Morphological and Molecular Identification of Two Novel Species of Melanops in China
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Molecular Phylogeny of Phoma and Allied Anamorph Genera: Towards a Reclassification of the Phoma Complex
mycological research 113 (2009) 508–519 journal homepage: www.elsevier.com/locate/mycres Molecular phylogeny of Phoma and allied anamorph genera: Towards a reclassification of the Phoma complex Johannes DE GRUYTERa,b,*, Maikel M. AVESKAMPa, Joyce H. C. WOUDENBERGa, Gerard J. M. VERKLEYa, Johannes Z. GROENEWALDa, Pedro W. CROUSa aCBS Fungal Biodiversity Centre, P.O. Box 85167, 3508 AD Utrecht, The Netherlands bPlant Protection Service, P.O. Box 9102, 6700 HC Wageningen, The Netherlands article info abstract Article history: The present generic concept of Phoma is broadly defined, with nine sections being recog- Received 2 July 2008 nised based on morphological characters. Teleomorph states of Phoma have been described Received in revised form in the genera Didymella, Leptosphaeria, Pleospora and Mycosphaerella, indicating that Phoma 19 December 2008 anamorphs represent a polyphyletic group. In an attempt to delineate generic boundaries, Accepted 8 January 2009 representative strains of the various Phoma sections and allied coelomycetous genera were Published online 18 January 2009 included for study. Sequence data of the 18S nrDNA (SSU) and the 28S nrDNA (LSU) regions Corresponding Editor: of 18 Phoma strains included were compared with those of representative strains of 39 al- David L. Hawksworth lied anamorph genera, including Ascochyta, Coniothyrium, Deuterophoma, Microsphaeropsis, Pleurophoma, Pyrenochaeta, and 11 teleomorph genera. The type species of the Phoma sec- Keywords: tions Phoma, Phyllostictoides, Sclerophomella, Macrospora and Peyronellaea grouped in a sub- Ascochyta clade in the Pleosporales with the type species of Ascochyta and Microsphaeropsis. The new Coelomycetes family Didymellaceae is proposed to accommodate these Phoma sections and related ana- Coniothyrium morph genera. -
Nouvelle Méthode De Dépistage De Phytopathogènes Fongiques Et De Plantes Au Potentiel Envahissant Par Métabarcodage
Nouvelle méthode de dépistage de phytopathogènes fongiques et de plantes au potentiel envahissant par métabarcodage Thèse Emilie Tremblay Doctorat en microbiologie Philosophiæ doctor (Ph. D.) Québec, Canada © Emilie Tremblay, 2019 NOUVELLE MÉTHODE DE DÉPISTAGE DE PHYTOPATHOGÈNES FONGIQUES ET DE PLANTES AU POTENTIEL ENVAHISSANT PAR MÉTABARCODAGE Thèse ÉMILIE D. TREMBLAY Sous la direction de : Claude Lemieux, directeur de recherche Guillaume Bilodeau, codirecteur de recherche Résumé Les dommages causés par les pathogènes des plantes sont une menace redoutable pour l’environnement, la diversité, ainsi que pour une partie considérable des ressources naturelles forestières et agronomiques telles que les arbres, les plantes et les récoltes. Les endroits situés à proximité des ports d’importation pour le commerce international et des sites de décharge de déchets verts sont considérés comme étant à risque pour l’introduction d’organismes exotiques et indésirables tels que des insectes, des phytopathogènes et des plantes envahissantes. Bien qu’il existe plusieurs méthodes développées et validées selon des standards établis visant à détecter certains genres préoccupants ou espèces ciblées, la plupart d’entre elles sont mal adaptées aux analyses à grande échelle ou sont limitées en ce qui concerne le nombre d’organismes différents pouvant être détectés simultanément. L’objectif principal de ce projet était de développer une méthode de détection nouvelle, plus rapide, à haut débit, hyper sensible et couvrant de plus grandes superficies afin de contribuer à l’amélioration des méthodes de dépistage et de lutte contre les phytopathogènes et les espèces envahissantes. Le projet a tiré avantage d’enquêtes en entomologie d’envergure nationale et préétablies par l’Agence Canadienne d’Inspection des Aliments en réutilisant les liquides de préservation provenant de pièges à insectes. -
Differentiation of Species Complexes in Phyllosticta Enables Better Species Resolution
Mycosphere 11(1): 2542–2628 (2020) www.mycosphere.org ISSN 2077 7019 Article Doi 10.5943/mycosphere/11/1/16 Differentiation of species complexes in Phyllosticta enables better species resolution Norphanphoun C1,2,3,4, Hongsanan S5, Gentekaki E1,4, Chen YJ1,4, Kuo CH2 and Hyde KD1,3,4* 1Center of Excellence in Fungal Research, Mae Fah Luang University, Chiang Rai 57100, Thailand 2Department of Plant Medicine, National Chiayi University, 300 Syuefu Road, Chiayi City 60004, Taiwan 3Mushroom Research Foundation, 128 M.3 Ban Pa Deng T. Pa Pae, A. Mae Taeng, Chiang Mai 50150, Thailand 4School of Science, Mae Fah Luang University, Chiang Rai 57100, Thailand 5Guangdong Provincial Key Laboratory for Plant Epigenetics, Shenzhen Key Laboratory of Microbial Genetic Engineering, College of Life Science and Oceanography, Shenzhen University, Shenzhen 518060, People’s Republic of China Norphanphoun C, Hongsanan S, Gentekaki E, Chen YJ, Kuo CH, Hyde KD 2020 – Differentiation of species complexes in Phyllosticta enables better species resolution. Mycosphere 11(1), 2542– 2628, Doi 10.5943/mycosphere/11/1/16 Abstract Phyllosticta species have worldwide distribution and are pathogens, endophytes, and saprobes. Taxa have also been isolated from leaf spots and black spots of fruits. Taxonomic identification of Phyllosticta species is challenging due to overlapping morphological traits and host associations. Herein, we have assembled a comprehensive dataset and reconstructed a phylogenetic tree. We introduce six species complexes of Phyllosticta to aid the future resolution of species. We also introduce a new species, Phyllosticta rhizophorae isolated from spotted leaves of Rhizophora stylosa in mangrove forests of Taiwan. Phylogenetic analysis based on combined sequence data of ITS, LSU, ef1α, actin and gapdh loci coupled with morphological evidence support the establishment of the new species. -
Phylogenetic Lineages in the Botryosphaeriales: a Systematic and Evolutionary Framework
available online at www.studiesinmycology.org STUDIES IN MYCOLOGY 76: 31–49. Phylogenetic lineages in the Botryosphaeriales: a systematic and evolutionary framework B. Slippers1#*, E. Boissin1,2#, A.J.L. Phillips3, J.Z. Groenewald4, L. Lombard4, M.J. Wingfield1, A. Postma1, T. Burgess5, and P.W. Crous1,4 1Department of Genetics, Forestry and Agricultural Biotechnology Institute, University of Pretoria, Pretoria 0002, South Africa; 2USR3278-Criobe-CNRS-EPHE, Laboratoire d’Excellence “CORAIL”, Université de Perpignan-CBETM, 58 rue Paul Alduy, 66860 Perpignan Cedex, France; 3Centro de Recursos Microbiológicos, Departamento de Ciências da Vida, Faculdade de Ciências e Tecnologia, Universidade Nova de Lisboa, 2829-516, Caparica, Portugal; 4CBS-KNAW Fungal Biodiversity Centre, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands; 5School of Biological Sciences and Biotechnology, Murdoch University, Perth, Australia *Correspondence: B. Slippers, [email protected] # These authors contributed equally to this paper. Abstract: The order Botryosphaeriales represents several ecologically diverse fungal families that are commonly isolated as endophytes or pathogens from various woody hosts. The taxonomy of members of this order has been strongly influenced by sequence-based phylogenetics, and the abandonment of dual nomenclature. In this study, the phylogenetic relationships of the genera known from culture are evaluated based on DNA sequence data for six loci (SSU, LSU, ITS, EF1, BT, mtSSU). The results make it possible to recognise a total of six families. Other than the Botryosphaeriaceae (17 genera), Phyllostictaceae (Phyllosticta) and Planistromellaceae (Kellermania), newly introduced families include Aplosporellaceae (Aplosporella and Bagnisiella), Melanopsaceae (Melanops), and Saccharataceae (Saccharata). Furthermore, the evolution of morphological characters in the Botryosphaeriaceae were investigated via analysis of phylogeny-trait association. -
Revised Taxonomy of Phoma and Allied Genera
Revised taxonomy of Phoma and allied genera Johannes (Hans) de Gruyter Thesis committee Promoters Prof. dr. P.W. Crous Professor of Evolutionary Phytopathology, Wageningen University Prof. dr. ir. P.J.G.M. de Wit Professor of Phytopathology, Wageningen University Other members Dr. R.T.A. Cook, Consultant Plant Pathologist, York, UK Prof. dr. T.W.M. Kuyper, Wageningen University Dr. F.T. Bakker, Wageningen University Dr. ir. A.J. Termorshuizen, BLGG AgroXpertus, Wageningen This research was conducted under the auspices of the Research School Biodiversity Revised taxonomy of Phoma and allied genera Johannes (Hans) de Gruyter Thesis submitted in fulfilment of the requirements for the degree of doctor at Wageningen University by the authority of the Rector Magnificus Prof. dr. M.J. Kropff, in the presence of the Thesis Committee appointed by the Academic Board to be defended in public on Monday 12 November 2012 at 4 p.m. in the Aula. Johannes (Hans) de Gruyter Revised taxonomy of Phoma and allied genera, 181 pages. PhD thesis Wageningen University, Wageningen, NL (2012) With references, with summaries in English and Dutch ISBN 978-94-6173-388-7 Dedicated to Gerhard Boerema † CONTENTS Chapter 1 Introduction 9 Chapter 2 Molecular phylogeny of Phoma and allied anamorph 17 genera: towards a reclassification of thePhoma complex Chapter 3 Systematic reappraisal of species in Phoma section 37 Paraphoma, Pyrenochaeta and Pleurophoma Chapter 4 Redisposition of Phoma-like anamorphs in Pleosporales 61 Chapter 5 The development of a validated real-time (TaqMan) 127 PCR for detection of Stagonosporopsis andigena and S. crystalliniformis in infected leaves of tomato and potato Chapter 6 General discussion 145 Appendix References 154 Glossary 167 Summary 170 Samenvatting 173 Dankwoord 176 Curriculum vitae 178 Education statement 179 CHAPTER 1 Introduction 9 Chapter 1 Chapter 1. -
Fundamentals of Plant Pathology
Fundamentals of Plant Pathology Dr. J. N. Sharma Dr. G. Karthikeyan Sh. Mohinder Singh Fundamentals of Plant Pathology FUNDAMENTALS OF PLANT PATHOLOGY Author Dr. J. N. Sharma Dr. G. Karthikeyan Sh. Mohinder Singh www.Agrimoon.com Page 1 Fundamentals of Plant Pathology Index SN Lecture Page No 1. INTRODUCTION TO THE SCIENCE OF PHYTOPATHOLOGY: ITS 4-7 IMPORTANCE, SCOPE AND CAUSES OF PLANT DISEASES 2. HISTORY OF PLANT PATHOLOGY (EARLY DEVELOPMENTS AND 8-11 ROLE OF FUNGI IN PLANT DISEASES) 3. HISTORY OF PLANT PATHOLOGY (ROLE OF OTHER PLANT 12-16 PATHOGENS) 4. GENERAL CONCEPTS AND CLASSIFICATION OF PLANT DISEASES 17-20 5. SYMPTOMS AND SIGNS OF PLANT DISEASES 21-25 6. GENERAL CHARACTERISTICS OF FUNGI AND FUNGAL-LIKE 26-29 ORGANISMS CAUSING PLANT DISEASES 7. REPRODUCTION IN FUNGI AND FUNGAL LIKE ORGANISMS 30-32 CAUSING 8. CLASSIFICATION OF FUNGAL PLANT PATHOGENS 33-38 9. GENERAL CHARACTERISTICS AND REPRODUCTION OF 39-44 BACTERIAL 10. CLASSIFICATION OF BACTERIAL PLANT PATHOGENS 45-46 11. GENERAL CHARACTERISTICS AND CLASSIFICATION OF VIRAL 47-55 12. ALGAE AND FLAGELLATE PROTOZOA CAUSING PLANT DISEASES 56-59 13. FLOWERING PARASITIC PLANTS 60-64 14. NON-PARASITIC CAUSES OF PLANT DISEASES 65-70 15. INFECTION PROCESS 71-77 16. ROLE OF ENZYMES AND TOXINS IN PLANT DISEASE 78-86 DEVELOPMENT 17. HOST PARASITE INTERACTION 87-90 18. VARIABILITY IN PLANT PATHOGENS 91-95 19. DISEASE RESISTANCE AND DEFENSE MECHANISMS IN PLANTS 96-100 20. DISSEMINATION OF PLANT PATHOGENS 101-104 21. SURVIVAL OF PLANT PATHOGENS 105-108 22. EFFECT OF ENVIRONMENTAL FACTORS ON DISEASE 109-112 DEVELOPMENT 23. -
Phyllosticta—An Overview of Current Status of Species Recognition
Fungal Diversity (2011) 51:43–61 DOI 10.1007/s13225-011-0146-5 Phyllosticta—an overview of current status of species recognition Saowanee Wikee & Dhanushka Udayanga & Pedro W. Crous & Ekachai Chukeatirote & Eric H. C. McKenzie & Ali H. Bahkali & DongQin Dai & Kevin D. Hyde Received: 17 October 2011 /Accepted: 18 October 2011 /Published online: 23 November 2011 # Kevin D. Hyde 2011 Abstract Phyllosticta is an important coelomycetous plant some novel taxa have been discovered. However, compared to pathogenic genus known to cause leaf spots and various the wide species diversity and taxonomic records, there is a fruit diseases worldwide on a large range of hosts. Species lack of molecular studies to resolve current names in the recognition in Phyllosticta has historically been based on genus. A phylogenetic tree is here generated by combined morphology, culture characters and host association. Al- gene analysis (ITS, partial actin and partial elongation factor though there have been several taxonomic revisions and 1α) using a selected set of taxa including type-derived enumerations of species, there is still considerable confu- sequences available in GenBank. Life modes, modal lifecycle sion when identifying taxa. Recent studies based on and applications of the genus in biocontrol and metabolite molecular data have resolved some cryptic species and production are also discussed. We present a selected set of taxa as an example of resolved and newly described species in the : : : : genus and these are annotated with host range, distribution, S. Wikee D. Udayanga E. Chukeatirote D. Dai K. D. Hyde disease symptoms and notes of additional information with Institute of Excellence in Fungal Research, comments where future work is needed. -
Texto Completo.Pdf
VANESSA PEREIRA DE ABREU BOTRYOSPHAERIALES ENDOFÍTICOS E FITOPATOGÊNICOS CAUSADORES DE PODRIDÕES PÓS-COLHEITA EM FRUTOS DE GOIABA Dissertação apresentada à Universidade Federal de Viçosa, como parte das exigências do Programa de Pós- Graduação em Microbiologia Agrícola, para obtenção do título de Magister Scientiae. VIÇOSA MINAS GERAIS - BRASIL 2015 Ficha catalográfica preparada pela Biblioteca Central da Universidade Federal de Viçosa - Câmpus Viçosa T Abreu, Vanessa Pereira de, 1990- A162b Botryosphaeriales endofíticos e fitopatogênicos 2015 causadores de podridões pós-colheita em frutos de goiaba / Vanessa Pereira de Abreu. - Viçosa, MG, 2015. viii, 30f. : il. (algumas color.) ; 29 cm. Inclui anexos. Orientador : Olinto Liparini Pereira. Dissertação (mestrado) - Universidade Federal de Viçosa. Inclui bibliografia. 1. Psidium guajava. 2. Phyllosticta. 3. Neofusicoccum. 4. Lasiodiplodia. 5. Pinta-preta. I. Universidade Federal de Viçosa. Departamento de Microbiologia Agrícola. Programa de Pós-graduação em Microbiologia Agrícola. II. Título. CDD 22. ed. 579.56 VANESSA PEREIRA DE ABREU BOTRYOSPHAERIALES ENDOFÍTICOS E FITOPATOGÊNICOS CAUSADORES DE PODRIDÕES PÓS-COLHEITA EM FRUTOS DE GOIABA Dissertação apresentada à Universidade Federal de Viçosa, como parte das exigências do Programa de Pós- Graduação em Microbiologia Agrícola, para obtenção do título de Magister Scientiae. APROVADA: 23 de fevereiro de 2015. Maria Catarina Megumi Kasuya Danilo Batista Pinho Gleiber Quintão Furtado (Presidente da Banca) Agradecimentos Agradeço a Deus, pelo dom da vida e por estar iluminando meu caminho e acompanhando meus passos durante todos esses anos de formação acadêmica. Aos meus pais, Tânia e Damião, pelo apoio incondicional em todos os momentos, principalmente nos de incerteza, muito comuns para quem tenta trilhar novos caminhos. Ao meu irmão Diego pela cumplicidade, incentivo e amizade. -
A Phylogenetic Re-Evaluation of Phyllosticta (Botryosphaeriales)
available online at www.studiesinmycology.org STUDIES IN MYCOLOGY 76: 1–29. A phylogenetic re-evaluation of Phyllosticta (Botryosphaeriales) S. Wikee1,2, L. Lombard3, C. Nakashima4, K. Motohashi5, E. Chukeatirote1,2, R. Cheewangkoon6, E.H.C. McKenzie7, K.D. Hyde1,2*, and P.W. Crous3,8,9 1School of Science, Mae Fah Luang University, Chiangrai 57100, Thailand; 2Institute of Excellence in Fungal Research, Mae Fah Luang University, Chiangrai 57100, Thailand; 3CBS-KNAW Fungal Biodiversity Centre, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands; 4Graduate School of Bioresources, Mie University, Kurima-machiya 1577, Tsu, Mie 514-8507, Japan; 5Electron Microscope Center, Tokyo University of Agriculture, Sakuragaoka 1-1-1, Setagaya, Tokyo 156-8502, Japan; 6Department of Plant Pathology, Faculty of Agriculture, Chiang Mai University, Chiang Mai 50200, Thailand; 7Landcare Research, Private Bag 92170, Auckland Mail Centre, Auckland 1142, New Zealand; 8Microbiology, Department of Biology, Utrecht University, Padualaan 8, 3584 CH Utrecht, The Netherlands; 9Wageningen University and Research Centre (WUR), Laboratory of Phytopathology, Droevendaalsesteeg 1, 6708 PB Wageningen, The Netherlands *Correspondence: K.D. Hyde, [email protected] Abstract: Phyllosticta is a geographically widespread genus of plant pathogenic fungi with a diverse host range. This study redefines Phyllosticta, and shows that it clusters sister to the Botryosphaeriaceae (Botryosphaeriales, Dothideomycetes), for which the older family name Phyllostictaceae is resurrected. In moving to a unit nomenclature for fungi, the generic name Phyllosticta was chosen over Guignardia in previous studies, an approach that we support here. We use a multigene DNA dataset of the ITS, LSU, ACT, TEF and GPDH gene regions to investigate 129 isolates of Phyllosticta, representing about 170 species names, many of which are shown to be synonyms of the ubiquitous endophyte P. -
Workshop Morphological Identification of Microfungi National Plant Diagnostic Network National Meeting 2016 Washington, D.C
Workshop Morphological Identification of Microfungi National Plant Diagnostic Network National meeting 2016 Washington, D.C. Megan Romberg Contents 1. A timeline of mycology (with an emphasis on classification and identification of microfungi) 2. Morphological classification systems 3. Notes on nomenclature 4. Resources a. Generally Useful Websites b. Books 5. Sample preparation 6. Genera of fungi (and other organisms) covered in this workbook Workshop Objectives To gain increased familiarity with the process of morphological identification of fungi on hosts. Morphological identification of fungi on their hosts involves: 1. Careful examination of the host under a dissecting microscope for patterns of infection and presence of sporulating structures. 2. Observation of the fungus under a compound microscope for details of spore shape, size, color and other attributes, in addition to conidiophore/conidigenous cell structure and details, fruiting body size, shape, tissue type and other details. 3. Exploration of the relevant literature about the fungus including original descriptions, detailed monographs and taxonomic studies. Arrival at a name for an unknown fungus involves understanding the history of different names for that fungus, and the different ways in which related groups of fungi may have been circumscribed. In this workshop participants will examine provided samples to develop or increase familiarity with different fungal groups and their related structures. The emphasis is not necessarily on identification of the specific fungi in this workbook, but on the process of examination and developing an eye for the different structures used in morphological identification. A variety of resources that are particularly helpful for fungal identification will also be covered. Acknowledgements Huge thanks to Karen Rane and Dave Clement for all of their help.