Indian Chytrids. II. Olpidium Indicum Sp. Nov. *) by John S
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A Metagenomic Approach to Understand Stand Failure in Bromus Tectorum
Brigham Young University BYU ScholarsArchive Theses and Dissertations 2019-06-01 A Metagenomic Approach to Understand Stand Failure in Bromus tectorum Nathan Joseph Ricks Brigham Young University Follow this and additional works at: https://scholarsarchive.byu.edu/etd BYU ScholarsArchive Citation Ricks, Nathan Joseph, "A Metagenomic Approach to Understand Stand Failure in Bromus tectorum" (2019). Theses and Dissertations. 8549. https://scholarsarchive.byu.edu/etd/8549 This Thesis is brought to you for free and open access by BYU ScholarsArchive. It has been accepted for inclusion in Theses and Dissertations by an authorized administrator of BYU ScholarsArchive. For more information, please contact [email protected], [email protected]. A Metagenomic Approach to Understand Stand Failure in Bromus tectorum Nathan Joseph Ricks A thesis submitted to the faculty of Brigham Young University in partial fulfillment of the requirements for the degree of Master of Science Craig Coleman, Chair John Chaston Susan Meyer Department of Plant and Wildlife Sciences Brigham Young University Copyright © 2019 Nathan Joseph Ricks All Rights Reserved ABSTACT A Metagenomic Approach to Understand Stand Failure in Bromus tectorum Nathan Joseph Ricks Department of Plant and Wildlife Sciences, BYU Master of Science Bromus tectorum (cheatgrass) is an invasive annual grass that has colonized large portions of the Intermountain west. Cheatgrass stand failures have been observed throughout the invaded region, the cause of which may be related to the presence of several species of pathogenic fungi in the soil or surface litter. In this study, metagenomics was used to better understand and compare the fungal communities between sites that have and have not experienced stand failure. -
The Life Cycles of Cryptogams 7
Acta Botanica Malacitana, 16(1): 5-18 Málaga, 1991 E IE CYCES O CYOGAMS Peter R. BELL SUMMARY: Meiosis and karyogamy are recognized as control points in the life cycle of cryptogams. The control of meiosis is evidently complex and in yeast, and by analogy in all cryptogams, involves progressive gene activation. The causes of the delay in meiosis in diplohaplontic and diplontic organisms, and the manner in which the block is removed remain to be discovered. There is accumulating evidence that cytoplasmic RNA plays an important role in meiotic division. Many features of tn are still obscure. The tendency to oogamy has provided the opportunity for the laying down of long-lived messenger RNA in the abundant cytoplasm of the female gamete. The sporophytic nature of the developing zygote can in this way be partially pre-determined. There is evidence that this is the situation in the ferns. Specific molecules (probably arabino-galacto-proteins) on the surface of the plasma membrane are likely to account both for gametic selection, and the readiness with which appropriate gametes fuse. The dikaryotic condition indicates that nuclear fusion is not inevitable following plasmogamy. The ultimate fusion of the nuclei may result from quite simple changes in the nuclear surface. Exposure of lipid, for example, would lead to fusion as a result of hydrophobic forces. Aberrations of cryptogamic life cycles are numerous. The nuclear relationships of many aberrant cycles are unknown. In general it appears that the maintenance of sporophytic growth depends upon the presence of at least two sets of chromosomes. Conversely the maintenance of gametophytic growth in cultures obtained aposporously appears to be impossible in the presence of four sets of chromosomes, or more. -
S41467-021-25308-W.Pdf
ARTICLE https://doi.org/10.1038/s41467-021-25308-w OPEN Phylogenomics of a new fungal phylum reveals multiple waves of reductive evolution across Holomycota ✉ ✉ Luis Javier Galindo 1 , Purificación López-García 1, Guifré Torruella1, Sergey Karpov2,3 & David Moreira 1 Compared to multicellular fungi and unicellular yeasts, unicellular fungi with free-living fla- gellated stages (zoospores) remain poorly known and their phylogenetic position is often 1234567890():,; unresolved. Recently, rRNA gene phylogenetic analyses of two atypical parasitic fungi with amoeboid zoospores and long kinetosomes, the sanchytrids Amoeboradix gromovi and San- chytrium tribonematis, showed that they formed a monophyletic group without close affinity with known fungal clades. Here, we sequence single-cell genomes for both species to assess their phylogenetic position and evolution. Phylogenomic analyses using different protein datasets and a comprehensive taxon sampling result in an almost fully-resolved fungal tree, with Chytridiomycota as sister to all other fungi, and sanchytrids forming a well-supported, fast-evolving clade sister to Blastocladiomycota. Comparative genomic analyses across fungi and their allies (Holomycota) reveal an atypically reduced metabolic repertoire for sanchy- trids. We infer three main independent flagellum losses from the distribution of over 60 flagellum-specific proteins across Holomycota. Based on sanchytrids’ phylogenetic position and unique traits, we propose the designation of a novel phylum, Sanchytriomycota. In addition, our results indicate that most of the hyphal morphogenesis gene repertoire of multicellular fungi had already evolved in early holomycotan lineages. 1 Ecologie Systématique Evolution, CNRS, Université Paris-Saclay, AgroParisTech, Orsay, France. 2 Zoological Institute, Russian Academy of Sciences, St. ✉ Petersburg, Russia. 3 St. -
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Hilton et al. Microbiome (2021) 9:19 https://doi.org/10.1186/s40168-020-00972-0 RESEARCH Open Access Identification of microbial signatures linked to oilseed rape yield decline at the landscape scale Sally Hilton1* , Emma Picot1, Susanne Schreiter2, David Bass3,4, Keith Norman5, Anna E. Oliver6, Jonathan D. Moore7, Tim H. Mauchline2, Peter R. Mills8, Graham R. Teakle1, Ian M. Clark2, Penny R. Hirsch2, Christopher J. van der Gast9 and Gary D. Bending1* Abstract Background: The plant microbiome plays a vital role in determining host health and productivity. However, we lack real-world comparative understanding of the factors which shape assembly of its diverse biota, and crucially relationships between microbiota composition and plant health. Here we investigated landscape scale rhizosphere microbial assembly processes in oilseed rape (OSR), the UK’s third most cultivated crop by area and the world's third largest source of vegetable oil, which suffers from yield decline associated with the frequency it is grown in rotations. By including 37 conventional farmers’ fields with varying OSR rotation frequencies, we present an innovative approach to identify microbial signatures characteristic of microbiomes which are beneficial and harmful to the host. Results: We show that OSR yield decline is linked to rotation frequency in real-world agricultural systems. We demonstrate fundamental differences in the environmental and agronomic drivers of protist, bacterial and fungal communities between root, rhizosphere soil and bulk soil compartments. We further discovered that the assembly of fungi, but neither bacteria nor protists, was influenced by OSR rotation frequency. However, there were individual abundant bacterial OTUs that correlated with either yield or rotation frequency. -
Some Properties of a Virus from Galinsoga Parviflora*
SOME PROPERTIES OF A VIRUS FROM GALINSOGA PARVIFLORA* By G. M. BEHNCKENt During an investigation of stipple streak disease of French beans near Nambour in south-eastern Queensland (Behncken 1968), the roots of a number of weed species were indexed for tobacco necrosis virus (TNV). A virus was regularly isolated from the roots of Galinsoga parvijlora Cav., an annual commonly called potato weed. It was distinguished from TNV on the basis of differences in host reactions, absence of any serological reaction with TNV antisera, and its failure to be transmitted to the roots of seedlings of mung bean (Phaseolu8 aureU8 Roxb.) by zoospores of the fungus Olpidium bra88icae (Wor.) Dang. The only viruses reported to cause natural infections of G. parvijlora are cucumber mosaic virus (Hein 1957) and an unidentified aphid-transmitted virus (Herbert 1939). As this virus appears to be one which has not previously been reported either from this or any other host, it will be referred to as Galin80ga mosaic virus (GMV). H08t Range, Symptom8, and Transmi88ion No obvious symptoms of virus infection were noted in the leaves of infected G. parvijlora plants in the field but the possibility of symptomless infection was not checked at the time of isolation of the virus from the roots. However, when the virus was inoculated onto the leaves of G. parvijlora plants, severe systemic symptoms were produced on the new leaves. For host range studies, inoculations were made to at least eight plants of each species, previously dusted with carborundum, with both sap from leaves ground in neutral 0 ·lM K 2HP04 buffer containing 0·1 % Na2S0a and partially purified preparations of the virus. -
Redalyc.Primer Registro De Allomyces Neomoniliformis (Chytridiomycota) Y
Darwiniana ISSN: 0011-6793 [email protected] Instituto de Botánica Darwinion Argentina Steciow, Mónica M.; Eliades, Lorena A. Primer registro de Allomyces neomoniliformis (Chytridiomycota) y Dictyuchus missouriensis (Oomycota) aislados de un suelo agrícola (Buenos Aires, Argentina) Darwiniana, vol. 39, núm. 1-2, 2001, pp. 15-18 Instituto de Botánica Darwinion Buenos Aires, Argentina Disponible en: http://www.redalyc.org/articulo.oa?id=66939203 Cómo citar el artículo Número completo Sistema de Información Científica Más información del artículo Red de Revistas Científicas de América Latina, el Caribe, España y Portugal Página de la revista en redalyc.org Proyecto académico sin fines de lucro, desarrollado bajo la iniciativa de acceso abierto NOTAM. M.TAXONÓMICA STECIOW & L. A. ELIADES. Primer registroDARWINIANA de Allomyces neomoniliformis y DictyuchusISSN missouriensis 0011-6793 39(1-2): 15-18. 2001 PRIMER REGISTRO DE ALLOMYCES NEOMONILIFORMIS (CHYTRIDIOMYCOTA) Y DICTYUCHUS MISSOURIENSIS (OOMYCOTA) AISLADOS DE UN SUELO AGRICOLA (BUENOS AIRES, ARGENTINA) MÓNICA M. STECIOW 1 & LORENA A. ELIADES 2 Instituto de Botánica Spegazzini, Calle 53 N° 477, B1900AVJ La Plata, Buenos Aires, Argentina. E-mail: [email protected] ABSTRACT: Steciow, M. M. & Eliades, L. A. 2001. First record of Allomyces neomoniliformis (Chytridiomycota) and Dictyuchus missouriensis (Oomycota) from an agricultural soil in Argentina. Darwiniana 39(1-2): 15-18. Allomyces neomoniliformis and Dictyuchus missouriensis were isolated from agricultural soil with organic matter (leaves, roots and twigs) in Argentina. Both are reported for the first time from Argentina and for the second time for South America; this is the southernmost record of these species in the Western Hemisphere. These are the second isolations made of a member of the genus Allomyces and Dictyuchus in Argentina. -
Plant Viruses Infecting Solanaceae Family Members In
Plant Viruses Infecting Solanaceae Family Members in the Cultivated and Wild Environments: A Review Richard Hančinský, Daniel Mihálik, Michaela Mrkvová, Thierry Candresse, Miroslav Glasa To cite this version: Richard Hančinský, Daniel Mihálik, Michaela Mrkvová, Thierry Candresse, Miroslav Glasa. Plant Viruses Infecting Solanaceae Family Members in the Cultivated and Wild Environments: A Review. Plants, MDPI, 2020, 9 (5), pp.667. 10.3390/plants9050667. hal-02866489 HAL Id: hal-02866489 https://hal.inrae.fr/hal-02866489 Submitted on 12 Jun 2020 HAL is a multi-disciplinary open access L’archive ouverte pluridisciplinaire HAL, est archive for the deposit and dissemination of sci- destinée au dépôt et à la diffusion de documents entific research documents, whether they are pub- scientifiques de niveau recherche, publiés ou non, lished or not. The documents may come from émanant des établissements d’enseignement et de teaching and research institutions in France or recherche français ou étrangers, des laboratoires abroad, or from public or private research centers. publics ou privés. Distributed under a Creative Commons Attribution| 4.0 International License plants Review Plant Viruses Infecting Solanaceae Family Members in the Cultivated and Wild Environments: A Review Richard Hanˇcinský 1, Daniel Mihálik 1,2,3, Michaela Mrkvová 1, Thierry Candresse 4 and Miroslav Glasa 1,5,* 1 Faculty of Natural Sciences, University of Ss. Cyril and Methodius, Nám. J. Herdu 2, 91701 Trnava, Slovakia; [email protected] (R.H.); [email protected] (D.M.); -
Morphology, Ultrastructure, and Molecular Phylogeny of Rozella Multimorpha, a New Species in Cryptomycota
DR. PETER LETCHER (Orcid ID : 0000-0003-4455-9992) Article type : Original Article Letcher et al.---A New Rozella From Pythium Morphology, Ultrastructure, and Molecular Phylogeny of Rozella multimorpha, a New Species in Cryptomycota Peter M. Letchera, Joyce E. Longcoreb, Timothy Y. Jamesc, Domingos S. Leited, D. Rabern Simmonsc, Martha J. Powella a Department of Biological Sciences, The University of Alabama, Tuscaloosa, 35487, Alabama, USA b School of Biology and Ecology, University of Maine, Orono, 04469, Maine, USA c Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, 48109, Michigan, USA d Departamento de Genética, Evolução e Bioagentes, Universidade Estadual de Campinas, Campinas, SP, 13082-862, Brazil Corresponding author: P. M. Letcher, Department of Biological Sciences, The University of Alabama, 1332 SEC, Box 870344, 300 Hackberry Lane, Tuscaloosa, Alabama 35487, USA, telephone number:Author Manuscript +1 205-348-8208; FAX number: +1 205-348-1786; e-mail: [email protected] This is the author manuscript accepted for publication and has undergone full peer review but has not been through the copyediting, typesetting, pagination and proofreading process, which may lead to differences between this version and the Version of Record. Please cite this article as doi: 10.1111/jeu.12452-4996 This article is protected by copyright. All rights reserved ABSTRACT Increasing numbers of sequences of basal fungi from environmental DNA studies are being deposited in public databases. Many of these sequences remain unclassified below the phylum level because sequence information from identified species is sparse. Lack of basic biological knowledge due to a dearth of identified species is extreme in Cryptomycota, a new phylum widespread in the environment and phylogenetically basal within the fungal lineage. -
Clade (Kingdom Fungi, Phylum Chytridiomycota)
TAXONOMIC STATUS OF GENERA IN THE “NOWAKOWSKIELLA” CLADE (KINGDOM FUNGI, PHYLUM CHYTRIDIOMYCOTA): PHYLOGENETIC ANALYSIS OF MOLECULAR CHARACTERS WITH A REVIEW OF DESCRIBED SPECIES by SHARON ELIZABETH MOZLEY (Under the Direction of David Porter) ABSTRACT Chytrid fungi represent the earliest group of fungi to have emerged within the Kingdom Fungi. Unfortunately despite the importance of chytrids to understanding fungal evolution, the systematics of the group is in disarray and in desperate need of revision. Funding by the NSF PEET program has provided an opportunity to revise the systematics of chytrid fungi with an initial focus on four specific clades in the order Chytridiales. The “Nowakowskiella” clade was chosen as a test group for comparing molecular methods of phylogenetic reconstruction with the more traditional morphological and developmental character system used for classification in determining generic limits for chytrid genera. Portions of the 18S and 28S nrDNA genes were sequenced for isolates identified to genus level based on morphology to seven genera in the “Nowakowskiella” clade: Allochytridium, Catenochytridium, Cladochytrium, Endochytrium, Nephrochytrium, Nowakowskiella, and Septochytrium. Bayesian, parsimony, and maximum likelihood methods of phylogenetic inference were used to produce trees based on one (18S or 28S alone) and two-gene datasets in order to see if there would be a difference depending on which optimality criterion was used and the number of genes included. In addition to the molecular analysis, taxonomic summaries of all seven genera covering all validly published species with a listing of synonyms and questionable species is provided to give a better idea of what has been described and the morphological and developmental characters used to circumscribe each genus. -
Multimodal Sensorimotor System in Unicellular Zoospores of a Fungus Andrew J
© 2018. Published by The Company of Biologists Ltd | Journal of Experimental Biology (2018) 221, jeb163196. doi:10.1242/jeb.163196 RESEARCH ARTICLE Multimodal sensorimotor system in unicellular zoospores of a fungus Andrew J. M. Swafford and Todd H. Oakley* ABSTRACT found in freshwater ecosystems with a global distribution (James Complex sensory systems often underlie critical behaviors, including et al., 2014). Zoosporic fungi are typically characterized as saprobes, avoiding predators and locating prey, mates and shelter. Multisensory such as Allomyces, although parasitic life strategies on both plant and systems that control motor behavior even appear in unicellular animal hosts also do exist (Longcore et al., 1999). Similar to all fungi, eukaryotes, such as Chlamydomonas, which are important laboratory colonies of Allomyces use mycelia to absorb nutrients and ultimately models for sensory biology. However, we know of no unicellular grow reproductive structures. Unlike most fungi, Allomyces produce opisthokonts that control motor behavior using a multimodal sensory zoosporangia, terminations of mycelial branches that make, store and system. Therefore, existing single-celled models for multimodal ultimately release a multitude of single-celled, flagellated propagules, sensorimotor integration are very distantly related to animals. Here, termed zoospores (Olson, 1984). When the appropriate we describe a multisensory system that controls the motor function of environmental cues are present, zoospores are produced en masse, unicellular fungal zoospores. We found that zoospores of Allomyces eventually bursting from zoosporangia (James et al., 2014). Once in arbusculus exhibit both phototaxis and chemotaxis. Furthermore, the water column, the zoospores rely on a single, posterior flagellum we report that closely related Allomyces species respond to either to propel themselves away from the parent colony and towards the chemical or the light stimuli presented in this study, not both, and suitable substrates or hosts (Olson, 1984). -
Comparative Genomics of Chytrid Fungi Reveal Insights Into the Obligate
www.nature.com/scientificreports OPEN Comparative genomics of chytrid fungi reveal insights into the obligate biotrophic and Received: 4 February 2019 Accepted: 31 May 2019 pathogenic lifestyle of Synchytrium Published: xx xx xxxx endobioticum Bart T. L. H. van de Vossenberg1,2, Sven Warris 1, Hai D. T. Nguyen3, Marga P. E. van Gent-Pelzer1, David L. Joly 4, Henri C. van de Geest1, Peter J. M. Bonants1, Donna S. Smith5, C. André Lévesque 3 & Theo A. J. van der Lee1 Synchytrium endobioticum is an obligate biotrophic soilborne Chytridiomycota (chytrid) species that causes potato wart disease, and represents the most basal lineage among the fungal plant pathogens. We have chosen a functional genomics approach exploiting knowledge acquired from other fungal taxa and compared this to several saprobic and pathogenic chytrid species. Observations linked to obligate biotrophy, genome plasticity and pathogenicity are reported. Essential purine pathway genes were found uniquely absent in S. endobioticum, suggesting that it relies on scavenging guanine from its host for survival. The small gene-dense and intron-rich chytrid genomes were not protected for genome duplications by repeat-induced point mutation. Both pathogenic chytrids Batrachochytrium dendrobatidis and S. endobioticum contained the largest amounts of repeats, and we identifed S. endobioticum specifc candidate efectors that are associated with repeat-rich regions. These candidate efectors share a highly conserved motif, and show isolate specifc duplications. A reduced set of cell wall degrading enzymes, and LysM protein expansions were found in S. endobioticum, which may prevent triggering plant defense responses. Our study underlines the high diversity in chytrids compared to the well-studied Ascomycota and Basidiomycota, refects characteristic biological diferences between the phyla, and shows commonalities in genomic features among pathogenic fungi. -
Olive Mild Mosaic Virus Transmission by Olpidium Virulentus
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by Repositório Científico da Universidade de Évora Eur J Plant Pathol DOI 10.1007/s10658-015-0593-z Olive mild mosaic virus transmission by Olpidium virulentus Carla M. R. Varanda & Susana Santos & Maria Ivone E. Clara & Maria do Rosário Félix Accepted: 7 January 2015 # Koninklijke Nederlandse Planteziektenkundige Vereniging 2015 Abstract The ability of Olpidium virulentus to vector The alphanecroviruses Olive mild mosaic virus Olive latent virus 1 (OLV-1), Olive mild mosaic virus (OMMV) and Olive latent virus 1 (OLV-1) and (OMMV) and Tobacco necrosis virus D (TNV-D) was the betanecrovirus Tobacco necrosis virus D evaluated. Transmission assays involved zoospore ac- (TNV-D) are very common in Portuguese olive quisition of each virus, inoculation onto cabbage plant orchards reaching infection levels of 31 % roots followed by viral detection. Assays revealed that (Varanda et al. 2006) and frequently appearing these viruses are transmitted in the absence of the fun- in mixed infections (Varanda et al. 2010). These gus, but the transmission rates of OMMV are much viruses are very similar and their differentiation higher when OMMV is incubated with O. virulentus is only possible through PCR - based assays zoospores prior to inoculation, while the transmission using specific primers (Varanda et al. 2010)or rates of each OLV-1 and TNV-D do not change when genome sequencing. they are incubated with the fungus. Our data shows that Prior to the discrimination into different species, O. virulentus is an efficient vector of OMMV, greatly TNV was found to be vectored by O.