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      Phytophthora cathayensis sp. nov., a new species pathogenic to Chinese Hickory ( Carya cathayensis) in southeast China

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          Abstract

          Crown decline and mortality associated with collar lesions were observed on Carya cathayensis (Chinese hickory) trees in a plantation in Zhejiang province, China. Examination of active lesions resulted in the isolation of a homothallic, papillate Phytophthora sp. Detailed morphological and physiological studies and phylogenetic analysis, using ITS, beta-tubulin, cytochrome oxidase I, and heat shock protein 90 gene regions, revealed that all isolates belonged to an undescribed species residing in phylogenetic Clade 4, which is described here as Phytophthora cathayensis sp. nov. Inoculation trials were conducted under greenhouse conditions on C. cathayensis and C. illinoensis (pecan) plants to fulfill Koch postulates and hypothesize a possible pathway of the incursion. An existing report of a Phytophthora species with the same ITS sequence was reported on C. illinoensis from the USA in 2009. The difference in susceptibility of the two inoculated Carya species, and the report from the USA, suggest a possible introduction with plant material from the USA to China.

          Citation: Morales-Rodríguez C, Wang Y, Martignoni D, Vannini A (2020).  Phytophthora cathayensis sp. nov., a new species pathogenic to Chinese Hickory ( Carya cathayensis) in southeast China. Fungal Systematics and Evolution 7: 99–111. doi: 10.3114/fuse.2021.07.05

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          MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets.

          We present the latest version of the Molecular Evolutionary Genetics Analysis (Mega) software, which contains many sophisticated methods and tools for phylogenomics and phylomedicine. In this major upgrade, Mega has been optimized for use on 64-bit computing systems for analyzing larger datasets. Researchers can now explore and analyze tens of thousands of sequences in Mega The new version also provides an advanced wizard for building timetrees and includes a new functionality to automatically predict gene duplication events in gene family trees. The 64-bit Mega is made available in two interfaces: graphical and command line. The graphical user interface (GUI) is a native Microsoft Windows application that can also be used on Mac OS X. The command line Mega is available as native applications for Windows, Linux, and Mac OS X. They are intended for use in high-throughput and scripted analysis. Both versions are available from www.megasoftware.net free of charge.
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            MrBayes 3.2: Efficient Bayesian Phylogenetic Inference and Model Choice Across a Large Model Space

            Since its introduction in 2001, MrBayes has grown in popularity as a software package for Bayesian phylogenetic inference using Markov chain Monte Carlo (MCMC) methods. With this note, we announce the release of version 3.2, a major upgrade to the latest official release presented in 2003. The new version provides convergence diagnostics and allows multiple analyses to be run in parallel with convergence progress monitored on the fly. The introduction of new proposals and automatic optimization of tuning parameters has improved convergence for many problems. The new version also sports significantly faster likelihood calculations through streaming single-instruction-multiple-data extensions (SSE) and support of the BEAGLE library, allowing likelihood calculations to be delegated to graphics processing units (GPUs) on compatible hardware. Speedup factors range from around 2 with SSE code to more than 50 with BEAGLE for codon problems. Checkpointing across all models allows long runs to be completed even when an analysis is prematurely terminated. New models include relaxed clocks, dating, model averaging across time-reversible substitution models, and support for hard, negative, and partial (backbone) tree constraints. Inference of species trees from gene trees is supported by full incorporation of the Bayesian estimation of species trees (BEST) algorithms. Marginal model likelihoods for Bayes factor tests can be estimated accurately across the entire model space using the stepping stone method. The new version provides more output options than previously, including samples of ancestral states, site rates, site d N /d S rations, branch rates, and node dates. A wide range of statistics on tree parameters can also be output for visualization in FigTree and compatible software.
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              AMPLIFICATION AND DIRECT SEQUENCING OF FUNGAL RIBOSOMAL RNA GENES FOR PHYLOGENETICS

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                Author and article information

                Journal
                Fungal Syst Evol
                Fungal Syst Evol
                FUSE
                Fungal Systematics and Evolution
                Westerdijk Fungal Biodiversity Institute
                2589-3823
                2589-3831
                7 December 2020
                June 2021
                : 7
                : 99-111
                Affiliations
                [1 ]DIBAF, University of Tuscia, Via S. Camillo de Lellis, Viterbo 01100, Italy
                [2 ]College of Forestry and Biotechnology, Zhejiang Agriculture and Forestry University in Lin’an, China
                Author notes
                *Corresponding author: moralescorreo@ 123456hotmail.com

                Corresponding editor: M. Thines

                Article
                10.3114/fuse.2021.07.05
                8165965
                c5e0ea74-c20b-4a6d-8789-70fee14fde13
                © 2021 Westerdijk Fungal Biodiversity Institute

                Fungal Systematics and Evolution is licensed under a Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International License

                History
                : 23 March 2020
                : 4 December 2020
                Categories
                Articles

                alien,invasive,global trade,new taxon,oomycetes,pecan,systematics
                alien, invasive, global trade, new taxon, oomycetes, pecan, systematics

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