Plant Parasitic and Virus Vector Nematodes Associated
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Phylogeography of the Soil-Borne Vector Nematode
Phylogeography of the soil-borne vector nematode Xiphinema index highly suggests Eastern origin and dissemination with domesticated grapevine van Chung Nguyen, Laure Villate, Carlos Gutierrez-Gutierrez, Pablo Castillo, Cyril van Ghelder, Olivier Plantard, Daniel Esmenjaud To cite this version: van Chung Nguyen, Laure Villate, Carlos Gutierrez-Gutierrez, Pablo Castillo, Cyril van Ghelder, et al.. Phylogeography of the soil-borne vector nematode Xiphinema index highly suggests Eastern origin and dissemination with domesticated grapevine. Scientific Reports, Nature Publishing Group, 2019, 9 (1), pp.1-11. 10.1038/s41598-019-43812-4. hal-02629151 HAL Id: hal-02629151 https://hal.inrae.fr/hal-02629151 Submitted on 27 May 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 www.nature.com/scientificreports OPEN Phylogeography of the soil-borne vector nematode Xiphinema index highly suggests Eastern origin and Received: 27 June 2018 Accepted: 27 April 2019 dissemination with domesticated Published: xx xx xxxx grapevine Van Chung Nguyen1,6, Laure Villate2, Carlos Gutierrez-Gutierrez 3, Pablo Castillo 4, Cyril Van Ghelder1, Olivier Plantard5 & Daniel Esmenjaud1 The soil-borne nematode Xiphinema index is closely linked to its main host, the grapevine, and presents a major threat to vineyards worldwide due to its ability to transmit Grapevine fanleaf virus (GFLV). -
Phylogenetic Analysis of Nematodes of the Genus Pratylenchus Using Nuclear 26S Rdna
University of Nebraska - Lincoln DigitalCommons@University of Nebraska - Lincoln Faculty Publications from the Harold W. Manter Laboratory of Parasitology Parasitology, Harold W. Manter Laboratory of February 1997 Phylogenetic Analysis of Nematodes of the Genus Pratylenchus Using Nuclear 26S rDNA Luma Al-Banna University of Jordan, [email protected] Valerie M. Williamson University of California, Davis, [email protected] Scott Lyell Gardner University of Nebraska - Lincoln, [email protected] Follow this and additional works at: https://digitalcommons.unl.edu/parasitologyfacpubs Part of the Parasitology Commons Al-Banna, Luma; Williamson, Valerie M.; and Gardner, Scott Lyell, "Phylogenetic Analysis of Nematodes of the Genus Pratylenchus Using Nuclear 26S rDNA" (1997). Faculty Publications from the Harold W. Manter Laboratory of Parasitology. 52. https://digitalcommons.unl.edu/parasitologyfacpubs/52 This Article is brought to you for free and open access by the Parasitology, Harold W. Manter Laboratory of at DigitalCommons@University of Nebraska - Lincoln. It has been accepted for inclusion in Faculty Publications from the Harold W. Manter Laboratory of Parasitology by an authorized administrator of DigitalCommons@University of Nebraska - Lincoln. Published in Molecular Phylogenetics and Evolution (ISSN: 1055-7903), vol. 7, no. 1 (February 1997): 94-102. Article no. FY960381. Copyright 1997, Academic Press. Used by permission. Phylogenetic Analysis of Nematodes of the Genus Pratylenchus Using Nuclear 26S rDNA Luma Al-Banna*, Valerie Williamson*, and Scott Lyell Gardner1 *Department of Nematology, University of California at Davis, Davis, California 95676-8668 1H. W. Manter Laboratory, Division of Parasitology, University of Nebraska State Museum, W-529 Nebraska Hall, University of Nebraska-Lincoln, Lincoln, NE 68588-0514; [email protected] Fax: (402) 472-8949. -
Pratylenchus
Pratylenchus Taxonomy Class Secernentea Order Tylenchida Superfamily Tylenchoidea Family Pratylenchidae Genus Pratylenchus The genus name is derived from the words pratum (Latin= meadow), tylos (Greek= knob) and enchos ( Greek=spear). Originally described as Tylenchus pratensis by De Man in 1880 from a meadow in England. Pratylenchus scribneri was reported from potato in Tennessee in 1889. Root-lesion nematodes of the genus Pratylenchus are recognised worldwide as major constraints of important economic crops, including banana, cereals, coffee, corn, legumes, peanut, potato and many fruits. Their economic importance in agriculture is due to their wide host range and their distribution in every terrestrial environment on the planet (Castillo and Vovlas, 2007). Plant‐parasitic nematodes of the genus Pratylenchus are among the top three most significant nematode pests of crop and horticultural plants worldwide. There are more than 70 described species, most are polyphagous with a wide range of host plants. Because they do not form obvious feeding patterns characteristic of sedentary endoparasites (e.g. galls or cysts), and all worm‐like stages are mobile and can enter and leave host roots, it is more difficult to recognise their presence and the damage they cause. Morphology There are more than 70 described species, fewer than half of them are known to have males. Morphological identification of Pratylenchus species is difficult, requiring considerable subjective evaluation of characters and overlapping morphomertrics. Nematodes in this genus are 0.4-0.5 mm long (under 0.8 mm). No sexual dimorphism in the anterior part of the body. Deirids absent. Lip area low, flattened anteriorly, not offset, or only weakly offset, from body contour. -
Detection of Multiple Variants of Grapevine
Detection of Multiple Variants of Grapevine Fanleaf Virus in Single Xiphinema index Nematodes Shahinez Garcia, Jean-Michel Hily, Veronique Komar, Claude Gertz, Gerard Demangeat, Olivier Lemaire, Emmanuelle Vigne To cite this version: Shahinez Garcia, Jean-Michel Hily, Veronique Komar, Claude Gertz, Gerard Demangeat, et al.. Detec- tion of Multiple Variants of Grapevine Fanleaf Virus in Single Xiphinema index Nematodes. Viruses, MDPI, 2019, 11 (12), pp.1139. 10.3390/v11121139. hal-03017540 HAL Id: hal-03017540 https://hal.archives-ouvertes.fr/hal-03017540 Submitted on 20 Nov 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. viruses Article Detection of Multiple Variants of Grapevine Fanleaf Virus in Single Xiphinema index Nematodes 1, 1,2, 1 1 Shahinez Garcia y, Jean-Michel Hily y ,Véronique Komar , Claude Gertz , Gérard Demangeat 1, Olivier Lemaire 1 and Emmanuelle Vigne 1,* 1 Unité Mixte de Recherche (UMR) Santé de la Vigne et Qualité du Vin, Institut National de la Recherche Agronomique (INRA)-Université de Strasbourg, BP 20507, 68021 Colmar Cedex, France; [email protected] (S.G.); [email protected] (J.-M.H.); [email protected] (V.K.); [email protected] (C.G.); [email protected] (G.D.); [email protected] (O.L.) 2 Institut Français de la Vigne et du Vin (IFV), 30240 Le Grau-Du-Roi, France * Correspondence: [email protected]; Tel.: +33-389-224-955 These authors contributed equally to the work. -
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. -
Genus Pratylenchus Filipjev: Multientry and Monoentry Keys and Diagnostic Relationships (Nematoda: Tylenchida: Pratylenchidae)
© Zoological Institute, St.Petersburg, 2002 Genus Pratylenchus Filipjev: multientry and monoentry keys and diagnostic relationships (Nematoda: Tylenchida: Pratylenchidae) A.Y. Ryss Ryss, A.Y. 2002. Genus Pratylenchus Filipjev: multientry and monoentry keys and diag- nostic relationships (Nematoda: Tylenchida: Pratylenchidae). Zoosystematica Rossica, 10(2), 2001: 241-255. Tabular (multientry) key to Pratylenchus is presented, and functioning of the computer- ized multientry image-operating key developed on the basis of the stepwise computer diagnostic system BIKEY-PICKEY is described. Monoentry key to Pratylenchus is given, and diagnostic relationships are analysed with the routine taxonomic methods as well as with the use of BIKEY diagnostic system and by the cluster tree analysis using STATISTICA program package. The synonymy Pratylenchus scribneri Steiner in Sherbakoff & Stanley, 1943 = P. jordanensis Hashim, 1983, syn. n. is established. Con- clusion on the transition from amphimixis to parthenogenesis as one of the leading evolu- tionary factors for Pratylenchus is drawn. A.Y. Ryss, Zoological Institute, Russian Academy of Sciences, Universitetskaya nab. 1, St.Petersburg 199034, Russia. Identification of nematode species is difficult diagnostic system, and by the cluster tree analy- because of relative poverty and significant sis using STATISTICA program package intraspecific variability of diagnostic characters. (STATISTICA, 1995). The genus Pratylenchus Filipjev is an example of a group with large number of species (49 valid Material and the basic information sources species, more than 100 original descriptions) and complicated diagnostics. The genus has a world- The collections of the following institutions wide distribution and economic importance as were used in research: Zoological Institute, Rus- its species are the dangerous parasites of agri- sian Academy of Sciences; Institute for Nema- cultural crops. -
Molecular Characterization of the Pratylenchus Vulnus Populations on Cereals in Turkey
JOURNAL OF NEMATOLOGY Article | DOI: 10.21307/jofnem-2020-084 e2020-84 | Vol. 52 Molecular characterization of the Pratylenchus vulnus populations on cereals in Turkey Mehmet Sait Karaca1, Elif Yavuzaslanoglu2,*, Gul Imriz3 and Ozlem Ates Sonmezoglu4,* Abstract 1Department of Plant Protection, Pratylenchus vulnus (walnut root lesion nematode) is one of the most Ministry of Agriculture and Forestry, damaging root lesion nematode species worldwide. In this study, 17 International Bahri Dagdas populations of P. v u l n u s obtained from wheat and barley cultivated Agricultural Research Institute, fields in 2016 to 2017 in Turkey (Karaman and Konya provinces) Konya, Turkey. were identified using real-time PCR and melting curve analysis. Samples provided a single peak at 87.3˚C with real-time PCR. D2 2Department of Plant and Animal to D3 expansion segments of the 28S rRNA of one population from Production, Vocational School, Cihanbeyli district in Konya province was sequenced and recorded Karamanoglu Mehmetbey in GenBank (Accession number: MT320536.1). Alignments of the University, Karaman, Turkey. population was identical 98.66% to the populations of P. vulnus 3Department of Plant Protection, available in GenBank (Accs. nos: LT985479.1 and LT965052.1) and Dicle University, Faculty of 98.65% (Accs. nos: KY424305.1 and KY424304.1). Agriculture, Diyarbakir, Turkey. 4Department of Bioengineering, Keywords Faculty of Engineering, Barley, D2-D3 expansion region of 28S rRNA, Detection, Real-time Karamanoglu Mehmetbey PCR, Sequencing, Walnut root lesion nematode, Wheat. University, Karaman, Turkey. *E-mails: [email protected]. tr; [email protected] This paper was edited by Zafar Ahmad Handoo. Received for publication September 18, 2019. -
JOURNAL of NEMATOLOGY a COI DNA Barcoding Survey of Pratylenchus Species in the Great Plains Region of North America
JOURNAL OF NEMATOLOGY Article | DOI: 10.21307/jofnem-2019-081 e2019-81 | Vol. 51 A COI DNA barcoding survey of Pratylenchus species in the Great Plains Region of North America Mehmet Ozbayrak,1 Tim Todd,2 Timothy Harris,1 Rebecca Higgins,1 Kirsten Powers,1 Peter Mullin,1 Abstract 1 1 Lisa Sutton and Thomas Powers * Pratylenchus species are among the most common plant parasitic 1Department of Plant Pathology, nematodes in the Great Plains Region of North America. Our goal University of Nebraska-Lincoln, was to survey Pratylenchus species diversity across the Great Plains Lincoln, NE, 68583-0722. region using a mitochondrial COI DNA barcode. The objectives were to (i) determine species boundaries of the common Pratylen- 2 Department of Plant Pathology, chus species within the region, (ii) assess the host associations of Kansas State University, the barcoded Pratylenchus specimens, and (iii) determine Pratylen- Manhattan, KS, 66502. chus distribution patterns throughout the region. A total of 860 soil *E-mail: [email protected] samples, primarily associated with eight major crops, were collect- ed from Colorado, Kansas, Montana, Nebraska, North Dakota, and This paper was edited by Wyoming. From this total, 246 soil samples provided the majority of Erik J. Ragsdale. 915 individual nematode specimens that were amplified by PCR and Received for publication May 24, sequenced for a 727 to 739 bp region of COI. Maximum likelihood, 2019. neighbor-joining, and Bayesian phylogenetic trees all recognized 19 distinct and well-supported haplotype groups. The most common and widespread haplotype group, representing 53% of all specimens was P. neglectus, detected from 178 fields in 100 counties and as- sociated with fields growing wheat, corn, dry beans, barley, alfalfa, sugar beets, potatoes, and a vineyard. -
Xiphinema Index and Its Relationship to Grapevines: a Review
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by Stellenbosch University: SUNJournals Xiphinema index and its Relationship to Grapevines: A review S. van Zyl1,3,4, M.A. Vivier1,2, M.A. Walker3* (1) Department of Viticulture and Enology, Stellenbosch University, Private Bag X1, Matieland (Stellenbosch), South Africa (2) Institute for Wine Biotechnology, Stellenbosch University, Private Bag X1, Matieland (Stellenbosch), South Africa (3) Department of Viticulture and Enology, University of California, 595 Hilgard Lane, Davis, CA, 95616, USA (4) Current address: Department of Viticulture and Enology, California State University, 2360 East Barstow Avenue, Fresno, CA, 93740, USA Submitted for publication: September 2011 Accepted for publication: October 2011 Key words: Xiphinema index, resistance, Grapevine fanleaf virus, DNA markers, rootstocks The dagger nematode, Xiphinema index, is considered a major pest in grape growing countries. Xiphinema index is especially important because of its ability to transmit Grapevine fanleaf virus when feeding on grapevine roots. This paper provides a comprehensive and updated review of the classification, genetics and biology of Xiphinema index, and its relationship with grapevine fanleaf virus. Current control measures, as well as past and present efforts to breed resistant grapevine rootstocks, are presented. Grapevines are cultivated in temperate and Mediterranean X. italiae Meyl (Loubser & Meyer, 1987a); the first three are climates around the world. Grapevines have been moved common in South African vineyards (Malan, 1995). They are between countries and continents, following human found in a variety of soils and are migratory ectoparasites migration and settlement, and have been imported and (Shurtleff & Averre III, 2000). -
Biology and Molecular Characterisation of the Root Lesion Nematode, Pratylenchus Curvicauda
Biology and Molecular Characterisation of the Root Lesion Nematode, Pratylenchus curvicauda This thesis is presented by FARHANA BEGUM For the degree of Doctor of Philosophy School of Veterinary and Life Sciences, WA State Agricultural Biotechnology Centre (SABC), Murdoch University, Perth, Western Australia July 2017 Declaration I declare that this is my own account of my research and contains as its main content, work which has not previously been submitted for a degree at any tertiary educational institution. FARHANA BEGUM ii Abstract Australia is the driest inhabited continent with about 70% of the land arid or semi- arid, and soils which are geologically old, weathered, and many are infertile. This is a challenging environment for agricultural production, which is further impacted by biotic constraints such as root lesion nematodes (RLNs), Pratylenchus spp. These soil-borne nematodes cause significant economic losses in yields of winter cereals, and in other crops, particularly under conditions of moisture and nutrient stress. RLNs are widely distributed in Australian broadacre cropping soils, and losses in cereal production are greater when more than one RLN species is present, a situation which often occurs in Western Australia (WA). Hence, to develop appropriate management regimes, accurate identification of RLN species is needed, combined with understanding the biology of host-nematode interactions. The initial aim of this research was to extend the molecular and biological characterisation of P. quasitereoides, a recently described species of root lesion nematode from WA. Morphological measurements of two important characters, tail shape and the per cent distance of the vulva from the anterior end of the nematode body, were made from nematodes collected from the four locations of WA. -
(PRA) For: Pratylenchus Scribneri December 2015 Summary and Conclusions of the Rapid
Rapid Pest Risk Analysis (PRA) for: Pratylenchus scribneri December 2015 Summary and conclusions of the rapid PRA Pratylenchus scribneri, a root-lesion nematode with a broad host range, is not known to be present in the PRA area but has been intercepted in 2000, several times in 2005 and again in 2015. The recent UK Risk Register entry concluded that a rapid PRA would be useful to help decide, whether continued statutory action against future occurrences of the nematode is justified. In the PRA area, unfavourable climatic conditions make it very unlikely that P. scribneri could establish outdoors as a field pest. The nematode poses risks to plants grown under protection when high temperatures are maintained over a sufficiently long period to allow the nematode to reproduce. However, these risks are dependent on the characteristics of specific production systems and consequently are difficult to assess. This rapid PRA shows: Risk of entry Nematode damage can be non-specific and P. scribneri could enter undetected in soil and roots of plants for planting or with bulbs and tubers. Ornamental plants imported from regions where the nematode is present represent a significant entry pathway. Entry risks from this pathway are rated as ‘likely’. Bulbs and tubers are rated as moderately likely. 1 Risk of establishment In field plants grown in the absence of protection, establishment in the PRA area is rated as ‘very unlikely’. The absence of high summer temperatures in the PRA area for a sufficiently long period to allow reproduction limits the potential for establishment. The nematode has been reported in field crops only from countries that have hotter summers than the UK. -
Plant-Parasitic Nematodes in Germany – an Annotated Checklist
86 (3) · December 2014 pp. 177–198 Plant-parasitic nematodes in Germany – an annotated checklist Dieter Sturhan Arnethstr. 13D, 48159 Münster, Germany, and c/o Julius Kühn-Institut, Toppheideweg 88, 48161 Münster, Germany E-mail: [email protected] Received 15 September 2014 | Accepted 28 October 2014 Published online at www.soil-organisms.de 1 December 2014 | Printed version 15 December 2014 Abstract A total of 268 phytonematode species indigenous in Germany or more recently introduced and established outdoors are listed. Their current taxonomic status and classification is given, which is not always in agreement with that applied in Fauna Europaea or recent publications. Recently used synonyms are included and comments on the species status are sometimes added. Species originally described from Germany are particularly marked, presence of types and other voucher specimens in the German Nematode Collection - Terrestrial Nematodes (DNST) is indicated; likewise potential occurrence or absence of species in field soil and similar cultivated land is noted. Species known from indoor plants and only occasionally observed outdoors are listed separately. Synonymies and species considered as species inquirendae are listed in case records refer to Germany; records and identifications considered as doubtful are also listed. In a separate section notes on a number of genera and species are added, taxonomic problems are indicated, and data on morphology, distribution and habitat of some recently discovered species and of still unidentified or undescribed species or populations are given. Longidorus macroteromucronatus is synonymised with L. poessneckensis. Paratrophurus striatus is transferred as T. casigo nom. nov., comb. nov. to the genus Tylenchorhynchus. Neotypes of Merlinius bavaricus and Bursaphelenchus fraudulentus are designated.