Cultural studies coupled with DNA based sequence analyses and its implication on pigmentation as a phylogenetic marker in Pestalotiopsis taxonomy

Liu, Airong; Chen, Shuangchen; Wu, Shang-Ying; Xu, Tongyu; Guo, Liangdong; Jeewon, Rajesh; Ji, Wei

doi:10.1016/j.ympev.2010.07.017

Cited by 65 publications

(57 citation statements)

References 17 publications

(30 reference statements)

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“…MG I and MG II had very similar 5.8S rDNA sequences, but the groups were clearly differentiated by a 40-to 50-bp gap in ITS1, which was similar to the results reported by Liu et al (2010), and a few gaps and unique sequences were seen in ITS2 (data not shown).…”

Section: Color Intensity Analysissupporting

confidence: 84%

Morphology evolution and molecular phylogeny of Pestalotiopsis (Coelomycetes) based on ITS2 secondary structure

2012

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The internal transcribed spacer 2 (ITS2) located between the 5.8S and 28S genes of the nuclear ribosomal gene cistron is conserved at the level of secondary structure rather than primary sequence. Within the fungal genus Pestalotiopsis, there were two types of ITS2 sequence patterns, and hence secondary structures, which were supported by high bootstrap values in phylogenies based on the ProfDist distance and Profile neighbor-joining algorithms. Pestalotiopsis consists of two groups that differ in color intensity of the spore as measured by optical density (OD) in three median cells of conidia comprised of five cells with one basal and two to four apical appendages. OD was quantified using a novel method with the publicly available software, Image J. OD values of species within one clade were high (dark OD [0.6), while OD values of species in the other clade were low (pale OD \0.6). However, knobbed-tipped appendages, which have been used to classify species of Pestalotiopsis, were observed in both clades. In the dark clade, knobbed-tipped appendage strains aggregated in one subclade, but in the pale group, these strains did not aggregate.

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Section: Color Intensity Analysissupporting

confidence: 84%

Morphology evolution and molecular phylogeny of Pestalotiopsis (Coelomycetes) based on ITS2 secondary structure

2012

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“…A combination of β-tubulin and ITS gave improved phylogenetic resolution, and they suggested that at least two genetic markers should be used to resolve the phylogeny of species of Pestalotiopsis. However, Liu et al (2010) disagreed with above statement concerning the ITS region as being less informative when compared to the β-tubulin region. They indicated that alignment of the ITS region can be a useful character in grouping Pestalotiopsis to different types of pigmentation, which can be used as a key character for Ex-type (ex-epitype) strains are bolded and marked with an * and voucher stains are bolded the phylogeny of the species.…”

Section: Molecular Phylogenymentioning

confidence: 81%

“…It has been shown that most of the key conidial characters used in species level separation are not stable and vary with host range, generation, culture and other environmental conditions (Hu et al 2007). Furthermore, the arrangement of species by Steyaert (1949) and Guba (1961) in various coloured groupings is problematic because this character has been shown to be variable within a species (Liu et al 2010). Thus, most species in the above arrangements may be confused and many species are probably synonyms.…”

Section: Species Identification and Numbersmentioning

confidence: 99%

One stop shop: backbones trees for important phytopathogenic genera: I (2014)

et al. 2014

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Many fungi are pathogenic on plants and cause significant damage in agriculture and forestry. They are also part of the natural ecosystem and may play a role in regulating plant numbers/density. Morphological identification and analysis of plant pathogenic fungi, while important, is often hampered by the scarcity of discriminatory taxonomic characters and the endophytic or inconspicuous nature of these fungi. Molecular (DNA sequence) data for plant pathogenic fungi have emerged as key information for diagnostic and classification studies, although hampered in part by non-standard laboratory practices and analytical methods. To facilitate current and future research, this study provides phylogenetic synopses for 25 groups of plant pathogenic fungi in the Ascomycota, Basidiomycota, Mucormycotina (Fungi), and Oomycota, using recent molecular data, up-to-date names, and the latest taxonomic insights. Lineagespecific laboratory protocols together with advice on their application, as well as general observations, are also provided. We hope to maintain updated backbone trees of these fungal lineages over time and to publish them jointly as new data emerge. Researchers of plant pathogenic fungi not covered by the present study are invited to join this future effort. Bipolaris, Botryosphaeriaceae,

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“…Regarding the morphological characterization of Pestalotiopsis spp. isolates, Hu et al (2007) and Liu et al (2010) found that the morphology varies inter-and intraspecies and should be interpreted with caution; therefore, it can be a way to differ isolates, but a complementary analysis is necessary. Wei & Xu (2004) identified P. kunmingensis as a Podocarpus macrophyllus endophyte organism.…”

Section: Resultsmentioning

confidence: 99%

“…The exception were the P 7 , P 9 , and P 11 isolates, in which the sequence of the β-tubulin gene, already used in other studies with this genus (Hu et al, 2007;Liu et al, 2010), was used for identification by ITS. It is important to highlight that this fact does not suggest that the sequencing of this gene should be discarded, but rather encouraged to build a consistent database, which may further assist in the identification of species of the genus.…”

Section: Resultsmentioning

confidence: 99%

Identification and characterization of pathogenic Pestalotiopsis species to pecan tree in Brazil

Harakawa

Figueredo

2014

Pesq. agropec. bras.

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-The objective of this work was to characterize and cluster isolates of Pestalotiopsis species and to identify those that are pathogenic to pecan, based on morphological and molecular characters. Pestalotiopsis spp. isolates were identified by sequencing the internal transcribed spacer (ITS) and β-tubulin regions. Identification methods were compared to indicate the key morphological characters for species characterization. Thirteen isolates were used for the pathogenicity tests. Morphological characterization was performed using the following variables: mycelial growth rate, sporulation, colony pigmentation, and conidial length and width. Ten pathogenic isolates were identified, three as Pestalotiopsis clavispora and three as P. cocculi. The other isolates remained as an undefined species. The morphological characters were efficient for an initial separation of the isolates, which were grouped according to differences at species level, mainly colony diameter, which was identified as an important morphological describer. Beta-tubulin gene sequencing was less informative than the ITS region sequencing for species identification.Index terms: Carya illinoinensis, β-tubulin, ITS rDNA, morphological characters, phylogeny, UPGMA. Identificação e caracterização de espécies de Pestalotiopsis patogênicas à nogueira-pecã no BrasilResumo -O objetivo deste trabalho foi caracterizar e agrupar isolados de espécies de Pestalotiopsis e identificar aquelas patogênicas à nogueira-pecã, com base em caracteres morfológicos e moleculares. Os isolados de Pestalotiopsis spp. foram identificados por meio do sequenciamento das regiões internal transcribed spacer (ITS) e β-tubulina. Os métodos de identificação foram comparados, para indicar os caracteres morfológicos chave para a caracterização das espécies. Treze isolados foram utilizados para os testes de patogenicidade. A caracterização morfológica foi realizada com a utilização das seguintes variáveis: taxa de crescimento micelial, esporulação, pigmentação das colônias, comprimento e largura de conídios. Dez isolados patogênicos foram identificados, três como Pestalotiopsis clavispora e três como P. cocculi. Os outros isolados permaneceram como espécie não definida. Os caracteres morfológicos foram eficientes na separação inicial dos isolados, os quais foram agrupados por diferenças quanto à espécie, principalmente o diâmetro das colônias, identificado como um importante descritor morfológico. O sequenciamento do gene da β-tubulina foi menos informativo do que o sequenciamento da região ITS para a identificação de espécies.

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Cultural studies coupled with DNA based sequence analyses and its implication on pigmentation as a phylogenetic marker in Pestalotiopsis taxonomy

Cited by 65 publications

References 17 publications

Morphology evolution and molecular phylogeny of Pestalotiopsis (Coelomycetes) based on ITS2 secondary structure

Morphology evolution and molecular phylogeny of Pestalotiopsis (Coelomycetes) based on ITS2 secondary structure

One stop shop: backbones trees for important phytopathogenic genera: I (2014)

Identification and characterization of pathogenic Pestalotiopsis species to pecan tree in Brazil

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