Trichodoridae from Southern Spain, with Description of Trichodorus Giennensis Ll
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Summary Paratrichodorus Minor Is a Highly Polyphagous Plant Pest, Generally Found in Tropical Or Subtropical Soils
CSL Pest Risk Analysis for Paratrichodorus minor copyright CSL, 2008 CSL PEST RISK ANALYSIS FOR Paratrichodorus minor Abstract/ Summary Paratrichodorus minor is a highly polyphagous plant pest, generally found in tropical or subtropical soils. It has entered the UK in growing media associated with palm trees and is most likely to establish on ornamental plants grown under protection. There is a moderate likelihood of the pest establishing outdoors in the UK through the planting of imported plants in gardens or amenity areas. However there is a low likelihood of the nematode spreading from such areas to commercial food crops, to which it presents a small risk of economic impact. P. minor is known to vector the Tobacco rattle virus (TRV), which affects potatoes, possibly strains that are not already present in the UK, but the risk of the nematode entering in association with seed potatoes is low. Overall the risk of P. minor to the UK is rated as low. STAGE 1: PRA INITIATION 1. What is the name of the pest? Paratrichodorus minor (Colbran, 1956) Siddiqi, 1974 Nematode: Trichodoridae Synonyms: Paratrichodorus christiei (Allen, 1957) Siddiqi, 1974 Paratrichodorus (Nanidorus) christiei (Allen, 1957) Siddiqi, 1974 Paratrichodorus (Nanidorus) minor (Colbran, 1956) Siddiqi, 1974 Trichodorus minor Colbran, 1956 Trichodorus christiei Allen, 1957 Nanidorus minor (Colbran, 1956) Siddiqi, 1974 Nanidorus christiei (Allen, 1957) Siddiqi, 1974 Trichodorus obesus Razjivin & Penton, 1975 Paratrichodorus obesus (Razjivin & Penton, 1975) Rodriguez-M. & Bell, 1978. Paratrichodorus (Nanidorus) obesus (Razjivin & Penton, 1975) Rodriguez-M. & Bell, 1978. Common names: English: a stubby-root nematode. References: Decraemer, 1995 In Europe there has been some confusion between P. -
First Report of Stubby Root Nematode, Paratrichodorus Teres (Nematoda: Trichodoridae) from Iran
Australasian Plant Dis. Notes (2014) 9:131 DOI 10.1007/s13314-014-0131-4 First report of stubby root nematode, Paratrichodorus teres (Nematoda: Trichodoridae) from Iran R. Heydari & Z. Tanha Maafi & F. Omati & W. Decraemer Received: 8 October 2013 /Accepted: 20 March 2014 /Published online: 4 April 2014 # Australasian Plant Pathology Society Inc. 2014 Abstract During a survey of plant-parasitic nematodes in fruit Trichodorus, Nanidorus and Paratrichodorus are natural tree nurseries in Iran, a species of the genus Paratrichodorus vectors of the plant Tobraviruses occurring worldwide from the family Trichodoridae was found in the rhizosphere of (Taylor and Brown 1997; Decraemer and Geraert 2006). apricot seedlings in Shahrood, central Iran, then subsequently in Eight species of the Trichodoridae family have so far been Karaj orchards. Morphological and morphometric characters of reported from Iran: Trichodorus orientalis (De Waele and the specimens were in agreement with P. teres.TheD2/D3 Hashim 1983), T. persicus (De Waele and Sturhan 1987), expansion fragment of the large subunit (LSU) of rRNA gene T. gilanensis, T. primitivus, Paratrichodorus porosus, P. of the nematode was also sequenced. P. teres is considered an tunisiensis (Maafi and Decraemer 2002), T. arasbaranensis economically important species in agricultural crop, worldwide. (Zahedi et al. 2009)andP. mi no r (now Nanidorus minor) This is the first report of the occurrence of P. teres in Iran. (Pourjam et al. 2011). Several species were detected in a survey conducted on Keywords Apricot . Fruit tree nursery . Iran . plant-parasitic nematodes in fruit tree nurseries. Among Paratrichodorus teres them, a nematode population belonging to Trichodoridae was observed in the rhizosphere of apricot seedlings in Shahroood, Semnan province, central Iran, that was sub- Trichodorid nematodes are root ectoparasites, usually sequently identified as P. -
The Types of Supplements in the Family Tobrilidae (Nematoda, Enoplia) Alexander V
Russian Journal of Nematology, 2015, 23 (2), 81 – 90 The types of supplements in the family Tobrilidae (Nematoda, Enoplia) Alexander V. Shoshin1, Ekaterina A. Shoshina1 and Julia K. Zograf2, 3 1Zoological Institute, Russian Academy of Sciences, Universitetskaya Naberezhnaya 1, 199034, Saint Petersburg, Russia 2A.V. Zhirmunsky Institute of Marine Biology, Far Eastern Branch of the Russian Academy of Sciences, Paltchevsky Street 17, 690041, Vladivostok, Russia 3Far Eastern Federal University, Sukhanova Street 8, 690090, Vladivostok, Russia e-mail: [email protected] Accepted for publication 11 October 2015 Summary. The structure of supplementary organs and buccal cavity are the main diagnostic features for identification of Tobrilidae species. Four main supplement types can be distinguished among representatives of this family. Type I supplements are typical for Tobrilus, Lamuania and Semitobrilus and are characterised by their small size and slightly protruding external part. There are two variations of the type I supplement structure: amabilis and gracilis. Type II is typical for several Eutobrilus species (E. peregrinator, E. prodigiosus, E. strenuus, E. nothus). These supplements are very similar to the type I supplements but are characterised in having a highly protruding torus with numerous microthorns and a bulbulus situated at the base of the ampoule. Type III is typical for Eutobrilus species from the Tobrilini tribe, i.e., E. graciliformes, E. papilicaudatus and E. differtus, and Mesotobrilus spp. from the Paratrilobini tribe and is characterised by a well-defined cap and a bulbulus situated at the base of the ampoule. Type IV is observed in the majority of Eutobrilus, Paratrilobus, Brevitobrilus and Neotobrilus and is the most complex supplement type with a mobile cap and an apical bulbulus. -
2020.01.27.921304.Full.Pdf
bioRxiv preprint doi: https://doi.org/10.1101/2020.01.27.921304; this version posted January 28, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY 4.0 International license. 1 A novel metabarcoding strategy for studying nematode 2 communities 3 4 Md. Maniruzzaman Sikder1, 2, Mette Vestergård1, Rumakanta Sapkota3, Tina Kyndt4, 5 Mogens Nicolaisen1* 6 7 1Department of Agroecology, Aarhus University, Slagelse, Denmark 8 2Department of Botany, Jahangirnagar University, Savar, Dhaka, Bangladesh 9 3Department of Environmental Science, Aarhus University, Roskilde, Denmark 10 4Department of Biotechnology, Ghent University, Ghent, Belgium 11 12 13 *Corresponding author 14 Email: [email protected] 15 16 Abstract 17 Nematodes are widely abundant soil metazoa and often referred to as indicators of soil health. 18 While recent advances in next-generation sequencing technologies have accelerated 19 research in microbial ecology, the ecology of nematodes remains poorly elucidated, partly due 20 to the lack of reliable and validated sequencing strategies. Objectives of the present study 21 were (i) to compare commonly used primer sets and to identify the most suitable primer set 22 for metabarcoding of nematodes; (ii) to establish and validate a high-throughput sequencing 23 strategy for nematodes using Illumina paired-end sequencing. In this study, we tested four 1 bioRxiv preprint doi: https://doi.org/10.1101/2020.01.27.921304; this version posted January 28, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. -
A Phylogenetic Tree of Nematodes Based on About 1200 Full-Length
Nematology, 2009, Vol. 11(6), 927-950 A phylogenetic tree of nematodes based on about 1200 full-length small subunit ribosomal DNA sequences ∗ Hanny VA N MEGEN 1,SvenVA N D E N ELSEN 1, Martijn HOLTERMAN 1, , Gerrit KARSSEN 2, Paul MOOYMAN 1,TomBONGERS 1, Oleksandr HOLOVACHOV 3, ∗∗ Jaap BAKKER 1 and Johannes HELDER 1, 1 Laboratory of Nematology, Department of Plant Sciences, Wageningen University, Droevendaalsesteeg 1, 6708 PB Wageningen, The Netherlands 2 Plant Protection Service, Nematology Section, Geertjesweg 15, 6706 EA Wageningen, The Netherlands 3 Department of Nematology, University of California at Riverside, Riverside, CA 92521, USA Received: 8 December 2008; revised: 30 April 2009 Accepted for publication: 1 May 2009 Summary – As a result of the scarcity of informative morphological and anatomical characters, nematode systematics have always been volatile. Differences in the appreciation of these characters have resulted in numerous classifications and this greatly confuses scientific communication. An advantage of the use of molecular data is that it allows for an enormous expansion of the number of characters. Here we present a phylogenetic tree based on 1215 small subunit ribosomal DNA sequences (ca 1700 bp each) covering a wide range of nematode taxa. Of the 19 nematode orders mentioned by De Ley et al. (2006) 15 are represented here. Compared with Holterman et al. (2006) the number of taxa analysed has been tripled. This did not result in major changes in the clade subdivision of the phylum, although a decrease in the number of well supported nodes was observed. Especially at the family level and below we observed a considerable congruence between morphology and ribosomal DNA-based nematode systematics and, in case of discrepancies, morphological or anatomical support could be found for the alternative grouping in most instances. -
Transcriptome Profiling of the Root-Knot Nematode Meloidogyne Enterolobii During Parasitism and Identification of Novel Effector Proteins
Ecole Doctorale de Sciences de la Vie et de la Santé Unité de recherche : UMR ISA INRA 1355-UNS-CNRS 7254 Thèse de doctorat Présentée en vue de l’obtention du grade de docteur en Biologie Moléculaire et Cellulaire de L’UNIVERSITE COTE D’AZUR par NGUYEN Chinh Nghia Etude de la régulation du transcriptome de nématodes parasites de plante, les nématodes à galles du genre Meloidogyne Dirigée par Dr. Bruno FAVERY Soutenance le 8 Décembre, 2016 Devant le jury composé de : Pr. Pierre FRENDO Professeur, INRA UNS CNRS Sophia-Antipolis Président Dr. Marc-Henri LEBRUN Directeur de Recherche, INRA AgroParis Tech Grignon Rapporteur Dr. Nemo PEETERS Directeur de Recherche, CNRS-INRA Castanet Tolosan Rapporteur Dr. Stéphane JOUANNIC Chargé de Recherche, IRD Montpellier Examinateur Dr. Bruno FAVERY Directeur de Recherche, UNS CNRS Sophia-Antipolis Directeur de thèse Doctoral School of Life and Health Sciences Research Unity: UMR ISA INRA 1355-UNS-CNRS 7254 PhD thesis Presented and defensed to obtain Doctor degree in Molecular and Cellular Biology from COTE D’AZUR UNIVERITY by NGUYEN Chinh Nghia Comprehensive Transcriptome Profiling of Root-knot Nematodes during Plant Infection and Characterisation of Species Specific Trait PhD directed by Dr Bruno FAVERY Defense on December 8th 2016 Jury composition : Pr. Pierre FRENDO Professeur, INRA UNS CNRS Sophia-Antipolis President Dr. Marc-Henri LEBRUN Directeur de Recherche, INRA AgroParis Tech Grignon Reporter Dr. Nemo PEETERS Directeur de Recherche, CNRS-INRA Castanet Tolosan Reporter Dr. Stéphane JOUANNIC Chargé de Recherche, IRD Montpellier Examinator Dr. Bruno FAVERY Directeur de Recherche, UNS CNRS Sophia-Antipolis PhD Director Résumé Les nématodes à galles du genre Meloidogyne spp. -
Phylogenetic and Population Genetic Studies on Some Insect and Plant Associated Nematodes
PHYLOGENETIC AND POPULATION GENETIC STUDIES ON SOME INSECT AND PLANT ASSOCIATED NEMATODES DISSERTATION Presented in Partial Fulfillment of the Requirements for the Degree Doctor of Philosophy in the Graduate School of The Ohio State University By Amr T. M. Saeb, M.S. * * * * * The Ohio State University 2006 Dissertation Committee: Professor Parwinder S. Grewal, Adviser Professor Sally A. Miller Professor Sophien Kamoun Professor Michael A. Ellis Approved by Adviser Plant Pathology Graduate Program Abstract: Throughout the evolutionary time, nine families of nematodes have been found to have close associations with insects. These nematodes either have a passive relationship with their insect hosts and use it as a vector to reach their primary hosts or they attack and invade their insect partners then kill, sterilize or alter their development. In this work I used the internal transcribed spacer 1 of ribosomal DNA (ITS1-rDNA) and the mitochondrial genes cytochrome oxidase subunit I (cox1) and NADH dehydrogenase subunit 4 (nd4) genes to investigate genetic diversity and phylogeny of six species of the entomopathogenic nematode Heterorhabditis. Generally, cox1 sequences showed higher levels of genetic variation, larger number of phylogenetically informative characters, more variable sites and more reliable parsimony trees compared to ITS1-rDNA and nd4. The ITS1-rDNA phylogenetic trees suggested the division of the unknown isolates into two major phylogenetic groups: the HP88 group and the Oswego group. All cox1 based phylogenetic trees agreed for the division of unknown isolates into three phylogenetic groups: KMD10 and GPS5 and the HP88 group containing the remaining 11 isolates. KMD10, GPS5 represent potentially new taxa. The cox1 analysis also suggested that HP88 is divided into two subgroups: the GPS11 group and the Oswego subgroup. -
Nematodes in Aquatic Environments Adaptations and Survival Strategies
Biodiversity Journal , 2012, 3 (1): 13-40 Nematodes in aquatic environments: adaptations and survival strategies Qudsia Tahseen Nematode Research Laboratory, Department of Zoology, Aligarh Muslim University, Aligarh-202002, India; e-mail: [email protected]. ABSTRACT Nematodes are found in all substrata and sediment types with fairly large number of species that are of considerable ecological importance. Despite their simple body organization, they are the most complex forms with many metabolic and developmental processes comparable to higher taxa. Phylum Nematoda represents a diverse array of taxa present in subterranean environment. It is due to the formative constraints to which these individuals are exposed in the interstitial system of medium and coarse sediments that they show pertinent characteristic features to survive successfully in aquatic environments. They represent great degree of mor - phological adaptations including those associated with cuticle, sensilla, pseudocoelomic in - clusions, stoma, pharynx and tail. Their life cycles as well as development seem to be entrained to the environment type. Besides exhibiting feeding adaptations according to the substrata and sediment type and the kind of food available, the aquatic nematodes tend to wi - thstand various stresses by undergoing cryobiosis, osmobiosis, anoxybiosis as well as thio - biosis involving sulphide detoxification mechanism. KEY WORDS Adaptations; fresh water nematodes; marine nematodes; morphology; ecology; development. Received 24.01.2012; accepted 23.02.2012; -
Downloading the Zinc-Finger Motif from the Gag Protein Must Have Assembly Files and Executing the Ipython Notebook Cells Occurred Independently Multiple Times
The evolution of tyrosine-recombinase elements in Nematoda Amir Szitenberg1, Georgios Koutsovoulos2, Mark L Blaxter2 and David H Lunt1 1Evolutionary Biology Group, School of Biological, Biomedical & Environmental Sciences, University of Hull, Hull, HU6 7RX, UK 2Institute of Evolutionary Biology, The University of Edinburgh, EH9 3JT, UK [email protected] Abstract phylogenetically-based classification scheme. Nematode Transposable elements can be categorised into DNA and model species do not represent the diversity of RNA elements based on their mechanism of transposable elements in the phylum. transposition. Tyrosine recombinase elements (YREs) are relatively rare and poorly understood, despite Keywords: Nematoda; DIRS; PAT; transposable sharing characteristics with both DNA and RNA elements; phylogenetic classification; homoplasy; elements. Previously, the Nematoda have been reported to have a substantially different diversity of YREs compared to other animal phyla: the Dirs1-like YRE retrotransposon was encountered in most animal phyla Introduction but not in Nematoda, and a unique Pat1-like YRE retrotransposon has only been recorded from Nematoda. Transposable elements We explored the diversity of YREs in Nematoda by Transposable elements (TE) are mobile genetic elements sampling broadly across the phylum and including 34 capable of propagating within a genome and potentially genomes representing the three classes within transferring horizontally between organisms Nematoda. We developed a method to isolate and (Nakayashiki 2011). They typically constitute significant classify YREs based on both feature organization and proportions of bilaterian genomes, comprising 45% of phylogenetic relationships in an open and reproducible the human genome (Lander et al. 2001), 22% of the workflow. We also ensured that our phylogenetic Drosophila melanogaster genome (Kapitonov and Jurka approach to YRE classification identified truncated and 2003) and 12% of the Caenorhabditis elegans genome degenerate elements, informatively increasing the (Bessereau 2006). -
Above-Below Surface Interactions Mediate Effects of Seagrass Disturbance on Meiobenthic Diversity, Nematode and Polychaete Trophic Structure
ARTICLE https://doi.org/10.1038/s42003-019-0610-4 OPEN Above-below surface interactions mediate effects of seagrass disturbance on meiobenthic diversity, nematode and polychaete trophic structure Francisco J.A. Nascimento 1*, Martin Dahl1, Diana Deyanova1, Liberatus D. Lyimo2, Holly M. Bik3, 1234567890():,; Taruna Schuelke3, Tiago José Pereira3, Mats Björk1, Simon Creer 4 & Martin Gullström1 Ecological interactions between aquatic plants and sediment communities can shape the structure and function of natural systems. Currently, we do not fully understand how sea- grass habitat degradation impacts the biodiversity of belowground sediment communities. Here, we evaluated indirect effects of disturbance of seagrass meadows on meiobenthic community composition, with a five-month in situ experiment in a tropical seagrass meadow. Disturbance was created by reducing light availability (two levels of shading), and by mimicking grazing events (two levels) to assess impacts on meiobenthic diversity using high- throughput sequencing of 18S rRNA amplicons. Both shading and simulated grazing had an effect on meiobenthic community structure, mediated by seagrass-associated biotic drivers and sediment abiotic variables. Additionally, shading substantially altered the trophic struc- ture of the nematode community. Our findings show that degradation of seagrass meadows can alter benthic community structure in coastal areas with potential impacts to ecosystem functions mediated by meiobenthos in marine sediments. 1 Department of Ecology, Environment and Plant Sciences, Stockholm University, Stockholm, Sweden. 2 School of Biological Sciences, University of Dodoma, Box 338, Dodoma, Tanzania. 3 Department of Nematology, University of California—Riverside, 900 University Avenue, Riverside, CA 92521, USA. 4 Molecular Ecology and Fisheries Genetics Laboratory, School of Biological Sciences, Bangor University, Bangor LL57 2UW, UK. -
Paratrichodorus Divergens Sp. N., a New Potential Virus Vector of 3 Tobacco Rattle Virus and Additional Observations on P
1 2 Paratrichodorus divergens sp. n., a new potential virus vector of 3 tobacco rattle virus and additional observations on P. hispanus Roca & 4 Arias, 1986 from Portugal (Nematoda: Trichodoridae) 5 Maria Teresa Martins de ALMEIDA1,*, Maria Susana Newton de Almeida SANTOS2, 6 Isabel Maria de Oliveira ABRANTES2 and Wilfrida DECRAEMER3,4 7 8 1Departamento de Biologia, Universidade do Minho, Gualtar, 4710-057 Braga, 9 Portugal 10 2Instituto do Ambiente e Vida, Departamento de Zoologia, Universidade de Coimbra, 11 3004-517 Coimbra, Portugal 12 3Koninklijk Belgisch Institut voor Natuurwetenschappen, Vautierstraat 29, 1000 13 Brussels, Belgium, 14 4University of Gent, Department of Biology, Ledeganckstraat 35, 9000 Gent, Belgium 15 16 17 18 19 20 21 22 23 24 *Corresponding author, e-mail: [email protected] 1 1 Summary - During a survey of trichodorids in Continental Portugal, a new trichodorid 2 species, Paratrichodorus divergens sp. n., was found. It is described and illustrated with 3 specimens from the type locality and additional morphometric data and photographs of 4 specimens obtained from soil samples collected in seven other localities are also 5 included. The species is characterised in female by distinct drop-like to triangular 6 oblique vaginal sclerotisations diverging outwards, sperm cells usually distributed all 7 through the uteri, and in male by thin, almost straight, striated spicules, the two 8 posteriormost pre-cloacal supplements relatively close to one another and usually 9 opposite the distal third of retracted spicules, a slightly bilobed cloacal lip and sperm 10 cells with sausage-shaped nucleus. Paratrichodorus divergens sp. n. most closely 11 resembles P. -
E PLANTAS: Fundamentos E Importância
NEMATOLOGIA DE PLANTAS: fundamentos e importância ii NEMATOLOGIA DE PLANTAS: fundamentos e importância Organizado por Luiz Carlos C. Barbosa Ferraz Docente aposentado da Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, Brasil Derek John F inlay Brown Pesquisador aposentado do Scottish Crop Research Institute (SCRI), atual James Hutton Institute, Dundee, Escócia uma publicação da iii Sociedade Brasileira de Nematologia / SBN Sede atual: Universidade Estadual do Norte Fluminense Darcy Ribeiro / CCTA. Av. Alberto Lamego, 2000 – Parque California 28013-602 – Campos dos Goytacazes (RJ) – Brasil E-mail: [email protected] Telefone: (22) 3012-4821 Site: http://nematologia.com.br © Sociedade Brasileira de Nematologia 2016. Todos os direitos reservados. É vedada a reprodução desta publicação, ou de suas partes, na forma impressa ou por outros meios, sem prévia autorização do representante legal da SBN. A sua utilização poderá vir a ocorrer estritamente para fins didáticos, em caráter eventual e com a citação da fonte. Ficha catalográfica elaborada por Marilene de Sena e Silva - CRB/AM Nº 561 F368 n FERRAZ, L.C.C.B.; BROWN, D.J.F. Nematologia de plantas: fundamentos e importância. L.C.C.B. Ferraz e D.J.F. Brown (Orgs.). Manaus: NORMA EDITORA, 2016. 251 p. Il. ISBN: 978-85-99031-26-1 2. Nematologia. 2. Doenças de plantas. 3. Vermes. I. Ferraz & Brown. II. Título. CDD: 632 iv Para Maria Teresa, Alex e Thais, que souberam entender a minha irresistível atração pela Nematologia e aceitar as muitas horas de plena dedicação a ela. In memoriam Alexandre M. Cintra Goulart, Anário Jaehn, Dimitry Tihohod, José Julio da Ponte, Luiz G.