The 3'-->5' exonucleases of DNA polymerases delta and epsilon and the 5'-->3' exonuclease Exo1 have major roles in postreplication mutation avoidance in Saccharomyces cerevisiae. (1/8779)

Replication fidelity is controlled by DNA polymerase proofreading and postreplication mismatch repair. We have genetically characterized the roles of the 5'-->3' Exo1 and the 3'-->5' DNA polymerase exonucleases in mismatch repair in the yeast Saccharomyces cerevisiae by using various genetic backgrounds and highly sensitive mutation detection systems that are based on long and short homonucleotide runs. Genetic interactions were examined among DNA polymerase epsilon (pol2-4) and delta (pol3-01) mutants defective in 3'-->5' proofreading exonuclease, mutants defective in the 5'-->3' exonuclease Exo1, and mismatch repair mutants (msh2, msh3, or msh6). These three exonucleases play an important role in mutation avoidance. Surprisingly, the mutation rate in an exo1 pol3-01 mutant was comparable to that in an msh2 pol3-01 mutant, suggesting that they participate directly in postreplication mismatch repair as well as in other DNA metabolic processes.  (+info)

Nrg1 is a transcriptional repressor for glucose repression of STA1 gene expression in Saccharomyces cerevisiae. (2/8779)

Expression of genes encoding starch-degrading enzymes is regulated by glucose repression in the yeast Saccharomyces cerevisiae. We have identified a transcriptional repressor, Nrg1, in a genetic screen designed to reveal negative factors involved in the expression of STA1, which encodes a glucoamylase. The NRG1 gene encodes a 25-kDa C2H2 zinc finger protein which specifically binds to two regions in the upstream activation sequence of the STA1 gene, as judged by gel retardation and DNase I footprinting analyses. Disruption of the NRG1 gene causes a fivefold increase in the level of the STA1 transcript in the presence of glucose. The expression of NRG1 itself is inhibited in the absence of glucose. DNA-bound LexA-Nrg1 represses transcription of a target gene 10.7-fold in a glucose-dependent manner, and this repression is abolished in both ssn6 and tup1 mutants. Two-hybrid and glutathione S-transferase pull-down experiments show an interaction of Nrg1 with Ssn6 both in vivo and in vitro. These findings indicate that Nrg1 acts as a DNA-binding repressor and mediates glucose repression of the STA1 gene expression by recruiting the Ssn6-Tup1 complex.  (+info)

Histone octamer transfer by a chromatin-remodeling complex. (3/8779)

RSC, an abundant, essential chromatin-remodeling complex related to SWI/SNF complex, catalyzes the transfer of a histone octamer from a nucleosome core particle to naked DNA. The newly formed octamer-DNA complex is identical with a nucleosome in all respects. The reaction requires ATP and involves an activated RSC-nucleosome intermediate. The mechanism may entail formation of a duplex displacement loop on the nucleosome, facilitating the entry of exogeneous DNA and the release of the endogenous molecule.  (+info)

Regulation of the start of DNA replication in Schizosaccharomyces pombe. (4/8779)

Cells of Schizosaccharomyces pombe were grown in minimal medium with different nitrogen sources under steady-state conditions, with doubling times ranging from 2.5 to 14 hours. Flow cytometry and fluorescence microscopy confirmed earlier findings that at rapid growth rates, the G1 phase was short and cell separation occurred at the end of S phase. For some nitrogen sources, the growth rate was greatly decreased, the G1 phase occupied 30-50% of the cell cycle, and cell separation occurred in early G1. In contrast, other nitrogen sources supported low growth rates without any significant increase in G1 duration. The method described allows manipulation of the length of G1 and the relative cell cycle position of S phase in wild-type cells. Cell mass was measured by flow cytometry as scattered light and as protein-associated fluorescence. The extensions of G1 were not related to cell mass at entry into S phase. Our data do not support the hypothesis that the cells must reach a certain fixed, critical mass before entry into S. We suggest that cell mass at the G1/S transition point is variable and determined by a set of molecular parameters. In the present experiments, these parameters were influenced by the different nitrogen sources in a way that was independent of the actual growth rate.  (+info)

The prokaryotic beta-recombinase catalyzes site-specific recombination in mammalian cells. (5/8779)

The development of new strategies for the in vivo modification of eukaryotic genomes has become an important objective of current research. Site-specific recombination has proven useful, as it allows controlled manipulation of murine, plant, and yeast genomes. Here we provide the first evidence that the prokaryotic site-specific recombinase (beta-recombinase), which catalyzes only intramolecular recombination, is active in eukaryotic environments. beta-Recombinase, encoded by the beta gene of the Gram-positive broad host range plasmid pSM19035, has been functionally expressed in eukaryotic cell lines, demonstrating high avidity for the nuclear compartment and forming a clear speckled pattern when assayed by indirect immunofluorescence. In simian COS-1 cells, transient beta-recombinase expression promoted deletion of a DNA fragment lying between two directly oriented specific recognition/crossing over sequences (six sites) located as an extrachromosomal DNA substrate. The same result was obtained in a recombination-dependent lacZ activation system tested in a cell line that stably expresses the beta-recombinase protein. In stable NIH/3T3 clones bearing different number of copies of the target sequences integrated at distinct chromosomal locations, transient beta-recombinase expression also promoted deletion of the intervening DNA, independently of the insertion position of the target sequences. The utility of this new recombination tool for the manipulation of eukaryotic genomes, used either alone or in combination with the other recombination systems currently in use, is discussed.  (+info)

The yeast dynamin-like protein, Mgm1p, functions on the mitochondrial outer membrane to mediate mitochondrial inheritance. (6/8779)

The mdm17 mutation causes temperature-dependent defects in mitochondrial inheritance, mitochondrial morphology, and the maintenance of mitochondrial DNA in the yeast Saccharomyces cerevisiae. Defects in mitochondrial transmission to daughter buds and changes in mitochondrial morphology were apparent within 30 min after shifting cells to 37 degrees C, while loss of the mitochondrial genome occurred after 4-24 h at the elevated temperature. The mdm17 lesion mapped to MGM1, a gene encoding a dynamin-like GTPase previously implicated in mitochondrial genome maintenance, and the cloned MGM1 gene complements all of the mdm17 mutant phenotypes. Cells with an mgm1-null mutation displayed aberrant mitochondrial inheritance and morphology. A version of mgm1 mutated in a conserved residue in the putative GTP-binding site was unable to complement any of the mutant defects. It also caused aberrant mitochondrial distribution and morphology when expressed at high levels in cells that also contained a wild-type copy of the gene. Mgm1p was localized to the mitochondrial outer membrane and fractionated as a component of a high molecular weight complex. These results indicate that Mgm1p is a mitochondrial inheritance and morphology component that functions on the mitochondrial surface.  (+info)

All 16 centromere DNAs from Saccharomyces cerevisiae show DNA curvature. (7/8779)

All 16 centromere DNA regions of Saccharomyces cerevisiae including 90 bp framing sequences on either side were cloned. These 300 bp long centromere regions were analysed by native polyacrylamide gel electrophoresis and found to display a reduced mobility indicative of DNA curvature. The degree of curvature is centromere dependent. The experimental data were confirmed by computer analysis of the 3-dimensional structure of the CEN DNAs. Altogether these data provide further evidence for a model for budding yeast centromeres in which CEN DNA structure could be important for the assembly, activity and/or regulation of the centromere protein-DNA complex.  (+info)

The nuclear ribosomal DNA intergenic spacer as a target sequence to study intraspecific diversity of the ectomycorrhizal basidiomycete Hebeloma cylindrosporum directly on pinus root systems. (8/8779)

Polymorphism of the nuclear ribosomal DNA intergenic spacer (IGS) of the ectomycorrhizal basidiomycete Hebeloma cylindrosporum was studied to evaluate whether this sequence could be used in field studies to estimate the diversity of strains forming mycorrhizas on individual Pinus pinaster root systems. This sequence was amplified by PCR from 125 haploid homokaryotic strains collected in 14 P. pinaster stands along the Atlantic coast of France by using conserved oligonucleotide primers. Restriction enzyme digestion of the amplified 3.4-kbp-long IGS allowed us to characterize 24 alleles whose frequencies differed. Nine of these alleles were found only once, whereas about 60% of the strains contained four of the alleles. Local populations could be almost as diverse as the entire population along a 150-km stretch of coastline that was examined; for example, 13 alleles were found in a single forest stand. The IGS from one strain was partially sequenced, and the sequence data were used to design oligonucleotides which allowed separate PCR amplification of three different segments of the IGS. Most polymorphisms observed among the full-length IGS regions resulted from polymorphisms in an internal ca. 1,500-bp-long sequence characterized by length variations that may have resulted from variable numbers of a T2AG3 motif. This internal polymorphic sequence could not be amplified from the genomes of nine other Hebeloma species. Analysis of this internal sequence amplified from the haploid progenies of 10 fruiting bodies collected in a 70-m2 area resulted in identification of six allelic forms and seven distinct diplotypes out of the 21 possible different combinations. Moreover, optimization of the PCR conditions resulted in amplification of this sequence from more than 80% of the DNA samples extracted from individual H. cylindrosporum infected P. pinaster mycorrhizal root tips, thus demonstrating the usefulness of this sequence for studying the below-ground diversity of mycorrhizas formed by genets belonging to the same fungal species.  (+info)

DNA barcoding Microbial DNA barcoding Pollen DNA barcoding DNA barcoding in diet assessment Consortium for the Barcode of Life ... as primary fungal DNA barcode, the necessity of establishing a second DNA barcode marker was expressed. Several attempts were ... Fungal DNA barcoding can help to identify and associate anamorphic and teleomorphic stages of fungi, and through that to reduce ... Fungal DNA barcoding is the process of identifying species of the biological kingdom Fungi through the amplification and ...
... and to collect and document fungi for DNA barcoding. Fungal Diversity Survey, Inc. is a Charitable 501(c)(3) organization ... Fungi Magazine, 101, pp.28-36 FunDiS , Fungal Diversity Survey Fungal Diversity Database on iNaturalist (Accuracy disputes from ... Fungal Diversity Database - Build a database of fungal observations on iNaturalist of sufficient scale and quality to be useful ... Fungal Diversity Survey, or FunDiS, is a nonprofit citizen science organization formerly known as North American Mycoflora ...
Alper, I; Michel, F; Labrie, S (2011). "Ribosomal DNA Polymorphisms in the Yeast Geotrichum candidum". Fungal Biology. 115 (12 ... Fungal plant pathogens and diseases, Fungal citrus diseases, Animal fungal diseases, Organisms breaking down plastic, Fungi ... Fungal growth can be supported by D-glucose, D-mannose, D-xylose, L-sorbose, D-fructose, D-galactose, sucrose, D-mannitol, D- ...
All species form agaricoid basidiocarps (gilled mushrooms). The family is based on recent DNA research. Vizzini A, Consiglio G ... nov., and Pleurocollybia incorporated into Callistosporium". Fungal Diversity. 101: 211-259. doi:10.1007/s13225-020-00441-x. v ...
... based on nuclear ribosomal DNA". Fungal Biology. 115: 381-392. doi:10.1016/j.funbio.2011.02.004. 6. Allomyces. Phillip W. ...
... based on nuclear ribosomal DNA". Fungal Biology. 115 (4): 381-392. doi:10.1016/j.funbio.2011.02.004. ISSN 1878-6146. PMID ...
As a result of how the DNA samples were processed, about 80 percent of the reference genome came from eight people and one male ... "1000 Fungal Genomes Project". mycocosm.jgi.doe.gov. Retrieved 2022-08-18. Genome Reference Consortium (Genome projects, ... As they are assembled from the sequencing of DNA from a number of individual donors, reference genomes do not accurately ... Instead a reference provides a haploid mosaic of different DNA sequences from each donor. For example, one the most recent ...
DNA replication occurs when one double-stranded DNA molecule creates two single strands of DNA, each of which is a template for ... Because RIP is so efficient at detecting and mutating repeats, fungal biologists often use it as a tool for mutagenesis. A ... These reactants can lead to both single-stranded DNA breaks and double-stranded DNA breaks. Third, bonds in DNA eventually ... It is a DNA methyltransferease-like protein, that when mutated or knocked out results in loss of RIP. Deletion of the rid ...
Molecular phylogeny of the Blastocladiomycota (Fungi) based on nuclear ribosomal DNA. Fungal Biology 115:381-392. Kendrick, ... Fungal Diversity. 90 (1): 135-159. doi:10.1007/s13225-018-0401-0. Hibbett DS et al. 2007. A higher-level phylogenetic ...
Molecular phylogeny of the Blastocladiomycota (Fungi) based on nuclear ribosomal DNA. Fungal Biology 115: 381-392. James, T.Y ...
... morphological and multilocus DNA sequence analyses". Fungal Diversity. 58 (1): 73-101. doi:10.1007/s13225-012-0184-7. Neves MA ... Fungal Diversity. 55 (1): 109-123. doi:10.1007/s13225-012-0154-0. "Phylloporus on Boletineae: Surveys and Revisions". " ...
... morphological and multilocus DNA sequence analyses". Fungal Diversity. 58: 73-101. doi:10.1007/s13225-012-0184-7. S2CID ... Fungal Diversity. 55 (1): 109-23. doi:10.1007/s13225-012-0154-0. S2CID 17272328. Zheng NK, Tang LP, Li YC, Tolgor B, Zhu XT, ...
2005). "Structural analysis of epolactaene derivatives as DNA polymerase inhibitors and anti-inflammatory compounds". Int J Mol ... The fungal isolate ergothioneine is actively absorbed and concentrated by the human body via SLC22A4. Other notable fungal ... The statins lovastatin, mevastatin, and simvastatin precursor monacolin J, are fungal isolates. Additional fungal isolates that ... are antibiotic fungal isolates. Antibiotics retapamulin, tiamulin, and valnemulin are derivatives of the fungal isolate ...
This species is part of the community of fungal successors of decaying wood. A Finnish study found that it fruited most ... "Phylogenetic relationships in European Ceriporiopsis species inferred from nuclear and mitochondrial ribosomal DNA sequences". ... Yu, Chang-Jun; Zuo, Li; Dai, Yu-Cheng (2005). "Three polypores from Xizang new to China" (PDF). Fungal Science. 20 (3-4): 61-68 ... "Skeletocutis nothofagi Rajchenb". The Global Fungal Red List Initiative. IUCN. Retrieved 30 September 2016. Fries, Elias Magnus ...
"Phylogeny of the genus Agaricus inferred from restriction analysis of enzymatically amplified ribosomal DNA". Fungal Genet Biol ... Based on DNA analysis of ITS1, ITS2, and 5.8S sequences, the studied species of this section could be divided into six distinct ... The fungal genus Agaricus as late as 2008 was believed to contain about 200 species worldwide but since then, molecular ...
in Fungal Diversity vol.90, Issue 1 on page 151 in 2018. It is parasitic. But can grow solitary on agar media, thus cold ... based on nuclear small subunit ribosomal DNA sequences". Mol. Phylogenet. Evol. 16 (2): 253-62. doi:10.1006/mpev.2000.0775. ... Fungal Diversity. 90 (1): 135-159. doi:10.1007/s13225-018-0401-0. Tanabe Y, O'Donnell K, Saikawa M, Sugiyama J (August 2000). " ...
Li GJ, Hyde KD, Zhao RL, Hongsanan S, Abdel-Aziz FA (2016). "Fungal diversity notes 253-366" (PDF). Fungal Divers. 78. doi: ... Molecular research, based on cladistic analysis of DNA sequences, suggests the genus may be polyphyletic. The type species has ...
Fungal spores found in the body of the nail resembled the characteristic morphology of N. sphaerica. DNA sequence analysis ... Fungal spores trapped on the agar strips were developed and counted. They were then cultured into isolates allowing for ... A woman in south India was diagnosed with a fungal corneal ulcer after being hit in the eye from a cow's tail. Analysis of ... It was hypothesized that this special case of fungal corneal ulcer was caused by transfer of spores to the patients eye from ...
Ochricompactae" (PDF). Fungal Diversity. 28: 15-40. Eberhardt U, Verbeken A (2004). "Sequestrate Lactarius species from ... Russulales; Basidiomycota) in Alaska, based on soil and sporocarp DNA" (PDF). Molecular Ecology. 18 (10): 2213-2227. doi: ... Rinaldi AC, Comandini O, Kuyper TW (2008). "Ectomycorrhizal fungal diversity: separating the wheat from the chaff" (PDF). ... Twieg BD, Durall DM, Simard SW (2007). "Ectomycorrhizal fungal succession in mixed temperate forests". New Phytologist. 176 (2 ...
DNA sequencing data reveals the presence of two major groups representing cryptic species in F. subglutinans. These were ... Fusarium subglutinans is a fungal plant pathogen. Fusarium subglutinans is the anamorph of Gibberella fujikuroi. Fusarium ... Fungal plant pathogens and diseases, Maize diseases, Mango tree diseases, Fungi described in 1925, All stub articles, ...
"Family placement of Ascotaiwania and Ascolacicola based on DNA sequences from the large subunit rRNA gene". Fungal Divers. 2: ... Fungal Divers. 35: 1-187. E. B. Gareth Jones and Ka-Lai Pang (Editors) Marine Fungi: and Fungal-like Organisms (2012), p. 37, ... Lastly, anamorphic fungal genus Monotosporella was also added later to the order and family. Generally, Savoryellaceae species ... doi:10.1016/S0007-1536(69)80169-5. Tsui, C. K. M.; Hyde, K. D. (2003). "Freshwater mycology". Fungal Divers. Res. Ser. 10: 1- ...
... or DNA-based tests." Pathogenesis of the fungal contaminants include a wide range of factors such as "invasiveness, ... The issues of fungal identification observed as mentioned in this study do not pertain only to fungal contamination of contact ... "fungal strain isolated in culture." In one instance, a fungal strain previously identified as Arthrobotrys oligospora in a ... is amphotericin B which is a specific anti-fungal drug. For the treatment for filamentous fungal keratitis, "topical natamycin ...
DNA analysis has shown this belongs within the Agaricales. Several other species formerly referred to Myriococcum are now ... Koukol O (2016). "Myriococcum revisited: a revision of an overlooked fungal genus". Plant Systematics and Evolution. 302 (8): ...
... is an N-terminal domain involved in copper-dependent DNA binding. It is named for its resemblance to a fist. It can ... be found in some fungal transcription factors. These proteins activate the transcription of the metallothionein gene in ... which allows DNA binding. Copper fist definition Turner RB, Smith DL, Zawrotny ME, Summers MF, Posewitz MC, Winge DR (July 1998 ...
Vánky, K. (2001). "The emended Ustilaginaceae of the modern classificatory system for smut fimgi". Fungal Diversity. 6: 131-147 ... "Phylogenetic studies on nuclear large subunit ribosomal DNA sequences of smut fungi and related taxa". Canadian Journal of ...
Lücking, Robert; Nadel, Miko; Araujo, Elena; Gerlach, Alice (2020). "Two decades of DNA barcoding in the genus Usnea ( ... Fungal Diversity. 84 (1): 101-117. doi:10.1007/s13225-017-0379-z. S2CID 256071368. Ohmura 2001, p. 8. Ohmura 2001, p. 9. Ohmura ... Parmeliaceae): how useful and reliable is the ITS?". Plant and Fungal Systematics. 65 (2): 303-357. doi:10.35535/pfsyst-2020- ...
Although the replication and transcription of DNA is highly standardized in eukaryotes, the same cannot be said for their ... Besides plants and animals, the evolutionary history of various fungal species is dotted by past and recent whole-genome ... Lidzbarsky GA, Shkolnik T, Nevo E (June 2009). Idnurm A (ed.). "Adaptive response to DNA-damaging agents in natural ... April 2009). "Genome sequence of the lager brewing yeast, an interspecies hybrid". DNA Research. 16 (2): 115-129. doi:10.1093/ ...
Fungal Genet. Biol. 43 (7): 511-29. doi:10.1016/j.fgb.2006.02.006. PMID 16626980. S2CID 43275127. Chandelier A, Abras S, ... "Genetic characterization of the natural hybrid species Phytophthora alni as inferred from nuclear and mitochondrial DNA ...
2022) What do the first 597 global fungal red list assessments tell us about the threat status of fungi? Diversity 14 (9), 736 ... 2012) Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for Fungi. Proceedings of ... V., Spouge, J.L., Levesque, C.A., … and Fungal Barcoding Consortium. ( ...
"Fungal diversity notes 603-708: taxonomic and phylogenetic notes on genera and species". Fungal Diversity. 87 (1): 1-235. doi: ... 2015) introduced P. garethjonesii based on DNA sequence data and morphology and placed this species in Melanommataceae in ... Fungal Diversity. 87 (2): 237-298. doi:10.1007/s13225-017-0389-x. S2CID 256070993. Tsui, C. K. M.; Berbee, M. L. (2006). " ... a fungal infection of the cornea), as well as Pleurothecium recurvatum (formerly Carpoligna pleurothecii). A multi-locus ...
DNA barcoding Microbial DNA barcoding Pollen DNA barcoding DNA barcoding in diet assessment Consortium for the Barcode of Life ... as primary fungal DNA barcode, the necessity of establishing a second DNA barcode marker was expressed. Several attempts were ... Fungal DNA barcoding can help to identify and associate anamorphic and teleomorphic stages of fungi, and through that to reduce ... Fungal DNA barcoding is the process of identifying species of the biological kingdom Fungi through the amplification and ...
This tool assumes that fungal DNA already exists; it does not describe the procedure for purification of fungal DNA. ... Target Genes, Primer Sets, and Thermocycler Settings for Fungal DNA Amplification. *Anamorph and Teleomorph Names for Candida ... Target Genes, Primer Sets, and Thermocycler Settings for Fungal DNA Amplification. ... Trichophyton species DNA is amplified very poorly by the ITS primer set used for most other molds. There is a special set of ...
Introduction The risk for invasive fungal infections is high in very low birth weight (VLBW) infants (< 1500 g) and highest for ... Examples include PCR and DNA microarray technology. The hope is that these techniques will allow for the rapid detection of ... Culture (aerobic or fungal). Culture (aerobic or fungal) or biopsy. Fungal culture or biopsy. ... Culture (aerobic or fungal). Culture (aerobic or fungal) or biopsy. Fungal culture or biopsy. ...
The use of new, highly sensitive, DNA detection assays (e.g., Xpert MTB/RIF) directly on respiratory specimens has transformed ... Diagnosis of fungal asthma relies on total and fungal-specific IgE testing or skin-prick testing, which is simple to perform ... Accurate Diagnosis of Fungal Sepsis in Hospitals Misdiagnosis of Smear-Negative Pulmonary Tuberculosis as Tuberculosis Fungal ... The term fungal asthma has recently been introduced as a catch-all for asthma exacerbated by fungal sensitization, airways ...
LR: 20131121; JID: 9706280; 0 (DNA, Bacterial); 0 (DNA, Fungal); 0 (DNA, Intergenic); 33X04XA5AT (Lactic Acid); ppublish ... DNA, Fungal/genetics, DNA, Intergenic/genetics, Fermentation, Gram-Positive Bacteria/genetics/isolation & purification, ... DNA from 200 strains of yeasts was amplified and the D1/D2 domain of the 26S rRNA gene was sequenced for selected isolates, ... DNA amplification by internal transcribed spacer-polymerase chain reaction of 288 lactic acid bacteria (LAB) isolates and 16S ...
Pyrimidine analogs are antifungal drugs that interfere with DNA synthesis in fungal cells by inhibiting an enzyme called ... 5. Classification of Fungal Drugs. Fungal drugs can be classified into different categories based on their mechanism of action ... 5. Classification of Fungal Drugs. Fungal drugs, including Nizoral, can be classified into different categories based on their ... Classification of Fungal Drugs. Fungal drugs can be classified into different categories depending on their mechanism of action ...
Environmental DNA (eDNA) sequencing is a powerful tool for studying ecosystem biodiversity and monitoring environmental changes ... This ITS protocol is designed to amplify fungal microbial eukaryotic lineages for sequencing on Illumina platforms. ... Benefits of Environmental DNA Sequencing. Scientists studying environmental DNA often analyze trace amounts of DNA per species ... These longer DNA sequences can help distinguish between species when smaller DNA barcodes are not available. This approach is ...
Taxonomic note: a place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in ... Accuracy of taxonomy prediction for 16S rRNA and fungal ITS sequences. PDF (1.8MB) Save to Mendeley Read in ReadCube RIS XML ... Fungal identification using a Bayesian classifier and the Warcup training set of internal transcribed spacer sequences.. ... Accuracy of taxonomy prediction for 16S rRNA and fungal ITS sequences. Robert C. Edgar​ ...
... genomic DNA extraction; fungal hazard identification; fungal internal transcribed spacer regions; fungal DNA sequencing; ... This protocol details an approach for determining fungal diversity within air samples through genomic DNA extraction, ... Collection and extraction of occupational air samples for analysis of fungal DNA. ... ITS sequencing results in the detection of many fungal species that are either not detected or difficult to identify to species ...
Community fungal DNA workshop. Posted on January 8, 2020 by Oliver Ellingham ... Posted in Public Engagement with Science , Tagged #LAFF100, BentoLab, Cornwall, DNA, DNA barcoding, Foray, Fungi, Kew, LAFF, ... The Lost and Found Fungi (LAFF) project have been travelling the country, teaching fungal enthusiasts DNA barcoding… With ... attention to detail, and a little luck, the protocols have been teaching allow you to read the DNA of the life around us. ...
... genomic DNA was extracted from tissue as above, but using the Quick-DNA Fecal/Soil Microbe Miniprep Kit (Zymo, Irvine, CA, USA ... Fungal tissue isolations were conducted from all symptomatic plants from each cultivar in order to establish whether the ... For cultures that were morphologically consistent with F. oxysporum, fungal tissue was prepared by growing 7 days on PDA (24°CC ... SIX3 amplification was conducted with the genomic DNA. It should be noted that all isolates without SIX3 amplification were ...
All OTUs which were identified as non-fungal following taxonomic assignment were removed from the fungal database. Bacterial ... Here, we reveal the strength of competitive interactions between endophytes by combining e-DNA metabarcoding to characterize ... Co-occurrence analysis of the most abundant OTUs revealed that direct fungal-fungal interactions were overall more negative ... Leaf-inhabiting fungal and bacterial endophytes are at their most diverse in tropical rainforest plant hosts, with some ...
... enhancing host resistance to invasive fungal (and other) infections and b) eliminating or suppressing respiratory fungal ... and DNA endonuclease profiling, which is now available for A. fumigatus {526}) may substantially aid in identifying the source ... infection is by inhalation of the fungal spores. In severely immunocompromised patients, primary Aspergillus sp. pneumonia ... are susceptible to fungal exposures at home and in ambulatory-care settings. To help address the problem of invasive ...
DNA-protective effects of sumach (Rhus coriaria L.), a common spice: results of human and animal studies. Mutation Research. ... Sumac is rich in gallic acid, which research suggests has anti-fungal, anti-viral, and cancer-fighting properties, and ... A 2009 study also suggested that sumac can protect DNA from errors during cell reproduction in animals, though research on ...
The DNA sample extracts were analyzed using ITS amplicon sequencing. Analysis indicated that there was no clear trend in the ... "Variability of Indoor Fungal Microbiome of Green and Non-Green Low-Income Homes in Cincinnati, Ohio" (2017). Coombs, Kanistha ... Variability of Indoor Fungal Microbiome of Green and Non-Green Low-Income Homes in Cincinnati, Ohio. ... "Variability of Indoor Fungal Microbiome of Green and Non-Green Low-Income Homes in Cincinnati, Ohio" , 2017. Export RIS ...
Clinical Accuracy and Impact of Plasma Cell-Free DNA Fungal PCR Panel for Non-Invasive Diagnosis of Fungal Infection. Clinical ... Fungal cell-free DNA (cfDNA) detection in plasma is a novel testing modality for the non-invasive diagnosis of IFI.A novel ... Plasma cell-free DNA PCR represents a novel testing modality for the non-invasive diagnosis of invasive fungal disease (IFD). ... Pathogen cell-free DNA (pcfDNA) in blood and urine is an attractive biomarker; however, the impact of preanalytical factors is ...
Introduction The risk for invasive fungal infections is high in very low birth weight (VLBW) infants (< 1500 g) and highest for ... Examples include PCR and DNA microarray technology. The hope is that these techniques will allow for the rapid detection of ... Fungal colonization occurred in 7.7% and 9.8% and invasive fungal infection in 3.8% and 2.7% in the 3 mg/kg and 6 mg/kg groups ... encoded search term (Fungal Infections in Preterm Infants) and Fungal Infections in Preterm Infants What to Read Next on ...
... is the most common fungal infection of the mouth (oral cavity). This article, however, focuses on noncandidal oral fungal ... DNA probes are available for several species. Unfortunately, specific laboratory studies for an accurate diagnosis of many ... encoded search term (Noncandidal Fungal Infections of the Mouth) and Noncandidal Fungal Infections of the Mouth What to Read ... Noncandidal Fungal Infections of the Mouth. Updated: Feb 12, 2016 * Author: Crispian Scully, MD, MRCS, PhD, MDS, CBE, FDSRCS( ...
The dominant fungal genera with their respective species on three types of seeds were Aspergillus (A. niger, A. flavus and A. ... Also, trichothecenes inhibit protein synthesis which followed by a secondary disruption of DNA and RNA synthesis. They affect ... The most dominant fungal genera and their respective species were; Aspergillus (A. niger, A. flavus and A. fumigatus), Fusarium ... oxysporum) and Penicillium (P. citrinum) were the most prevalent fungal genera and species and their counts increased with ...
DNA Preparation and Hybridization. Fungal strains used in this study are listed in Table 1. Neurospora strains were obtained ... Genomic DNA was sheared mechanically with a target range of 1 kb using a Hydroshear® (GeneMachines™, San Carlos, CA). Test ... Genomic DNA was isolated with the DNeasy Plant Tissue kit (Qiagen, Valencia, CA) with the following modifications: tissue was ... McCluskey K: The Fungal Genetics Stock Center: from Molds to Molecules. Advances in Applied Microbiology. 2003, 52: pp 246-262. ...
"Calling Cards" for DNA-binding Proteins in mammalian Cells. Wang, H., Mayhew, D., Chen, X., Johnston, M. & Mitra, R. D., Mar ... Calling Cards method for high-throughput identification of targets of yeast DNA-binding proteins. Wang, H., Heinz, M. E., ...
Morphological and culture characteristics are supported by DNA barcodes.. Item Type:. Article. ... Fungal Planet description sheets: 1042-1111. Persoonia - Molecular Phylogeny and Evolution of Fungi, 44 (1). pp. 301-459. ...
... and fecal DNA was retrieved. Gut bacteriome and mycobiome composition and diversity were analyzed with Illumina Sequencing of ... Patients with IBS and CD display altered bacterial and fungal taxa abundance compared to HC, and both have significantly lower ... Bacterial and Fungal Dysbiosis in the Guts of Patients with Irritable Bowel Syndrome (IBS) and Crohns Disease (CD). ... Bacterial and Fungal Dysbiosis in the Guts of Patients with Irritable Bowel Syndrome (IBS) and Crohns Disease (CD). ...
DNA VIRUS INFECTIONS; RNA VIRUS INFECTIONS; BACTERIAL INFECTIONS; MYCOPLASMA INFECTIONS; SPIROCHAETALES INFECTIONS; fungal ... DNA VIRUS INFECTIONS; RNA VIRUS INFECTIONS; BACTERIAL INFECTIONS; MYCOPLASMA INFECTIONS; SPIROCHAETALES INFECTIONS; fungal ...
Fungal DNA barcoding. Xu Jianping et al. Genome 2016 Nov (11) 913-932 ... DNA vaccines against Zika virus speed into clinical trials. Morrison Chris et al. Nature reviews. Drug discovery 2016 Jul (8) ... Scientists Are Creating a Genetic Chainsaw to Hack Superbug DNA to Bits Brown KV. Gizmodo, Feb 24, 2017. ... Biologists propose to sequence the DNA of all life on Earth Pennisi E. ScienceInsider, Feb 24, 2017. ...
Amplification and sequencing of DNA from fungal herbarium specimens. Mycologia 82: 175 184. (available online) ... Fungal Diversity 38: 85 104. (available online). Lian , B., Zang, J., Hou, W., Yuan, S. & Smith, D. 2008. PCR-based sensitive ... Fungal Diversity 55: 109 123. (available online). Peitner, U. Ladurner, H. & Simonini, G. 2003. Xerocomus cisalpinus sp. nov., ... DNA sequence analyses reveal abundant diversity, endemism and evidence for Asian origin of the porcini mushrooms. PLoS One 7(5 ...
It is recommended that any urgent fungal samples are submitted for identification via the Accugenix DNA sequencing service, ... Conidia addresses two major points for fungal identification using MALDI: first, they promote fast and sufficient mycelial ... The companys Accugenix laboratories recently launched a validated and comprehensive MALDI-TOF fungal identification service. ...
  • Prior to studies of and broad institution of antifungal prophylaxis in high-risk preterm infants, the incidence of fungal infections had been rising in infants born at less than 1000 g, with the ensuing resuscitation and survival of more and more infants. (medscape.com)
  • For these reasons, fungal infections are often difficult to eradicate in the preterm infant and, in cases of candidemia, central venous catheter removal is critical for clearance and survival. (medscape.com)
  • Although these immunocompromised infants are at increased risk during most of their hospital stay, they are at the highest risk of acquiring invasive fungal infections during the first weeks of life, when the most invasive therapies are performed and remain in place. (medscape.com)
  • The pathogenesis of fungal infections in preterm infants involves adherence, colonization, and dissemination (as shown in the image below). (medscape.com)
  • Pathogenesis and invasive fungal infections in very low birth weight infants. (medscape.com)
  • Furthermore, the importance of the accurate and timely diagnosis of fungal infections in defeating AMR has been starkly absent from policy discussions ( 4 ). (cdc.gov)
  • We provide 4 examples of specific clinical situations that require greater application of existing fungal diagnostics and improved overall fungal diagnostic capability and are in line with the 95-95 by 2025 Roadmap from the Global Action Fund for Fungal Infections ( 6 ). (cdc.gov)
  • Nizoral is a versatile medication that contains ketoconazole, an antifungal agent widely used to treat various fungal infections in the body. (securingpharma.com)
  • It is available in different forms, including oral tablets, creams, and shampoos, making it a go-to treatment option for different types of fungal infections. (securingpharma.com)
  • It is commonly used to treat dandruff, seborrheic dermatitis, and fungal infections of the skin, nails, and scalp. (securingpharma.com)
  • The active ingredient in Nizoral shampoo, ketoconazole, specifically targets these types of fungi, making it one of the best medicines for fungal infections. (securingpharma.com)
  • In addition to dandruff and seborrheic dermatitis, Nizoral is also used to treat other types of fungal infections such as ringworm, athlete's foot, and jock itch. (securingpharma.com)
  • Nizoral is considered one of the best medicines for fungal infections due to its effectiveness in treating a wide range of fungal conditions. (securingpharma.com)
  • It is also used for other types of fungal infections, such as ringworm, athlete's foot, and jock itch. (securingpharma.com)
  • In conclusion, Nizoral is considered one of the best medicines for fungal infections due to its versatility, effectiveness against specific fungi, and potential cost savings through online pharmacies. (securingpharma.com)
  • For these reasons, fungal infections are often difficult to eradicate in the preterm infant. (medscape.com)
  • This article, focuses on noncandidal oral fungal infections (deep mycoses). (medscape.com)
  • Although these noncandidal fungal infections are considerably less common than oral candidiasis, they commonly produce subclinical infection, especially pulmonary infections. (medscape.com)
  • The oral lesions associated with these deep fungal infections are chronic and progress to form solitary, chronic deep ulcers with the potential for local destruction and invasion and systemic dissemination. (medscape.com)
  • The resulting immune system abnormalities make people with AD-HIES highly susceptible to infections, particularly bacterial and fungal infections of the lungs and skin. (medlineplus.gov)
  • Overview of Fungal Infections Fungi are eukaryotic organisms that exist as yeast, molds, or both forms. (msdmanuals.com)
  • The fungal superbug Candida auris causes serious and often fatal infections. (cdc.gov)
  • Illness in a person with compelling evidence (e.g., culture, histopathology, seroconversion) of a different fungal infection, such as histoplasmosis or coccidioidomycosis, and meeting only non-confirmatory laboratory criteria for blastomycosis should not be counted as a case of blastomycosis since other fungal infections can cause false positive Blastomyces antigen and antibody test results. (cdc.gov)
  • Mycetoma has two distinct etiologies: fungal and bacterial. (who.int)
  • Processed DNA metabarcoding data and analysis code from an experiment to investigate temporal effects of labile carbon inputs on bacterial and fungal biodiversity in urine. (landcareresearch.co.nz)
  • Uncontrolled and/or active systemic infection (viral, bacterial or fungal) b. (who.int)
  • Fungal DNA barcoding is the process of identifying species of the biological kingdom Fungi through the amplification and sequencing of specific DNA sequences and their comparison with sequences deposited in a DNA barcode database such as the ISHAM reference database, or the Barcode of Life Data System (BOLD). (wikipedia.org)
  • In this attempt, DNA barcoding relies on universal genes that are ideally present in all fungi with the same degree of sequence variation. (wikipedia.org)
  • Fungal DNA barcoding can help to identify and associate anamorphic and teleomorphic stages of fungi, and through that to reduce the confusing multitude of fungus names. (wikipedia.org)
  • The success of identification of fungi by means of DNA barcode sequences stands and falls with the quantitative (completeness) and qualitative (level of identification) aspect of the reference database. (wikipedia.org)
  • 2012) proposed the ITS region as primary DNA barcode region for the genetic identification of fungi. (wikipedia.org)
  • This document describes some of the target genes and primers that can be used for DNA sequence-based identification of fungi and the PCR conditions with which to use those primers. (cdc.gov)
  • Supercharging SIP in the Fungal Hyphosphere Applying high-throughput stable isotope probing to the study of a particular fungi, researchers identified novel interactions between bacteria and the fungi. (doe.gov)
  • Analyses of species identity, species richness and species composition were based on microscopic identification and of sequencing the fungal DNA 'barcode' ITS (internal transcribed spacer).Species richness of litter-inhabiting microfungi equaled that of wood-inhabiting fungi and exceeded that of leaf endophytes. (uni-bayreuth.de)
  • The Kew databases contains data and resources concerning plants and fungi such as herbarium and fungarium catalogues, a seed information database, a DNA and tissue bank, accepted plant and fungal names, lists of synonyms and medicinal plant names, and much more. (lu.se)
  • The interspecific variation, i.e., the variation between species, in the chosen DNA barcode gene should exceed the intraspecific (within-species) variation. (wikipedia.org)
  • Moreover, fungal species can comprise multiple strains that can vary in their morphology or in traits such as carbon- and nitrogen utilisation, which has often led to their description as different species, eventually producing long lists of synonyms. (wikipedia.org)
  • Trichophyton species DNA is amplified very poorly by the ITS primer set used for most other molds. (cdc.gov)
  • Traditional methods of identifying fungal exposures in occupational environments, such as culture and microscopy-based approaches, have several limitations that have resulted in the exclusion of many species. (cdc.gov)
  • ITS sequencing results in the detection of many fungal species that are either not detected or difficult to identify to species level using culture or microscopy. (cdc.gov)
  • While these methods do not provide quantitative measures of fungal burden, they offer a new approach to hazard identification and can be used to determine overall species richness and diversity within an occupational environment. (cdc.gov)
  • DNA probes are available for several species. (medscape.com)
  • Mitochondrial quality control prevents accumulation of intramitochondrial-derived reactive oxygen species (mtROS), thereby protecting cells against DNA damage, genome instability, and programmed cell death. (lu.se)
  • However, underlying mechanisms are incompletely understood, particularly in fungal species. (lu.se)
  • The most distinctive species assemblage was observed on wood, fungal species composition in living leaves and leaf litter were also significantly different from each other. (uni-bayreuth.de)
  • This analysis allowed the partition of species lists into active fungal endophytes, fungal "epiphytes" and dormant fungal propagules. (uni-bayreuth.de)
  • Like Penicillium , Aspergillus is another big fungal group with lots of species that turn up virtually in every environment. (innerself.com)
  • This protocol details an approach for determining fungal diversity within air samples through genomic DNA extraction, amplification, sequencing, and taxonomic identification of fungal internal transcribed spacer (ITS) regions. (cdc.gov)
  • Amplification and sequencing of DNA from fungal herbarium specimens. (boletales.com)
  • All of these factors place them at high risk for fungal infection. (medscape.com)
  • Within the context of stewardship programs, inadequate attention has been paid to fungal infection as the cause of antibacterial treatment failure. (cdc.gov)
  • Accurate diagnosis or exclusion of fungal infection will have a substantial effect on antimicrobial drug usage and on our ability to limit AMR to bacteria. (cdc.gov)
  • Fungal drugs, including Nizoral, can be classified into different categories based on their mechanism of action and the type of infection they target. (securingpharma.com)
  • The classification of fungal drugs helps healthcare professionals determine the most appropriate treatment based on the type and severity of the infection. (securingpharma.com)
  • Candidiasis (candidosis) is by far the most common fungal infection of the mouth (oral cavity). (medscape.com)
  • Furthermore, as infection of murine macrophages with a p28 knockout ECTV resulted in a block of viral DNA replication and abortive infection following early viral gene expression [ 10 ], it was suggested that p28 might functionally compensate for an unknown cellular factor essential for viral DNA replication in macrophages. (biomedcentral.com)
  • Cross-reactivity is a known problem with the EIA antigen test, and cases known to be infected with another fungal infection should not be counted as blastomycosis cases. (cdc.gov)
  • To carry out its roles, the STAT3 protein attaches to DNA and helps control the activity of particular genes. (medlineplus.gov)
  • Voucher specimens should be clearly labelled as such, including a permanent voucher identifier that unambiguously connects the specimen with the DNA barcode data derived from it. (wikipedia.org)
  • Enlarging Windows into Understanding Gene Functions Two approaches build up DAP-seq, which allows researchers to identify all the sites where transcription factors bind quickly and efficiently in the genome by adding tagged transcription factors to a genomic DNA library. (doe.gov)
  • Virions of members within the family Poxviridae are large and complex, contain a double-stranded DNA genome of 130-375 kbp, and virus replication takes place in the cytosol [ 1 ]. (biomedcentral.com)
  • Kew databases innehåller data och resurser om växter och svampar såsom herbarium- och fungariumkataloger, en fröinformationsdatabas, en DNA- och vävnadsbank, accepterade växt- och svampnamn, listor på synonymer och medicinala växtnamn etc. (lu.se)
  • DNA sequence analyses reveal abundant diversity, endemism and evidence for Asian origin of the porcini mushrooms. (boletales.com)
  • Fungal Diversity. (uni-bayreuth.de)
  • The region is flanked by the DNA sequences for the ribosomal small subunit (SSU) or 18S subunit at the 5' end, and by the large subunit (LSU) or 28S subunit at the 3' end. (wikipedia.org)
  • Lack of routine diagnostic testing for fungal diseases exacerbates the problem of antimicrobial drug empiricism, both antibiotic and antifungal. (cdc.gov)
  • Azoles, such as ketoconazole, are commonly used as broad-spectrum antifungal agents that inhibit the synthesis of ergosterol, an essential component of the fungal cell membrane. (securingpharma.com)
  • For the fungal type (eumycetoma), treatment is based on administration of antifungal agents for prolonged periods, usually preceded or followed by surgical excision of the lesions. (who.int)
  • The taxa accounting most to the similarity between living and decaying leaves belonged to Capnodiales, Xylariales, Diaporthales and Pleosporales.Finally, data from cultivated leaf-inhabiting beech 32 endophytes were compared with a fungal 454 sequence data set from beech phyllosphere. (uni-bayreuth.de)
  • Variation within and between population of Fusarium oxysporumbased on vegetative compatibility and mitochondrial DNA. (plantprotection.pl)
  • Like the flanking 18S and 28S subunits, the 5.8S subunit contains a highly conserved DNA sequence, as they code for structural parts of the ribosome, which is a key component in intracellular protein synthesis. (wikipedia.org)
  • The full-length p28 protein consists of 242 amino acids and combines an N-terminal KilA-N domain, which acts as DNA-binding domain [ 13 ], and a C-terminal RING domain [ 6 ]. (biomedcentral.com)
  • HBV demonstrates the ability to integrate and bind to p53 protein in the host DNA and propagate hepatocyte vulnerability through carcinogenic aflatoxin B1 (AFB1) damage. (bvsalud.org)
  • It is a potent inhibitor of RNA, DNA, and ultimately protein synthesis. (brainkart.com)
  • Another crucial prerequisite for DNA barcoding is the ability to unambiguously trace the provenance of DNA barcode data back to the originally sampled specimen, the so-called voucher specimen. (wikipedia.org)
  • Advances in the field over the last two decades have led occupational health researchers to turn to molecular-based approaches for identifying fungal hazards. (cdc.gov)
  • CDC sequenced nearly 45,000 DNA samples by using Advanced Molecular Detection (AMD) technologies. (cdc.gov)
  • Note: subjects with serologic evidence of prior vaccination to HBV (i.e. hepatitis B surface (HBs) antigen negative-, anti-HBs antibody positive and anti-hepatitis B core (HBc) antibody negative) or positive anti-HBc antibody from intravenous immunoglobulins (IVIG) or patients who have past exposure to HepB (HepB Surface Antigen negative but core antibody positive and DNA negative) who do not require treatment may participate. (who.int)
  • Its effect on DNA synthesis is through its conversion to another metabolite (5-fluorodeoxyuridine), which is a potent inhibitor of thymidylate synthetase. (brainkart.com)
  • There are other useful techniques for the diagnosis of mycetoma such as DNA sequencing. (who.int)
  • En parallèle, une identification microbiologique normalisée et un test de sensibilité à l'oxacilline par PCR visant l'amplification du gène Mec A ont été réalisés. (who.int)
  • All communities should have access to nonculture fungal diagnostics, which can substantially benefit clinical outcome, antimicrobial stewardship, and control of antimicrobial resistance. (cdc.gov)
  • DNA vaccines against Zika virus speed into clinical trials. (cdc.gov)
  • Staphylococcus aureus bacteraemia is a specific DNA polymerase (Bst). (who.int)
  • Collection and extraction of occupational air samples for analysis of fungal DNA. (cdc.gov)
  • When the identity of a certain taxon (or a genetic sequence in the case of DNA barcoding) is in doubt, the original specimen can be re-examined to review and ideally solve the issue. (wikipedia.org)
  • When we test your pup's sample, we'll search for their genetic relatives, so you can message them, compare DNA results, view photos, and more. (wisdompanel.com)
  • Other types of drugs, such as polyenes and allylamines, work by disrupting the integrity of the fungal cell membrane. (securingpharma.com)
  • Ammonium secretion by Colletotrichum coccodes activates host NADPH oxidase activity enhancing host cell death and fungal virulence in tomato fruits. (agri.gov.il)
  • This will dramatically change the landscape of DNA/RNA-based research of microbial resource on Earth, and soil microbiology represents one of the most important research fields in future. (issas.ac.cn)
  • Research has shown a significant increase in the occurrence of HCC in HBV-infected individuals exposed to fungal toxins. (bvsalud.org)
  • A fundamental problem in fungal systematics is the existence of teleomorphic and anamorphic stages in their life cycles. (wikipedia.org)
  • A lot of this fungal growth is what we call mould. (innerself.com)
  • The focus lay on the hypothesized fall-spring relationship of leaf-inhabiting forest endophytes, which means that endophytes from autumn leaves persist as saprobes in litter or dead wood, sporulate and re-invade living leaves in spring.Fungal cultures were isolated from living leaves, leaf litter and dead wood still attached to the tree by dilution-to-extinction cultivation in the years 2007-2010. (uni-bayreuth.de)
  • Morphological and culture characteristics are supported by DNA barcodes. (qld.gov.au)

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