Phytophthora morindae, a new species causing black flag disease Ion noni (Morinda citrifolia L) i... more Phytophthora morindae, a new species causing black flag disease Ion noni (Morinda citrifolia L) in Hawaii S(()t C. Nelson Unive:sitv of Hauriu at i1'anoa, College 0/ tropical Agriculture and Human RPSOIL ices, l
Colour illustrations. Collection site in Pakistan, banana field; Proliferating sporangium in wate... more Colour illustrations. Collection site in Pakistan, banana field; Proliferating sporangium in water culture, swimming zoospores in a vesicle; Sporangium with 2 papilla; Oospore with monoclinous antheridium. Scale bars = 10 µm. Phytopythium sindhum
Persoonia - Molecular Phylogeny and Evolution of Fungi, 2015
The genus Phytopythium (Peronosporales) has been described, but a complete circumscription has no... more The genus Phytopythium (Peronosporales) has been described, but a complete circumscription has not yet been presented. In the present paper we provide molecular-based evidence that members of Pythium clade K as described by Lévesque & de Cock (2004) belong to Phytopythium. Maximum likelihood and Bayesian phylogenetic analysis of the nuclear ribosomal DNA (LSU and SSU) and mitochondrial DNA cytochrome oxidase subunit 1 (COI) as well as statistical analyses of pairwise distances strongly support the status of Phytopythium as a separate phylogenetic entity. Phytopythium is morphologically intermediate between the genera Phytophthora and Pythium. It is unique in having papillate, internally proliferating sporangia and cylindrical or lobate antheridia. The formal transfer of clade K species to Phytopythium and a comparison with morphologically similar species of the genera Pythium and Phytophthora is presented. A new species is described, Phytopythium mirpurense.
Pod rot diseases historically caused significant losses in peanut production in North Carolina. A... more Pod rot diseases historically caused significant losses in peanut production in North Carolina. Advances in the understanding of pod rot diseases and changes in cultural practices minimized losses in the years since 1979. By the early 1990s, however, some peanut growers began to observe pod rot that apparently was not associated with infection by common soilborne pathogens. Incidence of pod rot also was high in research plots used to study conservation tillage methods. Selected farms were surveyed in the fall of 1994, 1995, and 1996 to identify the fungi associated with pod rot symptoms in North Carolina. Over the three years of the study, more than 6,000 symptomatic pods from 125 peanut fields were assayed for Rhizoctonia spp., Pythium spp., Cylindrocladium parasiticum, Sclerotium rolfsii, and Sclerotinia minor. All five pathogens were isolated during the field survey, with Pythium spp. and Rhizoctonia spp. isolated most frequently. Rhizoctonia spp. were the dominant pathogen in th...
With the increased attention given to the genus Phytophthora in the last decade in response to th... more With the increased attention given to the genus Phytophthora in the last decade in response to the ecological and economic impact of several invasive species (such as P. ramorum, P. kernoviae, and P. alni), there has been a significant increase in the number of described species. In part, this is due to the extensive surveys in historically underexplored ecosystems (e.g., forest and stream ecosystems) undertaken to determine the spread of invasive species and the involvement of Phytophthora species in forest decline worldwide (e.g., oak decline). The past decade has seen an approximate doubling in the number of described species within the genus Phytophthora, and the number will likely continue to increase as more surveys are completed and greater attention is devoted to clarifying phylogenetic relationships and delineating boundaries in species complexes. The development of molecular resources, the availability of credible sequence databases to simplify identification of new specie...
Characterization and Pathogenicity ofPythiumSpecies Isolated from Turfgrass with Symptoms of Root and Crown Rot in North Carolina
Phytopathology, 1994
Page 1. Etiology Characterization and Pathogenicity of Pythium Species Isolated from Turfgrass wi... more Page 1. Etiology Characterization and Pathogenicity of Pythium Species Isolated from Turfgrass with Symptoms of Root and Crown Rot in North Carolina ZG Abad, HD Shew, and LT Lucas Department of Plant Pathology, North Carolina State University, Raleigh 27695-7616. ...
Phytophthora ramorum, the causal agent of sudden oak death and ramorum blight, is known to exist ... more Phytophthora ramorum, the causal agent of sudden oak death and ramorum blight, is known to exist as three distinct clonal lineages which can only be distinguished by performing molecular marker-based analyses. However, in the recent literature there exists no consensus on naming of these lineages. Here we propose a system for naming clonal lineages of P. ramorum based on a consensus established by the P. ramorum research community. Clonal lineages are named with a two letter identifier for the continent on which they were first found (e.g., NA = North America; EU = Europe) followed by a number indicating order of appearance. Clonal lineages known to date are designated NA1 (mating type: A2; distribution: North America; environment: forest and nurseries), NA2 (A2; North America; nurseries), and EU1 (predominantly A1, rarely A2; Europe and North America; nurseries and gardens). It is expected that novel lineages or new variants within the existing three clonal lineages could in time e...
A homothallic semipapillate slow growing Phytophthora species associated with root rot of strawbe... more A homothallic semipapillate slow growing Phytophthora species associated with root rot of strawberries from greenhouse-grown plants in North Carolina, USA, root rot of roses in the Netherlands, and root rot of raspberry in Knoxfield, Australia, was identified. The main character of this organism is the production of paragynous antheridia with broad attachment to the oogonial wall. The morphology of the pathogen does not match that of any of the more than 85 described Phytophthora species. Phylogenetic analysis based on sequences of the internal transcribed spacer rDNA region (ITS1-5.8S-ITS2) of this taxon and those from other Phytophthora species from GenBank supports the conclusion that this organism is an unreported new species. In the phylogenetic tree with other reported Phytophthora species at the GenBank, the new species is more closely related to others in ITS clade 2 comprising semipapillate taxa including P. botryosa, P. citrophthora, P. colocasiae, P. meadii, P. citricola, P. inflata, P.tropicalis, P. capsici, Phytophthora sp. 'glovera' and P. multivesiculata. The most closely related species is P. multivesiculata isolated from Cymbidium orchid in the Netherlands. In this paper we describe the morphological characteristics and the phylogenetic relationships that support the description of this taxon as a new species Phytophthora bisheria sp. nov.
Phytophthora is one of the most important genera of plant pathogens with many members causing hig... more Phytophthora is one of the most important genera of plant pathogens with many members causing high economic losses world-wide. To build robust molecular identification systems, it is very important to have information from well-authenticated specimens and in preference the ex-type specimens. The reference genomes of well-authenticated specimens form a critical foundation for genetics, biological research, and diagnostic applications. In this study, we describe four draft Phytophthora genomes resources for the Ex-type of P. citricola BL34 (P0716 WPC) (118 contigs for 50 Mb), and well-authenticated specimens of P. syringae BL57G (P10330 WPC) (591 contigs for 75 Mb), P. hibernalis BL41G (P3822 WPC) (404 contigs for 84 Mb), and P. nicotianae BL162 (P6303 WPC) (3984 contigs for 108 Mb) generated with MinION long-read High-Throughput Sequencing (HTS) technology (Oxford Nanopore Technologies, ONT). Using the quality reads we assembled high coverage genomes of P. citricola with 291X coverag...
1. Transfer isolates into X-plate with agar (Z; such Z1, Z2, Z3, or Z4); grow for 3-7 days (18-24... more 1. Transfer isolates into X-plate with agar (Z; such Z1, Z2, Z3, or Z4); grow for 3-7 days (18-24°C). 2. Transfer a few plugs from the border of the colony into the neighboring cells (Y). Add liquid (such as Y1, Y2...) only to the level of the plugs; do not overflow. Keep plates under continuous fluorescent light (24-48 hrs) for sporangia formation (oospores of homothallic species might be produced using this method). 3. After sporangia are produced, to induce zoospore release (1) incubate the plates at 5°C for 1020min, then bring back to room temperature; or (2) keep a bottle of DD H2O at 5°C, and place a couple drops of the cold water on the slides you use to observe sporangia. Asexual phase: sporangia, sporangiophores, hyphal swellings, and chlamydospores
Phytophthora ramorum, P. kernoviae, and P. melonis are each species of current regulatory concern... more Phytophthora ramorum, P. kernoviae, and P. melonis are each species of current regulatory concern in the United States, the United Kingdom, and other areas of the world. Ex-type material are cultures and duplicates of the type that was used to describe each species and that are deposited in additional culture collections. Using these type specimens as references is essential to designing correct molecular identification and diagnostic systems. Here, we report a whole genome sequence for the Ex-type material of P. ramorum, P. kernoviae, and P. melonis generated using high-throughput sequencing via the MinION third generation platform from Oxford Nanopore Technology. We assembled the quality filtered reads into contigs for each species. We assembled the continuous contigs of P. ramorum, P. kernoviae, and P. melonis (1,322, 545, and 2,091 contigs, respectively). The ab initio prediction of genes from these species reveals that there are 16,838, 12,793, and 34,580 genes in P. ramorum, P...
Fungi in the genus Monilinia are known to cause devastating brown rot disease of stone and pome f... more Fungi in the genus Monilinia are known to cause devastating brown rot disease of stone and pome fruits. Here, we report the draft genome assemblies of four important phytopathogenic species: Monilinia fructicola, Monilinia fructigena, Monilinia polystroma, and Monilinia laxa. The draft genome assemblies were 39 Mb (M. fructigena), 42 Mb (M. laxa), 43 Mb (M. fructicola), and 45 Mb (M. polystroma) with as few as 550 contigs (M. laxa). These are the first draft genome resources publicly available for M. laxa, M. fructigena, and M. polystroma.
The online community resource Phytophthora database (PD) was developed to support accurate and ra... more The online community resource Phytophthora database (PD) was developed to support accurate and rapid identification of Phytophthora and to help characterize and catalog the diversity and evolutionary relationships within the genus. Since its release in 2008, the sequence database has grown to cover 1 to 12 loci for ≈2,600 isolates (representing 138 described and provisional species). Sequences of multiple mitochondrial loci were added to complement nuclear loci-based phylogenetic analyses and diagnostic tool development. Key characteristics of most newly described and provisional species have been summarized. Other additions to improve the PD functionality include: (i) geographic information system tools that enable users to visualize the geographic origins of chosen isolates on a global-scale map, (ii) a tool for comparing genetic similarity between isolates via microsatellite markers to support population genetic studies, (iii) a comprehensive review of molecular diagnostics tools...
Phytophthora, with 203 species, is a genus of high importance in agriculture worldwide. Here we p... more Phytophthora, with 203 species, is a genus of high importance in agriculture worldwide. Here we present the online resource "IDphy" (Link) developed to facilitate the correct identification of species of Phytophthora using the type specimens from the original descriptions wherever possible. IDphy emphasizes species of high economic impact and regulatory concern for the United States. IDphy presents an interactive Lucid key and a tabular key for 161 culturable species described as of May 2018, including 141 ex-types and 20 well-authenticated specimens. IDphy contains SOPs for morphological and molecular characterization, as well as a glossary, image gallery, and numerous links. Each of the 161 factsheets includes access to nomenclature, morphological and molecular features, including sequences of ITS rDNA, COI (barcoding genes), YPT1, β-tub, EF1α, L10, HSP90 and other genes. IDphy contains an innovative in silico BLAST and phylogenetic sequence analysis using NCBI. The IDph...
A non-papillate, heterothallic Phytophthora species first isolated in 2001 and subsequently from ... more A non-papillate, heterothallic Phytophthora species first isolated in 2001 and subsequently from symptomatic roots, crowns and stems of 33 plant species in 25 unrelated botanical families from 13 countries is formally described here as a new species. Symptoms on various hosts included crown and stem rot, chlorosis, wilting, leaf blight, cankers and gumming. This species was isolated from Australia, Hungary, Israel, Italy, Japan, the Netherlands, Norway, South Africa, Spain, Taiwan, Turkey, the United Kingdom and United States in association with shrubs and herbaceous ornamentals grown mainly in greenhouses. The most prevalent hosts are English ivy (Hedera helix) and Cistus (Cistus salvifolius). The association of the species with acorn banksia (Banksia prionotes) plants in natural ecosystems in Australia, in affected vineyards (Vitis vinifera) in South Africa and almond (Prunus dulcis) trees in Spain and Turkey in addition to infection of shrubs and herbaceous ornamentals in a broad...
A non-papillate, heterothallic Phytophthora species first isolated in 2001 and subsequently from ... more A non-papillate, heterothallic Phytophthora species first isolated in 2001 and subsequently from symptomatic roots, crowns and stems of 33 plant species in 25 unrelated botanical families from 13 countries is formally described here as a new species. Symptoms on various hosts included crown and stem rot, chlorosis, wilting, leaf blight, cankers and gumming. This species was isolated from Australia, Hungary, Israel, Italy, Japan, the Netherlands, Norway, South Africa, Spain, Taiwan, Turkey, the United Kingdom and United States in association with shrubs and herbaceous ornamentals grown mainly in greenhouses. The most prevalent hosts are English ivy (Hedera helix) and Cistus (Cistus salvifolius). The association of the species with acorn banksia (Banksia prionotes) plants in natural ecosystems in Australia, in affected vineyards (Vitis vinifera) in South Africa and almond (Prunus dulcis) trees in Spain and Turkey in addition to infection of shrubs and herbaceous ornamentals in a broad...
A non-papillate, heterothallic Phytophthora species first isolated in 2001 and subsequently from ... more A non-papillate, heterothallic Phytophthora species first isolated in 2001 and subsequently from symptomatic roots, crowns and stems of 33 plant species in 25 unrelated botanical families from 13 countries is formally described here as a new species. Symptoms on various hosts included crown and stem rot, chlorosis, wilting, leaf blight, cankers and gumming. This species was isolated from Australia,
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