Journal of Environmental Biology Analysis of Microbial Communities
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Variable Absorption of Mutational Trends by Prion-Forming Domains During Saccharomycetes Evolution
Variable absorption of mutational trends by prion-forming domains during Saccharomycetes evolution Paul M. Harrison Department of Biology, McGill University, Monteal, Quebec, Canada ABSTRACT Prions are self-propagating alternative states of protein domains. They are linked to both diseases and functional protein roles in eukaryotes. Prion-forming domains in Saccharomyces cerevisiae are typically domains with high intrinsic protein disorder (i.e., that remain unfolded in the cell during at least some part of their functioning), that are converted to self-replicating amyloid forms. S. cerevisiae is a member of the fungal class Saccharomycetes, during the evolution of which a large population of prion-like domains has appeared. It is still unclear what principles might govern the molecular evolution of prion-forming domains, and intrinsically disordered domains generally. Here, it is discovered that in a set of such prion-forming domains some evolve in the fungal class Saccharomycetes in such a way as to absorb general mutation biases across millions of years, whereas others do not, indicating a spectrum of selection pressures on composition and sequence. Thus, if the bias-absorbing prion formers are conserving a prion-forming capability, then this capability is not interfered with by the absorption of bias changes over the duration of evolutionary epochs. Evidence is discovered for selective constraint against the occurrence of lysine residues (which likely disrupt prion formation) in S. cerevisiae prion-forming domains as they evolve across Saccharomycetes. These results provide a case study of the absorption of mutational trends by compositionally biased domains, and suggest methodology for assessing selection pressures on the composition of intrinsically disordered regions. -
Diversity of Endophytic Fungi from Different Verticillium-Wilt-Resistant
J. Microbiol. Biotechnol. (2014), 24(9), 1149–1161 http://dx.doi.org/10.4014/jmb.1402.02035 Research Article Review jmb Diversity of Endophytic Fungi from Different Verticillium-Wilt-Resistant Gossypium hirsutum and Evaluation of Antifungal Activity Against Verticillium dahliae In Vitro Zhi-Fang Li†, Ling-Fei Wang†, Zi-Li Feng, Li-Hong Zhao, Yong-Qiang Shi, and He-Qin Zhu* State Key Laboratory of Cotton Biology, Institute of Cotton Research of Chinese Academy of Agricultural Sciences, Anyang, Henan 455000, P. R. China Received: February 18, 2014 Revised: May 16, 2014 Cotton plants were sampled and ranked according to their resistance to Verticillium wilt. In Accepted: May 16, 2014 total, 642 endophytic fungi isolates representing 27 genera were recovered from Gossypium hirsutum root, stem, and leaf tissues, but were not uniformly distributed. More endophytic fungi appeared in the leaf (391) compared with the root (140) and stem (111) sections. First published online However, no significant difference in the abundance of isolated endophytes was found among May 19, 2014 resistant cotton varieties. Alternaria exhibited the highest colonization frequency (7.9%), *Corresponding author followed by Acremonium (6.6%) and Penicillium (4.8%). Unlike tolerant varieties, resistant and Phone: +86-372-2562280; susceptible ones had similar endophytic fungal population compositions. In three Fax: +86-372-2562280; Verticillium-wilt-resistant cotton varieties, fungal endophytes from the genus Alternaria were E-mail: [email protected] most frequently isolated, followed by Gibberella and Penicillium. The maximum concentration † These authors contributed of dominant endophytic fungi was observed in leaf tissues (0.1797). The evenness of stem equally to this work. -
Potato Dextrose Agar with Lecithin and Tween 80 (7575)
POTATO DEXTROSE AGAR w/ LECITHIN & TWEEN 80 (7575) Intended Use Potato Dextrose Agar w/ Lecithin & Tween 80 is used for the isolation of fungi from surfaces sanitized with quaternary ammonium compounds. Product Summary and Explanation Potato Dextrose Agar is a general purpose medium for yeasts and molds that can be supplemented with acid or antibiotics to inhibit bacterial growth. The nutritionally rich base (potato infusion) encourages mold sporulation and pigment production in some dermatophytes.1 Potato Dextrose Agar w/ Lecithin & Tween 80 is a modification of Potato Dextrose Agar. The addition of Lecithin and Tween 80 to Potato Dextrose Agar is used to neutralize antiseptics and disinfectants for environmental monitoring and other applications.2 Complete neutralization of disinfectants is important. Disinfectant carryover can cause a false no-growth test result. Principles of the Procedure Potato Infusion provides nitrogen and vitamin sources required for organism growth. Dextrose is included as a carbon source. Lecithin neutralizes quaternary ammonium compounds and ethanol, and Tween 80 neutralizes phenols, hexachlorophene, and formalin. Agar is the solidifying agent. Formula / Liter Potato Infusion (dehydrated) .................................................... 4 g Dextrose ................................................................................. 20 g Tween 80 .................................................................................. 5 g Lecithin.................................................................................. -
Symbiosis Between Yeasts and Insects
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by Epsilon Open Archive Symbiosis between yeasts and insects Francisco Gonzalez Introductory paper at the Faculty of Landscape Architecture, Horticulture and Crop Production Science 2014:3 Swedish University of Agricultural Sciences Alnarp, December 2014 1 Symbiosis between yeasts and insects Francisco Gonzalez Introductory paper at the Faculty of Landscape Architecture, Horticulture and Crop Production Science 2014:3 Swedish University of Agricultural Sciences Alnarp, December 2014 Online Publication: http://pub.epsilon.slu.se/ 2 Summary Mutualistic relationships between insects and microorganisms have been widely described for bacterial symbionts associated with sap feeding insects and fungi associated with bark beetles. Recently, the importance and widespread distribution of mutualistic yeasts in plant-insect interactions has been demonstrated. Several examples with Drosophila melanogaster among other insects have shown the ability of the insect to survive in a diet based on yeast consumption only. Moreover, yeasts have shown the ability of suppressing pathogens that might hamper the development of the insects. From the point of view of the yeasts, the main benefit of the mutualism is the facilitation of processes such as outbreeding and spreading offered by contact with insects. Understanding the functions and key elements in yeast-insect interactions could lead to the development of better pest management strategies, for example by exploiting the attraction of insects to yeasts to lure them into entomopathogenic viruses. In this review, I present an overview of the current knowledge in yeast- insect interactions, highlighting what has been studied to date and what research gaps remain to be addressed. -
Curriculum Vitae Rosaria Ann Healy, Ph.D. Assistant Scientist Dept. Of
Curriculum Vitae Rosaria Ann Healy, Ph.D. Assistant Scientist Dept. of Plant Pathology, University of Florida 2517 Fifield Hall, Gainesville, FL 32611 515-231-2562, [email protected] Education 2013 Ph.D. University of Minnesota, St. Paul, MN Co-Advisors: Dr. David McLaughlin and Dr. Imke Schmitt 2002 M.S. Iowa State University, Ames, IA Advisor: Dr. Lois H. Tiffany 1977 B.S. College of St. Benedict, St. Joseph, MN Research Experience 2016 to present Assistant Research Scientist, University of Florida, Gainesville, FL 2015 Post Doctoral Research University of Florida, Gainesville, FL Supervisor: Dr. Matthew E. Smith 2013-2015 Post Doctoral Research Harvard University, Cambridge, MA Advisor: Dr. Donald H. Pfister 2011-2012 Research Assistant University of Minnesota, St. Paul, MN Advisor: Dr. David McLaughlin: Assembling the Fungal Tree of Life 1999-2005 Research Associate Iowa State University, Ames, IA Advisor: Dr. Harry T. Horner Publications • 2021 Orihara, T, R Healy, A Corrales, ME Smith. Multi-locus phylogenies reveal three new truffle-like taxa and the traces of interspecific hybridization in Octaviania Healy CV 2 (Boletales). Submitted to IMA Fungus • 2021 Castellano, MA, CD Crabtree, D Mitchell, RA Healy. Eight new Elaphomyces species (Elaphomycetaceae, Eurotiales, Ascomycota) from eastern North America. Fungal Systematics and Evolution 7:113-131. • 2020 Kraisitudomsook N, RA Healy, DH Pfister, C Truong, E Nouhra, F Kuhar, AB Mujic, JM Trappe, ME Smith. Resurrecting the genus Geomorium: Systematic study of fungi in the genera Underwoodia and Gymnohydnotrya (Pezizales) with the description of three new South American species. Persoonia 44: 98-112. • 2019 Grupe AG II, N Kraisitudomsook, R Healy, D Zelmanovich, C Anderson, G Guevara, J Trappe, ME Smith. -
The Diversification of Evolutionarily Conserved MAPK Cascades
GBE The Diversification of Evolutionarily Conserved MAPK Cascades Correlates with the Evolution of Fungal Species and Downloaded from https://academic.oup.com/gbe/article/9/2/311/2669847 by National Science and Technology Library -Root user on 06 January 2021 Development of Lifestyles Chuan Xu, Ran Liu, Qiangqiang Zhang, Xiaoxuan Chen, Ying Qian, and Weiguo Fang* Institute of Microbiology, College of Life Sciences, Zhejiang University, Hangzhou, Zhejiang, China *Corresponding author: E-mail: [email protected]. Accepted: March 4, 2016 Abstract The fungal kingdom displays an extraordinary diversity of lifestyles, developmental processes, and ecological niches. The MAPK (mitogen-activated protein kinase) cascade consists of interlinked MAPKKK, MAPKK, and MAPK, and collectively such cascades play pivotal roles in cellular regulation in fungi. However, the mechanism by which evolutionarily conserved MAPK cascades regulate diverse output responses in fungi remains unknown. Here we identified the full complement of MAPK cascade components from 231 fungal species encompassing 9 fungal phyla. Using the largest data set to date, we found that MAPK family members could have two ancestors, while MAPKK and MAPKKK family members could have only one ancestor. The current MAPK, MAPKK, and MAPKKK subfamilies resulted from duplications and subsequent subfunctionalization during the emergence of the fungal kingdom. However, the gene structure diversification and gene expansion and loss have resulted in significant diversity in fungal MAPK cascades, correlating with the evolution of fungal species and lifestyles. In particular, a distinct evolutionary trajectory of MAPK cascades was identified in single-celled fungi in the Saccharomycetes. All MAPK, MAPKK, and MAPKKK subfamilies expanded in the Saccharomycetes; genes encoding MAPK cascade components have a similar exon–intron structure in this class that differs from those in other fungi. -
Downloaded from by IP: 199.133.24.106 On: Mon, 18 Sep 2017 10:43:32 Spatafora Et Al
UC Riverside UC Riverside Previously Published Works Title The Fungal Tree of Life: from Molecular Systematics to Genome-Scale Phylogenies. Permalink https://escholarship.org/uc/item/4485m01m Journal Microbiology spectrum, 5(5) ISSN 2165-0497 Authors Spatafora, Joseph W Aime, M Catherine Grigoriev, Igor V et al. Publication Date 2017-09-01 DOI 10.1128/microbiolspec.funk-0053-2016 License https://creativecommons.org/licenses/by-nc-nd/4.0/ 4.0 Peer reviewed eScholarship.org Powered by the California Digital Library University of California The Fungal Tree of Life: from Molecular Systematics to Genome-Scale Phylogenies JOSEPH W. SPATAFORA,1 M. CATHERINE AIME,2 IGOR V. GRIGORIEV,3 FRANCIS MARTIN,4 JASON E. STAJICH,5 and MEREDITH BLACKWELL6 1Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR 97331; 2Department of Botany and Plant Pathology, Purdue University, West Lafayette, IN 47907; 3U.S. Department of Energy Joint Genome Institute, Walnut Creek, CA 94598; 4Institut National de la Recherche Agronomique, Unité Mixte de Recherche 1136 Interactions Arbres/Microorganismes, Laboratoire d’Excellence Recherches Avancés sur la Biologie de l’Arbre et les Ecosystèmes Forestiers (ARBRE), Centre INRA-Lorraine, 54280 Champenoux, France; 5Department of Plant Pathology and Microbiology and Institute for Integrative Genome Biology, University of California–Riverside, Riverside, CA 92521; 6Department of Biological Sciences, Louisiana State University, Baton Rouge, LA 70803 and Department of Biological Sciences, University of South Carolina, Columbia, SC 29208 ABSTRACT The kingdom Fungi is one of the more diverse INTRODUCTION clades of eukaryotes in terrestrial ecosystems, where they In 1996 the genome of Saccharomyces cerevisiae was provide numerous ecological services ranging from published and marked the beginning of a new era in decomposition of organic matter and nutrient cycling to beneficial and antagonistic associations with plants and fungal biology (1). -
Food Microbiology
Food Microbiology Food Water Dairy Beverage Online Ordering Available Food, Water, Dairy, & Beverage Microbiology Table of Contents 1 Environmental Monitoring Contact Plates 3 Petri Plates 3 Culture Media for Air Sampling 4 Environmental Sampling Boot Swabs 6 Environmental Testing Swabs 8 Surface Sanitizers 8 Hand Sanitation 9 Sample Preparation - Dilution Vials 10 Compact Dry™ 12 HardyCHROM™ Chromogenic Culture Media 15 Prepared Media 24 Agar Plates for Membrane Filtration 26 CRITERION™ Dehydrated Culture Media 28 Pathogen Detection Environmental With Monitoring Contact Plates Baird Parker Agar Friction Lid For the selective isolation and enumeration of coagulase-positive staphylococci (Staphylococcus aureus) on environmental surfaces. HardyCHROM™ ECC 15x60mm contact plate, A chromogenic medium for the detection, 10/pk ................................................................................ 89407-364 differentiation, and enumeration of Escherichia coli and other coliforms from environmental surfaces (E. coli D/E Neutralizing Agar turns blue, coliforms turn red). For the enumeration of environmental organisms. 15x60mm plate contact plate, The media is able to neutralize most antiseptics 10/pk ................................................................................ 89407-354 and disinfectants that may inhibit the growth of environmental organisms. Malt Extract 15x60mm contact plate, Malt Extract is recommended for the cultivation and 10/pk ................................................................................89407-482 -
Effects of Growth Media on the Diversity of Culturable Fungi from Lichens
molecules Article Effects of Growth Media on the Diversity of Culturable Fungi from Lichens Lucia Muggia 1,*,†, Theodora Kopun 2,† and Martin Grube 2 1 Department of Life Sciences, University of Trieste, via Giorgieri 10, 34127 Trieste, Italy 2 Institute of Plant Science, Karl-Franzens University of Graz, Holteigasse 6, 8010 Graz, Austria; [email protected] (T.K.); [email protected] (M.G.) * Correspondence: [email protected] or [email protected]; Tel.: +39-04-0558-8825 † These authors contributed equally to the work. Academic Editor: Joel Boustie Received: 1 March 2017; Accepted: 11 May 2017; Published: 17 May 2017 Abstract: Microscopic and molecular studies suggest that lichen symbioses contain a plethora of associated fungi. These are potential producers of novel bioactive compounds, but strains isolated on standard media usually represent only a minor subset of these fungi. By using various in vitro growth conditions we are able to modulate and extend the fraction of culturable lichen-associated fungi. We observed that the presence of iron, glucose, magnesium and potassium in growth media is essential for the successful isolation of members from different taxonomic groups. According to sequence data, most isolates besides the lichen mycobionts belong to the classes Dothideomycetes and Eurotiomycetes. With our approach we can further explore the hidden fungal diversity in lichens to assist in the search of novel compounds. Keywords: Dothideomycetes; Eurotiomycetes; Leotiomycetes; nuclear ribosomal subunits DNA; nutrients; Sordariomycetes 1. Introduction Lichens are self-sustaining symbiotic associations of specialized fungi (the mycobionts), and green algae or cyanobacteria (the photobionts), which are located extracellularly within a matrix of fungal hyphae and from which the fungi derive carbon nutrition [1]. -
Sequencing Abstracts Msa Annual Meeting Berkeley, California 7-11 August 2016
M S A 2 0 1 6 SEQUENCING ABSTRACTS MSA ANNUAL MEETING BERKELEY, CALIFORNIA 7-11 AUGUST 2016 MSA Special Addresses Presidential Address Kerry O’Donnell MSA President 2015–2016 Who do you love? Karling Lecture Arturo Casadevall Johns Hopkins Bloomberg School of Public Health Thoughts on virulence, melanin and the rise of mammals Workshops Nomenclature UNITE Student Workshop on Professional Development Abstracts for Symposia, Contributed formats for downloading and using locally or in a Talks, and Poster Sessions arranged by range of applications (e.g. QIIME, Mothur, SCATA). 4. Analysis tools - UNITE provides variety of analysis last name of primary author. Presenting tools including, for example, massBLASTer for author in *bold. blasting hundreds of sequences in one batch, ITSx for detecting and extracting ITS1 and ITS2 regions of ITS 1. UNITE - Unified system for the DNA based sequences from environmental communities, or fungal species linked to the classification ATOSH for assigning your unknown sequences to *Abarenkov, Kessy (1), Kõljalg, Urmas (1,2), SHs. 5. Custom search functions and unique views to Nilsson, R. Henrik (3), Taylor, Andy F. S. (4), fungal barcode sequences - these include extended Larsson, Karl-Hnerik (5), UNITE Community (6) search filters (e.g. source, locality, habitat, traits) for 1.Natural History Museum, University of Tartu, sequences and SHs, interactive maps and graphs, and Vanemuise 46, Tartu 51014; 2.Institute of Ecology views to the largest unidentified sequence clusters and Earth Sciences, University of Tartu, Lai 40, Tartu formed by sequences from multiple independent 51005, Estonia; 3.Department of Biological and ecological studies, and for which no metadata Environmental Sciences, University of Gothenburg, currently exists. -
Isolation and Identification of Shoot-Tip Associated Endophytic Bacteria from Banana Cv
American Journal of Plant Sciences, 2015, 6, 943-954 Published Online April 2015 in SciRes. http://www.scirp.org/journal/ajps http://dx.doi.org/10.4236/ajps.2015.67101 Isolation and Identification of Shoot-Tip Associated Endophytic Bacteria from Banana cv. Grand Naine and Testing for Antagonistic Activity against Fusarium oxysporum f. sp. cubense Aparna Chandra Sekhar, Pious Thomas* Endophytic and Molecular Microbiology Laboratory, Division of Biotechnology, ICAR-Indian Institute of Horticultural Research (IIHR), Bangalore, India Email: *[email protected], *[email protected] Received 4 March 2015; accepted 10 April 2015; published 14 April 2015 Copyright © 2015 by authors and Scientific Research Publishing Inc. This work is licensed under the Creative Commons Attribution International License (CC BY). http://creativecommons.org/licenses/by/4.0/ Abstract Endophytic bacteria colonizing the shoot-tips of banana cv. Grand Naine were isolated and tested for the antagonistic activity against the Panama wilt pathogen Fusarium oxysporum f. sp. cubense (Foc). Pre-isolation, the suckers were given extensive disinfection treatments and the homogenate from the excised shoot-tip portion was plated on nutrient agar (NA) and trypticase soy agar (TSA). This yielded altogether 47 isolates: 26 on NA and 21 on TSA, respectively, from the 10 suckers col- lected during August to February. The number of bacterial isolates obtained per sucker varied from one to 15 based on colony characteristics registering up to 10 distinct species per shoot-tip based on 16S rRNA sequence analysis. The 47 isolates belonged to 19 genera and 25 species under the phylogenetic classes of Actinobacteria, α- and γ-Proteobacteria and Firmicutes. -
Wild Apple-Associated Fungi and Bacteria Compete to Colonize the Larval Gut of an Invasive Wood-Borer Agrilus Mali in Tianshan Forests
Wild apple-associated fungi and bacteria compete to colonize the larval gut of an invasive wood-borer Agrilus mali in Tianshan forests Tohir Bozorov ( [email protected] ) Xinjiang Institute of Ecology and Geography https://orcid.org/0000-0002-8925-6533 Zokir Toshmatov Plant Genetics Research Unit: Genetique Quantitative et Evolution Le Moulon Gulnaz Kahar Xinjiang Institute of Ecology and Geography Daoyuan Zhang Xinjiang Institute of Ecology and Geography Hua Shao Xinjiang Institute of Ecology and Geography Yusufjon Gafforov Institute of Botany, Academy of Sciences of Uzbekistan Research Keywords: Agrilus mali, larval gut microbiota, Pseudomonas synxantha, invasive insect, wild apple, 16S rRNA and ITS sequencing Posted Date: March 16th, 2021 DOI: https://doi.org/10.21203/rs.3.rs-287915/v1 License: This work is licensed under a Creative Commons Attribution 4.0 International License. Read Full License Page 1/17 Abstract Background: The gut microora of insects plays important roles throughout their lives. Different foods and geographic locations change gut bacterial communities. The invasive wood-borer Agrilus mali causes extensive mortality of wild apple, Malus sieversii, which is considered a progenitor of all cultivated apples, in Tianshan forests. Recent analysis showed that the gut microbiota of larvae collected from Tianshan forests showed rich bacterial diversity but the absence of fungal species. In this study, we explored the antagonistic ability of gut bacteria to address this absence of fungi in the larval gut. Results: The results demonstrated that gut bacteria were able to selectively inhibit wild apple tree-associated fungi. However, Pseudomonas synxantha showed strong antagonistic ability, producing antifungal compounds. Using different analytical methods, such as column chromatography, mass spectrometry, HPLC and NMR, an antifungal compound, phenazine-1-carboxylic acid (PCA), was identied.