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      Remarkable Diversity and Prevalence of Dagger Nematodes of the Genus Xiphinema Cobb, 1913 (Nematoda: Longidoridae) in Olives Revealed by Integrative Approaches

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          Abstract

          The genus Xiphinema includes a remarkable group of invertebrates of the phylum Nematoda comprising ectoparasitic animals of many wild and cultivated plants. Damage is caused by direct feeding on root cells and by vectoring nepoviruses that cause diseases on several crops. Precise identification of Xiphinema species is critical for launching appropriate control measures. We make available the first detailed information on the diversity and distribution of Xiphinema species infesting wild and cultivated olive in a wide-region in southern Spain that included 211 locations from which 453 sampling sites were analyzed. The present study identified thirty-two Xiphinema spp. in the rhizosphere of olive trees, ten species belonging to Xiphinema americanum-group, whereas twenty-two were attributed to Xiphinema non- americanum-group. These results increase our current knowledge on the biodiversity of Xiphinema species identified in olives and include the description of four new species ( Xiphinema andalusiense sp. nov., Xiphinema celtiense sp. nov., Xiphinema iznajarense sp. nov., and Xiphinema mengibarense sp. nov. ), and two new records for cultivate olives ( X. cadavalense and X. conurum). We also found evidence of remarkable prevalence of Xiphinema spp. in olive trees, viz. 85.0% (385 out of 453 sampling sites), and they were widely distributed in both wild and cultivated olives, with 26 and 17 Xiphinema spp., respectively. Diversity indexes (Richness, Hill´s diversity, Hill´s reciprocal of D and Hill´s evenness) were significantly affected by olive type. We also developed a comparative morphological and morphometrical study together with molecular data from three nuclear ribosomal RNA genes (D2-D3 expansion segments of 28S, ITS1, and partial 18S). Molecular characterization and phylogenetic analyses allowed the delimitation and discrimination of four new species of the genus described herein and three known species. Phylogenetic analyses of Xiphinema spp. resulted in a general consensus of these species groups. This study is the most complete phylogenetic analysis for Xiphinema non- americanum-group species to date.

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          Most cited references14

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          TreeView: an application to display phylogenetic trees on personal computers.

          R D Page (1996)
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            Nematode community structure as a bioindicator in environmental monitoring.

            Four of every five multicellular animals on the planet are nematodes. They occupy any niche that provides an available source of organic carbon in marine, freshwater and terrestrial environments. Nematodes vary in sensitivity to pollutants and environmental disturbance. Recent development of indices that integrate the responses of different taxa and trophic groups to perturbation provides a powerful basis for analysis of faunal assemblages in soil as in situ environmental assessment systems.
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              Survey of crop losses in response to phytoparasitic nematodes in the United States for 1994.

              Previous reports of crop losses to plant-parasitic nematodes have relied on published results of survey data based on certain commodities, including tobacco, peanuts, cotton, and soybean. Reports on crop-loss assessment by land-grant universities and many commodity groups generally are no longer available, with the exception of the University of Georgia, the Beltwide Cotton Conference, and selected groups concerned with soybean. The Society of Nematologists Extension Committee contacted extension personnel in 49 U.S. states for information on estimated crop losses caused by plant-parasitic nematodes in major crops for the year 1994. Included in this paper are survey results from 35 states on various crops including corn, cotton, soybean, peanut, wheat, rice, sugarcane, sorghum, tobacco, numerous vegetable crops, fruit and nut crops, and golf greens. The data are reported systematically by state and include the estimated loss, hectarage of production, source of information, nematode species or taxon when available, and crop value. The major genera of phytoparasitic nematodes reported to cause crop losses were Heterodera, Hoplolaimus, Meloidogyne, Pratylenchus, Rotylenchulus, and Xiphinema.
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                Author and article information

                Contributors
                Role: Editor
                Journal
                PLoS One
                PLoS ONE
                plos
                plosone
                PLoS ONE
                Public Library of Science (San Francisco, CA USA )
                1932-6203
                9 November 2016
                2016
                : 11
                : 11
                : e0165412
                Affiliations
                [001]Instituto de Agricultura Sostenible (IAS), Consejo Superior de Investigaciones Científicas (CSIC), Avenida Menéndez Pidal s/n, 14004 Córdoba, Spain
                University of Ostrava, CZECH REPUBLIC
                Author notes

                Competing Interests: The authors have declared that no competing interests exist.

                • Conceptualization: PC AAY JANC JEPR CCN.

                • Data curation: PC AAY JANC JEPR CCN.

                • Formal analysis: PC AAY JANC JEPR CCN.

                • Funding acquisition: PC JANC.

                • Investigation: PC AAY JANC JEPR CCN.

                • Methodology: AAY JEPR CCN.

                • Project administration: PC JANC.

                • Resources: AAY JEPR CCN.

                • Software: PC AAY JANC JEPR CCN.

                • Supervision: PC JANC JEPR.

                • Validation: PC AAY JANC JEPR CCN.

                • Visualization: PC AAY JANC JEPR CCN.

                • Writing – original draft: PC AAY JANC JEPR CCN.

                • Writing – review & editing: PC AAY JANC JEPR CCN.

                Author information
                http://orcid.org/0000-0001-6657-6385
                Article
                PONE-D-16-33537
                10.1371/journal.pone.0165412
                5102458
                27829048
                72af49ca-0ee0-452c-a27e-55c8bbf6c02d
                © 2016 Archidona-Yuste et al

                This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

                History
                : 22 August 2016
                : 26 September 2016
                Page count
                Figures: 17, Tables: 9, Pages: 54
                Funding
                Funded by: funder-id http://dx.doi.org/10.13039/501100002878, Consejería de Economía, Innovación, Ciencia y Empleo, Junta de Andalucía;
                Award ID: P12-AGR-1486
                Award Recipient :
                Funded by: Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (INIA)
                Award ID: 219262
                Award Recipient :
                Funded by: funder-id http://dx.doi.org/10.13039/501100003329, Ministerio de Economía y Competitividad;
                Award ID: AGL-2012-37521
                Award Recipient :
                Funded by: FONDOS FEDER
                Award ID: P-12-AGR-1486
                Award Recipient :
                Financial support was received by Project P12-AGR-1486 from ‘Consejería de Economía, Innovación y Ciencia’ of Junta de Andalucía, the grant 219262 ArimNET_ERANET FP7 2012–2015 Project PESTOLIVE ‘Contribution of olivehistory for the management of soilborne parasites in the Mediterranean basin’ from Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (INIA), Project AGL-2012-37521 from ‘Ministerio de Economía y Competitividad’ of Spain, and FEDER financial support from the European Union. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
                Categories
                Research Article
                Biology and Life Sciences
                Agriculture
                Crop Science
                Crops
                Fruits
                Olives
                Biology and Life Sciences
                Organisms
                Plants
                Fruits
                Olives
                Biology and Life Sciences
                Organisms
                Plants
                Trees
                Olive Trees
                Biology and Life Sciences
                Anatomy
                Reproductive System
                Uterus
                Medicine and Health Sciences
                Anatomy
                Reproductive System
                Uterus
                People and Places
                Geographical Locations
                Europe
                Spain
                Biology and Life Sciences
                Ecology
                Ecological Metrics
                Species Diversity
                Ecology and Environmental Sciences
                Ecology
                Ecological Metrics
                Species Diversity
                Biology and Life Sciences
                Zoology
                Animal Anatomy
                Tails
                Biology and life sciences
                Biochemistry
                Nucleic acids
                RNA
                Non-coding RNA
                Ribosomal RNA
                Biology and life sciences
                Biochemistry
                Ribosomes
                Ribosomal RNA
                Biology and life sciences
                Cell biology
                Cellular structures and organelles
                Ribosomes
                Ribosomal RNA
                Biology and Life Sciences
                Anatomy
                Reproductive System
                Genital Anatomy
                Vulva
                Medicine and Health Sciences
                Anatomy
                Reproductive System
                Genital Anatomy
                Vulva
                Custom metadata
                The authors confirm that all data underlying the findings are fully available without restriction. All genetic sequences are available from GenBank (accession numbers KX244884-KX244948). All relevant data are within the paper and its Supporting Information files.

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