Secondary Metabolites from Eurotium Species, Aspergillus Calidoustus and A
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Distribution of Methionine Sulfoxide Reductases in Fungi and Conservation of the Free- 2 Methionine-R-Sulfoxide Reductase in Multicellular Eukaryotes
bioRxiv preprint doi: https://doi.org/10.1101/2021.02.26.433065; this version posted February 27, 2021. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. 1 Distribution of methionine sulfoxide reductases in fungi and conservation of the free- 2 methionine-R-sulfoxide reductase in multicellular eukaryotes 3 4 Hayat Hage1, Marie-Noëlle Rosso1, Lionel Tarrago1,* 5 6 From: 1Biodiversité et Biotechnologie Fongiques, UMR1163, INRAE, Aix Marseille Université, 7 Marseille, France. 8 *Correspondence: Lionel Tarrago ([email protected]) 9 10 Running title: Methionine sulfoxide reductases in fungi 11 12 Keywords: fungi, genome, horizontal gene transfer, methionine sulfoxide, methionine sulfoxide 13 reductase, protein oxidation, thiol oxidoreductase. 14 15 Highlights: 16 • Free and protein-bound methionine can be oxidized into methionine sulfoxide (MetO). 17 • Methionine sulfoxide reductases (Msr) reduce MetO in most organisms. 18 • Sequence characterization and phylogenomics revealed strong conservation of Msr in fungi. 19 • fRMsr is widely conserved in unicellular and multicellular fungi. 20 • Some msr genes were acquired from bacteria via horizontal gene transfers. 21 1 bioRxiv preprint doi: https://doi.org/10.1101/2021.02.26.433065; this version posted February 27, 2021. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. -
New Taxa in Aspergillus Section Usti
available online at www.studiesinmycology.org StudieS in Mycology 69: 81–97. 2011. doi:10.3114/sim.2011.69.06 New taxa in Aspergillus section Usti R.A. Samson1*, J. Varga1,2, M. Meijer1 and J.C. Frisvad3 1CBS-KNAW Fungal Biodiversity Centre, Uppsalalaan 8, NL-3584 CT Utrecht, the Netherlands; 2Department of Microbiology, Faculty of Science and Informatics, University of Szeged, H-6726 Szeged, Közép fasor 52, Hungary; 3BioCentrum-DTU, Building 221, Technical University of Denmark, DK-2800 Kgs. Lyngby, Denmark. *Correspondence: Robert A. Samson, [email protected] Abstract: Based on phylogenetic analysis of sequence data, Aspergillus section Usti includes 21 species, inclucing two teleomorphic species Aspergillus heterothallicus (= Emericella heterothallica) and Fennellia monodii. Aspergillus germanicus sp. nov. was isolated from indoor air in Germany. This species has identical ITS sequences with A. insuetus CBS 119.27, but is clearly distinct from that species based on β-tubulin and calmodulin sequence data. This species is unable to grow at 37 °C, similarly to A. keveii and A. insuetus. Aspergillus carlsbadensis sp. nov. was isolated from the Carlsbad Caverns National Park in New Mexico. This taxon is related to, but distinct from a clade including A. calidoustus, A. pseudodeflectus, A. insuetus and A. keveii on all trees. This species is also unable to grow at 37 °C, and acid production was not observed on CREA. Aspergillus californicus sp. nov. is proposed for an isolate from chamise chaparral (Adenostoma fasciculatum) in California. It is related to a clade including A. subsessilis and A. kassunensis on all trees. This species grew well at 37 °C, and acid production was not observed on CREA. -
The Evolution of Secondary Metabolism Regulation and Pathways in the Aspergillus Genus
THE EVOLUTION OF SECONDARY METABOLISM REGULATION AND PATHWAYS IN THE ASPERGILLUS GENUS By Abigail Lind Dissertation Submitted to the Faculty of the Graduate School of Vanderbilt University in partial fulfillment of the requirements for the degree of DOCTOR OF PHILOSOPHY in Biomedical Informatics August 11, 2017 Nashville, Tennessee Approved: Antonis Rokas, Ph.D. Tony Capra, Ph.D. Patrick Abbot, Ph.D. Louise Rollins-Smith, Ph.D. Qi Liu, Ph.D. ACKNOWLEDGEMENTS Many people helped and encouraged me during my years working towards this dissertation. First, I want to thank my advisor, Antonis Rokas, for his support for the past five years. His consistent optimism encouraged me to overcome obstacles, and his scientific insight helped me place my work in a broader scientific context. My committee members, Patrick Abbot, Tony Capra, Louise Rollins-Smith, and Qi Liu have also provided support and encouragement. I have been lucky to work with great people in the Rokas lab who helped me develop ideas, suggested new approaches to problems, and provided constant support. In particular, I want to thank Jen Wisecaver for her mentorship, brilliant suggestions on how to visualize and present my work, and for always being available to talk about science. I also want to thank Xiaofan Zhou for always providing a new perspective on solving a problem. Much of my research at Vanderbilt was only possible with the help of great collaborators. I have had the privilege of working with many great labs, and I want to thank Ana Calvo, Nancy Keller, Gustavo Goldman, Fernando Rodrigues, and members of all of their labs for making the research in my dissertation possible. -
Food Microbiology Fungal Spores: Highly Variable and Stress-Resistant Vehicles for Distribution and Spoilage
Food Microbiology 81 (2019) 2–11 Contents lists available at ScienceDirect Food Microbiology journal homepage: www.elsevier.com/locate/fm Fungal spores: Highly variable and stress-resistant vehicles for distribution and spoilage T Jan Dijksterhuis Westerdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584, Utrecht, the Netherlands ARTICLE INFO ABSTRACT Keywords: This review highlights the variability of fungal spores with respect to cell type, mode of formation and stress Food spoilage resistance. The function of spores is to disperse fungi to new areas and to get them through difficult periods. This Spores also makes them important vehicles for food contamination. Formation of spores is a complex process that is Conidia regulated by the cooperation of different transcription factors. The discussion of the biology of spore formation, Ascospores with the genus Aspergillus as an example, points to possible novel ways to eradicate fungal spore production in Nomenclature food. Fungi can produce different types of spores, sexual and asexually, within the same colony. The absence or Development Stress resistance presence of sexual spore formation has led to a dual nomenclature for fungi. Molecular techniques have led to a Heat-resistant fungi revision of this nomenclature. A number of fungal species form sexual spores, which are exceptionally stress- resistant and survive pasteurization and other treatments. A meta-analysis is provided of numerous D-values of heat-resistant ascospores generated during the years. The relevance of fungal spores for food microbiology has been discussed. 1. The fungal kingdom molecules, often called “secondary” metabolites, but with many pri- mary functions including communication or antagonism. However, Representatives of the fungal kingdom, although less overtly visible fungi can also be superb collaborators as is illustrated by their ability to in nature than plants and animals, are nevertheless present in all ha- form close associations with members of other kingdoms. -
The Phylogeny of Plant and Animal Pathogens in the Ascomycota
Physiological and Molecular Plant Pathology (2001) 59, 165±187 doi:10.1006/pmpp.2001.0355, available online at http://www.idealibrary.com on MINI-REVIEW The phylogeny of plant and animal pathogens in the Ascomycota MARY L. BERBEE* Department of Botany, University of British Columbia, 6270 University Blvd, Vancouver, BC V6T 1Z4, Canada (Accepted for publication August 2001) What makes a fungus pathogenic? In this review, phylogenetic inference is used to speculate on the evolution of plant and animal pathogens in the fungal Phylum Ascomycota. A phylogeny is presented using 297 18S ribosomal DNA sequences from GenBank and it is shown that most known plant pathogens are concentrated in four classes in the Ascomycota. Animal pathogens are also concentrated, but in two ascomycete classes that contain few, if any, plant pathogens. Rather than appearing as a constant character of a class, the ability to cause disease in plants and animals was gained and lost repeatedly. The genes that code for some traits involved in pathogenicity or virulence have been cloned and characterized, and so the evolutionary relationships of a few of the genes for enzymes and toxins known to play roles in diseases were explored. In general, these genes are too narrowly distributed and too recent in origin to explain the broad patterns of origin of pathogens. Co-evolution could potentially be part of an explanation for phylogenetic patterns of pathogenesis. Robust phylogenies not only of the fungi, but also of host plants and animals are becoming available, allowing for critical analysis of the nature of co-evolutionary warfare. Host animals, particularly human hosts have had little obvious eect on fungal evolution and most cases of fungal disease in humans appear to represent an evolutionary dead end for the fungus. -
Taxonomy and Evolution of Aspergillus, Penicillium and Talaromyces in the Omics Era – Past, Present and Future
Computational and Structural Biotechnology Journal 16 (2018) 197–210 Contents lists available at ScienceDirect journal homepage: www.elsevier.com/locate/csbj Taxonomy and evolution of Aspergillus, Penicillium and Talaromyces in the omics era – Past, present and future Chi-Ching Tsang a, James Y.M. Tang a, Susanna K.P. Lau a,b,c,d,e,⁎, Patrick C.Y. Woo a,b,c,d,e,⁎ a Department of Microbiology, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Hong Kong b Research Centre of Infection and Immunology, The University of Hong Kong, Hong Kong c State Key Laboratory of Emerging Infectious Diseases, The University of Hong Kong, Hong Kong d Carol Yu Centre for Infection, The University of Hong Kong, Hong Kong e Collaborative Innovation Centre for Diagnosis and Treatment of Infectious Diseases, The University of Hong Kong, Hong Kong article info abstract Article history: Aspergillus, Penicillium and Talaromyces are diverse, phenotypically polythetic genera encompassing species im- Received 25 October 2017 portant to the environment, economy, biotechnology and medicine, causing significant social impacts. Taxo- Received in revised form 12 March 2018 nomic studies on these fungi are essential since they could provide invaluable information on their Accepted 23 May 2018 evolutionary relationships and define criteria for species recognition. With the advancement of various biological, Available online 31 May 2018 biochemical and computational technologies, different approaches have been adopted for the taxonomy of Asper- gillus, Penicillium and Talaromyces; for example, from traditional morphotyping, phenotyping to chemotyping Keywords: Aspergillus (e.g. lipotyping, proteotypingand metabolotyping) and then mitogenotyping and/or phylotyping. Since different Penicillium taxonomic approaches focus on different sets of characters of the organisms, various classification and identifica- Talaromyces tion schemes would result. -
Characterization of Terrelysin, a Potential Biomarker for Aspergillus Terreus
Graduate Theses, Dissertations, and Problem Reports 2012 Characterization of terrelysin, a potential biomarker for Aspergillus terreus Ajay Padmaj Nayak West Virginia University Follow this and additional works at: https://researchrepository.wvu.edu/etd Recommended Citation Nayak, Ajay Padmaj, "Characterization of terrelysin, a potential biomarker for Aspergillus terreus" (2012). Graduate Theses, Dissertations, and Problem Reports. 3598. https://researchrepository.wvu.edu/etd/3598 This Dissertation is protected by copyright and/or related rights. It has been brought to you by the The Research Repository @ WVU with permission from the rights-holder(s). You are free to use this Dissertation in any way that is permitted by the copyright and related rights legislation that applies to your use. For other uses you must obtain permission from the rights-holder(s) directly, unless additional rights are indicated by a Creative Commons license in the record and/ or on the work itself. This Dissertation has been accepted for inclusion in WVU Graduate Theses, Dissertations, and Problem Reports collection by an authorized administrator of The Research Repository @ WVU. For more information, please contact [email protected]. Characterization of terrelysin, a potential biomarker for Aspergillus terreus Ajay Padmaj Nayak Dissertation submitted to the School of Medicine at West Virginia University in partial fulfillment of the requirements for the degree of Doctor of Philosophy in Immunology and Microbial Pathogenesis Donald H. Beezhold, -
Development of Aspergillus Niger
Studies in Mycology 74 (March 2013) Development of Aspergillus niger Jan Dijksterhuis and Han Wösten, editors CBS-KNAW Fungal Biodiversity Centre, Utrecht, The Netherlands An institute of the Royal Netherlands Academy of Arts and Sciences Development of Aspergillus niger STUDIES IN MYCOLOGY 74, 2013 Studies in Mycology The Studies in Mycology is an international journal which publishes systematic monographs of filamentous fungi and yeasts, and in rare occasions the proceedings of special meetings related to all fields of mycology, biotechnology, ecology, molecular biology, pathology and systematics. For instructions for authors see www.cbs.knaw.nl. EXECUTIVE EDITOR Prof. dr dr hc Robert A. Samson, CBS-KNAW Fungal Biodiversity Centre, P.O. Box 85167, 3508 AD Utrecht, The Netherlands. E-mail: [email protected] LAYOUT EDITOR Manon van den Hoeven-Verweij, CBS-KNAW Fungal Biodiversity Centre, P.O. Box 85167, 3508 AD Utrecht, The Netherlands. E-mail: [email protected] SCIENTIFIC EDITORS Prof. dr Dominik Begerow, Lehrstuhl für Evolution und Biodiversität der Pflanzen, Ruhr-Universität Bochum, Universitätsstr. 150, Gebäude ND 44780, Bochum, Germany. E-mail: [email protected] Prof. dr Uwe Braun, Martin-Luther-Universität, Institut für Biologie, Geobotanik und Botanischer Garten, Herbarium, Neuwerk 21, D-06099 Halle, Germany. E-mail: [email protected] Dr Paul Cannon, CABI and Royal Botanic Gardens, Kew, Jodrell Laboratory, Royal Botanic Gardens, Kew, Richmond, Surrey TW9 3AB, U.K. E-mail: [email protected] Prof. dr Lori Carris, Associate Professor, Department of Plant Pathology, Washington State University, Pullman, WA 99164-6340, U.S.A. E-mail: [email protected] Prof. -
Choosing One Name for Pleomorphic Fungi: the Example of Aspergillus Versus Eurotium, Neosartorya and Emericella John W
TAXON — 1 Jun 2016: 9 pp. Taylor & al. • Choosing names for Aspergillus and teleomorphs NOMENCLATURE Edited by Jefferson Prado, James Lendemer & Erin Tripp Choosing one name for pleomorphic fungi: The example of Aspergillus versus Eurotium, Neosartorya and Emericella John W. Taylor,1 Markus Göker2 & John I. Pitt3 1 Department of Plant and Microbial Biology, University of California, Berkeley, California 94720-3102, U.S.A. 2 Leibniz Institute DSMZ – German Collection of Microorganisms and Cell Cultures, Braunschweig 38124, Germany 3 CSIRO Food and Nutrition, North Ryde, New South Wales 2113, Australia Author for correspondence: John W. Taylor, [email protected] ORCID JWT, http://orcid.org/0000-0002-5794-7700; MG, http://orcid.org/0000-0002-5144-6200; JIP, http://orcid.org/0000-0002-6646-6829 DOI http://dx.doi.org/10.12705/653.10 Abstract With the termination of dual nomenclature, each fungus may have only one name. Now mycologists must choose between genus names formerly applied to taxa with either asexual or sexual reproductive modes, a choice that often influences the breadth of genotypic and phenotypic diversity in a genus, and even its monophyly. We use the asexual genus Aspergillus to examine the problems involved in such choices because (a) 11 sexual generic names are associated with it and (b) phenotypic variation and genetic divergence within sexual genera are low but between sexual genera are high. As a result, in the case of Aspergillus, applying the asexual name to the many sexual genera masks information now conveyed by the genus names and would lead to taxonomic inconsistency in the Eurotiales because this large Aspergillus would then embrace more genetic divergence than neighboring clades comprised of two or more genera. -
Diversity and Communities of Fungal Endophytes from Four Pi‐ Nus Species in Korea
Supplementary materials Diversity and communities of fungal endophytes from four Pi‐ nus species in Korea Soon Ok Rim 1, Mehwish Roy 1, Junhyun Jeon 1, Jake Adolf V. Montecillo 1, Soo‐Chul Park 2 and Hanhong Bae 1,* 1 Department of Biotechnology, Yeungnam University, Gyeongsan, Gyeongbuk 38541, Republic of Korea 2 Crop Biotechnology Institute, Green Bio Science & Technology, Seoul National University, Pyeongchang, Kangwon 25354, Republic of Korea * Correspondence: [email protected]; tel: 8253‐810‐3031 (office); Fax: 8253‐810‐4769 Keywords: host specificity; fungal endophyte; fungal diversity; pine trees Table S1. Characteristics and conditions of 18 sampling sites in Korea. Ka Ca Mg Precipitation Temperature Organic Available Available Geographic Loca‐ Latitude Longitude Altitude Tree Age Electrical Con‐ pine species (mm) (℃) pH Matter Phosphate Silicic acid tions (o) (o) (m) (years) (cmol+/kg) dictivity 2016 2016 (g/kg) (mg/kg) (mg/kg) Ansung (1R) 37.0744580 127.1119200 70 45 284 25.5 5.9 20.8 252.4 0.7 4.2 1.7 0.4 123.2 Seosan (2R) 36.8906971 126.4491716 60 45 295.6 25.2 6.1 22.3 336.6 1.1 6.6 2.4 1.1 75.9 Pinus rigida Jungeup (3R) 35.5521138 127.0191565 240 45 205.1 27.1 5.3 30.4 892.7 1.0 5.8 1.9 0.2 7.9 Yungyang(4R) 36.6061179 129.0885334 250 43 323.9 23 6.1 21.4 251.2 0.8 7.4 2.8 0.1 96.2 Jungeup (1D) 35.5565492 126.9866204 310 50 205.1 27.1 5.3 30.4 892.7 1.0 5.8 1.9 0.2 7.9 Jejudo (2D) 33.3737599 126.4716048 1030 40 98.6 27.4 5.3 50.6 591.7 1.2 4.6 1.8 1.7 0.0 Pinus densiflora Hoengseong (3D) 37.5098629 128.1603840 540 45 360.1 -
MANUSCRIT Nina
AIX-MARSEILLE UNIVERSITE FACULTE DE MÉDECINE DE MARSEILLE ECOLE DOCTORALE DES SCIENCES DE LA VIE ET DE LA SANTE THÈSE DE DOCTORAT/PhD Présentée par Nina Gouba Le mycobiome digestif humain : étude exploratoire Soutenance le 09 décembre 2013 En vue de l’obtention du grade de DOCTEUR de l’UNIVERSITE d’AIX- MARSEILLE Spécialité : Pathologie Humaine Maladies Infectieuses Membres du jury de la Thèse : Président de jury : Professeur Jean Louis MEGE Rapporteur Professeur Bertrand PICARD Rapporteur Professeur Antoine ANDREMONT Directeur de thèse Professeur Michel DRANCOURT Unité de recherche sur les Maladies Infectieuses et Tropicales Emergentes UM63, CNRS 7278, IRD 198, Inserm 1095, Faculté de Médecine, Marseille 1 AVANT PROPOS Le format de présentation de cette thèse correspond à une recommandation de la spécialité Maladies Infectieuses et Microbiologie, à l’intérieur du Master des Sciences de la Vie et de la Santé qui dépend de l’Ecole Doctorale des Sciences de la Vie de Marseille. Le candidat est amené à respecter des règles qui lui sont imposées et qui comportent un format de thèse utilisé dans le Nord de l’Europe et qui permet un meilleur rangement que les thèses traditionnelles. Par ailleurs, la partie introduction et bibliographie est remplacée par une revue envoyée dans un journal afin de permettre une évaluation extérieure de la qualité de la revue et de permettre à l’étudiant de commencer le plus tôt possible une bibliographie exhaustive sur le domaine de cette thèse. Par ailleurs, la thèse est présentée sur article publié, accepté ou soumis, associé d’un bref commentaire donnant le sens général du travail. -
Lists of Names in Aspergillus and Teleomorphs As Proposed by Pitt and Taylor, Mycologia, 106: 1051-1062, 2014 (Doi: 10.3852/14-0
Lists of names in Aspergillus and teleomorphs as proposed by Pitt and Taylor, Mycologia, 106: 1051-1062, 2014 (doi: 10.3852/14-060), based on retypification of Aspergillus with A. niger as type species John I. Pitt and John W. Taylor, CSIRO Food and Nutrition, North Ryde, NSW 2113, Australia and Dept of Plant and Microbial Biology, University of California, Berkeley, CA 94720-3102, USA Preamble The lists below set out the nomenclature of Aspergillus and its teleomorphs as they would become on acceptance of a proposal published by Pitt and Taylor (2014) to change the type species of Aspergillus from A. glaucus to A. niger. The central points of the proposal by Pitt and Taylor (2014) are that retypification of Aspergillus on A. niger will make the classification of fungi with Aspergillus anamorphs: i) reflect the great phenotypic diversity in sexual morphology, physiology and ecology of the clades whose species have Aspergillus anamorphs; ii) respect the phylogenetic relationship of these clades to each other and to Penicillium; and iii) preserve the name Aspergillus for the clade that contains the greatest number of economically important species. Specifically, of the 11 teleomorph genera associated with Aspergillus anamorphs, the proposal of Pitt and Taylor (2014) maintains the three major teleomorph genera – Eurotium, Neosartorya and Emericella – together with Chaetosartorya, Hemicarpenteles, Sclerocleista and Warcupiella. Aspergillus is maintained for the important species used industrially and for manufacture of fermented foods, together with all species producing major mycotoxins. The teleomorph genera Fennellia, Petromyces, Neocarpenteles and Neopetromyces are synonymised with Aspergillus. The lists below are based on the List of “Names in Current Use” developed by Pitt and Samson (1993) and those listed in MycoBank (www.MycoBank.org), plus extensive scrutiny of papers publishing new species of Aspergillus and associated teleomorph genera as collected in Index of Fungi (1992-2104).