1
|
Archidona-Yuste A, Clavero-Camacho I, Ruiz-Cuenca AN, Cantalapiedra-Navarrete C, Liebanas G, Castillo P, Palomares-Rius JE. The more we search, the more we find: discovering and expanding the biodiversity in the ring nematode genus Xenocriconemella De Grisse and Loof, 1965 (Nematoda: Criconematidae). ZOOLOGICAL LETTERS 2024; 10:8. [PMID: 38528566 DOI: 10.1186/s40851-024-00230-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/18/2023] [Accepted: 02/21/2024] [Indexed: 03/27/2024]
Abstract
The ring nematode genus Xenocriconemella De Grisse and Loof, 1965 comprises only one nominal species, Xenocriconemella macrodora (Taylor, 1936) De Grisse and Loof, 1965. The initial objective of the present study was to investigate the morphological-morphometric and molecular diversity of 28 X. macrodora populations in the Iberian Peninsula associated with tree forests (mainly Quercus spp.). However, a detailed integrative taxonomic analysis (morphological-morphometric and molecular data) from each population and analysis of this data using principal component analysis (PCA) for morphometric data (including these 28 populations and other 25 X. macrodora populations around the world) and molecular and phylogenetic species delimitation methods revealed that X. macrodora forms a species complex. This species complex is composed by species that are morphometricly and morphologically similar, but clearly different at the molecular level. Three new species are described applying integrative taxonomy, namely as Xenocriconemella iberica sp. nov., Xenocriconemella paraiberica sp. nov. and Xenocriconemella pradense sp. nov. However, the molecular diversity of this species in USA and Italy confirmed that additional species are likely present in this species complex, and the diversity of this group may be higher than expected. The study of X. macrodora topotypes can clarify the position of this species using molecular markers under an integrative approach.
Collapse
Affiliation(s)
- A Archidona-Yuste
- Department of Crop Protection, Institute for Sustainable Agriculture (IAS), Spanish National Research Council (CSIC), Avda. Menendez Pidal s/n, Campus de Excelencia Internacional Agroalimentario, ceiA3, 14004, Córdoba, Spain.
| | - I Clavero-Camacho
- Department of Crop Protection, Institute for Sustainable Agriculture (IAS), Spanish National Research Council (CSIC), Avda. Menendez Pidal s/n, Campus de Excelencia Internacional Agroalimentario, ceiA3, 14004, Córdoba, Spain
| | - A N Ruiz-Cuenca
- Department of Crop Protection, Institute for Sustainable Agriculture (IAS), Spanish National Research Council (CSIC), Avda. Menendez Pidal s/n, Campus de Excelencia Internacional Agroalimentario, ceiA3, 14004, Córdoba, Spain
- Department of Animal, Plant Biology and Ecology, University of Jaén, Campus Las Lagunillas, Jaén, Spain
| | - C Cantalapiedra-Navarrete
- Department of Crop Protection, Institute for Sustainable Agriculture (IAS), Spanish National Research Council (CSIC), Avda. Menendez Pidal s/n, Campus de Excelencia Internacional Agroalimentario, ceiA3, 14004, Córdoba, Spain
| | - G Liebanas
- Department of Animal, Plant Biology and Ecology, University of Jaén, Campus Las Lagunillas, Jaén, Spain
| | - P Castillo
- Department of Crop Protection, Institute for Sustainable Agriculture (IAS), Spanish National Research Council (CSIC), Avda. Menendez Pidal s/n, Campus de Excelencia Internacional Agroalimentario, ceiA3, 14004, Córdoba, Spain
| | - J E Palomares-Rius
- Department of Crop Protection, Institute for Sustainable Agriculture (IAS), Spanish National Research Council (CSIC), Avda. Menendez Pidal s/n, Campus de Excelencia Internacional Agroalimentario, ceiA3, 14004, Córdoba, Spain
| |
Collapse
|
2
|
Archidona-Yuste A, Palomares-Rius JE, Clavero-Camacho I, Cantalapiedra-Navarrete C, Liébanas G, Castillo P. A Blind-Identification Test on Criconema annuliferum (de Man, 1921) Micoletzky, 1925 Species Complex Corroborate the Hyper-Cryptic Species Diversity Using Integrative Taxonomy. PLANTS (BASEL, SWITZERLAND) 2023; 12:1044. [PMID: 36903905 PMCID: PMC10005498 DOI: 10.3390/plants12051044] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/31/2023] [Revised: 02/21/2023] [Accepted: 02/22/2023] [Indexed: 06/18/2023]
Abstract
Ring nematodes are obligate ectoparasites on crops and natural herbaceous and woody plants, and some species are of economic importance and cause damage to roots of several crops. Recent integrative taxonomical analyses recognized the existence of two cryptic species within the Criconema annuliferum morphotype in Spain. In this study, we corroborated that morphometric, morphological and a multi-locus analysis (including the ribosomal markers D2-D3 expansion segments of 28S rRNA, ITS rRNA, 18S RNA, and the mitochondrial DNA cytochrome oxidase I gene) identified a new lineage clearly separated from C. annuliferum, C. paraannuliferum and C. plesioannuliferum. The new lineage was described herein as Criconema pseudoannuliferum sp. nov., confirming that C. annuliferum species complex species complex comprises a hyper-cryptic species complex. This research analysed soil samples from the rhizosphere of maritime pine (Pinus pinaster Ait.) forests in Bermeja-Crestellina Mountain, located at the western part of Málaga province, southern Spain. The integrative taxonomical analyses revealed the occurrence of a new cryptic species identified using females, males and juveniles with detailed morphology, morphometry and molecular markers, described herein as Criconema pseudoannuliferum sp. nov. All molecular markers (D2-D3, ITS, 18S and COI) were obtained from the same individual that was also used for morphological and morphometric analyses. This research demonstrated the hidden diversity within the C. annuliferum species complex species complex can reach to four lineages under ribosomal and mitochondrial gene markers for one morphospecies group, which includes four species, viz. C. annuliferum, C. paraannuliferum, C. plesioannuliferum, and C. pseudoannuliferum sp. nov. Criconema pseudoannuliferum sp. nov. was detected in moderate soil density in two maritime pine forests (5 and 25 nematodes/500 cm3 of soil) suggesting that does not cause damage to maritime pine.
Collapse
Affiliation(s)
- Antonio Archidona-Yuste
- Institute for Sustainable Agriculture (IAS), Spanish National Research Council (CSIC), Avenida Menéndez Pidal s/n, Campus de Excelencia Internacional Agroalimentario, ceiA3, 14004 Córdoba, Spain
| | - Juan Emilio Palomares-Rius
- Institute for Sustainable Agriculture (IAS), Spanish National Research Council (CSIC), Avenida Menéndez Pidal s/n, Campus de Excelencia Internacional Agroalimentario, ceiA3, 14004 Córdoba, Spain
| | - Ilenia Clavero-Camacho
- Institute for Sustainable Agriculture (IAS), Spanish National Research Council (CSIC), Avenida Menéndez Pidal s/n, Campus de Excelencia Internacional Agroalimentario, ceiA3, 14004 Córdoba, Spain
| | - Carolina Cantalapiedra-Navarrete
- Institute for Sustainable Agriculture (IAS), Spanish National Research Council (CSIC), Avenida Menéndez Pidal s/n, Campus de Excelencia Internacional Agroalimentario, ceiA3, 14004 Córdoba, Spain
| | - Gracia Liébanas
- Department of Animal Biology, Plant Biology and Ecology, University of Jaén, Campus ‘Las Lagunillas’ s/n, Edificio B3, 23071 Jaén, Spain
| | - Pablo Castillo
- Institute for Sustainable Agriculture (IAS), Spanish National Research Council (CSIC), Avenida Menéndez Pidal s/n, Campus de Excelencia Internacional Agroalimentario, ceiA3, 14004 Córdoba, Spain
| |
Collapse
|
3
|
Gattoni K, Gendron EMS, Sandoval-Ruiz R, Borgemeier A, McQueen JP, M. Shepherd R, Slos D, O. Powers T, L. Porazinska D. 18S-NemaBase: Curated 18S rRNA Database of Nematode Sequences. J Nematol 2023; 55:20230006. [PMID: 37143483 PMCID: PMC10152464 DOI: 10.2478/jofnem-2023-0006] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2022] [Indexed: 05/06/2023] Open
Abstract
Nematodes are the most abundant and diverse animals on the planet but lack representation in biodiversity research. This presents a problem for studying nematode diversity, particularly when molecular tools (i.e., barcoding and metabarcoding) rely on well-populated and curated reference databases, which are absent for nematodes. To improve molecular identification and the assessment of nematode diversity, we created and curated an 18S rRNA database specific to nematodes (18S-NemaBase) using sequences sourced from the most recent publicly available 18S rRNA SILVA v138 database. As part of the curation process, taxonomic strings were standardized to contain a fixed number of taxonomic ranks relevant to nematology and updated for the most recent accepted nematode classifications. In addition, apparent erroneous sequences were removed. To test the efficacy and accuracy of 18S-NemaBase, we compared it to an older but also curated SILVA v111 and the newest SILVA v138 by assigning taxonomies and analyzing the diversity of a nematode dataset from the Western Nebraska Sandhills. We showed that 18S-NemaBase provided more accurate taxonomic assignments and diversity assessments than either version of SILVA, with a much easier workflow and no need for manual corrections. Additionally, observed diversity further improved when 18S-NemaBase was supplemented with reference sequences from nematodes present in the study site. Although the 18S-NemaBase is a step in the right direction, a concerted effort to increase the number of high-quality, accessible, full-length nematode reference sequences is more important now than ever.
Collapse
Affiliation(s)
- Kaitlin Gattoni
- Department of Entomology and Nematology, University of Florida, FL32611United States of America
| | - Eli M. S. Gendron
- Department of Entomology and Nematology, University of Florida, FL32611United States of America
| | - Rebeca Sandoval-Ruiz
- Department of Entomology and Nematology, University of Florida, FL32611United States of America
| | - Abigail Borgemeier
- Department of Plant Pathology, University of Nebraska-Lincoln, NE68588United States of America
| | - J. Parr McQueen
- Department of Entomology and Nematology, University of Florida, FL32611United States of America
| | - Rachel M. Shepherd
- Department of Entomology and Nematology, University of Florida, FL32611United States of America
| | - Dieter Slos
- Plant Sciences Unit, Flanders Research Institute for Agriculture, Fisheries and Food (ILVO), Burg. Van Gansberghelaan 96, 9820Merelbeke, Belgium
| | - Thomas O. Powers
- Department of Plant Pathology, University of Nebraska-Lincoln, NE68588United States of America
| | - Dorota L. Porazinska
- Department of Entomology and Nematology, University of Florida, FL32611United States of America
| |
Collapse
|
4
|
Kefelegn H, Meressa BH, Yon S, Couvreur M, Wesemael WML, Teklu MG, Bert W. First Reports and Morphological and Molecular Characterization of Pratylenchus delattrei and Quinisulcius capitatus Associated with Chickpea in Ethiopia. J Nematol 2023; 55:20230027. [PMID: 37313350 PMCID: PMC10258564 DOI: 10.2478/jofnem-2023-0027] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2023] [Indexed: 06/15/2023] Open
Abstract
Chickpea (Cicer arietinum L.) is classed among the most important leguminous crops of high economic value in Ethiopia. Two plant-parasitic nematode species, Pratylenchus delattrei and Quinisulcius capitatus, were recovered from chickpea-growing areas in Ethiopia and characterized using molecular and morphological data, including the first scanning electron microscopy data for P. delattrei. New sequences of D2-D3 of 28S, ITS rDNA and mtDNA COI genes have been obtained from these species, providing the first COI sequences for P. delattrei and Q. capitatus, with both species being found for the first time on chickpea in Ethiopia. Furthermore, Pratylenchus delattrei was recovered in Ethiopia for the first time. The information obtained about these nematodes will be crucial to developing effective nematode management plans for future chickpea production.
Collapse
Affiliation(s)
- Habtamu Kefelegn
- Nematology Research Unit, Department of Biology, Ghent University, Campus Ledeganck, Ledeganckstraat 35, B-9000Ghent, Belgium
- College of Agriculture and Veterinary Medicine, Jimma University, P.O. Box, 307, Jimma, Ethiopia
| | - Beira Hailu Meressa
- College of Agriculture and Veterinary Medicine, Jimma University, P.O. Box, 307, Jimma, Ethiopia
| | - Sunheng Yon
- Nematology Research Unit, Department of Biology, Ghent University, Campus Ledeganck, Ledeganckstraat 35, B-9000Ghent, Belgium
| | - Marjolein Couvreur
- Nematology Research Unit, Department of Biology, Ghent University, Campus Ledeganck, Ledeganckstraat 35, B-9000Ghent, Belgium
| | - Wim M. L. Wesemael
- Flanders Research Institute for Agriculture, Fisheries and Food (ILVO), Burg Van Gansberghelaan 96, B-9820Merelbeke, Belgium
- Laboratory for Agrozoology, Department of Plants and Crops, Ghent University, Coupure links 653, B-9000Ghent, Belgium
| | - Misghina G. Teklu
- Plant Research, Plant Sciences Group, Wageningen University and Research Centre, P.O. Box 16, 6700AA Wageningen, The Netherlands
| | - Wim Bert
- Nematology Research Unit, Department of Biology, Ghent University, Campus Ledeganck, Ledeganckstraat 35, B-9000Ghent, Belgium
| |
Collapse
|
5
|
Palomares-Rius JE, Archidona-Yuste A, Clavero-Camacho I, de la Fuente JAC, Rey A, Viñegla B, Liébanas G, Cantalapiedra-Navarrete C, Castillo P. DNA Barcoding and Morphometry Reveal Further Cryptic Bio-Diversity within the Pin Nematode Genus Paratylenchus (Nematoda: Tylenchulidae). PLANTS (BASEL, SWITZERLAND) 2022; 11:3385. [PMID: 36501423 PMCID: PMC9735703 DOI: 10.3390/plants11233385] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/04/2022] [Revised: 11/22/2022] [Accepted: 11/28/2022] [Indexed: 06/17/2023]
Abstract
Paratylenchus species are obligate ectoparasitic nematodes on cultivated and wild herbaceous and woody plants occupying numerous soil categories. Several species may cause damage to several crops (viz. P. dianthus, P. enigmaticus, P. microdorus, P. hamatus and P. epacris on carnation, lettuce, rose and walnut, respectively). This investigation proves and emphasizes the relevance of applying integrative taxonomy for the accurate detection of Paratylenchus species in mountainous wild environments in the Malaga province, Southern Spain. This research analyzed 45 soil samples of maritimus pine and one of green heather in southern Spain and identified fourteen Paratylenchus species, two of them are described herein as new species (P. paraaonli sp. nov., P. plesiostraeleni sp. nov.), six of them were first reports for Spain (P. canchicus, P. nainianus, P. neonanus, P. salubris, Paratylenchus sp. 2 SAS, and P. wuae), and six species (P. caravaquenus, P. microdorus, P. nanus, P. neoamblycephalus, P. sheri, and P. variabilis) have been already reported in Spain. Accordingly, these data increase the biodiversity of pin nematodes in Spain comprising a total of 47 species (33.1% out of 142 total species of this genus). Phylogenetic analyses based on ribosomal and mitochondrial markers (D2-D3, ITS, and partial COI) resulted in a consistent position for the newly described Paratylenchus species in this study (P. plesiostraeleni sp. nov., P. paraaonli sp. nov.). Paratylenchus plesiostraeleni sp. nov. grouped in a separated subclade as unequivocal species from the P. straeleni-complex species (including P. straeleni and P. parastraeleni), and P. paraaonli sp. nov. clustered with P. vitecus, but clearly separate from this species. This study indicates that Paratylenchus species diversity in natural environments may be higher than expected, and this study may help in accurate identifications.
Collapse
Affiliation(s)
- Juan Emilio Palomares-Rius
- Institute for Sustainable Agriculture (IAS), Spanish National Research Council (CSIC), Avenida Menéndez Pidal s/n, Campus de Excelencia Internacional Agroalimentario, ceiA3, 14004 Córdoba, Spain
| | - Antonio Archidona-Yuste
- Andalusian Institute of Agricultural and Fisheries Research and Training (IFAPA), Centro Alameda del Obispo, 14004 Córdoba, Spain
| | - Ilenia Clavero-Camacho
- Institute for Sustainable Agriculture (IAS), Spanish National Research Council (CSIC), Avenida Menéndez Pidal s/n, Campus de Excelencia Internacional Agroalimentario, ceiA3, 14004 Córdoba, Spain
| | - José A. Carreira de la Fuente
- Department of Animal Biology, Plant Biology and Ecology, University of Jaén, Campus ‘Las Lagunillas’ s/n, Edificio B3, 23071 Jaén, Spain
| | - Ana Rey
- Department of Biogeography and Global Change, Museo Nacional de Ciencias Naturales—CSIC, José Abascal 2, 28006 Madrid, Spain
| | - Benjamín Viñegla
- Department of Animal Biology, Plant Biology and Ecology, University of Jaén, Campus ‘Las Lagunillas’ s/n, Edificio B3, 23071 Jaén, Spain
| | - Gracia Liébanas
- Department of Animal Biology, Plant Biology and Ecology, University of Jaén, Campus ‘Las Lagunillas’ s/n, Edificio B3, 23071 Jaén, Spain
| | - Carolina Cantalapiedra-Navarrete
- Institute for Sustainable Agriculture (IAS), Spanish National Research Council (CSIC), Avenida Menéndez Pidal s/n, Campus de Excelencia Internacional Agroalimentario, ceiA3, 14004 Córdoba, Spain
| | - Pablo Castillo
- Institute for Sustainable Agriculture (IAS), Spanish National Research Council (CSIC), Avenida Menéndez Pidal s/n, Campus de Excelencia Internacional Agroalimentario, ceiA3, 14004 Córdoba, Spain
| |
Collapse
|
6
|
Hosseinvand M, Eskandari A, Palomares-Rius JE, Castillo P, Abolafia J, Ghaderi R. Morphological and molecular characterisation of a new cryptic species of Criconemoides informis group, C. neoinformis n. sp., and C. persicus n. sp., with notes on C. avicenniae. NEMATOLOGY 2022. [DOI: 10.1163/15685411-bja10204] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
Abstract
Summary
Criconemoides neoinformis n. sp., a cryptic species of C. informis group, and C. persicus n. sp. were recovered from the rhizosphere of pear and grass, in Zanjan and West Azerbaijan provinces, northwestern Iran, respectively. Criconemoides neoinformis n. sp. is characterised by 522-585 μm long females, having four separated pseudolips, anteriorly flattened lip region comprised of two annuli, 57-63 retrorse body annuli with smooth to slightly crenate margins, without anastomoses, 86.9-90.4 μm long stylet, having 6-10 annuli from vulva to posterior end and tail conical rounded with two, three or multilobed terminus and presence of males. Criconemoides persicus n. sp. could be characterised by flatly rounded lip region, having fused rectangular pseudolips, 515-615 μm body length, stylet 60-65 μm, body annuli 120-132 with smooth to slightly crenate margins, without anastomoses, 9-12 annuli from vulva to posterior end and tail conical rounded with two trilobed terminus. In inferred phylogenies, these two new species clustered with known Criconemoides species in 18S, 28S, ITS and COI trees. These species are clearly separated molecularly by all the studied markers. The use of molecular markers, mainly D2-D3 expansion segments of 28S rRNA, ITS region and COI, are very promising in the case of cryptic species found in this group of nematodes. We provided molecular markers (two sequences per marker) for these new species with morphological/morphometrical data using an integrative taxonomy approach for the unequivocal identification of these species.
Collapse
Affiliation(s)
- Manouchehr Hosseinvand
- Department of Plant Protection, Faculty of Agriculture, University of Zanjan, 45371-38791 Zanjan, Iran
| | - Ali Eskandari
- Department of Plant Protection, Faculty of Agriculture, University of Zanjan, 45371-38791 Zanjan, Iran
| | - Juan E. Palomares-Rius
- Instituto de Agricultura Sostenible (IAS), Consejo Superior de Investigaciones Científicas (CSIC), Avenida Menéndez Pidal s/n, Campus de Excelencia Internacional Agroalimentario, ceiA3, 14004 Córdoba, Spain
| | - Pablo Castillo
- Instituto de Agricultura Sostenible (IAS), Consejo Superior de Investigaciones Científicas (CSIC), Avenida Menéndez Pidal s/n, Campus de Excelencia Internacional Agroalimentario, ceiA3, 14004 Córdoba, Spain
| | - Joaquín Abolafia
- Departamento de Biología Animal, Biología Vegetal y Ecología, Universidad de Jaén, Campus ‘Las Lagunillas’ s/n, Edificio B3, 23071 Jaén, Spain
| | - Reza Ghaderi
- Department of Plant Protection, School of Agriculture, Shiraz University, 71441-65186 Shiraz, Iran
| |
Collapse
|
7
|
Clavero-Camacho I, Palomares-Rius JE, Cantalapiedra-Navarrete C, Castillo P, Liébanas G, Archidona-Yuste A. A Proposed New Species Complex within the Cosmopolitan Ring Nematode Criconema annuliferum (de Man, 1921) Micoletzky, 1925. PLANTS (BASEL, SWITZERLAND) 2022; 11:1977. [PMID: 35956456 PMCID: PMC9370717 DOI: 10.3390/plants11151977] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 06/10/2022] [Revised: 07/25/2022] [Accepted: 07/26/2022] [Indexed: 06/15/2023]
Abstract
Ring nematodes are obligate ectoparasites on cultivated and wild herbaceous and woody plants, inhabiting many types of soil, but particularly sandy soils. This study explored the morphometrical and molecular diversity of ring nematodes resembling Criconema annuliferum in 222 soil samples from fruit crops in Spain, including almond, apricot, peach and plum, as well as populations from cultivated and wild olives, and common yew. Ring nematodes of the genus Criconema were detected in 12 samples from under Prunus spp. (5.5%), showing a low to moderate nematode soil densities in several localities from southeastern and northeastern Spain. The soil population densities of Criconema associated with Prunus spp. ranged from 1 nematode/500 cm3 of soil in apricot at Sástago (Zaragoza province) to 7950 and 42,491 nematodes/500 cm3 of soil in peach at Ricla and Calasparra (Murcia province), respectively. The integrative taxonomical analyses reveal the presence of two cryptic species identified using females, males (when available), and juveniles with detailed morphology, morphometry, and molecular markers (D2-D3, ITS, 18S, and COI), described herein as Criconema paraannuliferum sp. nov. and Criconema plesioannuliferum sp. nov. All molecular markers from each species were obtained from the same individuals, and these individuals were also used for morphological and morphometric analyses. Criconema paraannuliferum sp. nov. was found in a high soil density in two peach fields (7950 and 42,491 nematodes/500 cm3 of soil) showing the possibility of being pathogenic in some circumstances.
Collapse
Affiliation(s)
- Ilenia Clavero-Camacho
- Institute for Sustainable Agriculture (IAS), Spanish National Research Council (CSIC), Avenida Menéndez Pidal s/n, Campus de Excelencia Internacional Agroalimentario, ceiA3, 14004 Córdoba, Spain; (I.C.-C.); (J.E.P.-R.); (C.C.-N.); (P.C.)
| | - Juan Emilio Palomares-Rius
- Institute for Sustainable Agriculture (IAS), Spanish National Research Council (CSIC), Avenida Menéndez Pidal s/n, Campus de Excelencia Internacional Agroalimentario, ceiA3, 14004 Córdoba, Spain; (I.C.-C.); (J.E.P.-R.); (C.C.-N.); (P.C.)
| | - Carolina Cantalapiedra-Navarrete
- Institute for Sustainable Agriculture (IAS), Spanish National Research Council (CSIC), Avenida Menéndez Pidal s/n, Campus de Excelencia Internacional Agroalimentario, ceiA3, 14004 Córdoba, Spain; (I.C.-C.); (J.E.P.-R.); (C.C.-N.); (P.C.)
| | - Pablo Castillo
- Institute for Sustainable Agriculture (IAS), Spanish National Research Council (CSIC), Avenida Menéndez Pidal s/n, Campus de Excelencia Internacional Agroalimentario, ceiA3, 14004 Córdoba, Spain; (I.C.-C.); (J.E.P.-R.); (C.C.-N.); (P.C.)
| | - Gracia Liébanas
- Department of Animal Biology, Plant Biology and Ecology, University of Jaén, Campus ‘Las Lagunillas’ s/n, Edificio B3, 23071 Jaén, Spain;
| | - Antonio Archidona-Yuste
- Andalusian Institute of Agricultural and Fisheries Research and Training (IFAPA), Centro Alameda del Obispo, 14004 Córdoba, Spain
| |
Collapse
|
8
|
Six First Reports of Pin Nematodes from Portugal, with an Update of the Systematics, Genetic Diversity, and Phylogeny of the Genus Paratylenchus (Nematoda: Tylenchulidae). HORTICULTURAE 2022. [DOI: 10.3390/horticulturae8040343] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Abstract
Pin nematodes (Paratylenchus spp.) currently comprise 132 species of polyphagous plant ectoparasites with at least seven species that are plant pathogenic emphasizing the need for correct identification to establish an appropriate management strategy. Sequences of highly conserved regions of ribosomal and mitochondrial RNA genes are a powerful species-level diagnostic tool within Tylenchulidae. A nematological survey was conducted from 2019 to 2021 in commercial vineyards distributed in four major wine-producing regions in the Central and South Portugal. Nine populations of Paratylenchus spp. were isolated from the rhizosphere of grapevines that were characterized from morphological data and molecular phylogenetic analysis using two rRNA genes (D2–D3 expansion segments of the 28S, and partial 18S) and a region partial of the COI mtRNA gene. Contrasting morphological hypotheses with molecular data provided rapid detection of six species, specifically P. goodeyi, P. hamatus, P. pedrami, P. tenicaudatus, P. variabilis, and P. veruculatus. Bayesian inference (BI) phylogenetic trees for these molecular markers established phylogenetic relationships underscore the importance of using genomic and molecular phylogenetic data for accurate pin nematode identification at the species level. To our knowledge, this is the first report of Paratylenchus spp. in Portugal, extending the geographical distribution of these species in the Mediterranean Basin, and the first record of P. goodeyi, P. pedrami, P.variabilis, P. veruculatus and P. tenicaudatus parasitizing grapevine.
Collapse
|
9
|
Clavero-Camacho I, Palomares-Rius JE, Cantalapiedra-Navarrete C, León-Ropero G, Martín-Barbarroja J, Archidona-Yuste A, Castillo P. Integrative Taxonomy Reveals Hidden Cryptic Diversity within Pin Nematodes of the Genus Paratylenchus (Nematoda: Tylenchulidae). PLANTS 2021; 10:plants10071454. [PMID: 34371658 PMCID: PMC8309243 DOI: 10.3390/plants10071454] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/13/2021] [Revised: 07/06/2021] [Accepted: 07/11/2021] [Indexed: 11/19/2022]
Abstract
This study delves into the diagnosis of pin nematodes (Paratylenchus spp.) in Spain based on integrative taxonomical approaches using 24 isolates from diverse natural and cultivated environments. Eighteen species were identified using females, males (when available) and juveniles with detailed morphology-morphometry and molecular markers (D2-D3, ITS and COI). Molecular markers were obtained from the same individuals used for morphological and morphometric analyses. The cryptic diversity using an integrative taxonomical approach of the Paratylenchus straeleni-species complex was studied, consisting of an outstanding example of the cryptic diversity within Paratylenchus and including the description of a new species, Paratylenchus parastraeleni sp. nov. Additionally, 17 already known species were identified comprising P. amundseni, P. aciculus, P. baldaccii, P. enigmaticus, P. goodeyi, P. holdemani, P. macrodorus, P. neoamblycephalus, P. pandatus, P. pedrami, P. recisus, P. sheri, P. tateae, P. variabilis, P. veruculatus, P. verus, and P. vitecus. Eight of these species need to be considered as first reports for Spain in this work (viz. P. amundseni, P. aciculus, P. neoamblycephalus, P. pandatus, P. recisus, P. variabilis, P. verus and P. vitecus). Thirty-nine species of Paratylenchus have been reported in Spain from cultivated and natural ecosystems. Although we are aware that nematological efforts on Paratylenchus species in Southern Spain have been higher than that carried out in central and northern part of the country, the present distribution of the genus in Spain, with about 90% of species (35 out of 39 species, and 24 of them confirmed by integrative taxonomy) only reported in Southern Spain, suggest that this part of the country can be considered as a potential hotspot of biodiversity.
Collapse
Affiliation(s)
- Ilenia Clavero-Camacho
- Instituto de Agricultura Sostenible (IAS), Consejo Superior de Investigaciones Científicas (CSIC), Avenida Menéndez Pidal s/n, Campus de Excelencia Internacional Agroalimentario, ceiA3, 14004 Córdoba, Spain; (I.C.-C.); (J.E.P.-R.); (C.C.-N.); (G.L.-R.); (J.M.-B.)
| | - Juan Emilio Palomares-Rius
- Instituto de Agricultura Sostenible (IAS), Consejo Superior de Investigaciones Científicas (CSIC), Avenida Menéndez Pidal s/n, Campus de Excelencia Internacional Agroalimentario, ceiA3, 14004 Córdoba, Spain; (I.C.-C.); (J.E.P.-R.); (C.C.-N.); (G.L.-R.); (J.M.-B.)
| | - Carolina Cantalapiedra-Navarrete
- Instituto de Agricultura Sostenible (IAS), Consejo Superior de Investigaciones Científicas (CSIC), Avenida Menéndez Pidal s/n, Campus de Excelencia Internacional Agroalimentario, ceiA3, 14004 Córdoba, Spain; (I.C.-C.); (J.E.P.-R.); (C.C.-N.); (G.L.-R.); (J.M.-B.)
| | - Guillermo León-Ropero
- Instituto de Agricultura Sostenible (IAS), Consejo Superior de Investigaciones Científicas (CSIC), Avenida Menéndez Pidal s/n, Campus de Excelencia Internacional Agroalimentario, ceiA3, 14004 Córdoba, Spain; (I.C.-C.); (J.E.P.-R.); (C.C.-N.); (G.L.-R.); (J.M.-B.)
| | - Jorge Martín-Barbarroja
- Instituto de Agricultura Sostenible (IAS), Consejo Superior de Investigaciones Científicas (CSIC), Avenida Menéndez Pidal s/n, Campus de Excelencia Internacional Agroalimentario, ceiA3, 14004 Córdoba, Spain; (I.C.-C.); (J.E.P.-R.); (C.C.-N.); (G.L.-R.); (J.M.-B.)
| | - Antonio Archidona-Yuste
- Andalusian Institute of Agricultural and Fisheries Research and Training (IFAPA), Centro Alameda del Obispo, 14004 Córdoba, Spain;
- Department of Ecological Modelling, Helmholtz Centre for Environmental Research—UFZ, Permoserstrasse 15, 04318 Leipzig, Germany
| | - Pablo Castillo
- Instituto de Agricultura Sostenible (IAS), Consejo Superior de Investigaciones Científicas (CSIC), Avenida Menéndez Pidal s/n, Campus de Excelencia Internacional Agroalimentario, ceiA3, 14004 Córdoba, Spain; (I.C.-C.); (J.E.P.-R.); (C.C.-N.); (G.L.-R.); (J.M.-B.)
- Correspondence:
| |
Collapse
|
10
|
Clavero-Camacho I, Cantalapiedra-Navarrete C, Archidona-Yuste A, Castillo P, Palomares-Rius JE. Remarkable Cryptic Diversity of Paratylenchus spp. (Nematoda: Tylenchulidae) in Spain. Animals (Basel) 2021; 11:ani11041161. [PMID: 33919566 PMCID: PMC8073821 DOI: 10.3390/ani11041161] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2021] [Revised: 04/13/2021] [Accepted: 04/15/2021] [Indexed: 02/05/2023] Open
Abstract
In previous studies, fifteen species of Paratylenchus, commonly known as pin nematodes, have been reported in Spain. These plant-parasitic nematodes are ectoparasites with a wide host range and global distribution. In this research, 27 populations from twelve Paratylenchus species from 18 municipalities in Spain were studied using morphological, morphometrical and molecular data. This integrative taxonomic approach allowed the identification of twelve species, four of them were considered new undescribed species and eight were already known described. The new species described here are P. caravaquenus sp. nov., P. indalus sp. nov., P. pedrami sp. nov. and P. zurgenerus sp. nov. As for the already known described species, five were considered as first reports for the country, specifically P.enigmaticus, P. hamatus, P. holdemani, P. israelensis, and P. veruculatus, while P. baldaccii, P. goodeyi and P. tenuicaudatus had already been recorded in Spain. This study provides detail morphological and molecular data, including the D2-D3 expansion segments of 28S rRNA, ITS rRNA, and partial mitochondrial COI regions for the identification of different Paratylenchus species found in Spain. These results confirm the extraordinary cryptic diversity in Spain and with examples of morphostatic speciation within the genus Paratylenchus.
Collapse
Affiliation(s)
- Ilenia Clavero-Camacho
- Campus de Excelencia Internacional Agroalimentario, ceiA3, Instituto de Agricultura Sostenible (IAS), Consejo Superior de Investigaciones Científicas (CSIC), Avenida Menéndez Pidal s/n, 14004 Córdoba, Spain; (I.C.-C.); (C.C.-N.); (P.C.)
| | - Carolina Cantalapiedra-Navarrete
- Campus de Excelencia Internacional Agroalimentario, ceiA3, Instituto de Agricultura Sostenible (IAS), Consejo Superior de Investigaciones Científicas (CSIC), Avenida Menéndez Pidal s/n, 14004 Córdoba, Spain; (I.C.-C.); (C.C.-N.); (P.C.)
| | - Antonio Archidona-Yuste
- Centro Alameda del Obispo, Andalusian Institute of Agricultural and Fisheries Research and Training (IFAPA), 14004 Córdoba, Spain;
- Helmholtz Centre for Environmental Research-FZ, Department of Ecological Modelling, Permoserstrasse 15, 04318 Leipzig, Germany
| | - Pablo Castillo
- Campus de Excelencia Internacional Agroalimentario, ceiA3, Instituto de Agricultura Sostenible (IAS), Consejo Superior de Investigaciones Científicas (CSIC), Avenida Menéndez Pidal s/n, 14004 Córdoba, Spain; (I.C.-C.); (C.C.-N.); (P.C.)
| | - Juan Emilio Palomares-Rius
- Campus de Excelencia Internacional Agroalimentario, ceiA3, Instituto de Agricultura Sostenible (IAS), Consejo Superior de Investigaciones Científicas (CSIC), Avenida Menéndez Pidal s/n, 14004 Córdoba, Spain; (I.C.-C.); (C.C.-N.); (P.C.)
- Correspondence:
| |
Collapse
|
11
|
Singh PR, Karssen G, Couvreur M, Subbotin SA, Bert W. Integrative Taxonomy and Molecular Phylogeny of the Plant-Parasitic Nematode Genus Paratylenchus (Nematoda: Paratylenchinae): Linking Species with Molecular Barcodes. PLANTS (BASEL, SWITZERLAND) 2021; 10:408. [PMID: 33671787 PMCID: PMC7926417 DOI: 10.3390/plants10020408] [Citation(s) in RCA: 18] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/15/2021] [Revised: 02/13/2021] [Accepted: 02/15/2021] [Indexed: 01/18/2023]
Abstract
Pin nematodes of the genus Paratylenchus are obligate ectoparasites of a wide variety of plants that are distributed worldwide. In this study, individual morphologically vouchered nematode specimens of fourteen Paratylenchus species, including P. aculentus, P. elachistus, P. goodeyi, P. holdemani, P. idalimus, P. microdorus, P. nanus, P. neoamblycephalus, P. straeleni and P. veruculatus, are unequivocally linked to the D2-D3 of 28S, ITS, 18S rRNA and COI gene sequences. Combined with scanning electron microscopy and a molecular analysis of an additional nine known and thirteen unknown species originating from diverse geographic regions, a total of 92 D2-D3 of 28S, 41 ITS, 57 18S rRNA and 111 COI new gene sequences are presented. Paratylenchus elachistus, P. holdemani and P. neoamblycephalus are recorded for the first time in Belgium and P. idalimus for the first time in Europe. Paratylenchus is an excellent example of an incredibly diverse yet morphologically minimalistic plant-parasitic genus, and this study provides an integrated analysis of all available data, including coalescence-based molecular species delimitation, resulting in an updated Paratylenchus phylogeny and the corrective reassignment of 18 D2-D3 of 28S, 3 ITS, 3 18S rRNA and 25 COI gene sequences that were previously unidentified or incorrectly classified.
Collapse
Affiliation(s)
- Phougeishangbam Rolish Singh
- Nematology Research Unit, Department of Biology, Ghent University, K.L. Ledeganckstraat 35, 9000 Ghent, Belgium; (G.K.); (M.C.); (W.B.)
| | - Gerrit Karssen
- Nematology Research Unit, Department of Biology, Ghent University, K.L. Ledeganckstraat 35, 9000 Ghent, Belgium; (G.K.); (M.C.); (W.B.)
- National Plant Protection Organization, Wageningen Nematode Collection, P.O. Box 9102, 6700 HC Wageningen, The Netherlands
| | - Marjolein Couvreur
- Nematology Research Unit, Department of Biology, Ghent University, K.L. Ledeganckstraat 35, 9000 Ghent, Belgium; (G.K.); (M.C.); (W.B.)
| | - Sergei A. Subbotin
- Plant Pest Diagnostic Center, California Department of Food and Agriculture, 3294 Meadowview Road, Sacramento, CA 95832, USA;
- Center of Parasitology of A.N. Severtsov Institute of Ecology and Evolution of the Russian, Academy of Sciences, Leninskii Prospect 33, 117071 Moscow, Russia
| | - Wim Bert
- Nematology Research Unit, Department of Biology, Ghent University, K.L. Ledeganckstraat 35, 9000 Ghent, Belgium; (G.K.); (M.C.); (W.B.)
| |
Collapse
|
12
|
Subbotin SA, Yan G, Kantor M, Handoo Z. On the molecular identity of Paratylenchus nanus (Nematoda: Tylenchida). J Nematol 2021; 52:e2020-127. [PMID: 33829177 PMCID: PMC8015318 DOI: 10.21307/jofnem-2020-127] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2020] [Indexed: 11/11/2022] Open
Abstract
In this study, molecular characterization of Paratylenchus nanus collected from the type locality in Four Mile Run, Fall Church, Virginia using COI, D2-D3 of 28 S rRNA and ITS rRNA gene sequences was provided. We molecularly also characterized, Paratylenchus specimens collected from grasses in Devils Lake, Ramsey County, North Dakota indicated as the type locality in the original description of P. nanus by Cobb (1923). These nematodes were identified as representatives of the species P. projectus. Populations of P. nanus belonging to the molecular types A and B, and previously designated by Van den Berg et al. (2014) should be now identified as P. nanus and P. projectus, respectively.
Collapse
Affiliation(s)
- Sergei A Subbotin
- Plant Pest Diagnostic Center, California Department of Food and Agriculture, 3294 Meadowview Road, Sacramento, CA 95832.,Center of Parasitology of A.N. Severtsov Institute of Ecology and Evolution of the Russian Academy of Sciences, Leninskii Prospect 33, Moscow 117071, Russia
| | - Guiping Yan
- Department of Plant Pathology, North Dakota State University, Fargo, ND 58108
| | - Mihail Kantor
- Mycology and Nematology Genetic Diversity and Biology Laboratory, USDA, ARS, Building 010 A, BARC-West, 10300 Baltimore Avenue, Beltsville, MD 20705
| | - Zafar Handoo
- Mycology and Nematology Genetic Diversity and Biology Laboratory, USDA, ARS, Building 010 A, BARC-West, 10300 Baltimore Avenue, Beltsville, MD 20705
| |
Collapse
|