Use of the Genealogical Sorting Index (GSI) to delineate species boundaries in the Neofusicoccum parvum–Neofusicoccum ribis species complex

Sakalidis, Monique L.; Hardy, G.; Burgess, Treena I.

doi:10.1016/j.ympev.2011.04.026

Cited by 74 publications

(76 citation statements)

References 59 publications

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“…This fungus was previously reported from Syzygium cordatum, Eucalyptus grandis and A. karroo in South Africa (Pavlic et al 2009a;Pillay et al 2013), from E. dunnii and Corymbia torelliana in Australia (Sakalidis et al 2011b), and also from V. vinifera in Uruguay (Abreo et al 2013). Such expansion of the known host range following expanded sampling appears to be a common pattern of recent studies on the Botryosphaeriaceae, and these are changing perceptions of host association drastically.…”

Section: Neofusicoccum Kwambonambiense Represents Another Example Of supporting

confidence: 52%

“…However, results of this study provided no evidence that the Botryosphaeriaceae sampled are specific to either leaves or woody tissue, although the frequency of occurrence of some species such as S. viticola varied on tissue types. In the present study, N. kwambonambiense was found only on branch tissue of C. africana, and it has been isolated on branches of the other trees, including S. cordatum, E. dunnii and Corymbia torelliana (Pavlic et al 2009b;Sakalidis et al 2011b). In those studies, the samples were taken only from branches.…”

Section: Neofusicoccum Kwambonambiense Represents Another Example Of mentioning

confidence: 52%

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Botryosphaeriaceae species overlap on four unrelated, native South African hosts

et al. 2014

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The Botryosphaeriaceae represents an important and diverse family of latent fungal pathogens of woody plants. While some species appear to have wide host ranges, others are reported only from single hosts. It is, however, not clear whether apparently narrow host ranges reflect specificity or if this is an artifact of sampling. We address this question by sampling leaves and branches of native South African trees from four different families, including Acacia karroo (Fabaceae), Celtis africana (Cannabaceae), Searsia lancea (Anacardiaceae) and Gymnosporia buxifolia (Celastraceae). As part of this process, two new species of the Botryosphaeriaceae, namely Tiarosporella africana sp. nov. and Aplosporella javeedii sp. nov., emerged from sequence comparisons based on the ITS rDNA, TEF-1α, β-tubulin and LSU rDNA gene regions. An additional five known species were identified including Neofusicoccum parvum, N. kwambonambiense, Spencermartinsia viticola, Diplodia pseudoseriata and Botryosphaeria dothidea. Despite extensive sampling of the trees, some of these species were not isolated on many of the hosts as was expected. For example, B. dothidea, which is known to have a broad host range but was found only on A. karroo. This could have resulted from the fact that it is a rare species in the region. With the exception of S. lancea, which was infected by A. javeedii all the hosts were infected by more than one Botryosphaeriaceae species. Collectively, the results suggest that some intrinsic host factors, possibly combined with local environmental conditions, affect the distribution and co-infectivity of various hosts by the Botryosphaeriaceae. 2This would counteract the general ability of a species in the Botryosphaeriaceae to infect a broad range of plants. The combination of host and environmental factors might also explain why some Botryosphaeriaceae with apparently broad host ranges, are found on different suites of hosts in different areas of the world.

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Section: Neofusicoccum Kwambonambiense Represents Another Example Of supporting

confidence: 52%

Section: Neofusicoccum Kwambonambiense Represents Another Example Of mentioning

confidence: 52%

Botryosphaeriaceae species overlap on four unrelated, native South African hosts

et al. 2014

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“…This was based on i) the number of species that could be (Cummings et al 2008), and iii) the congruence in tree topology as compared to a combined reference tree (Nye topological score) (Nye et al 2006). The gsi T is a statistical support value, in addition to BS and BI values, that indicates the exclusive ancestry of a group of organisms in a genealogy, and has proven informative in recent fungal phylogenetic studies (Sakalidis et al 2011;Taole et al 2012;Walker et al 2012a). The analysis produces a value on a scale from 0 to 1 for each identified group, with 0 indicating no exclusive ancestry from other groups in the genealogy and 1 representing monophyly.…”

Section: Single-copy Phylogenetic Gene Regionsmentioning

confidence: 99%

“…For each gene region, the gsi value was calculated for 100 ML bootstrap trees randomly selected and 10 000 permutation tests were performed for statistical support of each gsi value. From these values, the gsi T was calculated as a weighted average of all 100 gsi values for each gene region, with a P value of <0.05 considered statistically significant (Sakalidis et al 2011). All calculations were performed online at http://www.…”

Section: Single-copy Phylogenetic Gene Regionsmentioning

confidence: 99%

Molecular markers delimit cryptic species in Ceratocystis sensu stricto

Fourie

Wingfield

2014

Mycol Progress

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Ceratocystis sensu stricto is a genus of closely related fungi that are mostly plant pathogens. Morphological variation between species in this genus is limited, and species delineation is strongly reliant on phylogenetic inference. Primary support for many of the species is based on the ITS region which, on its own, can be used to delineate all species described in the genus. However, the recent discovery of two ITS types in a single isolate of Ceratocystis questions the use of this marker in taxonomic studies. The aim of this study was to consider the potential use of alternative gene regions to support the species boundaries in this genus. The phylogenetic value of the βT 1 and EF 1-α gene regions, generally used in combination with ITS, were re-evaluated and compared to five single-copy protein coding genes (CAL, RPBII, MS204, FG1093 and Mcm7). As an alternative approach, genome-wide single nucleotide polymorphisms (SNPs) were identified and evaluated as diagnostic markers to distinguish among the species. Fifteen species residing in Ceratocystis were used in this study. None of the protein-coding genes could be used to distinguish all species, but a combination of the βT 1, MS204 and RPBII gene regions resolved 11 of the 15 described species. Unique SNP markers were identified for 13 of the species, and these provided significant additional support for most of the established taxon boundaries. Other than ITS, none of the markers tested could distinguish between C. acaciivora and C. manginecans, and therefore these species are reduced to synonymy, with the name C. manginecans being retained. Results of this study also revealed the likely existence of additional species in Ceratocystis.

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“…Recently, Crous et al (2006) conducted a study on phylogenetic lineages in Botryosphaeriaceae, so they rearranged several species in the genus Neofusiccocum, which is characterized by having fusiform hyaline conidia to ellipsoid hyaline conidia as in the case of Fusicoccum Corda, but it differs by having sinanamorphs similar to Dichomera, which has globose to brown pyriform conidia. Originally, the genus Neofusicoccum has 13 species, but the number has grown according to additional studies (Sakalidis, Hardy, & Burguess, 2011); although for some of these species, these studies can be complex, as in N. ribis (Slippers, Crous & (Crouss et al, 2006). At present, because the teleomorphs and anamorphs are morphologically very similar and difficult to separate, the taxonomic identification of the species of Botryosphaeriaceae is done with molecular data, especially DNA sequences in combination with the morphological characteristics (Slippers & Wingfield, 2007).…”

Section: Introductionmentioning

confidence: 99%

Neofusicoccum eucalyptorum (=Botryosphaeria eucalyptorum) y n. parvum: patógenos en plantaciones de eucalipto en méxico

Mora-Castañeda¹,

Cibrián-Tovar²,

Pérez-Vera³

2014

Rev Cha Se Cie For y del Amb

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RESUMENE n el oriente de Michoacán, la muerte regresiva en plantaciones comerciales de eucalipto se presentó en árboles con daños por heladas y sequías en el 2013. En Eucalyptus nitens se aisló al patógeno Neofusicoccum eucalyptorum encontrando a su teleomorfo Botryosphaeria eucalyptorum en los cancros, mientras que N. parvum se aisló de E. nitens y E. globulus. Ambas especies de Neofusicoccum se identificaron por morfología y se caracterizaron molecularmente mediante PCR-ITS. Las secuencias de N. eucalyptorum (números de acceso: KC479184 y KC4799188) y N. parvum (KC479185, KC479186 y KC479187) se depositaron en el Banco de Genes del NCBI. En campo, los eucaliptos enfermos presentaron muerte regresiva, cancros fusiformes en fuste que inducen hinchamientos, flujo de resina y brotes epicórmicos. Los hongos inoculados in vitro en varetas de E. nitens y E. globulus causaron lesiones necróticas y abundantes picnidios inmaduros a 10 días después de la inoculación (ddi). En los árboles de E. nitens de tres años de edad se formó un cancro de apariencia hundida con forma fusiforme, de color café oscuro y de 13 a 21.9 cm a los 48 ddi. Este trabajo es el primer reporte de N. eucalyptorum y N. parvum en México causando enfermedad en plantaciones de eucalipto. ABSTRACTI n 2013, in the east of Michoacán, die-back in commercial eucalyptus plantations appeared in trees with frost and drought damage. Neofusicoccum eucalyptorum was isolated on Eucalyptus nitens, and its teleomorph Botryosphaeria eucalyptorum was found on cankers; N. parvum isolated on E. nitens and E. globulus. Both species of Neofusicoccum were identified by morphology and were molecularly characterized by PCR-ITS. The sequences of N. eucalyptorum (access number: KC479184 and KC4799188) and N. parvum (KC479185, KC479186 and KC479187) were deposited in the Gene Bank of the NCBI. In the field, diseased eucalyptus showed die-back, fusiform cankers on stem, which induce bulges, resin flow and the appearance of epicormic shoots. The fungi inoculated in vitro in shoots of E. nitens and E. globulus provoked necrotic lesions and abundant immature pycnidia at 10 days after inoculation (dai). E. nitens trees of three years of age showed a fusiform canker with sunken appearance and dark brown coloration, measuring 13 to 21.9 cm at 48 dai. This study is the first report of N. eucalyptorum and N. parvum in Mexico causing disease in eucalyptus plantations. PALABRAS CLAVE:Botryosphaeriaceae, cancros, endófito, Eucalyptus sp., muerte regresiva.

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Use of the Genealogical Sorting Index (GSI) to delineate species boundaries in the Neofusicoccum parvum–Neofusicoccum ribis species complex

Cited by 74 publications

References 59 publications

Botryosphaeriaceae species overlap on four unrelated, native South African hosts

Botryosphaeriaceae species overlap on four unrelated, native South African hosts

Molecular markers delimit cryptic species in Ceratocystis sensu stricto

Neofusicoccum eucalyptorum (=Botryosphaeria eucalyptorum) y n. parvum: patógenos en plantaciones de eucalipto en méxico

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