Analysis of fungal communities on historical church window glass by denaturing gradient gel electrophoresis and phylogenetic 18S rDNA sequence analysis

We investigated the fungal communities inhabiting decaying logs in a seminatural boreal forest stand in relation to host tree species, stage of decay, density, diameter, moisture, C to N ratio, Klason lignin content, and water- and ethanol-soluble extractives. Communities were profiled using denaturing gradient gel electrophoresis fingerprinting of the rDNA ITS1 region coupled with sequencing of fungal DNA extracted directly from the wood. In addition, polypore fruit bodies were inventoried. Logs from different tree species had different fungal communities and different physicochemical properties (e.g., C to N ratio, density, ethanol extractives, and diameter). Ascomycetes comprised a larger portion of communities inhabiting deciduous birch ( Betula spp.) and European aspen ( Populus tremula L.) logs compared with those living on coniferous Norway spruce ( Picea abies (L.) Karst.) and Scots pine ( Pinus sylvestris L.). A relationship between mycelial community structure and density of decaying spruce logs suggested a succession of fungi with mass loss of wood. The fruit body inventory underestimated fungal diversity in comparison with the culture-free denaturing gradient gel electrophoresis analysis that also detected inconspicuous but important species inhabiting decaying wood.

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Myxidium shedkoae Sokolov, 2013 (Myxozoa: Myxidiidae), a parasite of the gallbladder of Perccottus glenii Dybowski, 1877 (Actinoptrygii: Odontobutidae): Supplementary data on morphology and phylogenetic position based on 18s rDNA sequence analysis

Acta Veterinaria Hungarica ◽

10.1556/004.2018.024 ◽

2018 ◽

Vol 66 (2) ◽

pp. 258-268

Author(s):

Sergey Sokolov ◽

Daria Lebedeva

Keyword(s):

Sequence Analysis ◽

18S Rdna ◽

Rdna Sequence ◽

Phylogenetic Position ◽

Amur Sleeper ◽

Molecular Characterisation ◽

Perccottus Glenii ◽

Supplementary Data ◽

18S Rdna Sequence ◽

Partial 18S

This paper is the first report on the molecular characterisation of myxozoan parasites from the odontobutid fish Chinese (Amur) sleeper (Perccottus glenii Dybowski, 1877). The authors determined the partial 18S rDNA sequence of Myxidium shedkoae Sokolov, 2013 from the gallbladder of the fish. Phylogenies reconstructed using maximum likelihood and Bayesian inference analysis revealed that M. shedkoae belongs to the hepatic biliary group of myxozoans (after Kristmundsson and Freeman, 2013) as a member of the clade consisting of Zschokkella sp. KLT-2014, Myxidium truttae and Zschokkella nova. Some new morphological features of the parasite are also presented.

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Design and evaluation of nematode 18S rDNA primers for PCR and denaturing gradient gel electrophoresis (DGGE) of soil community DNA

Soil Biology and Biochemistry ◽

10.1016/s0038-0717(03)00177-9 ◽

2003 ◽

Vol 35 (9) ◽

pp. 1165-1173 ◽

Cited By ~ 47

Author(s):

Ian S. Waite ◽

Anthony G. O'Donnell ◽

Andrew Harrison ◽

John T. Davies ◽

Stephanie R. Colvan ◽

...

Keyword(s):

18S Rdna ◽

Gel Electrophoresis ◽

Denaturing Gradient Gel Electrophoresis ◽

Soil Community ◽

Gradient Gel Electrophoresis

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Characterization of bacterial and fungal communities in composted biosolids over a 2 year period using denaturing gradient gel electrophoresis

Canadian Journal of Microbiology ◽

10.1139/w08-152 ◽

2009 ◽

Vol 55 (4) ◽

pp. 375-387 ◽

Cited By ~ 22

Author(s):

Amy Novinscak ◽

Nadine J. DeCoste ◽

Céline Surette ◽

Martin Filion

Keyword(s):

Gel Electrophoresis ◽

Denaturing Gradient Gel Electrophoresis ◽

Bacterial Species ◽

Fungal Species ◽

Fungal Communities ◽

Whole Process ◽

Agricultural Applications ◽

Gradient Gel Electrophoresis ◽

Microbial Groups ◽

Key Microorganisms

Composting is a microbial process that converts organic waste into a nutrient-rich end product used in horticultural and agricultural applications. The diversity and long-term succession of microorganisms found in composted biosolids has been less characterized than other composts. In this study, bacterial and fungal communities found in composted biosolids aging from 1 to 24 months were studied using denaturing gradient gel electrophoresis (DGGE) and sequencing. The results revealed high levels of diversity, where 53 bacterial species belonging to 10 phyla and 21 fungal species belonging to 4 phyla were identified. Significant differences were observed when comparing the bacterial DGGE patterns of young compost samples, whereas no differences were observed in samples over 8 months. For fungal patterns, no significant differences were observed during the first 4 months of composting, but the diversity then significantly shifted until 24 months. The results indicate that patterns of bacterial species vary during the first few months of composting, whereas fungal patterns generally vary throughout the whole process, except during early stages. The description of the main microbial groups found in composted biosolids could find various applications, including the discovery of biotechnologically relevant microorganisms and the development of novel markers allowing quantitative monitoring of key microorganisms.

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