Cytochrome c oxidase subunit 1 analysis of Xiphinema diversicaudatum, X. pachtaicum, X. simile and X. vuittenezi (Nematoda, Dorylaimida)

Kumari, S.; Decraemer, Wilfrida; Luca, Francesca De; Tiefenbrunner, W.

doi:10.1007/s10658-010-9614-0

Cited by 21 publications

(22 citation statements)

References 14 publications

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“…PCR products were purified after amplification with QIAquick (Qiagen) gel extraction kit and used for direct sequencing. The newly obtained GAT TTT TTG GKC ATC CWG ARG GTA CAT AAT GAA AAT GTG CCA C COI ofmtDNA 435 Kumari et al (2010) sequences were submitted to the GenBank database under accession numbers: KF292276-KF292306 as indicated in Table 1 and in the phylogenetic trees.…”

Section: Morphological Studymentioning

confidence: 99%

“…The newly obtained sequences of the ITS1 rRNA, the D2-D3 of 28S rRNA and coxl genes were aligned us ing ClustalX 1.83 with default parameters with their cor responding published gene sequences (He et al, 2005;Robbins et al, 2009;Kumari et al, 2010;GutierrezGutierrez et al, 2013). Outgroup taxa for each dataset were chosen according to the results of previous published data.…”

Section: Phylogenetic Analysismentioning

confidence: 99%

“…Several authors have molecularly characterised various populations of X. diversicaudatum using ribosomal RNA genes (De Giorgi et a l, 1994;Wang et al, 2003;He et al, 2005) and mtDNA genes (Kumari et al, 2010;Kumari & Di Cesare, 2013). PCR-RFLP diagnostic profile (Lamberti et al, 1999) and PCR with species-specific primer were also developed for diagnostics of this species (Wang et al, 2003;Hiibschen et al, 2004).…”

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confidence: 99%

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Morphological and molecular characterisation of the Saratov population of the European dagger nematode, Xiphinema diversicaudatum (Nematoda: Dorylaimida), with notes on phylogeography of the species

Chizhov

Pridannikov

Peneva

et al. 2014

Nematol

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Plesiotype specimens of the European dagger nematode, Xiphinema diversicaudatum, were collected in Saratov, Russia, and morphologically, morphometrically and molecularly characterised. PCR with specific primer was developed for rapid diagnostics of this species. Phylogenetic relationships of X. diversicaudatum with other Xiphinema species, as inferred from the analyses of the D2-D3 expansion segments of 28S rRNA, ITS rRNA and coxl mtDNA gene sequences, are also provided. The study revealed that the clade X. diversicaudatum, together with X. bakeri (North America) and X. chengi (Asia), is related to Xiphinema species from the Mediterranean region and likely originated from a common ancestor inhabiting this area. The phylogenetic reconstructions with coxl mtDNA were used to describe the pattern of present genetic diversity of X. diversicaudatum and infer its biogeographical history in Europe. Haplotype diversity of X. diversicaudatum populations from Central Europe was significantly higher than those from south eastern Europe, central, south-eastern and southern European Russia. It has been hypothesised that, during the Last Glacial Maximum, X. diversicaudatum populations probably persisted in refuge areas in the Carpathian mountains or the Alps, the species subsequently expanding from these areas and colonising other regions in Europe.

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Section: Morphological Studymentioning

confidence: 99%

Section: Phylogenetic Analysismentioning

confidence: 99%

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confidence: 99%

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Morphological and molecular characterisation of the Saratov population of the European dagger nematode, Xiphinema diversicaudatum (Nematoda: Dorylaimida), with notes on phylogeography of the species

Chizhov

Pridannikov

Peneva

et al. 2014

Nematol

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“…Current availability of molecular techniques may help to provide tools for differentiating species and can significantly improve and facilitate the routine identification of those nematodes. Thus, use of ribosomal DNA (rDNA) sequences from partial 18S, ITS regions, and the D2 and D3 expansion segments of the 28S and mitochondrial DNA (mtDNA) such as protein-coding mitochondrial gene, cytochrome c oxidase 1 subunit (COI), have proved an useful diagnostic tool for the characterisation and establishment of phylogenetic relationships within plant-parasitic nematodes such as Longidoridae, especially in cases where morphological characters may lead to ambiguous interpretation (Wang et al 2003;Ye et al 2004;He et al 2005; Barsi and De Luca 2008;Kumari et al 2010). Polyphasic identification, based in an integrative strategy of combining molecular techniques with morphology and morphometry measurements for diagnosis of each species, are vital for a correct nematode identification.…”

Section: Introductionmentioning

confidence: 99%

Prevalence, polyphasic identification, and molecular phylogeny of dagger and needle nematodes infesting vineyards in southern Spain

Gutiérrez-Gutiérrez

Palomares-Rius

Cantalapiedra‐Navarrete

et al. 2010

Eur J Plant Pathol

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The occurrence and geographic distribution of longidorid nematode species inhabiting the rhizosphere of grapevine plants in southern Spain were investigated. Nematode surveys were conducted on 77 vineyards during the spring seasons of 2006, 2007 and 2008 in the main Andalusian grapevine-growing areas, including the provinces of Cádiz, Córdoba, and Huelva. Morphological and morphometrical studies identified two Longidorus and nine Xiphinema species, viz.: Longidorus alvegus, L. magnus, Xiphinema adenohystherum, X. hispidum, X. index, X. italiae, X. lupini, X. nuragicum, X. pachtaicum, X. rivesi, and X. turcicum. Overall, frequencies of infestation were, in decreasing order: X. pachtaicum 90.8%, X. index 30.3%, X. italiae 13.2%, L. magnus 11.8%, X. hispidum 7.9%, X. lupini 3.9%, L. alvegus and X. rivesi 2.6%, and X. adenohystherum, X. nuragicum and X. turcicum 1.3%. Xiphinema hispidum, X. lupini, L. alvegus and L. magnus were compared with nematode type specimens and are reported for the first time in Spain. Furthermore, the male of L. alvegus is described for the first time in the literature. Molecular characterisation of these species using D2-D3 expansion regions of 28S rRNA, 18S rRNA and ITS1-rRNA was carried out and maximum likelihood and Bayesian inference analysis were used to reconstruct phylogenetic relationships among these species and with other longidorids. The monophily of the genera Xiphinema and Longidorus was accepted and the genera Paralongidorus and Xiphidorus were rejected by the ShimodairaHasegawa test based on tree topologies.

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“…Xiphinema species show quite some morphological complexity to identify only based on morphological identification method (Lamberti et al 2000; Kumari et al 2010). Ribosomal DNA (rDNA) sequences from partial 18S, ITS regions, and the D2 and D3 expansion segments of the 28S, and mitochondrial DNA (mtDNA), cytochrome c oxidase 1 subunit (COI), are useful diagnostic tool for the characterization and establishment of phylogenetic relationships especially for the species of the Xiphinema americanum group (Lazarova et al 2006; Gutierrez-Gutierrez et al 2010).…”

Section: Introductionmentioning

confidence: 99%

First report, morphological and molecular characterization of Xiphinema elongatum and X. pachtaicum (Nematoda, Longidoridae) from Ethiopia

Getaneh¹,

Bert²,

Decraemer³

2015

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A total of six soil samples were collected around rhizosphere of citrus plants during 2010 from Melkassa Agricultural Research Center experimental station, Ethiopia. From these samples two most important ecto-plant parasitic nematodes of the genus Xiphinema were found and analysed. The genus Xiphinema is a large group of the phylum nematoda which constitutes more than 260 species. They are polyphagous root- ectoparasites of many crop plants and some species of this genus cause damage by direct feeding on root tips and transmit nepoviruses. The delimitation and discrimination of two species in the genus is presented, described herein as Xiphinema elongatum and Xiphinema pachtaicum. Morphological and morphometric data were done using light microscopy and results of both species were fit within the previously described nematode species of Xiphinema elongatum and Xiphinema pachtaicum. 18S rDNA were analysed using Bayesian inference (BI) method to reconstruct phylogenetic relationships of the studied Xiphinema sp. (KP407872 Xiphinema elongatum and KP407873 Xiphinema pachtaicum) with other Xiphinema species. The 18S rDNA sequence of Xiphinema pachtaicum was alike to previously described species from the GenBank but Xiphinema elongatum exhibited very small levels of nucleotides differences (0.4%) which might be possible intra-specific divergence. Though this region of rDNA has less resolution on complex species, its combination with morphological and morphometric analyses, suggests these species as Xiphinema elongatum and Xiphinema pachtaicum with the GenBank accession number of KP407872 and KP407873, respectively. Short notes, morphological measurements, illustrations, and molecular data are given to these species. These species are reported for the first time from Ethiopia and it provides new geographical information of these organisms.

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Cytochrome c oxidase subunit 1 analysis of Xiphinema diversicaudatum, X. pachtaicum, X. simile and X. vuittenezi (Nematoda, Dorylaimida)

Cited by 21 publications

References 14 publications

Morphological and molecular characterisation of the Saratov population of the European dagger nematode, Xiphinema diversicaudatum (Nematoda: Dorylaimida), with notes on phylogeography of the species

Morphological and molecular characterisation of the Saratov population of the European dagger nematode, Xiphinema diversicaudatum (Nematoda: Dorylaimida), with notes on phylogeography of the species

Prevalence, polyphasic identification, and molecular phylogeny of dagger and needle nematodes infesting vineyards in southern Spain

First report, morphological and molecular characterization of Xiphinema elongatum and X. pachtaicum (Nematoda, Longidoridae) from Ethiopia

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