A unique species in Phytophthora clade 10, Phytophthora intercalaris sp. nov., recovered from stream and irrigation water in the eastern USA

Yang, Xiao; Balcì, Y.; Brazee, Nicholas J.; Loyd, Andrew L.; Hong, Chuanxue

doi:10.1099/ijsem.0.000800

Cited by 12 publications

(13 citation statements)

References 46 publications

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“…Current phylogenies place P. kernoviae in clade 10 (Cooke et al, 2000) of the genus, together with four other species: Phytophthora boehmeriae K. Sawada (Erwin and Robeiro, 1996), Phytophthora gallica T. Jung & J. Nechwatal (Jung and Nechwatal, 2008), Phytophthora morindae Z.G. Abad & S.C. Nelson (Nelson and Abad, 2017) and Phytophthora intercalaris (Yang et al, 2015). Phytophthora gallica has been recovered from the rhizosphere of declining oak in France and Germany, and identified as a moderately aggressive pathogen, but of lower impact than other pathogens found within the same system (Jung and Nechwatal, 2008).…”

Section: Discussionmentioning

confidence: 99%

“…The newly described species, P. morindae, causes foliar and fruit rot disease of Indian Mulberry ( Morinda citrifolia L. var. citrifolia ) (Nelson and Abad, ), whereas P. intercalaris has frequently been isolated in stream baiting surveys of eastern USA, but has yet to be associated with disease symptoms on any plant host (Yang et al , ). The increasing numbers of pathogens being assigned to Phytophthora clade 10, together with the known pathology of most of these species, demonstrate the potential for pathogens from this clade to cause significant disease on a range of hosts in suitable climatic conditions.…”

Section: Isolates Used In This Study and Summary Statistics For Genommentioning

confidence: 99%

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Genome sequencing of oomycete isolates from Chile supports the New Zealand origin of Phytophthora kernoviae and makes available the first Nothophytophthora sp. genome

Studholme

Panda

Sanfuentes

et al. 2018

Molecular Plant Pathology

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Summary Genome sequences were generated for six oomycete isolates collected from forests in Valdivia, Chile. Three of the isolates were identified morphologically as Phytophthora kernoviae , whereas two were similar to other clade 10 Phytophthora species. One isolate was tentatively identified as Nothophytophthora valdiviana based on nucleotide sequence similarity in the cytochrome oxidase 1 gene. This is the first genome sequence for this recently described genus. The genome assembly was more fragmented and contained many duplicated genes when compared with the other Phytophthora sequences. Comparative analyses were performed with genomic sequences of the P. kernoviae isolates from the UK and New Zealand. Although the potential New Zealand origin of P. kernoviae has been suggested, new isolations from Chile had cast doubt on this hypothesis. We present evidence supporting P. kernoviae as having originated in New Zealand. However, investigation of the diversity of oomycete species in Chile has been limited and warrants further exploration. We demonstrate the expediency of genomic analyses in determining phylogenetic relationships between isolates within new and often scantly represented taxonomic groups, such as Phytophthora clade 10 and Nothophytophthora . Data are available on GenBank via BioProject accession number PRJNA352331.

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Section: Discussionmentioning

confidence: 99%

Section: Isolates Used In This Study and Summary Statistics For Genommentioning

confidence: 99%

Genome sequencing of oomycete isolates from Chile supports the New Zealand origin of Phytophthora kernoviae and makes available the first Nothophytophthora sp. genome

Studholme

Panda

Sanfuentes

et al. 2018

Molecular Plant Pathology

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“…The abundance of Phytophthora species within ornamental nursery settings is a 0 major concern as plant trading nurseries are the most important source of Phytophthora invasions because they are linked to global shipping networks (Brasier 2008;Jung et al 2016b). Phytophthora species have been recovered from soil of potted plants (Davison et al 2006), irrigation reservoirs (Ghimire et al 2011;Yang et al 2016), and hundreds of different hosts with novel plant-microbe interactions (Moralejo et al 2009;Jung et al 2016b). Nurseries also provide opportunities for hybridization between species (Brasier 2001;Brasier et al 2004), where progeny can have novel host specificities and effects (Érsek et al 1995;Brasier et al 1999).…”

Section: Phytophthora Species In the Environmentmentioning

confidence: 99%

Urban environments provide opportunities for early detections of Phytophthora invasions

et al. 2017

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Globalization has increased the frequency of inadvertent introductions of plant pathogens. Many catastrophic invasions of both natural and agricultural systems have been initiated through anthropogenic dissemination pathways. Phytophthora species are a group of invasive plant pathogens causing many of the most important plant disease epidemics. A review of Phytophthora species descriptions published following the publication of the first DNA-based Phytophthora phylogeny was conducted to highlight patterns of recent introductions and to provide insights for early pathogen detection initiatives. Seventy-two publications from 2001-2016 describing 98 Phytophthora species were evaluated. Of the 91 species with geographic location isolation data, 22% of species were described from type specimens isolated from urban environments, 33% from agricultural environments and 45% from natural environments. Within the urban environment, ornamental plant trading nurseries were the most important sources. Specifically, for Phytophthora ramorum, a species causing multiple epidemics globally, the largest proportion of first report publications were from urban environments, including nurseries. Nearly a quarter of the species descriptions were based on isolates from the urban environment, including ornamental nurseries, and the majority of the first reports for P. ramorum were also from this environment. We therefore suggest that detection programs for invasive plant pathogens within the urban environment would be valuable. In this regard, specialized monitoring and citizen science projects that target urban areas where live plant-trading industries are concentrated would be particularly effective to both promote early detection and to facilitate a rapid response to new species invasions.

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“…For example, Yang et al (2017) included 142 formally described and 43 yet to be described Phytophthora entities in their phylogenetic analyses. Rapid growth in the size of the family reflects increased attention on understanding the diversity in natural ecosystems such as forests (e.g., Vettraino et al 2002 ; Jung et al 2017a ) and streams (e.g., Reeser et al 2007 ; Yang et al 2016 ; Brazee et al 2017 ) as well as in regions such as Asia and South America (e.g., Webber et al 2011 ; Lee et al 2017 ; Jung et al 2020 ; Legeay et al 2020 ).…”

Section: Introductionmentioning

confidence: 99%

Comparative Analyses of Complete Peronosporaceae (Oomycota) Mitogenome Sequences—Insights into Structural Evolution and Phylogeny

Winkworth

Neal

Ogas

et al. 2022

Genome Biology and Evolution

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Members of the Peronosporaceae (Oomycota, Chromista), which currently consists of 25 genera and approximately 1000 recognised species, are responsible for disease on a wide range of plant hosts. Molecular phylogenetic analyses over the last two decades have improved our understanding of evolutionary relationships within Peronosporaceae. To date, 16 numbered and three named clades have been recognised; it is clear from these studies that the current taxonomy does not reflect evolutionary relationships. Whole organelle genome sequences are an increasingly important source of phylogenetic information, and in this study we present comparative and phylogenetic analyses of mitogenome sequences from 15 of the 19 currently recognized clades of Peronosporaceae, including 44 newly assembled sequences. Our analyses suggest strong conservation of mitogenome size and gene content across Peronosporaceae but, as previous studies have suggested, limited conservation of synteny. Specifically, we identified 28 distinct syntenies amongst the 71 examined isolates. Moreover, 19 of the isolates contained inverted or direct repeats, suggesting repeated sequences may be more common than previously thought. In terms of phylogenetic relationships, our analyses of 34 concatenated mitochondrial gene sequences resulted in a topology that was broadly consistent with previous studies. However, unlike previous studies concatenated mitochondrial sequences provided strong support for higher level relationships within the family.

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A unique species in Phytophthora clade 10, Phytophthora intercalaris sp. nov., recovered from stream and irrigation water in the eastern USA

Cited by 12 publications

References 46 publications

Genome sequencing of oomycete isolates from Chile supports the New Zealand origin of Phytophthora kernoviae and makes available the first Nothophytophthora sp. genome

Genome sequencing of oomycete isolates from Chile supports the New Zealand origin of Phytophthora kernoviae and makes available the first Nothophytophthora sp. genome

Urban environments provide opportunities for early detections of Phytophthora invasions

Comparative Analyses of Complete Peronosporaceae (Oomycota) Mitogenome Sequences—Insights into Structural Evolution and Phylogeny

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