1,666 results on '"10211 Zurich-Basel Plant Science Center"'
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2. Non-Rabl chromosome organization in endoreduplicated nuclei of barley embryo and endosperm tissues
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Nowicka, Anna, Ferková, Luboslava, Said, Mahmoud, Kovacik, Martin, Zwyrtková, Jana, Baroux, Célia, Pecinka, Ales, and University of Zurich
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10126 Department of Plant and Microbial Biology ,Physiology ,Plant Science ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center - Abstract
Rabl organization is a type of interphase chromosome arrangement with centromeres and telomeres clustering at opposite nuclear poles. Here, we analyzed nuclear morphology and chromosome organization in cycling and endoreduplicated nuclei isolated from embryo and endosperm tissues of developing barley seeds. We show that endoreduplicated nuclei have an irregular shape, less sister chromatid cohesion at 5S rDNA loci, and a reduced amount of centromeric histone CENH3. While the chromosomes of the embryo and endosperm nuclei are initially organized in Rabl configuration, the centromeres and telomeres are intermingled within the nuclear space in the endoreduplicated nuclei with an increasing endoreduplication level. Such a loss of chromosome organization suggests that Rabl configuration is introduced and further reinforced by mitotic divisions in barley cell nuclei in a tissue- and seed age-dependent manner.
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- 2023
3. Splitting one species into 22: an unusual tripling of molecular, morphological, and geographical differentiation in the fern family Didymochlaenaceae (Polypodiales)
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Shang, Hui, Xue, Zhi-Qing, Liang, Zhen-Long, Kessler, Michael, Pollawatn, Rossarin, Lu, Ngan Thi, Gu, Yu-Feng, Fan, Xue-Ping, Tan, Yun-Hong, Zhang, Liang, Zhou, Xin-Mao, Wan, Xia, Zhang, Li-Bing, University of Zurich, Wan, Xia, and Zhang, Li-Bing
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10121 Department of Systematic and Evolutionary Botany ,1105 Ecology, Evolution, Behavior and Systematics ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center - Published
- 2023
4. A complex network regulating malate contents during fruit ripening in climacteric fruits
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Enrico Martinoia, Ekkehard Neuhaus, University of Zurich, and Neuhaus, Ekkehard
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10126 Department of Plant and Microbial Biology ,Physiology ,1110 Plant Science ,Plant Science ,1314 Physiology ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center - Published
- 2023
5. Thermophilisation of communities differs between land plant lineages, land use types and elevation
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Kiebacher, Thomas, Meier, Markus K, Kipfer, Tabea, Roth, Tobias, and University of Zurich
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10121 Department of Systematic and Evolutionary Botany ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center - Published
- 2023
6. Paraburkholderia sabiae Uses One Type VI Secretion System (T6SS-1) as a Powerful Weapon against Notorious Plant Pathogens
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Hug, Sebastian, Heiniger, Benjamin, Bolli, Kim, Paszti, Sarah, Eberl, Leo, Ahrens, Christian H, Pessi, Gabriella, and University of Zurich
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10126 Department of Plant and Microbial Biology ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center - Published
- 2023
7. The MOM1 complex recruits the RdDM machinery via MORC6 to establish de novo DNA methylation
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Li, Zheng, Wang, Ming, Zhong, Zhenhui, Gallego-Bartolomé, Javier, Feng, Suhua, Jami-Alahmadi, Yasaman, Wang, Xinyi, Wohlschlegel, James, Bischof, Sylvain, Long, Jeff A, Jacobsen, Steven E, and University of Zurich
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10126 Department of Plant and Microbial Biology ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center ,Article - Abstract
MOM1 is anArabidopsisfactor previously shown to mediate transcriptional silencing independent of major DNA methylation changes. Here we found that MOM1 localizes with sites of RNA-directed DNA methylation (RdDM). Tethering MOM1 with artificial zinc finger to unmethylatedFWApromoter led to establishment of DNA methylation andFWAsilencing. This process was blocked by mutations in components of the Pol V arm of the RdDM machinery, as well as by mutation ofMORC6. We found that at some endogenous RdDM sites, MOM1 is required to maintain DNA methylation and a closed chromatin state. In addition, efficient silencing of newly introducedFWAtransgenes was impaired by mutation of MOM1 or mutation of genes encoding the MOM1 interacting PIAL1/2 proteins. In addition to RdDM sites, we identified a group of MOM1 peaks at active chromatin near genes that colocalized with MORC6. These findings demonstrate a multifaceted role of MOM1 in genome regulation.
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- 2023
8. Organic management and soil health promote nutrient use efficiency
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Toda, Misato, Walder, Florian, van der Heijden, Marcel G A, University of Zurich, and van der Heijden, Marcel G A
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10126 Department of Plant and Microbial Biology ,1101 Agricultural and Biological Sciences (miscellaneous) ,1110 Plant Science ,1102 Agronomy and Crop Science ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center ,2303 Ecology - Published
- 2023
9. How genomics can help biodiversity conservation
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Kathrin Theissinger, Carlos Fernandes, Giulio Formenti, Iliana Bista, Paul R. Berg, Christoph Bleidorn, Aureliano Bombarely, Angelica Crottini, Guido R. Gallo, José A. Godoy, Sissel Jentoft, Joanna Malukiewicz, Alice Mouton, Rebekah A. Oomen, Sadye Paez, Per J. Palsbøll, Christophe Pampoulie, María J. Ruiz-López, Simona Secomandi, Hannes Svardal, Constantina Theofanopoulou, Jan de Vries, Ann-Marie Waldvogel, Guojie Zhang, Erich D. Jarvis, Miklós Bálint, Claudio Ciofi, Robert M. Waterhouse, Camila J. Mazzoni, Jacob Höglund, Sargis A. Aghayan, Tyler S. Alioto, Isabel Almudi, Nadir Alvarez, Paulo C. Alves, Isabel R. Amorim do Rosario, Agostinho Antunes, Paula Arribas, Petr Baldrian, Giorgio Bertorelle, Astrid Böhne, Andrea Bonisoli-Alquati, Ljudevit L. Boštjančić, Bastien Boussau, Catherine M. Breton, Elena Buzan, Paula F. Campos, Carlos Carreras, L. FIlipe C. Castro, Luis J. Chueca, Fedor Čiampor, Elena Conti, Robert Cook-Deegan, Daniel Croll, Mónica V. Cunha, Frédéric Delsuc, Alice B. Dennis, Dimitar Dimitrov, Rui Faria, Adrien Favre, Olivier D. Fedrigo, Rosa Fernández, Gentile Francesco Ficetola, Jean-François Flot, Toni Gabaldón, Dolores R. Agius, Alice M. Giani, M. Thomas P. Gilbert, Tine Grebenc, Katerina Guschanski, Romain Guyot, Bernhard Hausdorf, Oliver Hawlitschek, Peter D. Heintzman, Berthold Heinze, Michael Hiller, Martin Husemann, Alessio Iannucci, Iker Irisarri, Kjetill S. Jakobsen, Peter Klinga, Agnieszka Kloch, Claudius F. Kratochwil, Henrik Kusche, Kara K.S. Layton, Jennifer A. Leonard, Emmanuelle Lerat, Gianni Liti, Tereza Manousaki, Tomas Marques-Bonet, Pável Matos-Maraví, Michael Matschiner, Florian Maumus, Ann M. Mc Cartney, Shai Meiri, José Melo-Ferreira, Ximo Mengual, Michael T. Monaghan, Matteo Montagna, Robert W. Mysłajek, Marco T. Neiber, Violaine Nicolas, Marta Novo, Petar Ozretić, Ferran Palero, Lucian Pârvulescu, Marta Pascual, Octávio S. Paulo, Martina Pavlek, Cinta Pegueroles, Loïc Pellissier, Graziano Pesole, Craig R. Primmer, Ana Riesgo, Lukas Rüber, Diego Rubolini, Daniele Salvi, Ole Seehausen, Matthias Seidel, Bruno Studer, Spyros Theodoridis, Marco Thines, Lara Urban, Anti Vasemägi, Adriana Vella, Noel Vella, Sonja C. Vernes, Cristiano Vernesi, David R. Vieites, Christopher W. Wheat, Gert Wörheide, Yannick Wurm, Gabrielle Zammit, University of Zurich, Höglund, Jacob, Repositório da Universidade de Lisboa, and European Reference Genome Atlas Consortium
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genomic toolbox ,Biodiversity conservation -- Research ,Genetics, Evolution and Phylogenetics ,Settore BIO/18 - GENETICA ,udc:575.111 ,biotska pestrost ,580 Plants (Botany) ,Genomics -- Observations ,biodiversity genomics ,Genomics -- Practice -- Evaluation ,1311 Genetics ,European Reference Genome Atlas (ERGA) ,Conservation applications ,Genomic toolbox ,reference genomes ,Anthropocene ,genomics ,Genetics ,biotska pestrost, genetika ,genomics, biodiversity conservation ,10211 Zurich-Basel Plant Science Center ,Biology ,conservation applications ,Genomics -- Technological innovations ,Anthropocene biodiversity genomics genomic toolbox reference genomes conservation applications European Reference Genome Atlas (ERGA) ,Genomics -- Technique ,Biodiversity genomics ,Geference genomes ,10121 Department of Systematic and Evolutionary Botany ,genetika ,570 Life sciences ,biology ,biodiversity conservation - Abstract
The availability of public genomic resources can greatly assist biodiversity assessment, conservation, and restoration efforts by providing evidence for scientifically informed management decisions. Here we survey the main approaches and applications in biodiversity and conservation genomics, considering practical factors, such as cost, time, prerequisite skills, and current shortcomings of applications. Most approaches perform best in combination with reference genomes from the target species or closely related species. We review case studies to illustrate how reference genomes can facilitate biodiversity research and conservation across the tree of life. We conclude that the time is ripe to view reference genomes as fundamental resources and to integrate their use as a best practice in conservation genomics., Trends in Genetics, 39 (7), ISSN:0168-9525
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- 2023
10. Phylogenomic evolutionary insights in the fern family Gleicheniaceae
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Vieira Lima, Lucas, Salino, Alexandre, Kessler, Michael, Rouhan, Germinal, Testo, Weston L, Suzart Argolo, Caio, Consortium, GoFlag, Elias Almeida, Thaís, University of Zurich, and Vieira Lima, Lucas
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10121 Department of Systematic and Evolutionary Botany ,1105 Ecology, Evolution, Behavior and Systematics ,1311 Genetics ,Genetics ,1312 Molecular Biology ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center ,Molecular Biology ,Ecology, Evolution, Behavior and Systematics - Published
- 2023
11. A fictional field case study to understand the genetic basis of host-fungal pathogen interactions using the wheat powdery mildew-wheat pathosystem
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Sotiropoulos, Alexandros G, Sánchez-Martín, Javier, Widrig, Victoria, Isaksson, Jonatan, Bernasconi, Zoe, Koller, Teresa, Bearth, Giulia, Herren, Gerhard, Wicker, Thomas, Keller, Beat, and University of Zurich
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UFSP13-7 Evolution in Action: From Genomes to Ecosystems ,10126 Department of Plant and Microbial Biology ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center ,General Agricultural and Biological Sciences ,Education - Published
- 2022
12. The relationship between chlorophyllous spores and mycorrhizal associations in ferns: evidence from an evolutionary approach
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Mellado‐Mansilla, Daniela, Testo, Weston, Sundue, Michael A, Zotz, Gerhard, Kreft, Holger, Coiro, Mario, Kessler, Michael, and University of Zurich
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10121 Department of Systematic and Evolutionary Botany ,Ecology ,Behavior and Systematics ,Evolution ,Genetics ,Plant Science ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center ,Ecology, Evolution, Behavior and Systematics - Abstract
Approximately 14% of all fern species have physiologically active chlorophyllous spores that are much more short-lived than the more common and dormant achlorophyllous spores. Most chlorophyllous-spored species (70%) are epiphytes, and these account for almost 37% of all epiphytic ferns. Chlorophyllous-spored ferns are also overrepresented among species in habitats with waterlogged soils, of which nearly 60% have chlorophyllous spores. Ferns in these disparate habitat types are also united by a low incidence of mycorrhizal associations. We therefore hypothesize that autotrophic chlorophyllous spores represent an adaptation of ferns to habitats with scarce mycorrhizal associations.We evaluated the co-evolution of chlorophyllous spores and mycorrhizal associations in ferns and their relation to habitat type using phylogenetic comparative methods.Although we did not find support for the co-evolution of the spore type and the mycorrhizal associations, we did find that chlorophyllous spores and the absence of mycorrhizal associations have co-evolved with epiphytic and waterlogged habitats. Transition rates to epiphytic and waterlogged habitats were significantly higher in species with chlorophyllous spores compared to achlorophyllous lineages.Spore type and mycorrhizal associations appear to play important roles in the radiation of ferns into different habitat types. Future work should focus on clarifying the functional significance of these associations. This article is protected by copyright. All rights reserved.
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- 2022
13. Pseudomonas putida mediates bacterial killing, biofilm invasion and biocontrol with a type IVB secretion system
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Purtschert-Montenegro, Gabriela, Cárcamo-Oyarce, Gerardo, Pinto-Carbó, Marta, Agnoli, Kirsty, Bailly, Aurélien, Eberl, Leo, University of Zurich, and Eberl, Leo
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Microbiology (medical) ,2403 Immunology ,Pseudomonas putida ,2404 Microbiology ,Immunology ,Cell Biology ,580 Plants (Botany) ,Applied Microbiology and Biotechnology ,Microbiology ,2726 Microbiology (medical) ,1307 Cell Biology ,Soil ,10126 Department of Plant and Microbial Biology ,1311 Genetics ,Solanum lycopersicum ,Biofilms ,Ralstonia solanacearum ,Genetics ,2402 Applied Microbiology and Biotechnology ,10211 Zurich-Basel Plant Science Center - Abstract
Many bacteria utilize contact-dependent killing machineries to eliminate rivals in their environmental niches. Here we show that the plant root colonizer Pseudomonas putida strain IsoF is able to kill a wide range of soil and plant-associated Gram-negative bacteria with the aid of a type IVB secretion system (T4BSS) that delivers a toxic effector into bacterial competitors in a contact-dependent manner. This extends the range of targets of T4BSSs—so far thought to transfer effectors only into eukaryotic cells—to prokaryotes. Bioinformatic and genetic analyses showed that this killing machine is entirely encoded by the kib gene cluster located within a rare genomic island, which was recently acquired by horizontal gene transfer. P. putida IsoF utilizes this secretion system not only as a defensive weapon to kill bacterial competitors but also as an offensive weapon to invade existing biofilms, allowing the strain to persist in its natural environment. Furthermore, we show that strain IsoF can protect tomato plants against the phytopathogen Ralstonia solanacearum in a T4BSS-dependent manner, suggesting that IsoF can be exploited for pest control and sustainable agriculture.
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- 2022
14. Concerted Evaluation of Pesticides in Soils of Extensive Grassland Sites and Organic and Conventional Vegetable Fields Facilitates the Identification of Major Input Processes
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Riedo, Judith, Herzog, Chantal, Banerjee, Samiran, Fenner, Kathrin, Walder, Florian, van der Heijden, Marcel G A, Bucheli, Thomas D, and University of Zurich
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10120 Department of Chemistry ,Soil ,10126 Department of Plant and Microbial Biology ,2304 Environmental Chemistry ,Vegetables ,Environmental Chemistry ,1600 General Chemistry ,Agriculture ,General Chemistry ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center ,Pesticides ,Grassland - Abstract
The intensive use of pesticides and their subsequent distribution to the environment and non-target organisms is of increasing concern. So far, little is known about the occurrence of pesticides in soils of untreated areas─such as ecological refuges─as well as the processes contributing to this unwanted pesticide contamination. In this study, we analyzed the presence and abundance of 46 different pesticides in soils from extensively managed grassland sites, as well as organically and conventionally managed vegetable fields (60 fields in total). Pesticides were found in all soils, including the extensive grassland sites, demonstrating a widespread background contamination of soils with pesticides. The results suggest that after conversion from conventional to organic farming, the organic fields reach pesticide levels as low as those of grassland sites not until 20 years later. Furthermore, the different pesticide composition patterns in grassland sites and organically managed fields facilitated differentiation between long-term persistence of residues and diffuse contamination processes, that is, short-scale redistribution (spray drift) and long-scale dispersion (atmospheric deposition), to offsite contamination.
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- 2022
15. Re-circumscription of the mimosoid genus Entada including new combinations for all species of the phylogenetically nested Elephantorrhiza (Leguminosae, Caesalpinioideae, mimosoid clade)
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O’Donnell, Shawn A, Ringelberg, Jens J, Lewis, Gwilym P, and University of Zurich
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Ecology ,Evolution ,Entada ,Fabales ,F800 ,Fabaceae ,monophyly ,Plant Science ,580 Plants (Botany) ,Biota ,extrafloral nectaries ,Tracheophyta ,Magnoliopsida ,10121 Department of Systematic and Evolutionary Botany ,taxonomy ,Elephantorrhiza ,Behavior and Systematics ,generic delimitation ,nomenclature ,10211 Zurich-Basel Plant Science Center ,Plantae ,Ecology, Evolution, Behavior and Systematics - Abstract
Recent phylogenomic analyses of 997 nuclear genes support the long-held view that the genus Entada is congeneric with Elephantorrhiza. Entada is resolved as monophyletic only if the genus Elephantorrhiza is subsumed within it. The two genera were distinguished solely by relatively minor differences in the mode of dehiscence of the fruits (a craspedium separating into one-seeded endocarp segments in Entada versus a craspedium with the whole fruit valve breaking away from the persistent replum in Elephantorrhiza) and the craspedial fruit type itself provides a shared synapomorphy for the re-circumscribed Entada. Here, we provide a synopsis of Entada, including 11 new combinations in total, for the eight species, one subspecies and one variety previously placed in Elephantorrhiza, as well as a new combination for a subspecies of Entada rheedei Spreng. not previously dealt with when Entada pursaetha DC. was placed in synonymy. These new combinations are: Entada burkei (Benth.) S.A. O’Donnell & G.P. Lewis, comb. nov.; Entada elephantina (Burch.) S.A. O’Donnell & G.P. Lewis, comb. nov.; Entada goetzei (Harms) S.A. O’Donnell & G.P. Lewis, comb. nov.; Entada goetzei subsp. lata (Brenan & Brummitt) S.A. O’Donnell & G.P. Lewis, comb. nov.; Entada obliqua (Burtt Davy) S.A. O’Donnell & G.P. Lewis, comb. nov.; Entada praetermissa (J.H. Ross) S.A. O’Donnell & G.P. Lewis, comb. nov.; Entada rangei (Harms) S.A. O’Donnell & G.P. Lewis, comb. nov.; Entada rheedei subsp. sinohimalensis (Grierson & D.G. Long) S.A. O’Donnell & G.P. Lewis, comb. nov.; Entada schinziana (Dinter) S.A. O’Donnell & G.P. Lewis, comb. nov.; Entada woodii (E. Phillips) S.A. O’Donnell & G.P. Lewis, comb. nov.; and Entada woodii var. pubescens (E. Phillips) S.A. O’Donnell & G.P. Lewis, comb. nov. We provide a revised circumscription of the genus Entada which now comprises 40 species distributed pantropically, with the greatest diversity of species in tropical Africa. We present a complete taxonomic synopsis, including a map showing the global distribution of the genus and photographs showing variation amongst species in habit, foliage, flowers and fruits. A short discussion about extrafloral nectaries, mainly observed in the Madagascan species, is presented.
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- 2022
16. Re-establishment of the genus Pseudalbizzia (Leguminosae, Caesalpinioideae, mimosoid clade): the New World species formerly placed in Albizia
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Aviles Peraza, Gabriela, Koenen, Erik J M, Riina, Ricarda, Hughes, Colin E, Ringelberg, Jens J, Carnevali Fernández-Concha, German, Ramírez Morillo, Ivón Mercedes, Can Itza, Lilia Lorena, Tamayo-Cen, Ivan, Ramírez Prado, Jorge Humberto, Cornejo, Xavier, Mattapha, Sawai, Duno de Stefano, Rodrigo, and University of Zurich
- Subjects
Neotropics ,Ecology ,Evolution ,Fabales ,Fabaceae ,monophyly ,Plant Science ,580 Plants (Botany) ,phylogeny ,Biota ,Arthrosamanea ,Tracheophyta ,Magnoliopsida ,taxonomy ,10121 Department of Systematic and Evolutionary Botany ,Behavior and Systematics ,hydrochory ,10211 Zurich-Basel Plant Science Center ,Plantae ,Albizia ,Ecology, Evolution, Behavior and Systematics - Abstract
Following recent mimosoid phylogenetic and phylogenomic studies demonstrating the non-monophyly of the genus Albizia, we present a new molecular phylogeny focused on the neotropical species in the genus, with much denser taxon sampling than previous studies. Our aims were to test the monophyly of the neotropical section Arthrosamanea, resolve species relationships, and gain insights into the evolution of fruit morphology. We perform a Bayesian phylogenetic analysis of sequences of nuclear internal and external transcribed spacer regions and trace the evolution of fruit dehiscence and lomentiform pods. Our results find further support for the non-monophyly of the genus Albizia, and confirm the previously proposed segregation of Hesperalbizia, Hydrochorea, Balizia and Pseudosamanea. All species that were sampled from section Arthrosamanea form a clade that is sister to a clade composed of Jupunba, Punjuba, Balizia and Hydrochorea. We find that lomentiform fruits are independently derived from indehiscent septate fruits in both Hydrochorea and section Arthrosamanea. Our results show that morphological adaptations to hydrochory, associated with shifts into seasonally flooded habitats, have occurred several times independently in different geographic areas and different lineages within the ingoid clade. This suggests that environmental conditions have likely played a key role in the evolution of fruit types in Albizia and related genera. We resurrect the name Pseudalbizzia to accommodate the species of section Arthrosamanea, except for two species that were not sampled here but have been shown in other studies to be more closely related to other ingoid genera and we restrict the name Albizia s.s. to the species from Africa, Madagascar, Asia, Australia, and the Pacific. Twenty-one new nomenclatural combinations in Pseudalbizzia are proposed, including 16 species and 5 infraspecific varietal names. In addition to the type species Pseudalbizzia berteroana, the genus has 17 species distributed across tropical regions of the Americas, including the Caribbean. Finally, a new infrageneric classification into five sections is proposed and a distribution map of the species of Pseudalbizzia is presented.
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- 2022
17. Phylogenomic analysis of 997 nuclear genes reveals the need for extensive generic re-delimitation in Caesalpinioideae (Leguminosae)
- Author
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Ringelberg, Jens J, Koenen, Erik J M, Iganci, João R, de Queiroz, Luciano P, Murphy, Daniel J, Gaudeul, Myriam, Bruneau, Anne, Luckow, Melissa, Lewis, Gwilym P, Hughes, Colin E, and University of Zurich
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Ecology ,Evolution ,Fabaceae ,monophyly ,phylogenomics ,Plant Science ,580 Plants (Botany) ,10121 Department of Systematic and Evolutionary Botany ,Behavior and Systematics ,generic delimitation ,morphological homoplasy ,mimosoid clade ,10211 Zurich-Basel Plant Science Center ,Ecology, Evolution, Behavior and Systematics - Abstract
Subfamily Caesalpinioideae with ca. 4,600 species in 152 genera is the second-largest subfamily of legumes (Leguminosae) and forms an ecologically and economically important group of trees, shrubs and lianas with a pantropical distribution. Despite major advances in the last few decades towards aligning genera with clades across Caesalpinioideae, generic delimitation remains in a state of considerable flux, especially across the mimosoid clade. We test the monophyly of genera across Caesalpinioideae via phylogenomic analysis of 997 nuclear genes sequenced via targeted enrichment (Hybseq) for 420 species and 147 of the 152 genera currently recognised in the subfamily. We show that 22 genera are non-monophyletic or nested in other genera and that non-monophyly is concentrated in the mimosoid clade where ca. 25% of the 90 genera are found to be non-monophyletic. We suggest two main reasons for this pervasive generic non-monophyly: (i) extensive morphological homoplasy that we document here for a handful of important traits and, particularly, the repeated evolution of distinctive fruit types that were historically emphasised in delimiting genera and (ii) this is an artefact of the lack of pantropical taxonomic syntheses and sampling in previous phylogenies and the consequent failure to identify clades that span the Old World and New World or conversely amphi-Atlantic genera that are non-monophyletic, both of which are critical for delimiting genera across this large pantropical clade. Finally, we discuss taxon delimitation in the phylogenomic era and especially how assessing patterns of gene tree conflict can provide additional insights into generic delimitation. This new phylogenomic framework provides the foundations for a series of papers reclassifying genera that are presented here in Advances in Legume Systematics (ALS) 14 Part 1, for establishing a new higher-level phylogenetic tribal and clade-based classification of Caesalpinioideae that is the focus of ALS14 Part 2 and for downstream analyses of evolutionary diversification and biogeography of this important group of legumes which are presented elsewhere.
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- 2022
18. The PTI-suppressing Avr2 effector from Fusarium oxysporum suppresses mono-ubiquitination and plasma membrane dissociation of BIK1
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Blekemolen, Mila C, Liu, Zunyong, Stegman, Martin, Zipfel, Cyril, Shan, Libo, Takken, Frank L W, University of Zurich, and Takken, Frank L W
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10126 Department of Plant and Microbial Biology ,1110 Plant Science ,1312 Molecular Biology ,1102 Agronomy and Crop Science ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center ,1111 Soil Science - Published
- 2023
19. The plant–mycorrhizal fungi collaboration gradient depends on plant functional group
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Romero, Ferran, Argüello, Alicia, de Bruin, Susanne, van der Heijden, Marcel G A, and University of Zurich
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10126 Department of Plant and Microbial Biology ,Ecology ,Behavior and Systematics ,Evolution ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center - Published
- 2023
20. Temporal dynamics of total and bioavailable fungicide concentrations in soil and their effect upon nine soil microbial markers
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Riedo, Judith, Yokota, Aya, Walther, Barbara, Bartolomé, Nora, van der Heijden, Marcel G A, Bucheli, Thomas D, Walder, Florian, University of Zurich, van der Heijden, Marcel G A, Bucheli, Thomas D, and Walder, Florian
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Environmental Engineering ,10126 Department of Plant and Microbial Biology ,2305 Environmental Engineering ,2304 Environmental Chemistry ,2310 Pollution ,Environmental Chemistry ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center ,Pollution ,Waste Management and Disposal ,2311 Waste Management and Disposal - Published
- 2023
21. Single-gene resolution of diversity-driven overyielding in plant genotype mixtures
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Wuest, Samuel E, Schulz, Lukas, Rana, Surbhi, Frommelt, Julia, Ehmig, Merten, Pires, Nuno D, Grossniklaus, Ueli, Hardtke, Christian S, Hammes, Ulrich Z, Schmid, Bernhard, Niklaus, Pascal A, University of Zurich, and Wuest, Samuel E
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10121 Department of Systematic and Evolutionary Botany ,10127 Institute of Evolutionary Biology and Environmental Studies ,10122 Institute of Geography ,10126 Department of Plant and Microbial Biology ,1300 General Biochemistry, Genetics and Molecular Biology ,1600 General Chemistry ,580 Plants (Botany) ,910 Geography & travel ,10211 Zurich-Basel Plant Science Center ,3100 General Physics and Astronomy - Published
- 2023
22. Macroevolutionary decline in mycorrhizal colonization and chemical defense responsiveness to mycorrhization
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Formenti, Ludovico, Iwanycki Ahlstrand, Natalie, Hassemer, Gustavo, Glauser, Gaëtan, van den Hoogen, Johan, Rønsted, Nina, van der Heijden, Marcel, Crowther, Thomas W, Rasmann, Sergio, University of Zurich, and Rasmann, Sergio
- Subjects
1000 Multidisciplinary ,Multidisciplinary ,10126 Department of Plant and Microbial Biology ,570 Life sciences ,biology ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center - Abstract
Arbuscular mycorrhizal fungi (AMF) have evolved associations with roots of 60% plant species, but the net benefit for plants vary broadly from mutualism to parasitism. Yet, we lack a general understanding of the evolutionary and ecological forces driving such variation. To this end, we conducted a comparative phylogenetic experiment with 24 species of Plantago, encompassing worldwide distribution, to address the effect of evolutionary history and environment on plant growth and chemical defenses in response to AMF colonization. We demonstrate that different species within one plant genus vary greatly in their ability to associate with AMF, and that AMF arbuscule colonization intensity decreases monotonically with increasing phylogenetic branch length, but not with concomitant changes in pedological and climatic conditions across species. Moreover, we demonstrate that species with the highest colonization levels are also those that change their defensive chemistry the least. We propose that the costs imposed by high AMF colonization in terms of reduced changes in secondary chemistry might drive the observed macroevolutionary decline in mycorrhization., iScience, 26 (5), ISSN:2589-0042
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- 2023
23. DDT-RELATED PROTEIN4-IMITATION SWITCH alters nucleosome distribution to relieve transcriptional silencing in Arabidopsis
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Zhang, Qiyan, Wang, Zejia, Lu, Xinyue, Yan, Huiru, Zhang, Huawei, He, Hang, Bischof, Sylvain, Harris, C Jake, Liu, Qikun, Zhang, Qiyan [0000-0002-2446-0082], Wang, Zejia [0000-0002-0032-2662], Lu, Xinyue [0000-0002-3362-0092], Yan, Huiru [0009-0009-4758-1205], Zhang, Huawei [0000-0002-8893-1429], He, Hang [0000-0003-3165-283X], Bischof, Sylvain [0000-0003-2910-5132], Harris, C Jake [0000-0001-5120-0377], Liu, Qikun [0000-0003-2489-2907], Apollo - University of Cambridge Repository, and University of Zurich
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1.1 Normal biological development and functioning ,Human Genome ,Cell Biology ,Plant Science ,580 Plants (Botany) ,3108 Plant Biology ,3105 Genetics ,10126 Department of Plant and Microbial Biology ,FOS: Biological sciences ,Genetics ,1 Underpinning research ,Generic health relevance ,10211 Zurich-Basel Plant Science Center ,31 Biological Sciences - Abstract
DNA methylation is a conserved epigenetic modification that is typically associated with silencing of transposable elements and promoter methylated genes. However, some DNA-methylated loci are protected from silencing, allowing transcriptional flexibility in response to environmental and developmental cues. Through a genetic screen in Arabidopsis (Arabidopsis thaliana), we uncovered an antagonistic relationship between the MICRORCHIDIA (MORC) protein and the IMITATION SWITCH (ISWI) complex in regulating the DNA-methylated SUPPRESSOR OF DRM1 DRM2 CMT3 (SDC) reporter. We demonstrate that components of the plant-specific ISWI complex, including CHROMATIN REMODELING PROTEIN11 (CHR11), CHR17, DDT-RELATED PROTEIN4 (DDR4), and DDR5, function to partially de-repress silenced genes and transposable elements (TEs), through their function in regulating nucleosome distribution. This action also requires the known transcriptional activator DNAJ proteins, providing a mechanistic link between nucleosome remodeling and transcriptional activation. Genome-wide studies revealed that DDR4 causes changes in nucleosome distribution at numerous loci, a subset of which is associated with changes in DNA methylation and/or transcription. Our work reveals a mechanism for balancing transcriptional flexibility and faithful silencing of DNA-methylated loci. As both ISWI and MORC family genes are widely distributed across plant and animal species, our findings may represent a conserved eukaryotic mechanism for fine-tuning gene expression under epigenetic regulation.
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- 2023
24. Small-scale spatial beta diversity of bacteria in the mixed upper layer of a lake
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Pernthaler, Jakob, Krempaska, Natalia, Le Moigne, Alizée, University of Zurich, and Pernthaler, Jakob
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1105 Ecology, Evolution, Behavior and Systematics ,10126 Department of Plant and Microbial Biology ,2404 Microbiology ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center - Published
- 2023
25. Fern cell walls and the evolution of arabinogalactan proteins in streptophytes
- Author
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Mueller, Kim-Kristine, Pfeifer, Lukas, Schuldt, Lina, Szövényi, Péter, de Vries, Sophie, de Vries, Jan, Johnson, Kim L, Classen, Birgit, University of Zurich, and Classen, Birgit
- Subjects
Salvinia molesta ,phylogenetic analysis ,plant evolution ,polysaccharides ,Cell Biology ,Plant Science ,580 Plants (Botany) ,arabinogalactan protein ,UFSP13-7 Evolution in Action: From Genomes to Ecosystems ,1307 Cell Biology ,10121 Department of Systematic and Evolutionary Botany ,1311 Genetics ,ferns ,1110 Plant Science ,glycosyltransferases ,Genetics ,Azolla filiculoides ,Ceratopteris richardii ,cell wall ,10211 Zurich-Basel Plant Science Center - Abstract
Significant changes have occurred in plant cell wall composition during evolution and diversification of tracheophytes. As the sister lineage to seed plants, knowledge on the cell wall of ferns is key to track evolutionary changes across tracheophytes and to understand seed plant-specific evolutionary innovations. Fern cell wall composition is not fully understood, including limited knowledge of glycoproteins such as the fern arabinogalactan proteins (AGPs). Here, we characterize the AGPs from the leptosporangiate fern genera Azolla, Salvinia, and Ceratopteris. The carbohydrate moiety of seed plant AGPs consists of a galactan backbone including mainly 1,3- and 1,3,6-linked pyranosidic galactose, which is conserved across the investigated fern AGPs. Yet, unlike AGPs of angiosperms, those of ferns contained the unusual sugar 3-O-methylrhamnose. Besides terminal furanosidic arabinose, Ara (Araf), the main linkage type of Araf in the ferns was 1,2-linked Araf, whereas in seed plants 1,5-linked Araf is often dominating. Antibodies directed against carbohydrate epitopes of AGPs supported the structural differences between AGPs of ferns and seed plants. Comparison of AGP linkage types across the streptophyte lineage showed that angiosperms have rather conserved monosaccharide linkage types; by contrast bryophytes, ferns, and gymnosperms showed more variability. Phylogenetic analyses of glycosyltransferases involved in AGP biosynthesis and bioinformatic search for AGP protein backbones revealed a versatile genetic toolkit for AGP complexity in ferns. Our data reveal important differences across AGP diversity of which the functional significance is unknown. This diversity sheds light on the evolution of the hallmark feature of tracheophytes: their elaborate cell walls., The Plant Journal, 114 (4), ISSN:0960-7412, ISSN:1365-313X
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- 2023
26. S-acylation stabilizes ligand-induced receptor kinase complex formation during plant pattern-triggered immune signaling
- Author
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Charlotte H. Hurst, Dionne Turnbull, Kaltra Xhelilaj, Sally Myles, Robin L. Pflughaupt, Michaela Kopischke, Paul Davies, Susan Jones, Silke Robatzek, Cyril Zipfel, Julien Gronnier, Piers A. Hemsley, University of Zurich, and Hemsley, Piers A
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10126 Department of Plant and Microbial Biology ,1300 General Biochemistry, Genetics and Molecular Biology ,2800 General Neuroscience ,1100 General Agricultural and Biological Sciences ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center ,General Agricultural and Biological Sciences ,General Biochemistry, Genetics and Molecular Biology - Abstract
Plant receptor kinases are key transducers of extracellular stimuli, such as the presence of beneficial or pathogenic microbes or secreted signaling molecules. Receptor kinases are regulated by numerous post-translational modifications.1,2,3 Here, using the immune receptor kinases FLS24 and EFR,5 we show that S-acylation at a cysteine conserved in all plant receptor kinases is crucial for function. S-acylation involves the addition of long-chain fatty acids to cysteine residues within proteins, altering their biochemical properties and behavior within the membrane environment.6 We observe S-acylation of FLS2 at C-terminal kinase domain cysteine residues within minutes following the perception of its ligand, flg22, in a BAK1 co-receptor and PUB12/13 ubiquitin ligase-dependent manner. We demonstrate that S-acylation is essential for FLS2-mediated immune signaling and resistance to bacterial infection. Similarly, mutating the corresponding conserved cysteine residue in EFR suppressed elf18-triggered signaling. Analysis of unstimulated and activated FLS2-containing complexes using microscopy, detergents, and native membrane DIBMA nanodiscs indicates that S-acylation stabilizes, and promotes retention of, activated receptor kinase complexes at the plasma membrane to increase signaling efficiency.
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- 2023
27. Allylic Carbocyclic Inhibitors Covalently Bind Glycoside Hydrolases
- Author
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Grayfer, Tatyana D, Yamani, Khalil, Jung, Erik, Chesnokov, Gleb A, Ferrara, Isabella, Hsiao, Chien-Chi, Georgiou, Antri, Michel, Jeremy, Bailly, Aurélien, Sieber, Simon, Eberl, Leo, Gademann, Karl, University of Zurich, and Gademann, Karl
- Subjects
10120 Department of Chemistry ,1602 Analytical Chemistry ,10126 Department of Plant and Microbial Biology ,1601 Chemistry (miscellaneous) ,540 Chemistry ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center ,1606 Physical and Theoretical Chemistry ,1605 Organic Chemistry - Published
- 2023
28. The receptor kinase FERONIA regulates phosphatidylserine localization at the cell surface to modulate ROP signaling
- Author
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Smokvarska, Marija, Bayle, Vincent, Maneta-Peyret, Lilly, Fouillen, Laetitia, Poitout, Arthur, Dongois, Armelle, Fiche, Jean-Bernard, Gronnier, Julien, Garcia, José, Höfte, Herman, Nolmann, Marcelo, Zipfel, Cyril, Maurel, Christophe, Moreau, Patrick, Jaillais, Yvon, Martiniere, Alexandre, Institut des Sciences des Plantes de Montpellier (IPSIM), Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro Montpellier, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Université de Montpellier (UM), Reproduction et développement des plantes (RDP), École normale supérieure de Lyon (ENS de Lyon)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Laboratoire de biogenèse membranaire (LBM), Université de Bordeaux (UB)-Centre National de la Recherche Scientifique (CNRS), Plateforme Bordeaux Metabolome, Université de Bordeaux (UB)-Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-MetaboHUB-Bordeaux, MetaboHUB-MetaboHUB, Centre de Biologie Structurale [Montpellier] (CBS), Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM), Department of Plant and Microbial Biology [Zurich, Suisse], Universität Zürich [Zürich] = University of Zurich (UZH), Zentrum für Molekularbiologie der Pflanzen (ZMBP), Eberhard Karls Universität Tübingen = Eberhard Karls University of Tuebingen, Institut Jean-Pierre Bourgin (IJPB), AgroParisTech-Université Paris-Saclay-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Zurich Basel Plant Science Center, Universität Zürich [Zürich] = University of Zurich (UZH)-University of Basel (Unibas), The Sainsbury Laboratory [Norwich] (TSL), ANR-11-INBS-0010,METABOHUB,Développement d'une infrastructure française distribuée pour la métabolomique dédiée à l'innovation(2011), University of Zurich, and Martiniere, Alexandre
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1000 Multidisciplinary ,phosphatidylserine ,Multidisciplinary ,10126 Department of Plant and Microbial Biology ,[SDV]Life Sciences [q-bio] ,Arabidopsis ,[SDV.BV]Life Sciences [q-bio]/Vegetal Biology ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center ,FERONIA ,Fer - Abstract
International audience; Cells maintain a constant dialog between the extracellular matrix and their plasma membrane to fine tune signal transduction processes. We found that the receptor kinase FERONIA (FER), which is a proposed cell wall sensor, modulates phosphatidylserine plasma membrane accumulation and nano-organization, a key regulator of Rho GTPase signaling in Arabidopsis. We demonstrate that FER is required for both Rho-of-Plant 6 (ROP6) nano-partitioning at the membrane and downstream production of reactive oxygen species upon hyperosmotic stimulus. Genetic and pharmacological rescue experiments indicate that phosphatidylserine is required for a subset of, but not all, FER functions. Furthermore, application of FER ligand shows that its signaling controls both phosphatidylserine membrane localization and nanodomains formation, which, in turn, tunes ROP6 signaling. Together, we propose that a cell wall–sensing pathway controls via the regulation of membrane phospholipid content, the nano-organization of the plasma membrane, which is an essential cell acclimation to environmental perturbations.
- Published
- 2023
29. Assessment of transcriptional reprogramming of lettuce roots in response to chitin soil amendment
- Author
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Li, Leilei, Kaufmann, Moritz, Makechemu, Moffat, Van Poucke, Christof, De Keyser, Ellen, Uyttendaele, Mieke, Zipfel, Cyril, Cottyn, Bart, Pothier, Joël F, University of Zurich, Li, Leilei, and Pothier, Joël F
- Subjects
10126 Department of Plant and Microbial Biology ,Phenolic compound ,Plant defense ,572: Biochemie ,1110 Plant Science ,Chitin ,RNA-Seq ,Plant Science ,Lettuce ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center - Abstract
Chitin soil amendment is known to improve soil quality, plant growth and stress resilience, but the underlying mechanisms are not well understood. In this study, we monitored chitin’s effect on lettuce physiology every two weeks through an eight-week growth period, analyzed the early transcriptional reprogramming and related metabolomic changes of lettuce, in response to crab chitin treatment in peat-based potting soil. In commercial growth conditions, chitin amendment still promoted lettuce growth, increased chlorophyll content, the number of leaves and crop head weight from week six. The flavonoid content in lettuce leaves was altered as well, showing an increase at week two but a decrease from week six. Transcriptomic analysis showed that over 300 genes in lettuce root were significantly differentially expressed after chitin soil treatment. Gene Ontology-term (GO) enrichment analysis revealed statistical overrepresentation of GO terms linked to photosynthesis, pigment metabolic process and phenylpropanoid metabolic process. Further analysis of the differentially expressed genes (DEGs) showed that the flavonoid pathway was mostly upregulated whereas the bifurcation of upstream phenylpropanoid pathway towards lignin biosynthesis was mostly downregulated. Metabolomic analysis revealed the upregulation of salicylic acid, chlorogenic acid, ferulic acid, and p-coumaric acid in chitin-treated lettuce seedlings. These phenolic compounds (PCs) mainly influence the phenylpropanoid biosynthesis pathway and may play important roles in plant defense reactions. Our results suggest that chitin soil amendments might activate induced resistance by priming lettuce plants and promote lettuce growth via transcriptional changes.
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- 2023
30. Stochasticity causes high β-diversity and functional divergence of bacterial assemblages in closed systems
- Author
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Le Moigne, Alizée, Randegger, Florian, Gupta, Anubhav, Petchey, Owen L, Pernthaler, Jakob, University of Zurich, and Pernthaler, Jakob
- Subjects
1105 Ecology, Evolution, Behavior and Systematics ,10126 Department of Plant and Microbial Biology ,UFSP13-8 Global Change and Biodiversity ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center ,Ecology, Evolution, Behavior and Systematics - Published
- 2023
31. Back-to-Africa introductions of Mycobacterium tuberculosis as the main cause of tuberculosis in Dar es Salaam, Tanzania
- Author
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Zwyer, Michaela, Rutaihwa, Liliana K, Windels, Etthel, Hella, Jerry, Menardo, Fabrizio, Sasamalo, Mohamed, Sommer, Gregor, Schmülling, Lena, Borrell, Sonia, Reinhard, Miriam, Dötsch, Anna, Hiza, Hellen, Stritt, Christoph, Sikalengo, George, Fenner, Lukas, De Jong, Bouke C, Kato-Maeda, Midori, Jugheli, Levan, Ernst, Joel D, Niemann, Stefan, Jeljeli, Leila, Ballif, Marie, Egger, Matthias, Rakotosamimanana, Niaina, Yeboah-Manu, Dorothy, Asare, Prince, Malla, Bijaya, Dou, Horng Yunn, Zetola, Nicolas, Wilkinson, Robert J, et al, and University of Zurich
- Subjects
2403 Immunology ,10126 Department of Plant and Microbial Biology ,1311 Genetics ,2404 Microbiology ,2405 Parasitology ,1312 Molecular Biology ,2406 Virology ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center - Published
- 2023
32. Insights into the systematics of Old World taenitidoid ferns (Pteridoideae; Pteridaceae): evidence from phylogeny and micromorphology
- Author
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Chen, Cheng-Wei, Chao, Yi-Shan, Andi, Maryani A Mustapeng, Lindsay, Stuart, Huang, Yao-Moan, Kessler, Michael, Luu, Hong Truong, Hsieh, Ching-Ming, and University of Zurich
- Subjects
10121 Department of Systematic and Evolutionary Botany ,Ecology ,Behavior and Systematics ,Evolution ,Plant Science ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center ,Ecology, Evolution, Behavior and Systematics - Abstract
A close relationship of the three Old World taenitidoid genera Austrogramme, Syngramma and Taenitis was traditionally suggested on the basis of morphology, and later gained further support from molecular phylogenetic analyses. However, due to insufficient sampling, the monophyly and intrageneric and interspecific relationships of these genera are still largely untested, and the systematic value of diagnostic morphological characteristics is unclear. In this study, we generated a molecular phylogenetic tree with 18 species representing nearly half of the known species diversity for this group. In addition to macromorphological characteristics, we also observed microscopic characteristics, including soral paraphyses and spores. Our results confirm the monophyly of the three genera and their delimitating characteristics. We found that most of the previously proposed sections are not monophyletic, and their diagnostic characteristics are homoplastic. We propose new hypotheses concerning both intergeneric and interspecific hybridization and provide new taxonomic insights that are critical in understanding the diversity of the group.
- Published
- 2022
33. Climate warming can reduce biocontrol efficacy and promote plant invasion due to both genetic and transient metabolomic changes
- Author
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Sun, Yan, Züst, Tobias, Silvestro, Daniele, Erb, Matthias, Bossdorf, Oliver, Mateo, Pierre, Robert, Christelle, Müller-Schärer, Heinz, University of Zurich, and Sun, Yan
- Subjects
10121 Department of Systematic and Evolutionary Botany ,1105 Ecology, Evolution, Behavior and Systematics ,Climate Change ,food and beverages ,Bayes Theorem ,Herbivory ,10211 Zurich-Basel Plant Science Center ,Ambrosia ,Plants ,580 Plants (Botany) ,Ecosystem ,Ecology, Evolution, Behavior and Systematics - Abstract
Climate change may affect plant-herbivore interactions and their associated ecosystem functions. In an experimental evolution approach, we subjected replicated populations of the invasive Ambrosia artemisiifolia to a combination of simulated warming and herbivory by a potential biocontrol beetle. We tracked genomic and metabolomic changes across generations in field populations and assessed plant offspring phenotypes in a common environment. Using an integrated Bayesian model, we show that increased offspring biomass in response to warming arose through changes in the genetic composition of populations. In contrast, increased resistance to herbivory arose through a shift in plant metabolomic profiles without genetic changes, most likely by transgenerational induction of defences. Importantly, while increased resistance was costly at ambient temperatures, warming removed this constraint and favoured both vigorous and better defended plants under biocontrol. Climate warming may thus decrease biocontrol efficiency and promote Ambrosia invasion, with potentially serious economic and health consequences.
- Published
- 2022
34. Light, rather than circadian rhythm, regulates gas exchange in ferns and lycophytes
- Author
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Daniela Aros-Mualin, Carmela Rosaria Guadagno, Daniele Silvestro, Michael Kessler, and University of Zurich
- Subjects
10121 Department of Systematic and Evolutionary Botany ,Physiology ,Genetics ,Plant Science ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center - Abstract
Circadian regulation plays a vital role in optimizing plant responses to the environment. However, while circadian regulation has been extensively studied in angiosperms, very little is known for lycophytes and ferns, leaving a gap in our understanding of the evolution of circadian rhythms across the plant kingdom. Here, we investigated circadian regulation in gas exchange through stomatal conductance and photosynthetic efficiency in a phylogenetically broad panel of 21 species of lycophytes and ferns over a 46 h period under constant light and a selected few under more natural conditions with day–night cycles. No rhythm was detected under constant light for either lycophytes or ferns, except for two semi-aquatic species of the family Marsileaceae (Marsilea azorica and Regnellidium diphyllum), which showed rhythms in stomatal conductance. Furthermore, these results indicated the presence of a light-driven stomatal control for ferns and lycophytes, with a possible passive fine-tuning through leaf water status adjustments. These findings support previous evidence for the fundamentally different regulation of gas exchange in lycophytes and ferns compared to angiosperms, and they suggest the presence of alternative stomatal regulations in Marsileaceae, an aquatic family already well known for numerous other distinctive physiological traits. Overall, our study provides evidence for heterogeneous circadian regulation across plant lineages, highlighting the importance of broad taxonomic scope in comparative plant physiology studies.
- Published
- 2023
35. Increasing the number of stressors reduces soil ecosystem services worldwide
- Author
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Matthias C. Rillig, Marcel G. A. van der Heijden, Miguel Berdugo, Yu-Rong Liu, Judith Riedo, Carlos Sanz-Lazaro, Eduardo Moreno-Jiménez, Ferran Romero, Leho Tedersoo, Manuel Delgado-Baquerizo, UAM. Departamento de Química Agrícola, University of Zurich, Rillig, Matthias C, Delgado-Baquerizo, Manuel, British Ecological Society, Ministerio de Ciencia e Innovación (España), Agencia Estatal de Investigación (España), European Commission, Junta de Andalucía, Humboldt Research Foundation, Swiss National Science Foundation, Rillig, Matthias C., van der Heijden, M.G.A., Berdugo, Miguel, Liu, Yu-Rong, Riedo, Judith, Sanz-Lázaro, Carlos, Moreno-Jiménez, Eduardo, Romero, Ferran, Tedersoo, Leho, Universidad de Alicante. Departamento de Ecología, Universidad de Alicante. Instituto Multidisciplinar para el Estudio del Medio 'Ramón Margalef', Gestión de Ecosistemas y de la Biodiversidad (GEB), and Bioquímica Aplicada/Applied Biochemistry (AppBiochem)
- Subjects
Ecology ,3301 Social Sciences (miscellaneous) ,number of stressors ,Ecosystem Stability ,2301 Environmental Science (miscellaneous) ,Environmental stressors ,500 Naturwissenschaften und Mathematik::570 Biowissenschaften ,Biologie::570 Biowissenschaften ,Biologie ,580 Plants (Botany) ,Environmental Science (miscellaneous) ,soil ecosystem services ,Protect, restore and promote sustainable use of terrestrial ecosystems, sustainably manage forests, combat desertification, and halt and reverse land degradation and halt biodiversity loss ,10126 Department of Plant and Microbial Biology ,FOS: Biological sciences ,Ecosystem services ,Soils ,10211 Zurich-Basel Plant Science Center ,Plant Communities ,Social Sciences (miscellaneous) ,Ecosystem ,Ciencias Agrarias / Agricultura - Abstract
9 páginas.- 4 figuras.- 38 referemcias.- Supplementary information The online version contains supplementary material available at https://doi.org/10.1038/s41558-023-01627-2, Increasing the number of environmental stressors could decrease ecosystem functioning in soils. Yet this relationship has not been globally assessed outside laboratory experiments. Here, using two independent global standardized field surveys, and a range of natural and human factors, we test the relationship between the number of environmental stressors exceeding different critical thresholds and the maintenance of multiple ecosystem services across biomes. Our analysis shows that having multiple stressors, from medium levels (>50%), negatively and significantly correlates with impacts on ecosystem services and that having multiple stressors crossing a high-level critical threshold (over 75% of maximum observed levels) reduces soil biodiversity and functioning globally. The number of environmental stressors exceeding the >75% threshold was consistently seen as an important predictor of multiple ecosystem services, therefore improving prediction of ecosystem functioning. Our findings highlight the need to reduce the dimensionality of the human footprint on ecosystems to conserve biodiversity and function., This project received funding from the British Ecological Society (agreement no. LRA17\1193; MUSGONET). M.D.-B. acknowledges support from the Spanish Ministry of Science and Innovation for the I+D+i project PID2020-115813RA-I00 funded by MCIN/AEI/10.13039/501100011033. M.D.-B. is also supported by a project of the Fondo Europeo de Desarrollo Regional (FEDER) and the Consejería de Transformación Económica, Industria, Conocimiento y Universidades of the Junta de Andalucía (FEDER Andalucía 2014-2020 Objetivo temático ‘01 - Refuerzo de la investigación, el desarrollo tecnológico y la innovación’) associated with the research project P20_00879 (ANDABIOMA). E.M.-J. thanks the Alexander von Humboldt Foundation for supporting his research stay in Germany (Fellowship for Experienced Researchers). M.C.R. acknowledges support from an ERC Advanced Grant (694368). M.G.A.H. acknowledges funding from the Swiss National Science Foundation (grant 310030_188799). M.B. is supported by Spanish Ministry of Science and Innovation through a Ramón y Cajal Fellowship (# RYC2021-031797-I)
- Published
- 2023
36. What can hornworts teach us?
- Author
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Frangedakis, Eftychios, Marron, Alan O, Waller, Manuel, Neubauer, Anna, Tse, Sze Wai, Yue, Yuling, Ruaud, Stéphanie, Waser, Lucas, Sakakibara, Keiko, Szövényi, Péter, University of Zurich, and Apollo - University of Cambridge Repository
- Subjects
RNA editing ,evo-devo ,Plant Science ,580 Plants (Botany) ,UFSP13-7 Evolution in Action: From Genomes to Ecosystems ,10121 Department of Systematic and Evolutionary Botany ,polyplastidy ,pyrenoid ,terrestrialization of plants ,10126 Department of Plant and Microbial Biology ,plant-mycorrhizal symbiosis ,10211 Zurich-Basel Plant Science Center ,land plants ,plant-cyanobacteria symbiosis - Abstract
Peer reviewed: True, The hornworts are a small group of land plants, consisting of only 11 families and approximately 220 species. Despite their small size as a group, their phylogenetic position and unique biology are of great importance. Hornworts, together with mosses and liverworts, form the monophyletic group of bryophytes that is sister to all other land plants (Tracheophytes). It is only recently that hornworts became amenable to experimental investigation with the establishment of Anthoceros agrestis as a model system. In this perspective, we summarize the recent advances in the development of A. agrestis as an experimental system and compare it with other plant model systems. We also discuss how A. agrestis can help to further research in comparative developmental studies across land plants and to solve key questions of plant biology associated with the colonization of the terrestrial environment. Finally, we explore the significance of A. agrestis in crop improvement and synthetic biology applications in general.
- Published
- 2023
37. Role of ubiquitination in arsenic tolerance in plants
- Author
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Zhang, Jie, Wysocki, Robert, Li, Fangbai, Yu, Min, Martinoia, Enrico, Song, Won-Yong, University of Zurich, and Yu, Min
- Subjects
10126 Department of Plant and Microbial Biology ,1110 Plant Science ,Plant Science ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center - Published
- 2023
38. A survey of lineage-specific genes in Triticeae reveals de novo gene evolution from genomic raw material
- Author
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Poretti, Manuel, Praz, Coraline R, Sotiropoulos, Alexandros G, Wicker, Thomas, University of Zurich, Wicker, Thomas, Swiss National Science Foundation, Poretti, Manuel, Praz, Coraline R., and Sotiropoulos, Alexandros G.
- Subjects
Ecology ,Plant Science ,580 Plants (Botany) ,Biochemistry, Genetics and Molecular Biology (miscellaneous) ,1301 Biochemistry, Genetics and Molecular Biology (miscellaneous) ,UFSP13-7 Evolution in Action: From Genomes to Ecosystems ,1105 Ecology, Evolution, Behavior and Systematics ,10126 Department of Plant and Microbial Biology ,1110 Plant Science ,Triticeae‐specific genes ,De novo gene evolution ,10211 Zurich-Basel Plant Science Center ,Stress adaptation ,Transposable elements ,2303 Ecology ,Ecology, Evolution, Behavior and Systematics - Abstract
16 Pág., Diploid plant genomes typically contain ~35,000 genes, almost all belonging to highly conserved gene families. Only a small fraction are lineage-specific, which are found in only one or few closely related species. Little is known about how genes arise de novo in plant genomes and how often this occurs; however, they are believed to be important for plants diversification and adaptation. We developed a pipeline to identify lineage-specific genes in Triticeae, using newly available genome assemblies of wheat, barley, and rye. Applying a set of stringent criteria, we identified 5942 candidate Triticeae-specific genes (TSGs), of which 2337 were validated as protein-coding genes in wheat. Differential gene expression analyses revealed that stress-induced wheat TSGs are strongly enriched in putative secreted proteins. Some were previously described to be involved in Triticeae non-host resistance and cold response. Additionally, we show that 1079 TSGs have sequence homology to transposable elements (TEs), ~68% of them deriving from regulatory non-coding regions of Gypsy retrotransposons. Most importantly, we demonstrate that these TSGs are enriched in transmembrane domains and are among the most highly expressed wheat genes overall. To summarize, we conclude that de novo gene formation is relatively rare and that Triticeae probably possess ~779 lineage-specific genes per haploid genome. TSGs, which respond to pathogen and environmental stresses, may be interesting candidates for future targeted resistance breeding in Triticeae. Finally, we propose that non-coding regions of TEs might provide important genetic raw material for the functional innovation of TM domains and the evolution of novel secreted proteins., This work was supported by the Swiss National Foundation grant 31003A_163325.University of Zurich Research Priority Program, Grant/Award Number: U-702-21-01; Swiss National Foundation, Grant/Award Number: 31003A_163325
- Published
- 2023
39. Live Imaging of Arabidopsis Pollen Tube Reception and Double Fertilization Using the Semi-In Vitro Cum Septum Method
- Author
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Desnoyer, Nicholas J, Grossniklaus, Ueli, and University of Zurich
- Subjects
10126 Department of Plant and Microbial Biology ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center - Published
- 2023
40. The broad use of the Pm8 resistance gene in wheat resulted in hypermutation of the AvrPm8 gene in the powdery mildew pathogen
- Author
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Lukas Kunz, Alexandros G. Sotiropoulos, Johannes Graf, Mohammad Razavi, Beat Keller, Marion C. Müller, University of Zurich, Keller, Beat, and Müller, Marion C
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Physiology ,Evolution ,Genetics and Molecular Biology ,1100 General Agricultural and Biological Sciences ,Plant Science ,580 Plants (Botany) ,General Biochemistry, Genetics and Molecular Biology ,UFSP13-7 Evolution in Action: From Genomes to Ecosystems ,1309 Developmental Biology ,1307 Cell Biology ,1315 Structural Biology ,10126 Department of Plant and Microbial Biology ,Behavior and Systematics ,1300 General Biochemistry, Genetics and Molecular Biology ,Structural Biology ,1110 Plant Science ,10211 Zurich-Basel Plant Science Center ,Ecology, Evolution, Behavior and Systematics ,Ecology ,1314 Physiology ,Cell Biology ,1105 Ecology, Evolution, Behavior and Systematics ,General Biochemistry ,1305 Biotechnology ,General Agricultural and Biological Sciences ,Developmental Biology ,Biotechnology - Abstract
Background Worldwide wheat production is under constant threat by fast-evolving fungal pathogens. In the last decades, wheat breeding for disease resistance heavily relied on the introgression of chromosomal segments from related species as genetic sources of new resistance. The Pm8 resistance gene against the powdery mildew disease has been introgressed from rye into wheat as part of a large 1BL.1RS chromosomal translocation encompassing multiple disease resistance genes and yield components. Due to its high agronomic value, this translocation has seen continuous global use since the 1960s on large growth areas, even after Pm8 resistance was overcome by the powdery mildew pathogen. The long-term use of Pm8 at a global scale provided the unique opportunity to study the consequences of such extensive resistance gene application on pathogen evolution. Results Using genome-wide association studies in a population of wheat mildew isolates, we identified the avirulence effector AvrPm8 specifically recognized by Pm8. Haplovariant mining in a global mildew population covering all major wheat growing areas of the world revealed 17 virulent haplotypes of the AvrPm8 gene that grouped into two functional categories. The first one comprised amino acid polymorphisms at a single position along the AvrPm8 protein, which we confirmed to be crucial for the recognition by Pm8. The second category consisted of numerous destructive mutations to the AvrPm8 open reading frame such as disruptions of the start codon, gene truncations, gene deletions, and interference with mRNA splicing. With the exception of a single, likely ancient, gain-of-virulence mutation found in mildew isolates around the world, all AvrPm8 virulence haplotypes were found in geographically restricted regions, indicating that they occurred recently as a consequence of the frequent Pm8 use. Conclusions In this study, we show that the broad and prolonged use of the Pm8 gene in wheat production worldwide resulted in a multitude of gain-of-virulence mechanisms affecting the AvrPm8 gene in the wheat powdery mildew pathogen. Based on our findings, we conclude that both standing genetic variation as well as locally occurring new mutations contributed to the global breakdown of the Pm8 resistance gene introgression.
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- 2023
41. Postglacial adaptations enabled colonization and quasi-clonal dispersal of ammonia-oxidizing archaea in modern European large lakes
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Ngugi, David Kamanda, Salcher, Michaela M, Andrei, Adrian-Stefan, Ghai, Rohit, Klotz, Franziska, Chiriac, Maria-Cecilia, Ionescu, Danny, Büsing, Petra, Grossart, Hans-Peter, Xing, Peng, Priscu, John C, Alymkulov, Salmor, Pester, Michael, University of Zurich, and Ngugi, David Kamanda
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1000 Multidisciplinary ,Multidisciplinary ,10126 Department of Plant and Microbial Biology ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center - Abstract
Ammonia-oxidizing archaea (AOA) play a key role in the aquatic nitrogen cycle. Their genetic diversity is viewed as the outcome of evolutionary processes that shaped ancestral transition from terrestrial to marine habitats. However, current genome-wide insights into AOA evolution rarely consider brackish and freshwater representatives or provide their divergence timeline in lacustrine systems. An unbiased global assessment of lacustrine AOA diversity is critical for understanding their origins, dispersal mechanisms, and ecosystem roles. Here, we leveraged continental-scale metagenomics to document that AOA species diversity in freshwater systems is remarkably low compared to marine environments. We show that the uncultured freshwater AOA, “ Candidatus Nitrosopumilus limneticus,” is ubiquitous and genotypically static in various large European lakes where it evolved 13 million years ago. We find that extensive proteome remodeling was a key innovation for freshwater colonization of AOA. These findings reveal the genetic diversity and adaptive mechanisms of a keystone species that has survived clonally in lakes for millennia.
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- 2023
42. High-resolution metagenomic reconstruction of the freshwater spring bloom
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Vinicius S. Kavagutti, Paul-Adrian Bulzu, Cecilia M. Chiriac, Michaela M. Salcher, Indranil Mukherjee, Tanja Shabarova, Vesna Grujčić, Maliheh Mehrshad, Vojtěch Kasalický, Adrian-Stefan Andrei, Jitka Jezberová, Jaromir Seďa, Pavel Rychtecký, Petr Znachor, Karel Šimek, Rohit Ghai, University of Zurich, Kavagutti, Vinicius S, and Ghai, Rohit
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Microbiology (medical) ,10126 Department of Plant and Microbial Biology ,2404 Microbiology ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center ,Microbiology ,2726 Microbiology (medical) - Abstract
Background The phytoplankton spring bloom in freshwater habitats is a complex, recurring, and dynamic ecological spectacle that unfolds at multiple biological scales. Although enormous taxonomic shifts in microbial assemblages during and after the bloom have been reported, genomic information on the microbial community of the spring bloom remains scarce. Results We performed a high-resolution spatio-temporal sampling of the spring bloom in a freshwater reservoir and describe a multitude of previously unknown taxa using metagenome-assembled genomes of eukaryotes, prokaryotes, and viruses in combination with a broad array of methodologies. The recovered genomes reveal multiple distributional dynamics for several bacterial groups with progressively increasing stratification. Analyses of abundances of metagenome-assembled genomes in concert with CARD-FISH revealed remarkably similar in situ doubling time estimates for dominant genome-streamlined microbial lineages. Discordance between quantitations of cryptophytes arising from sequence data and microscopic identification suggested the presence of hidden, yet extremely abundant aplastidic cryptophytes that were confirmed by CARD-FISH analyses. Aplastidic cryptophytes are prevalent throughout the water column but have never been considered in prior models of plankton dynamics. We also recovered the first metagenomic-assembled genomes of freshwater protists (a diatom and a haptophyte) along with thousands of giant viral genomic contigs, some of which appeared similar to viruses infecting haptophytes but owing to lack of known representatives, most remained without any indication of their hosts. The contrasting distribution of giant viruses that are present in the entire water column to that of parasitic perkinsids residing largely in deeper waters allows us to propose giant viruses as the biological agents of top-down control and bloom collapse, likely in combination with bottom-up factors like a nutrient limitation. Conclusion We reconstructed thousands of genomes of microbes and viruses from a freshwater spring bloom and show that such large-scale genome recovery allows tracking of planktonic succession in great detail. However, integration of metagenomic information with other methodologies (e.g., microscopy, CARD-FISH) remains critical to reveal diverse phenomena (e.g., distributional patterns, in situ doubling times) and novel participants (e.g., aplastidic cryptophytes) and to further refine existing ecological models (e.g., factors affecting bloom collapse). This work provides a genomic foundation for future approaches towards a fine-scale characterization of the organisms in relation to the rapidly changing environment during the course of the freshwater spring bloom.
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- 2023
43. Precipitation is the main axis of tropical plant phylogenetic turnover across space and time
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Jens J. Ringelberg, Erik J. M. Koenen, Benjamin Sauter, Anahita Aebli, Juliana G. Rando, João R. Iganci, Luciano P. de Queiroz, Daniel J. Murphy, Myriam Gaudeul, Anne Bruneau, Melissa Luckow, Gwilym P. Lewis, Joseph T. Miller, Marcelo F. Simon, Lucas S. B. Jordão, Matías Morales, C. Donovan Bailey, Madhugiri Nageswara-Rao, James A. Nicholls, Oriane Loiseau, R. Toby Pennington, Kyle G. Dexter, Niklaus E. Zimmermann, Colin E. Hughes, and University of Zurich
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10121 Department of Systematic and Evolutionary Botany ,Multidisciplinary ,Biodiversity ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center ,Taxonomy - Abstract
See 'Read me.rtf' (included in 'Data S1.rar') for a description of the files included in this dataset. Abstract of study: Early natural historians – Comte de Buffon, von Humboldt and De Candolle – established environment and geography as two principal axes determining the distribution of groups of organisms, laying the foundations for biogeography over the subsequent 200 years, yet the relative importance of these two axes remains unresolved. Leveraging phylogenomic and global species distribution data for Mimosoid legumes, a pantropical plant clade of c. 3,500 species, we show that the water availability gradient from deserts to rainforests dictates turnover of lineages within continents across the tropics. We demonstrate that 95% of speciation occurs within a precipitation niche, showing profound phylogenetic niche conservatism, and that lineage turnover boundaries coincide with isohyets of precipitation. We reveal similar patterns on different continents, implying that evolution and dispersal follow universal processes.
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- 2023
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44. COP-27: A great opportunity to address the double crisis of food security and climate change–and for the EU to re-align its farm to fork strategy
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Philipp Aerni, University of Zurich, and Aerni, Philipp
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10126 Department of Plant and Microbial Biology ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center - Abstract
The 27th Conference of the Parties (COP 27) of the UN Framework Convention on Climate Change (FCCC) held in November 2022 in Sharm-el-Sheik, Egypt, ended with joint commitments to compensate for loss and damage and increase funds for climate change adaptation in future. This outcome is likely to be supportive of current efforts to render agricultural systems in low income tropical countries more resilient and productive through locally adapted forms of sustainable intensification. However, the farm-to-fork (f2f) strategy launched in 2020 by the European Union (EU) has set targets that associate sustainable agriculture primarily with extensification rather than intensification. This paper critically reviews the literature that assesses the impact of current agricultural, environmental and development policies on global food security, biodiversity and climate change. It challenges the view that the European Green Deal and the f2f strategy will have its desired effects. It also argues that the intention of the European Commission (EC) to promote the f2f strategy in low income tropical countries may not be compatible with its commitment to the ownership principle in development assistance. The decision of the EC in fall 2022 to propose a regulatory framework on new breeding techniques (NBTs) indicates that methods of sustainable intensification may be reconsidered if they serve the goals of the Green Deal and the f2f strategy. Such a readjustment would also be in line with the outcome of COP27 and indicate that the polarized global debate on sustainable food systems may become more pragmatic and outcome-oriented again.
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- 2023
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45. Putative signals of generalist plant species adaptation to local pollinator communities and abiotic factors
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Frachon, Léa, Arrigo, Luca, Rusman, Quint, Poveda, L, Qi, W, Scopece, G, Schiestl, Florian P, and University of Zurich
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Brassica incana ,generalist-pollinated plant species ,local adaptation ,natural populations ,plant-pollinator interactions ,genome-environmental association ,10121 Department of Systematic and Evolutionary Botany ,Genetics ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center ,Molecular Biology ,Ecology, Evolution, Behavior and Systematics - Abstract
The reproductive success of flowering plants with generalized pollination systems is influenced by interactions with a diverse pollinator community and abiotic factors. However, knowledge about the adaptative potential of plants to complex ecological networks and the underlying genetic mechanisms is still limited. Based on a pool-sequencing approach of 21 natural populations of Brassica incana in Southern Italy, we combined a genome-environmental association analysis with a genome scan for signals of population genomic differentiation to discover genetic variants associated with the ecological variation. We identified genomic regions putatively involved in the adaptation of B. incana to the identity of local pollinator functional categories and pollinator community composition. Interestingly, we observed several shared candidate genes associated with long-tongue bees, soil texture, and temperature variation. We established a genomic map of potential generalist flowering plant local adaptation to complex biotic interactions, and the importance of considering multiple environmental factors to describe the adaptive landscape of plant populations., Molecular Biology and Evolution, 40 (3), ISSN:0737-4038, ISSN:1537-1719
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- 2023
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46. 3D cellular morphometrics of ovule primordium development in Zea mays reveal differential division and growth dynamics specifying megaspore mother cell singleness
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Ouedraogo, Inès, Lartaud, Marc, Baroux, Célia, Mosca, Gabriella, Delgado, Luciana, Leblanc, Oliver, Verdeil, Jean-Luc, Conéjéro, Geneviève, Autran, Daphné, University of Zurich, Autran, Daphné, Diversité, adaptation, développement des plantes (UMR DIADE), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Université de Montpellier (UM), Développement Adaptatif du Riz [AGAP] (DAR), Amélioration génétique et adaptation des plantes méditerranéennes et tropicales (UMR AGAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro Montpellier, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Université de Montpellier (UM)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro Montpellier, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Université de Montpellier (UM), Universität Zürich [Zürich] = University of Zurich (UZH), University of Rosario, Institut des Sciences des Plantes de Montpellier (IPSIM), Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro Montpellier, and ANR-10-INBS-04
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developmental atlas ,[SDV]Life Sciences [q-bio] ,morphogenesis ,MMC specification ,Plant Science ,580 Plants (Botany) ,ovule primordium ,Zea mays ,3D morphometrics ,10126 Department of Plant and Microbial Biology ,female germ cell ,1110 Plant Science ,[SDV.BV]Life Sciences [q-bio]/Vegetal Biology ,10211 Zurich-Basel Plant Science Center - Abstract
IntroductionDifferentiation of spore mother cells marks the somatic-to-reproductive transition in higher plants. Spore mother cells are critical for fitness because they differentiate into gametes, leading to fertilization and seed formation. The female spore mother cell is called the megaspore mother cell (MMC) and is specified in the ovule primordium. The number of MMCs varies by species and genetic background, but in most cases, only a single mature MMC enters meiosis to form the embryo sac. Multiple candidate MMC precursor cells have been identified in both rice and Arabidopsis, so variability in MMC number is likely due to conserved early morphogenetic events. In Arabidopsis, the restriction of a single MMC per ovule, or MMC singleness, is determined by ovule geometry. To look for potential conservation of MMC ontogeny and specification mechanisms, we undertook a morphogenetic description of ovule primordium growth at cellular resolution in the model crop maize.MethodsWe generated a collection of 48 three-dimensional (3D) ovule primordium images for five developmental stages, annotated for 11 cell types. Quantitative analysis of ovule and cell morphological descriptors allowed the reconstruction of a plausible developmental trajectory of the MMC and its neighbors.ResultsThe MMC is specified within a niche of enlarged, homogenous L2 cells, forming a pool of candidate archesporial (MMC progenitor) cells. A prevalent periclinal division of the uppermost central archesporial cell formed the apical MMC and the underlying cell, a presumptive stack cell. The MMC stopped dividing and expanded, acquiring an anisotropic, trapezoidal shape. By contrast, periclinal divisions continued in L2 neighbor cells, resulting in a single central MMC.DiscussionWe propose a model where anisotropic ovule growth in maize drives L2 divisions and MMC elongation, coupling ovule geometry with MMC fate.
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- 2023
47. In Situ Investigation of Pseudomonas aeruginosa Biofilm Development: Interplay between Flow, Growth Medium, and Mechanical Properties of Substrate
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Straub, Hervé, Zuber, Flavia, Eberl, Leo, Maniura-Weber, Katharina, Ren, Qun, University of Zurich, and Ren, Qun
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10126 Department of Plant and Microbial Biology ,General Materials Science ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center ,2500 General Materials Science - Published
- 2023
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48. Whole-genome analyses disentangle reticulate evolution of primroses in a biodiversity hotspot
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Stubbs, Rebecca L, Theodoridis, Spyros, Mora-Carrera, Emiliano, Keller, Barbara, Yousefi, Narjes, Potente, Giacomo, Léveillé-Bourret, Étienne, Celep, Ferhat, Kochjarová, Judita, Tedoradze, Giorgi, Eaton, Deren A R, Conti, Elena, University of Zurich, Stubbs, Rebecca L, and Theodoridis, Spyros
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10121 Department of Systematic and Evolutionary Botany ,1110 Plant Science ,1314 Physiology ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center - Published
- 2023
49. Soil contamination in nearby natural areas mirrors that in urban greenspaces worldwide
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Liu, Yu-Rong, van der Heijden, Marcel G A, Riedo, Judith, Sanz-Lazaro, Carlos, Eldridge, David J, Bastida, Felipe, Moreno-Jiménez, Eduardo, Zhou, Xin-Quan, Hu, Hang-Wei, He, Ji-Zheng, Moreno, José L, Abades, Sebastian, Alfaro, Fernando, Bamigboye, Adebola R, Berdugo, Miguel, Blanco-Pastor, José L, de Los Ríos, Asunción, Duran, Jorge, Grebenc, Tine, Illán, Javier G, Makhalanyane, Thulani P, Molina-Montenegro, Marco A, Nahberger, Tina U, Peñaloza-Bojacá, Gabriel F, Plaza, César, Rey, Ana, Rodríguez, Alexandra, Siebe, Christina, Teixido, Alberto L, Casado-Coy, Nuria, et al, University of Zurich, and Liu, Yu-Rong
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10126 Department of Plant and Microbial Biology ,1300 General Biochemistry, Genetics and Molecular Biology ,1600 General Chemistry ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center ,3100 General Physics and Astronomy - Published
- 2023
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50. Beiträge zur bryofloristischen Erforschung der Schweiz – Folge 18
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Bergamini, Ariel, Hofmann, Heike, Kiebacher, Thomas, Schnyder, Norbert, and University of Zurich
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10121 Department of Systematic and Evolutionary Botany ,580 Plants (Botany) ,10211 Zurich-Basel Plant Science Center - Published
- 2023
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