Genetic relationships of endophytic Lophodermium nitens isolates from needles of Pinus strobus

Deckert, Ron J.; Hsiang, Tom; Peterson, R. L.

doi:10.1017/s0953756201005494

Cited by 32 publications

(16 citation statements)

References 23 publications

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“…In contrast, Baayen et al ( 2002 ) used molecular biological analysis and showed the identity of a cosmopolitan endophyte, Guignardia mangiferae , with nonpathogenic isolates of the citrus black spot fungus G. citricarpa . Similarly, the identity of endophytes in live leaves and saprobes in dead leaves of single tree species was confi rmed by DNA sequence analyses (Müller et al 2001 ;Deckert et al 2002 ;Promputtha et al 2007 ;Osono et al 2013 ). Host (birch) genotypes infl uenced the probability of infection by, and the genotypes and genetic diversity of, an endophyte, Venturia ditricha (Ahlholm et al 2002b ).…”

Section: Future Directionsmentioning

confidence: 95%

Diversity and Ecology of Endophytic and Epiphytic Fungi of Tree Leaves in Japan: A Review

Osono

2013

Advances in Endophytic Research

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The phyllosphere is the living leaf as a whole and is colonized by endophytic and epiphytic fungi in the interior and on the surface of leaves, respectively. In this chapter, I summarize studies on the diversity and ecology of endophytic and epiphytic phyllosphere fungi on live leaves of trees in Japan. Studies to date have detected endophytes and epiphytes on leaves of at least 255 coniferous and broad-leaved tree species in 69 plant families, according to 45 papers published since 1990. These studies have recorded 24 endophytic and 22 epiphytic genera of fungi. Major trees used in the ecological studies of phyllosphere fungi include pines ( Pinus ), beech ( Fagus ), and dogwood ( Swida ). Focal topics include (1) the infection and colonization of leaves; (2) seasonal and leaf age-dependent patterns of temporal changes; (3) spatial distribution at various scales, from within-leaf, to withincanopy, to altitudinal and geographic distributions; (4) direct and indirect roles in decomposition of dead leaves; and (5) interaction with pathogens and herbivores and effects of simulated acid rain. Future research directions in Japan are suggested and discussed with reference to international literature on the ecology of endophytic and epiphytic phyllosphere fungi.

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Section: Future Directionsmentioning

confidence: 95%

Diversity and Ecology of Endophytic and Epiphytic Fungi of Tree Leaves in Japan: A Review

Osono

2013

Advances in Endophytic Research

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“…It is therefore of primary importance that the sequences deposited in reference databases are accurate and reliable. Recently, a few reports have questioned the identity of some fungal data (Deckert et al ., 2002; Crous, 2002) and highlighted the accumulation of chimeric bacterial 16S sequences in public access databases (Hugenholtz & Huber, 2003).…”

Section: Introductionmentioning

confidence: 99%

“…The identity of some fungal DNA sequences deposited in public databases has recently been contested (Deckert et al ., 2002; Crous, 2002) and, as a result, there is a need to determine if such reports reveal a widespread phenomenon. In this study we show that up to 20% of publicly available, taxonomically important DNA sequences for three randomly chosen groups of fungi may be incorrectly named, chimeric, of poor quality or too incomplete for reliable comparison.…”

Section: Introductionmentioning

confidence: 99%

On the unreliability of published DNA sequences

et al. 2003

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Summary• Here, the reliability of published fungal nucleic acid sequences is tested by the critical re-evaluation of 206 named sequences obtained from public-access databases.• Sequences from the ribosomal RNA (rRNA) gene cluster were examined as these are commonly used to establish fungal phylogeny and evolution, and are also increasingly employed in the identification of fungi from nonculture based studies.• Fifty-one rRNA internal transcribed spacer (ITS) sequences were obtained for species of Amanita , 55 ITS sequences were obtained for species of Phoma and 100 rRNA small subunit sequences were obtained from representative genera of the order Helotiales. In each case, the fungal group was selected partly on the basis of sequences deposited by three or more laboratories in order to avoid sample bias. The results suggest that up to 20% of the sequences available for each group may be unreliable, and this proportion is supported by additional informal observations.

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“…The identity of some fungal DNA sequences deposited in public databases has recently been contested (Crous 2002, Decket et al. 2002), and as a result, there is a need to determine whether such reports reveal a widespread phenomenon.…”

Section: Discussionmentioning

confidence: 99%

Molecular monitoring of fungal communities in air samples by denaturing high-performance liquid chromatography (D-HPLC)

Nieguitsila

Goldenberg

Deville

et al. 2010

Journal of Applied Microbiology

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Aims: To describe a new molecular technique for the assessment of fungal diversity in the air. Methods and Results: Air samples were collected every week in a henhouse in France during a 15‐week period. After air sampling, the collecting membrane was diluted, and the liquid was used for subsequent cultivation and molecular analysis: PCR‐temperature temporal gradient electrophoresis (TTGE), which has already been used for the identification of fungal species in air samples and PCR‐denaturing high‐performance liquid chromatography (D‐HPLC), a new technique for the analysis of complex microbial populations. D‐HPLC profiles were reproducible from run‐to‐run, and several fungal organisms could be identified at the species level by sequencing. Conclusions: PCR‐D‐HPLC enabled the identification of fungal species (both Ascomycota and Basidiomycota) that may be encountered in air. The new technique allowed the detection of more fungal species than did the PCR‐TTGE technique. However, some fungal species were detected only by PCR‐TTGE, suggesting that PCR‐D‐HPLC and PCR‐TTGE are complementary. Significance and Impact of the Study: PCR‐D‐HPLC represents a considerable saving in time over currently available procedures for detection and identification of fungal organisms in air. However, the fungal diversity detected by PCR‐D‐HPLC or by PCR‐TTGE was lower than that revealed by culture.

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Genetic relationships of endophytic Lophodermium nitens isolates from needles of Pinus strobus

Cited by 32 publications

References 23 publications

Diversity and Ecology of Endophytic and Epiphytic Fungi of Tree Leaves in Japan: A Review

Diversity and Ecology of Endophytic and Epiphytic Fungi of Tree Leaves in Japan: A Review

On the unreliability of published DNA sequences

Molecular monitoring of fungal communities in air samples by denaturing high-performance liquid chromatography (D-HPLC)

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