Combining Substrate Specificity Analysis with Support Vector Classifiers Reveals Feruloyl Esterase As a Phylogenetically Informative Protein Group
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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. -
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. -
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). -
Parkinsonia Aculeata
Investigating the cause of dieback in the invasive plant, Parkinsonia aculeata BY TRACEY VIVIEN STEINRUCKEN A thesis submitted in fulfilment of the requirements for the degree of Doctor of Philosophy at Western Sydney University in 2017 This page has been intentionally left blank “Watch with glittering eyes the whole world around you because the greatest secrets are always hidden in the most unlikely places. Those who don't believe in magic will never find it” -- Roald Dahl This page has been intentionally left blank Acknowledgements I would like to thank my advisors Rieks van Klinken (CSIRO Health & Biosecurity), Andrew Bissett (CISRO Oceans & Atmosphere) and Jeff Powell (Hawkesbury Institute for the Enivronment, Western Sydney University) for their excellent mentoring, patient communication across borders and constant support. This research project was supported by Meat and Livestock Australia via a technical assistance grant (B.STU.0271). My PhD was supported by the Australian Government via an Australian Postgraduate Award and Western Sydney University via a top-up stipend. The Hawkesbury Institute for the Environment also supported my work with an annual research allocation and conference attendance funding. Thanks to Patricia Hellier, David Harland, Ian Anderson and Lisa Davison at HIE for administrative support. Thank-you to Kelli Pukallus (Biosecurity Queensland), Andrew White (CSIRO), Eva Pôtet (Agro Campus Oest, Paris), Marcus Klein (HIE at WSU), Donald Gardiner (CSIRO), Shamsul Hoque (CSIRO), Ryan O’Dell (DAFF) and Dylan Smith (UC Berkeley) for field and technical support in various chapters throughout this thesis. Huge thanks to my CSIRO Biosecurity team: Gio Fichera, Ryan Zonneveld, Brad Brown, Andrew White and Jeff Makinson for technical support in Chapter 3. -
Secondary Metabolites from Eurotium Species, Aspergillus Calidoustus and A
mycological research 113 (2009) 480–490 journal homepage: www.elsevier.com/locate/mycres Secondary metabolites from Eurotium species, Aspergillus calidoustus and A. insuetus common in Canadian homes with a review of their chemistry and biological activities Gregory J. SLACKa, Eva PUNIANIa, Jens C. FRISVADb, Robert A. SAMSONc, J. David MILLERa,* aOttawa-Carleton Institute of Chemistry, Carleton University, Ottawa, ON, Canada K1S 5B6 bDepartment of Systems Biology, Technical University of Denmark, DK-2800 Lyngby, Denmark cCBS Fungal Biodiversity Centre, PO Box 85167, NL-3508 AD Utrecht, The Netherlands article info abstract Article history: As part of studies of metabolites from fungi common in the built environment in Canadian Received 22 July 2008 homes, we investigated metabolites from strains of three Eurotium species, namely Received in revised form E. herbariorum, E. amstelodami, and E. rubrum as well as a number of isolates provisionally 26 November 2008 identified as Aspergillus ustus. The latter have been recently assigned as the new species Accepted 16 December 2008 A. insuetus and A. calidoustus. E. amstelodami produced neoechinulin A and neoechinulin Published online 14 January 2009 B, epiheveadride, flavoglaucin, auroglaucin, and isotetrahydroauroglaucin as major metab- Corresponding Editor: olites. Minor metabolites included echinulin, preechinulin and neoechinulin E. E. rubrum Stephen W. Peterson produced all of these metabolites, but epiheveadride was detected as a minor metabolite. E. herbariorum produced cladosporin as a major metabolite, in addition to those found in Keywords: E. amstelodami. This species also produced questin and neoechinulin E as minor metabo- Aspergillus insuetus lites. This is the first report of epiheveadride occurring as a natural product, and the first A. -
{Replace with the Title of Your Dissertation}
Mechanisms of Invasion and the Microbiome of Introduced Species A Dissertation SUBMITTED TO THE FACULTY OF UNIVERSITY OF MINNESOTA BY Aaron S. David IN PARTIAL FULFILLMENT OF THE REQUIREMENTS FOR THE DEGREE OF DOCTOR OF PHILOSOPHY Eric Seabloom Georgiana May May 2016 © Aaron S. David 2016 Acknowledgements I have been fortunate to have had incredible guidance, mentorship, and assistance throughout my time as a Ph.D. student at the University of Minnesota. I would like to start by acknowledging and thanking my advisors, Dr. Eric Seabloom and Dr. Georgiana May for providing crucial support, and always engaging me in stimulating discussion. I also thank my committee members, Dr. Peter Kennedy, Dr. Linda Kinkel, and Dr. David Tilman for their guidance and expertise. I am indebted to Dr. Sally Hacker and Dr. Joey Spatafora of Oregon State University for generously welcoming me into their laboratories while I conducted my field work. Dr. Phoebe Zarnetske and Shawn Gerrity showed me the ropes out on the dunes and provided valuable insight along the way. I also have to thank the many undergraduate students who helped me in the field in laboratory. In particular, I need to thank Derek Schmidt, who traveled to Oregon with me and helped make my field work successful. I also thank my other collaborators that made this work possible, especially Dr. Peter Ruggiero and Reuben Biel who contributed to the data collection and analysis in Chapter 1, and Dr. Gina Quiram and Jennie Sirota who contributed to the study design and data collection in Chapter 4. I would also like to thank the amazing faculty, staff, and students of Ecology, Evolution, and Behavior and neighboring departments. -
Epidemiology, Treatment Options and Outcome of Invasive Infections Caused by Aspergillus Section Usti
Unicentre CH-1015 Lausanne http://serval.unil.ch Year : 2020 Epidemiology, treatment options and outcome of invasive infections caused by Aspergillus section Usti Glampedakis Emmanouil Glampedakis Emmanouil, 2020, Epidemiology, treatment options and outcome of invasive infections caused by Aspergillus section Usti Originally published at : Thesis, University of Lausanne Posted at the University of Lausanne Open Archive http://serval.unil.ch Document URN : urn:nbn:ch:serval-BIB_D909780962850 Droits d’auteur L'Université de Lausanne attire expressément l'attention des utilisateurs sur le fait que tous les documents publiés dans l'Archive SERVAL sont protégés par le droit d'auteur, conformément à la loi fédérale sur le droit d'auteur et les droits voisins (LDA). A ce titre, il est indispensable d'obtenir le consentement préalable de l'auteur et/ou de l’éditeur avant toute utilisation d'une oeuvre ou d'une partie d'une oeuvre ne relevant pas d'une utilisation à des fins personnelles au sens de la LDA (art. 19, al. 1 lettre a). A défaut, tout contrevenant s'expose aux sanctions prévues par cette loi. Nous déclinons toute responsabilité en la matière. Copyright The University of Lausanne expressly draws the attention of users to the fact that all documents published in the SERVAL Archive are protected by copyright in accordance with federal law on copyright and similar rights (LDA). Accordingly it is indispensable to obtain prior consent from the author and/or publisher before any use of a work or part of a work for purposes other than personal use within the meaning of LDA (art. -
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. -
A Thesis Submitted in Partial Fulfillment of the Requirements For
i Screening of Soil Fungi from Plant Genetic Conservation Project Area, Rajjaprabha Dam, Suratthani Province which Produced Antimicrobial Substances Kawitsara Borwornwiriyapan A Thesis Submitted in Partial Fulfillment of the Requirements for the Degree of Master of Science in Microbiology Prince of Songkla University 2013 Copyright of Prince of Songkla University ii Thesis Title Screening of Soil Fungi from Plant Genetic Conservation Project Area, Rajjaprabha Dam, Suratthani Province which Produced Antimicrobial Substances Author Miss Kawitsara Borwornwiriyapan Major Program Master of Science in Microbiology Major Advisor: Examining Committee: ………………………………………… ..……………………………Chairperson (Assoc. Prof. Dr. Souwalak Phongpaichit) (Asst. Prof. Dr. Youwalak Dissara) Co-advisor: ............................................................... (Assoc. Prof. Dr. Souwalak Phongpaichit) ………………………………………… ………………………………………… (Dr. Jariya Sakayaroj) (Dr. Jariya Sakayaroj) ………………………………………….. (Dr. Pawika Boonyapipat) The Graduate School, Prince of Songkla University, has approved this thesis as partial fulfillment of the requirements for the Master of Science Degree in Microbiology. ………………………………….. (Assoc. Prof. Dr. Teerapol Srichana) Dean of Graduate School iii This is to certify that the work here submitted is the result of the candidate’s own investigations. Due acknowledgement has been made of any assistance received. ...………………………………Signature (Assoc. Prof. Dr. Souwalak Phongpaichit) Major advisor ...………………………………Signature (Miss Kawitsara Borwornwiriyapan) -
Incidence and Characterisation of Mycoviruses from Aspergillus Fumigatus
Incidence and characterisation of mycoviruses from Aspergillus fumigatus By: Atif Jamal A thesis submitted for the degree of Doctor of Philosophy and the Diploma of Membership of Imperial College The copyright of this thesis rests with the author and no quotation from it or information derived from it may be published without the prior written consent of the author Department of Life Sciences Division of Biology Imperial College London Imperial College Road London, SW7 2AZ 1 Statement of Originality The material in this thesis has not been previously submitted for a degree in any university, and to the best of my knowledge contains no material previously published or written by another person except where due acknowledgement is made in the thesis itself. 2 For my Parents 3 Acknowledgments First of all I thank Almighty ALLAH, who gave me power to carry out the research. I am heartily thankful to my supervisor, Dr Robert Coutts, for his continuous support. His informed guidance, encouragement and support, from the preliminary to the concluding level, enabled me to develop an understanding of the subject and to complete my thesis work. His constructive criticism and comments during write-up is also highly commendable. I am also greatly indebted to Dr Elaine Bignell for the support she extended during the work related to Aspergillus fumigatus. Her patience and willingness to discuss the minutiae of the different obstacles I encountered while working were invaluable. I also extend my sincere gratitude to the members of my lab, namely, Dr Zisis Kozlakidis, Fiang Lang (Jackie) and especially Muhammad Faraz Bhatti for their support and company. -
Discovery of New Mycoviral Genomes Within Publicly Available Fungal Transcriptomic Datasets
bioRxiv preprint doi: https://doi.org/10.1101/510404; this version posted January 3, 2019. 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 4.0 International license. Discovery of new mycoviral genomes within publicly available fungal transcriptomic datasets 1 1 1,2 1 Kerrigan B. Gilbert , Emily E. Holcomb , Robyn L. Allscheid , James C. Carrington * 1 Donald Danforth Plant Science Center, Saint Louis, Missouri, USA 2 Current address: National Corn Growers Association, Chesterfield, Missouri, USA * Address correspondence to James C. Carrington E-mail: [email protected] Short title: Virus discovery from RNA-seq data bioRxiv preprint doi: https://doi.org/10.1101/510404; this version posted January 3, 2019. 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 4.0 International license. Abstract The distribution and diversity of RNA viruses in fungi is incompletely understood due to the often cryptic nature of mycoviral infections and the focused study of primarily pathogenic and/or economically important fungi. As most viruses that are known to infect fungi possess either single-stranded or double-stranded RNA genomes, transcriptomic data provides the opportunity to query for viruses in diverse fungal samples without any a priori knowledge of virus infection. Here we describe a systematic survey of all transcriptomic datasets from fungi belonging to the subphylum Pezizomycotina. -
The Chemistry and Biology of Fungal Meroterpenoids (2009-2019)
Electronic Supplementary Material (ESI) for Organic & Biomolecular Chemistry. This journal is © The Royal Society of Chemistry 2020 Supplementary Materials S1: Detail information of individual fungal meroterpenoids newly discovered in 2009-2019 The Chemistry and Biology of Fungal Meroterpenoids (2009-2019) Minghua Jiang 1,3,†, Zhenger Wu 1,†, Lan Liu 1,2,3* and Senhua Chen 1,2,3,* 1. School of Marine Sciences, Sun Yat-sen University, Guangzhou 510006, China. [email protected] (M.J.); [email protected] (Z.W.) 2. Southern Laboratory of Ocean Science and Engineering (Guangdong, Zhuhai), Zhuhai 519000, China. 3. South China Sea Bio-Resource Exploitation and Utilization Collaborative Innovation Center, Guangzhou 510006, China. † These authors contributed equally to this work. * Correspondence: [email protected] (L.L.); [email protected] (S.C.); Tel.: +86-020- 84725459 1 CONTENTS 1. Introduction 1 2. Abbreviations 1 3. Triketide–terpenoids (98, 1-98) 4 3.1 Aspergillus sp. (30)................................................................................................................................................4 3.2 Colletotrichum sp. (4)............................................................................................................................................5 3.3 Emericella sp. (3) ..................................................................................................................................................6 3.4 Eurotium sp. (5).....................................................................................................................................................6