Zygospore formation in Zygnematophyceae predates several land plant traits.

Autor: Permann C; Department of Botany, University of Innsbruck , Sternwartestraße 15, 6020 Innsbruck, Austria., Holzinger A; Department of Botany, University of Innsbruck , Sternwartestraße 15, 6020 Innsbruck, Austria.

Publikováno v: Philosophical transactions of the Royal Society of London. Series B, Biological sciences [Philos Trans R Soc Lond B Biol Sci] 2024 Nov 18; Vol. 379 (1914), pp. 20230356. Date of Electronic Publication: 2024 Sep 30.

Genomes of multicellular algal sisters to land plants illuminate signaling network evolution.

Autor: Feng X; Nebraska Food for Health Center, Department of Food Science and Technology, University of Nebraska-Lincoln, Lincoln, NE, USA., Zheng J; Nebraska Food for Health Center, Department of Food Science and Technology, University of Nebraska-Lincoln, Lincoln, NE, USA.; Zhejiang Lab, Hangzhou, China., Irisarri I; Institute of Microbiology and Genetics, Department of Applied Bioinformatics, University of Goettingen, Goettingen, Germany.; Campus Institute Data Science, University of Goettingen, Goettingen, Germany.; Section Phylogenomics, Centre for Molecular biodiversity Research, Leibniz Institute for the Analysis of Biodiversity Change, Zoological Museum Hamburg, Hamburg, Germany., Yu H; University of Nebraska-Lincoln, Center for Plant Science Innovation, Lincoln, NE, USA.; Germplasm Bank of Wild Species, Kunming Institute of Botany, Chinese Academy of Science, Yunnan, China., Zheng B; Nebraska Food for Health Center, Department of Food Science and Technology, University of Nebraska-Lincoln, Lincoln, NE, USA., Ali Z; Nanyang Technological University, School of Biological Sciences, Singapore, Singapore., de Vries S; Institute of Microbiology and Genetics, Department of Applied Bioinformatics, University of Goettingen, Goettingen, Germany., Keller J; Laboratoire de Recherche en Sciences Végétales, Université de Toulouse, CNRS, UPS, INP Toulouse, Castanet-Tolosan, France., Fürst-Jansen JMR; Institute of Microbiology and Genetics, Department of Applied Bioinformatics, University of Goettingen, Goettingen, Germany., Dadras A; Institute of Microbiology and Genetics, Department of Applied Bioinformatics, University of Goettingen, Goettingen, Germany., Zegers JMS; Institute of Microbiology and Genetics, Department of Applied Bioinformatics, University of Goettingen, Goettingen, Germany., Rieseberg TP; Institute of Microbiology and Genetics, Department of Applied Bioinformatics, University of Goettingen, Goettingen, Germany., Dhabalia Ashok A; Institute of Microbiology and Genetics, Department of Applied Bioinformatics, University of Goettingen, Goettingen, Germany., Darienko T; Institute of Microbiology and Genetics, Department of Applied Bioinformatics, University of Goettingen, Goettingen, Germany., Bierenbroodspot MJ; Institute of Microbiology and Genetics, Department of Applied Bioinformatics, University of Goettingen, Goettingen, Germany., Gramzow L; University of Jena, Matthias Schleiden Institute/Genetics, Jena, Germany., Petroll R; Plant Cell Biology, Department of Biology, University of Marburg, Marburg, Germany.; Department of Algal Development and Evolution, Max Planck Institute for Biology Tübingen, Tübingen, Germany., Haas FB; Plant Cell Biology, Department of Biology, University of Marburg, Marburg, Germany.; Department of Algal Development and Evolution, Max Planck Institute for Biology Tübingen, Tübingen, Germany., Fernandez-Pozo N; Plant Cell Biology, Department of Biology, University of Marburg, Marburg, Germany.; Institute for Mediterranean and Subtropical Horticulture 'La Mayora', Málaga, Spain., Nousias O; Nebraska Food for Health Center, Department of Food Science and Technology, University of Nebraska-Lincoln, Lincoln, NE, USA., Li T; Nebraska Food for Health Center, Department of Food Science and Technology, University of Nebraska-Lincoln, Lincoln, NE, USA., Fitzek E; Computational Biology, Department of Biology, Center for Biotechnology, Bielefeld University, Bielefeld, Germany., Grayburn WS; Northern Illinois University, Molecular Core Lab, Department of Biological Sciences, DeKalb, IL, USA., Rittmeier N; University of Innsbruck, Department of Botany, Research Group Plant Cell Biology, Innsbruck, Austria., Permann C; University of Innsbruck, Department of Botany, Research Group Plant Cell Biology, Innsbruck, Austria., Rümpler F; University of Jena, Matthias Schleiden Institute/Genetics, Jena, Germany., Archibald JM; Department of Biochemistry and Molecular Biology, Dalhousie University, Halifax, Nova Scotia, Canada., Theißen G; University of Jena, Matthias Schleiden Institute/Genetics, Jena, Germany., Mower JP; University of Nebraska-Lincoln, Center for Plant Science Innovation, Lincoln, NE, USA., Lorenz M; University of Goettingen, Albrecht-von-Haller-Institute for Plant Sciences, Experimental Phycology and Culture Collection of Algae at Goettingen University, Goettingen, Germany., Buschmann H; University of Applied Sciences Mittweida, Faculty of Applied Computer Sciences and Biosciences, Section Biotechnology and Chemistry, Molecular Biotechnology, Mittweida, Germany., von Schwartzenberg K; Universität Hamburg, Institute of Plant Science and Microbiology, Microalgae and Zygnematophyceae Collection Hamburg and Aquatic Ecophysiology and Phycology, Hamburg, Germany., Boston L; Genome Sequencing Center, HudsonAlpha Institute for Biotechnology, Huntsville, AL, USA., Hayes RD; Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, USA., Daum C; Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, USA., Barry K; Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, USA., Grigoriev IV; Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.; Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.; Department of Plant and Microbial Biology, University of California Berkeley, Berkeley, CA, USA., Wang X; North China University of Science and Technology, Tangshan, China., Li FW; Boyce Thompson Institute, Ithaca, NY, USA.; Plant Biology Section, Cornell University, Ithaca, NY, USA., Rensing SA; Plant Cell Biology, Department of Biology, University of Marburg, Marburg, Germany.; University of Freiburg, Centre for Biological Signalling Studies (BIOSS), Freiburg, Germany., Ben Ari J; The Hebrew University of Jerusalem, The Robert H. Smith Institute of Plant Sciences and Genetics in Agriculture, Rehovot, Israel., Keren N; The Hebrew University of Jerusalem, The Robert H. Smith Institute of Plant Sciences and Genetics in Agriculture, Rehovot, Israel., Mosquna A; The Hebrew University of Jerusalem, The Robert H. Smith Institute of Plant Sciences and Genetics in Agriculture, Rehovot, Israel., Holzinger A; University of Innsbruck, Department of Botany, Research Group Plant Cell Biology, Innsbruck, Austria., Delaux PM; Laboratoire de Recherche en Sciences Végétales, Université de Toulouse, CNRS, UPS, INP Toulouse, Castanet-Tolosan, France., Zhang C; University of Nebraska-Lincoln, Center for Plant Science Innovation, Lincoln, NE, USA.; University of Nebraska-Lincoln, School of Biological Sciences, Lincoln, NE, USA., Huang J; Department of Biology, East Carolina University, Greenville, NC, USA.; State Key Laboratory of Crop Stress Adaptation and Improvement, School of Life Sciences, Henan University, Kaifeng, China., Mutwil M; Nanyang Technological University, School of Biological Sciences, Singapore, Singapore., de Vries J; Institute of Microbiology and Genetics, Department of Applied Bioinformatics, University of Goettingen, Goettingen, Germany. devries.jan@uni-goettingen.de.; Campus Institute Data Science, University of Goettingen, Goettingen, Germany. devries.jan@uni-goettingen.de.; University of Goettingen, Goettingen Center for Molecular Biosciences, Goettingen, Germany. devries.jan@uni-goettingen.de., Yin Y; Nebraska Food for Health Center, Department of Food Science and Technology, University of Nebraska-Lincoln, Lincoln, NE, USA. yyin@unl.edu.

Publikováno v: Nature genetics [Nat Genet] 2024 May; Vol. 56 (5), pp. 1018-1031. Date of Electronic Publication: 2024 May 01.

High-Quality Conformer Generation with CONFORGE: Algorithm and Performance Assessment.

Autor: Seidel T; Department of Pharmaceutical Sciences, Division of Pharmaceutical Chemistry, University of Vienna, Josef-Holaubek-Platz 2, 1090 Vienna, Austria., Permann C; NeGeMac Research Platform, Department of Pharmaceutical Sciences, Division of Pharmaceutical Chemistry, University of Vienna, Josef-Holaubek-Platz 2, 1090 Vienna, Austria., Wieder O; Christian Doppler Laboratory for Molecular Informatics in the Biosciences, Department of Pharmaceutical Sciences, Division of Pharmaceutical Chemistry, University of Vienna, Josef-Holaubek-Platz 2, 1090 Vienna, Austria., Kohlbacher SM; Department of Pharmaceutical Sciences, Division of Pharmaceutical Chemistry, University of Vienna, Josef-Holaubek-Platz 2, 1090 Vienna, Austria., Langer T; Department of Pharmaceutical Sciences, Division of Pharmaceutical Chemistry, University of Vienna, Josef-Holaubek-Platz 2, 1090 Vienna, Austria.; NeGeMac Research Platform, Department of Pharmaceutical Sciences, Division of Pharmaceutical Chemistry, University of Vienna, Josef-Holaubek-Platz 2, 1090 Vienna, Austria.; Christian Doppler Laboratory for Molecular Informatics in the Biosciences, Department of Pharmaceutical Sciences, Division of Pharmaceutical Chemistry, University of Vienna, Josef-Holaubek-Platz 2, 1090 Vienna, Austria.

Publikováno v: Journal of chemical information and modeling [J Chem Inf Model] 2023 Sep 11; Vol. 63 (17), pp. 5549-5570. Date of Electronic Publication: 2023 Aug 25.

3D-reconstructions of zygospores in Zygnema vaginatum (Charophyta) reveal details of cell wall formation, suggesting adaptations to extreme habitats.

Autor: Permann C; Department of Botany, University of Innsbruck, Innsbruck, Austria., Pichrtová M; Department of Botany, Faculty of Science, Charles University, Prague, Czech Republic., Šoljaková T; Department of Botany, Faculty of Science, Charles University, Prague, Czech Republic., Herburger K; Department of Botany, University of Innsbruck, Innsbruck, Austria.; Institute of Biological Sciences, University of Rostock, Rostock, Germany., Jouneau PH; Laboratoire Modélisation et Exploration des Matériaux, IRIG, CEA, Univ. Grenoble Alpes, Grenoble, France., Uwizeye C; Laboratoire de Physiologie Cellulaire et Végétale, CEA, CNRS, INRAE, Univ. Grenoble Alpes, Grenoble, France., Falconet D; Laboratoire de Physiologie Cellulaire et Végétale, CEA, CNRS, INRAE, Univ. Grenoble Alpes, Grenoble, France., Marechal E; Laboratoire de Physiologie Cellulaire et Végétale, CEA, CNRS, INRAE, Univ. Grenoble Alpes, Grenoble, France., Holzinger A; Department of Botany, University of Innsbruck, Innsbruck, Austria.

Publikováno v: Physiologia plantarum [Physiol Plant] 2023 Jul-Aug; Vol. 175 (4), pp. e13988.

Chromosome-level genomes of multicellular algal sisters to land plants illuminate signaling network evolution.

Autor: Feng X; University of Nebraska-Lincoln, Department of Food Science and Technology, Lincoln, NE 68588, USA., Zheng J; University of Nebraska-Lincoln, Department of Food Science and Technology, Lincoln, NE 68588, USA., Irisarri I; University of Goettingen, Institute of Microbiology and Genetics, Department of Applied Bioinformatics, Goldschmidtstr. 1, 37077 Goettingen, Germany.; University of Goettingen, Campus Institute Data Science (CIDAS), Goldschmidstr. 1, 37077 Goettingen, Germany.; Section Phylogenomics, Centre for Molecular biodiversity Research, Leibniz Institute for the Analysis of Biodiversity Change (LIB), Zoological Museum Hamburg, Martin-Luther-King-Platz 3, 20146 Hamburg, Germany., Yu H; University of Nebraska-Lincoln, Center for Plant Science Innovation, Lincoln, NE 68588, USA., Zheng B; University of Nebraska-Lincoln, Department of Food Science and Technology, Lincoln, NE 68588, USA., Ali Z; Nanyang Technological University, School of Biological Sciences, 60 Nanyang Drive, Singapore 637551, Singapore., de Vries S; University of Goettingen, Institute of Microbiology and Genetics, Department of Applied Bioinformatics, Goldschmidtstr. 1, 37077 Goettingen, Germany., Keller J; Laboratoire de Recherche en Sciences Végétales (LRSV), Université de Toulouse, CNRS, UPS, INP Toulouse, Castanet-Tolosan, 31326, France., Fürst-Jansen JMR; University of Goettingen, Institute of Microbiology and Genetics, Department of Applied Bioinformatics, Goldschmidtstr. 1, 37077 Goettingen, Germany., Dadras A; University of Goettingen, Institute of Microbiology and Genetics, Department of Applied Bioinformatics, Goldschmidtstr. 1, 37077 Goettingen, Germany., Zegers JMS; University of Goettingen, Institute of Microbiology and Genetics, Department of Applied Bioinformatics, Goldschmidtstr. 1, 37077 Goettingen, Germany., Rieseberg TP; University of Goettingen, Institute of Microbiology and Genetics, Department of Applied Bioinformatics, Goldschmidtstr. 1, 37077 Goettingen, Germany., Ashok AD; University of Goettingen, Institute of Microbiology and Genetics, Department of Applied Bioinformatics, Goldschmidtstr. 1, 37077 Goettingen, Germany., Darienko T; University of Goettingen, Institute of Microbiology and Genetics, Department of Applied Bioinformatics, Goldschmidtstr. 1, 37077 Goettingen, Germany., Bierenbroodspot MJ; University of Goettingen, Institute of Microbiology and Genetics, Department of Applied Bioinformatics, Goldschmidtstr. 1, 37077 Goettingen, Germany., Gramzow L; University of Jena, Matthias Schleiden Institute / Genetics, 07743, Jena, Germany., Petroll R; Plant Cell Biology, Department of Biology, University of Marburg, Marburg, Germany.; Department of Algal Development and Evolution, Max Planck Institute for Biology Tübingen, Tübingen, Germany., Haas FB; Plant Cell Biology, Department of Biology, University of Marburg, Marburg, Germany.; Department of Algal Development and Evolution, Max Planck Institute for Biology Tübingen, Tübingen, Germany., Fernandez-Pozo N; Plant Cell Biology, Department of Biology, University of Marburg, Marburg, Germany.; Institute for Mediterranean and Subtropical Horticulture 'La Mayora' (UMA-CSIC)., Nousias O; University of Nebraska-Lincoln, Department of Food Science and Technology, Lincoln, NE 68588, USA., Li T; University of Nebraska-Lincoln, Department of Food Science and Technology, Lincoln, NE 68588, USA., Fitzek E; Computational Biology, Department of Biology, Center for Biotechnology, Bielefeld University, Bielefeld, Germany., Grayburn WS; Northern Illinois University, Molecular Core Lab, Department of Biological Sciences, DeKalb, IL 60115, USA., Rittmeier N; University of Innsbruck, Department of Botany, Research Group Plant Cell Biology, Sternwartestraße 15, A-6020 Innsbruck, Austria., Permann C; University of Innsbruck, Department of Botany, Research Group Plant Cell Biology, Sternwartestraße 15, A-6020 Innsbruck, Austria., Rümpler F; University of Jena, Matthias Schleiden Institute / Genetics, 07743, Jena, Germany., Archibald JM; Dalhousie University, Department of Biochemistry and Molecular Biology, 5850 College Street, Halifax NS B3H 4R2, Canada., Theißen G; University of Jena, Matthias Schleiden Institute / Genetics, 07743, Jena, Germany., Mower JP; University of Nebraska-Lincoln, Center for Plant Science Innovation, Lincoln, NE 68588, USA., Lorenz M; University of Goettingen, Albrecht-von-Haller-Institute for Plant Sciences, Experimental Phycology and Culture Collection of Algae at Goettingen University (EPSAG), Nikolausberger Weg 18, 37073 Goettingen, Germany., Buschmann H; University of Applied Sciences Mittweida, Faculty of Applied Computer Sciences and Biosciences, Section Biotechnology and Chemistry, Molecular Biotechnology, Technikumplatz 17, 09648 Mittweida, Germany., von Schwartzenberg K; Universität Hamburg, Institute of Plant Science and Microbiology, Microalgae and Zygnematophyceae Collection Hamburg (MZCH) and Aquatic Ecophysiology and Phycology, Ohnhorststr. 18, 22609, Hamburg, Germany., Boston L; Genome Sequencing Center, HudsonAlpha Institute for Biotechnology, Huntsville, AL, USA., Hayes RD; Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA., Daum C; Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA., Barry K; Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA., Grigoriev IV; Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.; Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA.; Department of Plant and Microbial Biology, University of California Berkeley, Berkeley, CA 94720, USA., Wang X; North China University of Science and Technology., Li FW; Boyce Thompson Institute, Ithaca, NY, USA.; Cornell University, Plant Biology Section, Ithaca, NY, USA., Rensing SA; Plant Cell Biology, Department of Biology, University of Marburg, Marburg, Germany.; University of Freiburg, Centre for Biological Signalling Studies (BIOSS), Freiburg, Germany., Ari JB; The Hebrew University of Jerusalem, The Robert H. Smith Institute of Plant Sciences and Genetics in Agriculture, Rehovot 7610000, Israel., Keren N; The Hebrew University of Jerusalem, The Robert H. Smith Institute of Plant Sciences and Genetics in Agriculture, Rehovot 7610000, Israel., Mosquna A; The Hebrew University of Jerusalem, The Robert H. Smith Institute of Plant Sciences and Genetics in Agriculture, Rehovot 7610000, Israel., Holzinger A; University of Innsbruck, Department of Botany, Research Group Plant Cell Biology, Sternwartestraße 15, A-6020 Innsbruck, Austria., Delaux PM; Laboratoire de Recherche en Sciences Végétales (LRSV), Université de Toulouse, CNRS, UPS, INP Toulouse, Castanet-Tolosan, 31326, France., Zhang C; University of Nebraska-Lincoln, Center for Plant Science Innovation, Lincoln, NE 68588, USA.; University of Nebraska-Lincoln, School of Biological Sciences, Lincoln, NE 68588, USA., Huang J; State Key Laboratory of Crop Stress Adaptation and Improvement, School of Life Sciences, Henan University, Kaifeng, China.; Department of Biology, East Carolina University, Greenville, NC, USA., Mutwil M; Nanyang Technological University, School of Biological Sciences, 60 Nanyang Drive, Singapore 637551, Singapore., de Vries J; University of Goettingen, Institute of Microbiology and Genetics, Department of Applied Bioinformatics, Goldschmidtstr. 1, 37077 Goettingen, Germany.; University of Goettingen, Campus Institute Data Science (CIDAS), Goldschmidstr. 1, 37077 Goettingen, Germany.; University of Goettingen, Goettingen Center for Molecular Biosciences (GZMB), Justus-von-Liebig-Weg 11, 37077 Goettingen, Germany., Yin Y; University of Nebraska-Lincoln, Department of Food Science and Technology, Lincoln, NE 68588, USA.

Publikováno v: BioRxiv : the preprint server for biology [bioRxiv] 2023 Feb 01. Date of Electronic Publication: 2023 Feb 01.