scholarly journals Validation of a multi‐species‐specific PCR panel to diagnose patients with suspected postoperative bacterial endophthalmitis

2021 ◽  
Author(s):  
Justin van Halsema ◽  
Ruud Jansen ◽  
Adriaan Heineken ◽  
Tjaco M. Ossewaarde ◽  
Magda A. Meester‐Smoor ◽  
...  
Keyword(s):  
Bacterial Endophthalmitis ◽  
Specific Pcr ◽  
Species Specific

scholarly journals Survey on Perkinsus Species in Manila Clam Ruditapes philippinarum in Korean Waters Using Species-Specific PCR

2017 ◽  
Vol 52 (4) ◽  
pp. 202-205 ◽  
Author(s):  
Hyun-Sil Kang ◽  
Hyun-Sung Yang ◽  
Kimberly S. Reece ◽  
Young-Ghan Cho ◽  
Hye-Mi Lee ◽  
...  
Keyword(s):  
Ruditapes Philippinarum ◽  
Manila Clam ◽  
Korean Waters ◽  
Specific Pcr ◽  
Species Specific

scholarly journals Development and Validation of a Nested-PCR-Denaturing Gradient Gel Electrophoresis Method for Taxonomic Characterization of Bifidobacterial Communities

2003 ◽  
Vol 69 (11) ◽  
pp. 6380-6385 ◽  
Author(s):  
R. Temmerman ◽  
L. Masco ◽  
T. Vanhoutte ◽  
G. Huys ◽  
J. Swings
Keyword(s):  
Nested Pcr ◽  
Gel Electrophoresis ◽  
Denaturing Gradient Gel Electrophoresis ◽  
Temporal Changes ◽  
Rrna Gene ◽  
Specific Pcr ◽  
Gradient Gel Electrophoresis ◽  
Species Specific ◽  
Taxonomic Characterization

ABSTRACT The taxonomic characterization of a bacterial community is difficult to combine with the monitoring of its temporal changes. None of the currently available identification techniques are able to visualize a “complete” community, whereas techniques designed for analyzing bacterial ecosystems generally display limited or labor-intensive identification potential. This paper describes the optimization and validation of a nested-PCR-denaturing gradient gel electrophoresis (DGGE) approach for the species-specific analysis of bifidobacterial communities from any ecosystem. The method comprises a Bifidobacterium-specific PCR step, followed by purification of the amplicons that serve as template DNA in a second PCR step that amplifies the V3 and V6-V8 regions of the 16S rRNA gene. A mix of both amplicons is analyzed on a DGGE gel, after which the band positions are compared with a previously constructed database of reference strains. The method was validated through the analysis of four artificial mixtures, mimicking the possible bifidobacterial microbiota of the human and chicken intestine, a rumen, and the environment, and of two fecal samples. Except for the species Bifidobacterium coryneforme and B. indicum, all currently known bifidobacteria originating from various ecosystems can be identified in a highly reproducible manner. Because no further cloning and sequencing of the DGGE bands is necessary, this nested-PCR-DGGE technique can be completed within a 24-h span, allowing the species-specific monitoring of temporal changes in the bifidobacterial community.

scholarly journals First Report of Orange Rust of Sugarcane Caused by Puccinia kuehnii in Colombia

Plant Disease ◽  
2012 ◽  
Vol 96 (1) ◽  
pp. 143-143 ◽  
Author(s):  
M. Cadavid ◽  
J. C. Ángel ◽  
J. I. Victoria
Keyword(s):  
Internal Transcribed Spacer ◽  
Pcr Primers ◽  
The United States ◽  
Optical Microscope ◽  
First Report ◽  
5.8S Rdna ◽  
Specific Pcr ◽  
Plant Pathol ◽  
Species Specific ◽  
New Cultivars

Symptoms of sugarcane orange rust were first observed in July 2010 on sugarcane (interspecific hybrid of Saccharum L. species) cv. CC 01-1884 planted in the La Cabaña Sugar Mill, Puerto Tejada, Colombia. Morphological features of uredinial lesions and urediniospores inspected with an optical microscope and scanning electron microscopy were distinct from common rust of sugarcane caused by Puccinia melanocephala Syd. & P. Syd., revealing spores identical morphologically to those described for the fungus P. kuehnii (Kruger) E. Butler, causal agent of sugarcane orange rust (1,3). Uredinial lesions were orange and distinctly lighter in color than pustules of P. melanocephala. Urediniospores were orange to light cinnamon brown, mostly ovoid to pyriform, variable in size (27.3 to 39.2 × 16.7 to 21.2 μm), with pronounced apical wall and moderately echinulate with spines evenly distributed. Paraphyses, telia, and teliospores were not observed. Species-specific PCR primers designed from the internal transcribed spacer (ITS)1, ITS2, and 5.8S rDNA regions of P. melanocephala and P. kuehnii were used to differentiate the two species (2). The primers Pm1-F and Pm1-R amplified a 480-bp product from P. melanocepahala DNA in leaf samples with symptoms of common rust. By contrast, the primers Pk1-F and Pk1-R generated a 527-bp product from presumed P. kuehnii DNA in leaf samples with signs of orange rust, confirming the identity as P. kuehnii. The Centro de Investigación de la Caña de Azúcar de Colombia (Cenicaña) started a survey of different cultivars in nurseries and experimental and commercial fields in the Cauca River Valley and collected leaf samples for additional analyses. Experimental cvs. CC 01-1884, CC 01-1866, and CC 01-1305 were found to be highly susceptible to orange rust and were eliminated from regional trials, whereas commercial cvs. CC 85-92 and CC 84-75, the most widely grown cultivars, were resistant. With the discovery of orange rust of sugarcane in Colombia, Cenicaña has incorporated orange rust resistance in the selection and development of new cultivars. To our knowledge, this is the first report of P. kuehnii on sugarcane in Colombia. Orange rust has also been reported from the United States, Cuba, Mexico, Guatemala, Nicaragua, El Salvador, Costa Rica, Panama, Ecuador, and Brazil. References: (1) J. C. Comstock et al. Plant Dis. 92:175, 2008. (2) N. C. Glynn et al. Plant Pathol. 59:703, 2010. (3) E. V. Virtudazo et al. Mycoscience 42:167, 2001.

scholarly journals Design of a species-specific PCR method for the detection of the heat-resistant fungi Talaromyces macrosporus and Talaromyces trachyspermus

2017 ◽  
Vol 66 (1) ◽  
pp. 86-92 ◽  
Author(s):  
S. Yamashita ◽  
H. Nakagawa ◽  
T. Sakaguchi ◽  
T-H. Arima ◽  
Y. Kikoku
Keyword(s):  
Heat Resistant ◽  
Specific Pcr ◽  
Pcr Method ◽  
Species Specific

Species-specific PCR for the identification of ruminant species in feedstuffs

Meat Science ◽  
2007 ◽  
Vol 75 (1) ◽  
pp. 120-127 ◽  
Author(s):  
Irene Martín ◽  
Teresa García ◽  
Violeta Fajardo ◽  
Inés López-Calleja ◽  
Pablo E. Hernández ◽  
...  
Keyword(s):  
Specific Pcr ◽  
Ruminant Species ◽  
Species Specific

Species-specific PCR assay for L. infantum/L. donovani discrimination

Acta Tropica ◽  
2006 ◽  
Vol 100 (3) ◽  
pp. 241-245 ◽  
Author(s):  
Mallorie Hide ◽  
Anne-Laure Bañuls
Keyword(s):  
Pcr Assay ◽  
Specific Pcr ◽  
Specific Pcr Assay ◽  
Species Specific

scholarly journals Virulence factors and antibiotic resistance in enterococci isolated from food-stuffs

2011 ◽  
Vol 56 (No. 7) ◽  
pp. 352-357 ◽  
Author(s):  
K. Trivedi ◽  
S. Cupakova ◽  
R. Karpiskova
Keyword(s):  
Antibiotic Resistance ◽  
Virulence Factors ◽  
Diffusion Method ◽  
Haemolytic Activity ◽  
Virulence Determinants ◽  
Disk Diffusion Method ◽  
Specific Pcr ◽  
Virulence Potential ◽  
Enterococcal Species ◽  
Species Specific

A collection of 250 enterococci isolated from various food-stuffs were used to investigate seven virulence determinants and the microbial susceptibility of eight antibiotics. Species-specific PCR revealed the presence of E. faecalis (127 isolates), E. faecium (77 isolates), E. casseliflavus (21 isolates), E. mundtii (19 isolates) and E. durans (six isolates). Multiplex PCR for virulence factors showed that from a total 250 isolates, 221 (88.4%) carried one or more virulence-encoding genes. β-Haemolytic activity was also evident in enterococcal species other than E. faecalis and E. faecium. Species other than E. faecalis and E. faecium isolated from food are also seen to harbour the potential for virulence. Antimicrobial susceptibility testing using the disk diffusion method showed that of the total 250 isolates, 114 (46%) were resistant to cephalothin and 94 (38%) to ofloxacin. Lower antibiotic resistance was seen with ampicillin, chloramphenicol, gentamicin and teicoplanin. None of the isolates was found to be resistant to vancomycin. The results of this study show that food can play an important role in the spread of enterococci with virulence potential through the food chain to the human population.

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