Mitochondrial coding genome analysis of tropical root-knot nematodes (Meloidogyne) supports haplotype based diagnostics and reveals evidence of recent reticulate evolution

Janssen, Toon; Karssen, Gerrit; Verhaeven, Myrtle; Coyne, Danny; Bert, Wim

doi:10.1038/srep22591

Cited by 126 publications

(117 citation statements)

References 45 publications

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“…Meloidogyne luci has been associated with several important plant species, such as bean ( Phaseolus vulgaris ), broccoli ( Brassica oleracea ), carrot ( Daucus carota ), cucumber ( Cucumis sativus ), grapevine ( Vitis vinifera ), kiwifruit ( Actinidia deliciosa ), lavender ( Lavandula angustifolia ), lettuce ( Lactuca sativa ), okra ( Abelmoschus esculentus ), rose ( Rosa sp. ), snapdragon ( Antirrhinum majus ), sedum ( Hylotelephium spectabile ), soybean ( Glycine max ), tomato ( S. lycopersicum ) and yakon ( Polymnia sonchifolia ) (Carneiro et al ., ; Bellé et al ., ; Janssen et al ., ).…”

Section: Introductionmentioning

confidence: 97%

“…Meloidogyne sp. females with similar EST phenotype have been recorded since 1985 in South America (Argentina, Bolivia, Brazil, Chile, Ecuador and Guatemala), Iran and Europe (Turkey and Slovenia) (reviewed in Carneiro et al ., ; Bellé et al ., ; Janssen et al ., ). The description of this RKN species, designated as M. luci , was only made in 2014 from isolates from lavender ( Lavandula spica ) collected in Rio Grande do Sul, Brazil (Carneiro et al ., ).…”

Section: Introductionmentioning

confidence: 99%

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Meloidogyne luci, a new root‐knot nematode parasitizing potato in Portugal

et al. 2017

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In 2013, during a field survey conducted in Portugal on potato, Solanum tuberosum, an unusual esterase (EST) phenotype was detected in a root‐knot nematode (RKN) from potato roots collected in Coimbra. This Portuguese isolate was purified and maintained on tomato, S. lycopersicum, and morphological, biochemical and molecular characteristics were studied. Perineal pattern morphology was highly variable, similar to Meloidogyne ethiopica and not useful for identification. The EST phenotype, from young egg‐laying females, displayed three bands similar to the Brazilian M. luci (L3) and distinct from M. ethiopica (E3). Phylogenetic analyses of mitochondrial cytochrome oxidase subunit I and the mitochondrial DNA region between COII and 16S rRNA genes revealed that the Portuguese isolate grouped with M. luci isolates close to M. ethiopica isolates. However, considering the ITS1‐5.8S‐ITS2 region, the Portuguese isolate grouped with isolates of M. luci, M. ethiopica and M. hispanica, which limits the confidence of this region for M. luci diagnosis, and its differentiation from other species with morphological similarities. The M. luci pathogenicity to potato was also assessed in 16 commercial cultivars and compared with M. chitwoodi, considered to be a quarantine RKN species by EPPO. All potato cultivars were susceptible to both Meloidogyne species with gall indices of 5 and higher reproduction factor values ranging from 12.5 to 122.3, which suggests that M. luci may constitute a potential threat to potato production. In the present study, M. luci is reported for the first time attacking potato in Portugal.

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Section: Introductionmentioning

confidence: 97%

Section: Introductionmentioning

confidence: 99%

Meloidogyne luci, a new root‐knot nematode parasitizing potato in Portugal

et al. 2017

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“…One may target any of the mitochondrial DNA-based markers such the COI, Nad5, 16S, COI and Nad2 if the study demands species-level resolution or to the level of populations covering a narrow diversity such as a family or genus. In plant nematology, a number of closely related species within groups such as the cyst and root-knot nematodes have been successfully identified using DNA markers within the mitochondrial genome (Eves-Van Den Akker et al, 2015;Janssen et al, 2016). If, on the other hand, the study demands a wider coverage without a strict requirement for species-level identification -as in community-level analysis, where computation of diversity indices usually only requires family-or genus-level identification (Bongers, 1990) -any of the markers within rRNA genes can be suitable.…”

Section: Discussionmentioning

confidence: 99%

Technological advancements and their importance for nematode identification

Ahmed

Sapp

Prior

et al. 2016

SOIL

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Abstract. Nematodes represent a species-rich and morphologically diverse group of metazoans known to inhabit both aquatic and terrestrial environments. Their role as biological indicators and as key players in nutrient cycling has been well documented. Some plant-parasitic species are also known to cause significant losses to crop production. In spite of this, there still exists a huge gap in our knowledge of their diversity due to the enormity of time and expertise often involved in characterising species using phenotypic features. Molecular methodology provides useful means of complementing the limited number of reliable diagnostic characters available for morphology-based identification. We discuss herein some of the limitations of traditional taxonomy and how molecular methodologies, especially the use of high-throughput sequencing, have assisted in carrying out large-scale nematode community studies and characterisation of phytonematodes through rapid identification of multiple taxa. We also provide brief descriptions of some the current and almost-outdated high-throughput sequencing platforms and their applications in both plant nematology and soil ecology.

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“…Briefly, slides of second-stage juveniles of Irish population were carefully broken with scalpel and T.A.F.-fixed specimens were transferred to staining blocks containing (PBS)phosphate-buffered saline . Two protocols of DNA extraction were performed, i) with NaOH and Tween solution (Janssen et al 2016), and ii) with Worm Lysis Buffer (20 mMTris-HCl, 100 mMKCl, 3.0 mM MgCl2, 2.0 mM DTT, 0.9% Tween 20) and Proteinase K (Rubtsova et al 2005). As a positive control, DNA was extracted from three fresh second-stage juveniles of Meloidogyne fallax (source ID: E6147; host: Lycopersicon esculentum L.).…”

Section: Molecular Analysismentioning

confidence: 99%

An early record of Meloidogyne fallax from Ireland

Topalović¹,

Moore²,

Janssen³

et al. 2017

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Root-knot nematodes, Meloidogyne spp., cause huge economic losses worldwide. Currently, three Meloidogyne spp. are present on the quarantine A2 list of EPPO, Meloidogyne chitwoodi, Meloidogyne fallax and Meloidogyne enterolobii. As a quarantine organism, Meloidogyne fallax has been detected in England and Northern Ireland on sport turf in 2011, and in England on leek in 2013. However, its presence in Ireland has probably been overlooked since 1965, when Mr. John F. Moore and Dr. Mary T. Franklin had detected a new Meloidogyne species for that time. While the relevant data was recorded and a preliminary manuscript describing the species was prepared but never submitted for publication, and together with the original slides, pictures and drawings, it was restudied recently. We compared the population of Irish Meloidogyne sp. to other similar Meloidogyne spp. Careful observation and comparison shows that it belongs to Meloidogyne fallax. The characters found to be common for Irish Meloidogyne sp. and Meloidogyne fallax are female stylet length (14.6 μm) with oval to rounded basal knobs, oval shaped perineal pattern with moderately high dorsal arch, slender stylet in males (18.5 μm) with set off and rounded basal knobs, slightly set off male head with one post-labial annule and incomplete transverse incisures, and second-stage juveniles with large and rounded stylet basal knobs, and a gradually tapering tail (46.9 μm) with a broadly rounded tip and a clearly delimitated smooth hyaline part sometimes marked by constrictions (12.9 μm). The host test and gall formation also correspond to Meloidogyne fallax. The identification could not be additionally supported by molecular analysis, as we were unable to extract DNA from the old permanent slides. Nevertheless, our study reveals that the Meloidogyne species detected in Ireland in 1965 belongs to Meloidogyne fallax.

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Mitochondrial coding genome analysis of tropical root-knot nematodes (Meloidogyne) supports haplotype based diagnostics and reveals evidence of recent reticulate evolution

Cited by 126 publications

References 45 publications

Meloidogyne luci, a new root‐knot nematode parasitizing potato in Portugal

Meloidogyne luci, a new root‐knot nematode parasitizing potato in Portugal

Technological advancements and their importance for nematode identification

An early record of Meloidogyne fallax from Ireland

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