Optimization of sampling procedures for DNA-based diagnosis of wood decay fungi in standing trees

Guglielmo, Fabio; Gonthier, Paolo; Garbelotto, Matteo; Nicolotti, G.

doi:10.1111/j.1472-765x.2010.02860.x

Cited by 24 publications

(42 citation statements)

References 16 publications

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“…In our collection, some more rarely occurring species like Hypsizygus ulmarius have also been identified. Kretzschmaria deusta is present as an ascomycete, which was also isolated by Guglielmo et al (2010). Our isolation technique had proven to be accurate in several investigations on the occurrence of fungi and bacteria in tree interiors (Schmidt 1985;Schmidt et al 2008).…”

Section: Resultsmentioning

confidence: 93%

“…Guiglielmo et al (2007) listed many basidiomycetes from a broad range of host trees from urban and forest habitats in the Chech Republic, France, Italy, Switzerland, UK, and USA. An investigation in Italy (Guglielmo et al 2010) revealed four Ganoderma species, Perenniporia fraxinea, Laetiporus sulphureus, and fungi belonging to the genera Armillaria, Fomitoporia, Hericium, Inocutis, Inonotus s.s., Phellinus s.s., Pleurotus, Pseudoinonotus, Schizophyllum, Stereum, and Trametes. Terho et al (2007) differentiated the similar fruit bodies of Ganoderma species by ITS sequencing.…”

Section: Resultsmentioning

confidence: 99%

“…We did not use the technique of taking samples by drilling a tree. An investigation by Guglielmo et al (2010) showed that sampling by drilling is complicated: For obtaining the decay fungus, several drillings from different tree sides and heights must be collected with a long drilling device (43 cm). The drilling technique may be suitable for routine inspections of decay agents in early stages of infection.…”

Section: Resultsmentioning

confidence: 99%

“…Several methods use the information provided by sequence data: Species-specific priming PCR (SSPP) with primers designed from the ITS sequence identified several tree and wood-rot fungi (Garbelotto et al 1996;Schulze and Bahnweg 1998;Moreth and Schmidt 2000;Horisawa et al 2009;Nicolotti et al 2009;Guglielmo et al 2007Guglielmo et al , 2010. A DNA chip (microarray) that detects several indoor basidiomycetes was developed by Jacobs et al (2010).…”

Section: Introductionmentioning

confidence: 99%

“…In cases where fruit bodies are not present, other external signs can sometimes be used, such as wounds (from pruning or car accidents), dead bark, and deterioration in crowns (density, color, or shoot extension). In the absence of unequivocal signs, it may be necessary to take samples from inside a tree via an open wound or with drilling devices (Guglielmo et al 2010) and to isolate, purify, and identify the decay fungus. The main drawback of culture diagnosis is the difficult and timeconsuming process required to obtain pure culture isolates from decayed wood.…”

Section: Introductionmentioning

confidence: 99%

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Molecular identification of decay fungi in the wood of urban trees

Schmidt

Gaiser²,

Dujesiefken³

2011

Eur J Forest Res

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Trees are valuable for urban areas, however, are also susceptible to wood rot fungi. For accurate and fast assessment of the severity and evolution of decay in standing trees, a molecular technique was used to identify the causal agents of wood rot. Fruit bodies of wood decay fungi were collected from infected trees in various stands in Germany. Thirty-six species were identified by traditional methods. The DNA of fruit bodies was extracted, ITS-rDNA amplified by PCR, and ITS regions sequenced. Wood samples from infected urban trees were collected, the entire DNA extracted from affected wood parts, and fungal ITS amplified and sequenced. Fungal species were identified by comparing sequence data with the fruit body data. The technique enables an accurate and rapid identification of causal rot fungi in urban trees.

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Section: Resultsmentioning

confidence: 93%

Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 3 more Smart Citations

Molecular identification of decay fungi in the wood of urban trees

Schmidt

Gaiser²,

Dujesiefken³

2011

Eur J Forest Res

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Observation and identification of wood decay fungi from the heartwood of peach tree limbs in central Georgia, USA

et al. 2015

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Peach tree health, longevity, and limb strength can be affected by wood decay fungi, but the extent of the colonization and their identities have not been characterized in Georgia, United States of America. In an incubation experiment, dense white fungal mycelium grew on the cross-cut faces of asymptomatic limb sections sampled from peach scion cultivars, but no mycelium grew on those from rootstock cultivars. Among the scion cultivars, a Chi-square analysis indicated significant differences in the incidence of colonization. A dissection of six broken peach tree scaffold limbs showed symptoms of colonization along the entire length of the limbs. Only 41 % of primary branches had symptoms of wood decay, but no secondary branches appeared to have symptoms. Next generation sequencing (NGS) and metagenomic analysis of a combined DNA sample revealed the contigs were aligned to sequences of Trametes versicolor and/or Schizophyllum commune, suggesting these two white-rot fungi were present in the sample tested. Sanger sequencing confirmed two fragments of the same size but distinct nucleotide peak intensities were amplified from the sample used for NGS by two pairs of primers, providing supporting evidence that the two fungi were in the bulk sample but might differ in abundance or incidence. Subsequent multiplexing polymerase chain reaction diagnostics of ten scion samples confirmed the dominance of Trametes spp. (all ten samples), although Stereum spp. (five samples), Schizophyllum spp. (three samples) and Hericium spp, (one sample) were sometimes found coexisting with Trametes spp. Future research needs on this peach-fungus association are discussed.

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