparability between results. The catalog includes currently 167 phenotypes and more than 222 000 SNP-trait associations with P < 10−4, of which 3887 are significantly associated using permutation-based thresholds. The AraGWAS Catalog can be accessed via a modern web-interface and provides various features to easily access, download and visualize the results and summary statistics across GWAS.

  • Anne Krug, Daniel Enderle, Chris Karlovich, Tina Priewasser, Stefan Bentink, Alexandra Spiel, Kay Brinkmann, Jennifer N. Emenegger, Prof. Dr. Dominik Grimm, Elena Castellanos-Rizaldos, Jonathan W. Goldman, Lecia Van Dam Sequist, Jean-Charles Soria, David Ross Camidge, S. M. Gadgeel, Heather A. Wakelee, Mitch Raponi, Mikkel Noerholm, Johan K. Skog

    • Berechtigungen:  Open Access
    • Berechtigungen:  Peer Reviewed

    Improved EGFR mutation detection using combined exosomal RNA and circulating tumor DNA in NSCLC patient plasma (2017) Annals of Oncology 29 (3), S. 700-706. DOI: 10.1093/annonc/mdx765

  • Prof. Dr. Dominik Grimm, Damian Roqueiro, Patrice A. Salomé, Stefan Kleeberger, Bastian Greshake, Wangsheng Zhu, Chang Liu, Christoph Lippert, Oliver Stegle, Bernhard Schölkopf, Detlef Weigel, Karsten Borgwardt

    • Berechtigungen:  Open Access
    • Berechtigungen:  Peer Reviewed

    easyGWAS: A Cloud-Based Platform for Comparing the Results of Genome-Wide Association Studies (2017) The Plant Cell 29 (1). DOI: 10.1105/tpc.16.00551

    The ever-growing availability of high-quality genotypes for a multitude of species has enabled researchers to explore the underlying genetic architecture of complex phenotypes at an unprecedented level of detail using genome-wide association studies (GWAS). The systematic comparison of results obtained from GWAS of different traits opens up new possibilities, including the analysis of pleiotropic effects. Other advantages that result from the integration of multiple GWAS are the ability to replicate GWAS signals and to increase statistical power to detect such signals through meta-analyses. In order to facilitate the simple comparison of GWAS results, we present easyGWAS, a powerful, species-independent online resource for computing, storing, sharing, annotating, and comparing GWAS. The easyGWAS tool supports multiple species, the uploading of private genotype data and summary statistics of existing GWAS, as well as advanced methods for comparing GWAS results across different experiments and data sets in an interactive and user-friendly interface. easyGWAS is also a public data repository for GWAS data and summary statistics and already includes published data and results from several major GWAS. We demonstrate the potential of easyGWAS with a case study of the model organism Arabidopsis thaliana, using flowering and growth-related traits.

  • Ümit Seren, Prof. Dr. Dominik Grimm, Joffrey Fitz, Detlef Weigel, Magnus Nordborg, Karsten Borgwardt, Arthur Korte

    • Berechtigungen:  Open Access
    • Berechtigungen:  Peer Reviewed

    AraPheno: a public database for Arabidopsis thaliana phenotypes (2017) Nucleic Acids Research 45 (D1), S. D1054-D1059. DOI: 10.1093/nar/gkw986

  • Seymour Danelle, Eunyoung Chae, Prof. Dr. Dominik Grimm, Carmen Martin Pizarro, Anette Habring-Müller, Francois Vasseur, Barbara Rakitsch, Karsten Borgwardt, Daniel Koenig, Detlef Weigel

    • Berechtigungen:  Open Access
    • Berechtigungen:  Peer Reviewed

    Genetic architecture of nonadditive inheritance in Arabidopsis thaliana hybrids (2016) Proceedings of the National Academy of Sciences (PNAS) 113 (46), S. E7317-E7326. DOI: 10.1073/pnas.1615268113

  • Angela McGaughran, Christian Rödelsperger, Prof. Dr. Dominik Grimm, Jan M. Meyer, Eduardo Moreno, Katy Morgan, Mark Leaver, Vahan Serobyan, Barbara Rakitsch, Karsten Borgwardt, Ralf J. Sommer

    • Berechtigungen:  Open Access
    • Berechtigungen:  Peer Reviewed

    Genomic profiles of diversification and genotype-phenotype association in island nematode lineages (2016) Molecular Biology and Evolution 33 (9), S. 2257-2272. DOI: 10.1093/molbev/msw093

  • T Kawakatsu, . .., Prof. Dr. Dominik Grimm, . .., Joseph R Ecker

    • Berechtigungen:  Peer Reviewed

    Epigenomic Diversity in a Global Collection of Arabidopsis thaliana Accessions (2016) Cell 166 (2), S. 492-505. DOI: 10.1016/j.cell.2016.06.044

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Zentrum für Forschung und Wissenstransfer - Lageplan in Weihenstephan an der HSWT

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Zentrum für Forschung und Wissenstransfer
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Am Staudengarten 9
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