Diagnostic Methods for Identification of Root-Knot Nematodes Species from Brazil
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Comprehensive Transcriptome Profiling of Root-Knot Nematodes During Plant Infection and Characterisation of Species Specific Trait Chinh Nghia Nguyen
Comprehensive transcriptome profiling of root-knot nematodes during plant infection and characterisation of species specific trait Chinh Nghia Nguyen To cite this version: Chinh Nghia Nguyen. Comprehensive transcriptome profiling of root-knot nematodes during plant infection and characterisation of species specific trait. Agricultural sciences. COMUE Université Côte d’Azur (2015 - 2019), 2016. English. NNT : 2016AZUR4124. tel-01673793 HAL Id: tel-01673793 https://tel.archives-ouvertes.fr/tel-01673793 Submitted on 1 Jan 2018 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. 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. -
Diversity of Root-Knot Nematodes in Moroccan Olive Nurseries And
Aït Hamza et al. BMC Ecol (2017) 17:41 https://doi.org/10.1186/s12898-017-0153-9 BMC Ecology RESEARCH ARTICLE Open Access Diversity of root‑knot nematodes in Moroccan olive nurseries and orchards: does Meloidogyne javanica disperse according to invasion processes? Mohamed Aït Hamza1,2* , Nadine Ali2,3, Johannes Tavoillot2, Odile Fossati‑Gaschignard2, Hassan Boubaker4, Abdelhamid El Mousadik1† and Thierry Mateille2† Abstract Background: Root-knot nematodes (RKN) are major pest of olive tree (Olea europaea ssp. europaea), especially in nurseries and high-density orchards. Soil samples were collected from main olive growing areas of Morocco, to char‑ acterize Meloidogyne species and to discuss the contribution of biotic and abiotic factors in their spatial distribution. Results: RKN were found in 159 soil samples out of 305 from nurseries (52.1% occurrence) and in 11 out of 49 soil samples from orchards (23.2% occurrence). Biochemical and molecular characterisation (PAGE esterase and SCAR) revealed the dominance of M. javanica both in nurseries and orchards with minor presence of M. incognita only in nurseries, and M. arenaria in only one nursery. RKN were distributed on aggregated basis. Frequent presence of M. javanica in orchards might have come from nurseries. In contrast, the detection of M. incognita in nurseries alone sug‑ gests that this species could not reproduce in orchards because of either the competition with other plant-parasitic nematodes or unft local habitats. The impact of environmental variables (climate, habitat origin and physicochemical characteristics of the substrates) on the distribution of Meloidogyne species is also discussed. Conclusion: Olive nurseries in Morocco are not able to guarantee the safety of rooted plants. -
Transcriptome Profiling of Resistance Response To
Bali et al. BMC Genomics (2019) 20:907 https://doi.org/10.1186/s12864-019-6257-1 RESEARCH ARTICLE Open Access Transcriptome profiling of resistance response to Meloidogyne chitwoodi introgressed from wild species Solanum bulbocastanum into cultivated potato Sapinder Bali1, Kelly Vining2, Cynthia Gleason1, Hassan Majtahedi3, Charles R. Brown3 and Vidyasagar Sathuvalli4* Abstract Background: Meloidogyne chitwoodi commonly known as Columbia root-knot nematode or CRKN is one of the most devastating pests of potato in the Pacific Northwest of the United States of America. In addition to the roots, it infects potato tubers causing internal as well as external defects, thereby reducing the market value of the crop. Commercial potato varieties with CRKN resistance are currently unavailable. Race specific resistance to CRKN has been introgressed from the wild, diploid potato species Solanum bulbocastanum into the tetraploid advanced selection PA99N82–4 but there is limited knowledge about the nature of its resistance mechanism. In the present study, we performed histological and differential gene expression profiling to understand the mode of action of introgressed CRKN resistance in PA99N82–4 in comparison to the CRKN susceptible variety Russet Burbank. Results: Histological studies revealed that the nematode juveniles successfully infect both resistant and susceptible root tissue by 48 h post inoculation, but the host resistance response restricts nematode feeding site formation in PA99N82–4. Differential gene expression analysis shows that 1268, 1261, 1102 and 2753 genes were up-regulated in PA99N82–4 at 48 h, 7 days, 14 days and 21 days post inoculation respectively, of which 61 genes were common across all the time points. -
Diversity, Phylogeny, Characterization and Diagnostics of Root-Knot and Lesion Nematodes
Diversity, phylogeny, characterization and diagnostics of root-knot and lesion nematodes Toon Janssen Promotors: Prof. Dr. Wim Bert Prof. Dr. Gerrit Karssen Thesis submitted to obtain the degree of doctor in Sciences, Biology Proefschrift voorgelegd tot het bekomen van de graad van doctor in de Wetenschappen, Biologie 1 Table of contents Acknowledgements Chapter 1: general introduction 1 Organisms under study: plant-parasitic nematodes .................................................... 11 1.1 Pratylenchus: root-lesion nematodes ..................................................................................... 13 1.2 Meloidogyne: root-knot nematodes ....................................................................................... 15 2 Economic importance ..................................................................................................... 17 3 Identification of plant-parasitic nematodes .................................................................. 19 4 Variability in reproduction strategies and genome evolution ..................................... 22 5 Aims .................................................................................................................................. 24 6 Outline of this study ........................................................................................................ 25 Chapter 2: Mitochondrial coding genome analysis of tropical root-knot nematodes (Meloidogyne) supports haplotype based diagnostics and reveals evidence of recent reticulate evolution. 1 Abstract -
ABSTRACT WONG, TSZ WAI SAMMI. Management of Root-Knot
ABSTRACT WONG, TSZ WAI SAMMI. Management of Root-knot Nematodes in North Carolina and Sensitivity of Watermelon Pathogens to Succinate Dehydrogenase Inhibitors. (Under the direction of Dr. Lina Quesada-Ocampo). Root-knot nematodes (Meloidogyne spp.) are some of the most economically important and common plant parasitic nematodes in North Carolina cropping systems. These nematodes can be managed using chemical control and cultural methods such as crop rotation. While the southern root-knot nematode, M. incognita, has been a large problem in North Carolina, the guava root-knot nematode, M. enterolobii has become an emerging threat that is impacting many sweetpotato growers. To understand the incidence and distribution of root-knot nematodes (RKN) in the state, soil samples from fields rotated with sweetpotato were collected from 2015 to 2018 across all counties of North Carolina. Amongst these samples, the highest occurrence of RKN-positive were found in Cumberland, Sampson, and Johnston counties. In addition, Sampson and Nash counties had the highest average RKN population density while Wayne and Greene counties had the lowest average RKN population density. Moreover, we analyzed the host susceptibility of 18 plants for a North Carolina population of M. enterolobii by conducting greenhouse trials and measuring the eggs per gram of fresh root (ER) after 45 days. The tomato ‘Rutgers’ was used as a susceptible control. M. enterolobii was able to reproduce on all plants. Two watermelon varieties, cabbage, pepper, one soybean variety, and tobacco were rated as good hosts. Broadleaf signalgrass, corn, one peanut variety, sudangrass, and nutsedge were less susceptible to M. enterolobii and considered poor hosts. -
PM 9/17 (1) Meloidogyne Chitwoodi and Meloidogyne Fallax
Bulletin OEPP/EPPO Bulletin (2013) 43 (3), 527–533 ISSN 0250-8052. DOI: 10.1111/epp.12079 European and Mediterranean Plant Protection Organization Organisation Europe´enne et Me´diterrane´enne pour la Protection des Plantes PM 9/17 (1) National regulatory control systems Systemes de lutte nationaux reglementaires PM 9/17 (1) Meloidogyne chitwoodi and Meloidogyne fallax Specific scope Specific approval and amendment This standard describes a National regulatory control sys- Approved in 2013-09. tem for Meloidogyne chitwoodi and Meloidogyne fallax. M. fallax, temperature, length of the growing season and Introduction soil texture. These nematodes have mostly been reported Meloidogyne chitwoodi and M. fallax (root-knot nematodes) from sandy and sandy-loam soils. Economic damage are EPPO A2 pests and details about their biology, distribu- increases with the number of generations that occur in one tion and economic importance can be found in EPPO/CABI growing season. Tuber damage in potatoes may occur when (1997) and the Plant Quarantine data Retrieval system soil temperatures exceed 1000 degree days above 5°C but (PQR) on the EPPO website. Recently, pest risk assess- the threshold for significant tuber damage is assessed to be ments for both species have been conducted for the territory about 1500 degree days above 5°C (Macleod et al., 2012). of the EU including extensive datasheets and an evaluation Juveniles of M. chitwoodi and M. fallax can only move of possible risk reduction options. The work has been con- short distances (<1 m) in the soil. Spread therefore mainly ducted within the framework of the EFSA project Prima occurs with the movement of infested planting material Phacie and the reports are available in the EFSA website (e.g. -
433 Among Other Nematodes, Root-Knot Specimens Were Collected from Wheat Ro.Ots Var. Capeiti, C38290. They Were Identified As M
SHORT COMMUNICATIONS 433 Among other nematodes, root-knot specimens were collected from wheat ro.ots var. Capeiti, C38290. They were identified as M. artiellia Franklin, 1961. This root-knot nematode was first reported and described from England on cabbage grown in sandy loam in Norfolk. Other hosts noted by Franklin are oats, barley, wheat, kale, lucerne, pea, ciover and broad bean. All stages off the nematode were found. Second stage larvae were collected from soil samples and from egg masses. Males were found partly or completely within root tissue producing small knots of abnormal, dark coloured cells (Fig. 3), and were .often seen near or around the partly embedded females. The mature females were flask or pear-shaped with neck tapering t.o a small head, and smooth, rounded posterior part with terminal vulva and annulated region around the tail. The perineal patterns were similar to those described by Franklin (1961) and Whitehead (1968) for artiellia (Figs. 1, 2). Measurements. 5 Q Q: L = 640 p (611-675); width = 432 JL (357-458), dorsal oesophageal gland orifice 4.6 a behind stylet base; vulva = 21 p (20-22). Stylet = 14.3 JL. 10 eggs = 95 JL (90-99) X 40 p (40-40.3). 8 8 : L = 872-1090 ,u; width = 27.25-30.6 p. a = 32.3-35; b = 11-14.3; c = 80-83; stylet = 21.8-23.2 it; spicules 25-27 ,a; dorsal oesophageal gland orifice 5.2 p behind stylet base. Many mature females were found only partly embedded in the root and covered completely by the gelatinous sac even before the eggs are laid. -
Nematode Control Alternatives
Nematodes: ATTRA Alternative Controls A Publication of ATTRA - National Sustainable Agriculture Information Service • 1-800-346-9140 • www.attra.ncat.org By Martin Guerena This publication provides general information on the tiny worm-like organisms called nematodes. It NCAT Agriculture contains detailed descriptions of the genera of nematodes that attack plants, as well as various methods Specialist to diagnose, discourage, and manage plant parasitic nematodes in a least toxic, sustainable manner. © 2006 NCAT Contents Introduction Introduction ..................... 1 ematodes are Symptoms and tiny, worm-like, Sampling .......................... 4 Nmulticellular Preventing Further animals adapted to liv- Spread of Nematodes ....................... 4 ing in water. The num- ber of nematode species Managing Soil Biology ............................... 5 is estimated at half a Crop Rotations and mil lion, many of which Cover Crops ...................... 6 are “free-living” types Botanical found in the oceans, Nematicides ..................... 9 in freshwater habitats, Biocontrols ...................... 10 and in soils. Plant-par- Plant Resistance ............11 asitic species form a Red Plastic Mulch ......... 12 smaller group. Nema- www.insectimages.org Solarization .................... 13 todes are common Flooding .......................... 13 in soils all over the Root-knot nematode—Meloidogyne brevicauda Loos Summary ......................... 13 world (Dropkin, 1980; ©Jonathan D. Eisenback, Virginia Polytechnic Institute and State University References ..................... 14 Yepsen, 1984). As a commentator in the early Further Resources ........17 twentieth cen tury wrote: genera and species have particu lar soil and Web Resources ..............17 climatic requirements. For example, cer- Suppliers .......................... 18 If all the matter in the universe except the tain species do best in sandy soils, while nematodes were swept away, our world would oth ers favor clay soils. -
Meloidogyne Enterolobii
Bulletin OEPP/EPPO Bulletin (2016) 46 (2), 190–201 ISSN 0250-8052. DOI: 10.1111/epp.12293 European and Mediterranean Plant Protection Organization Organisation Europe´enne et Me´diterrane´enne pour la Protection des Plantes PM 7/103 (2) Diagnostics Diagnostic PM 7/103 (2) Meloidogyne enterolobii Specific scope Specific approval and amendment This Standard describes a diagnostic protocol for Approved in 2011-09. Meloidogyne enterolobii1. This Standard should be used in Revision approved in 2016-04. conjunction with PM 7/76 Use of EPPO diagnostic Terms used are those in the EPPO Pictorial Glossary of protocols. Morphological Terms in Nematology2. of infested plants and plant products, in soil, adhering to 1. Introduction farm equipment or by irrigation water. Currently, close to 100 species of root-knot nematodes have Infestation by root-knot nematodes affects growth, yield, been described (Hunt & Handoo, 2009). All members are obli- lifespan and tolerance to environmental stresses of affected gate endoparasites on plant roots and they occur worldwide. plants. Typical symptoms include stunted growth, wilting, About 10 species are significant agricultural pests, while four leaf yellowing and deformation of plant organs. Crop dam- are major pests and are distributed worldwide in agricultural age due to root-knot nematodes may consist of reduced areas: Meloidogyne incognita, Meloidogyne javanica, quantity and quality of yield. Meloidogyne arenaria and Meloidogyne hapla. The root-knot Meloidogyne enterolobii was first described from Hainan nematode Meloidogyne enterolobii is polyphagous and has Island, China, in 1983. At present, this species has been many host plants including cultivated plants and weeds. It recorded from Africa (Burkina Faso, Ivory Coast, Malawi, attacks woody as well as herbaceous plants. -
Review on Nematode Molecular Diagnostics: from Bands to Barcodes
Journal of Biology, Agriculture and Healthcare www.iiste.org ISSN 2224-3208 (Paper) ISSN 2225-093X (Online) Vol.4, No.27, 2014 Review on Nematode Molecular Diagnostics: From Bands to Barcodes Alemu Nega Department of Horticulture and Plant Science, Jimma University, P. O. Box 307, Jimma, Ethiopia Email Address: [email protected] Abstract Molecular methods of identification provide accurate, reliable diagnostic approaches for the identification of plant-parasitic nematodes. The promising and attractive results have generated increasing demands for applications in new fields and for better performing techniques. Initially, the techniques were used solely for taxonomic purposes, but increasingly became popular as a component of diagnostic information. Diagnostic procedures are now available to differentiate the plant-pathogenic species from related but non-pathogenic species. The microscopic size of plant parasitic nematodes poses problems and techniques have been developed to enrich samples to obtain qualitative and quantitative information on individual species. In addition, techniques are available to evaluate single nematodes, cysts or eggs of individual species in extracts from soil and plant tissue. DNA or RNA-based techniques are the most widely used approaches for identification, taxonomy and phylogenetic studies, although the development and use of other methods has been, and in some cases still is, important. DNA barcoding and the extraction of DNA from preserved specimens will aid considerably in diagnostic information. In addition, further review is needed to identify all recovered nematode and evaluation of promising treatments for use in integrated disease management strategy to manage not only regulated species such as the potato cyst nematodes Globodera rostochiensis and Globodera pallida, and root-knot nematode Meloidogyne. -
Distribution of Meloidogyne Species in Carrot in Brazil
Ciência Rural, Santa Maria, v.51:5,Distribution e20200552, of Meloidogyne 2021 species in carrot in Brazil. http://doi.org/10.1590/0103-8478cr202005521 ISSNe 1678-4596 CROP PROTECTION Distribution of Meloidogyne species in carrot in Brazil Tiago Garcia da Cunha1 Liliane Evangelista Visôtto1 Letícia Mendes Pinheiro1 Pedro Ivo Vieira Good God1 Juliana Magrinelli Osório Rosa2 Cláudio Marcelo Gonçalves Oliveira2 Everaldo Antônio Lopes1* 1Universidade Federal de Viçosa (UFV), Campus Rio Paranaíba, 38810-000, Rio Paranaíba, MG, Brasil. E-mail: [email protected]. *Corresponding author. 2Instituto Biológico, Campinas, SP, Brasil. ABSTRACT: Root-knot nematodes (RKN – Meloidogyne spp.) are one of the most serious threats to carrot production worldwide. In Brazil, carrots are grown throughout the year, and economic losses due to RKN are reported. Since little is known on the distribution of RKN species in carrot fields in Brazil, we collected plant and soil samples from 35 fields across six states. Based on the morphology of perineal patterns, esterase phenotypes and species-specific PCR, three Meloidogyne species were identified: 60% of the fields were infested with Meloidogyne incognita, M. javanica was reported in 42.9% of the areas, whereas M. hapla was detected in 17.1% of carrot fields. Mixed populations were reported in 20% of the areas with a predominance of M. incognita + M. javanica. The combination of morphological, biochemical, and molecular techniques is a useful approach to identify RKN species. Key words: Daucus carota, integrative taxonomy, isozyme phenotypes, species-specific PCR. Distribuição de espécies de Meloidogyne em cenoura no Brasil RESUMO: Os nematoides-das-galhas (RKN - Meloidogyne spp.) são uma das mais sérias ameaças à produção de cenoura no mundo. -
Meloidogyne Chitwoodi
EPPO quarantine pest Data Sheets on Quarantine Pests Meloidogyne chitwoodi IDENTITY Name:Meloidogyne chitwoodi Golden, O'Bannon, Santo & Finley Taxonomic position: Nematoda: Meloidogynidae Common names: Columbia root-knot nematode (English) Nématode cécidogène du Columbia (French) Bayer computer code: MELGCH EPPO A2 list: No. 227 HOSTS M. chitwoodi has a wide host range among several plant families (Santo et al., 1980; O'Bannon et al., 1982), including crop plants and common weed species. Potatoes (Solanum tuberosum) and tomatoes (Lycopersicon esculentum) are good hosts, while barley (Hordeum vulgare), maize (Zea mays), oats (Avena sativa), sugarbeet (Beta vulgaris var. saccharifera), wheat (Triticum aestivum) and various Poaceae (grasses and weeds) will maintain the nematode. Moderate to poor hosts occur in the Brassicaceae, Cucurbitaceae, Fabaceae, Lamiaceae, Liliaceae, Umbelliferae and Vitaceae. Capsicum annuum and tobacco (Nicotiana tabacum and N. rustica) are not hosts of M. chitwoodi. Lucerne (Medicago sativa) is a good host for race 2 but not for race 1, whereas carrots (Daucus carota) are a non-host for race 2 but a good host for race 1. Ferris et al. (1994), investigating suitable crops for rotation with potato in the presence of race 1 in USA, recommend Amaranthus, lucerne, rape (Brassica napus var. oleifera), Raphanus sativus var. oleifera and safflower (Carthamus tinctorius). In the Netherlands, host crops recorded to be attacked by M. chitwoodi are carrots, cereals, maize, peas (Pisum sativum), Phaseolus vulgaris, potatoes, Scorzonera hispanica, sugarbeet and tomatoes (OEPP/EPPO, 1991). GEOGRAPHICAL DISTRIBUTION M. chitwoodi was first described from the Pacific Northwest of the USA in 1980, its common name deriving from the Columbia River between Oregon and Washington states.