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Xbai restriction enzyme

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XbaI is a type II restriction enzyme that recognizes and cleaves the DNA sequence 5'-TCTAGA-3'. It is commonly used in molecular biology research and applications to cut DNA at specific sites, enabling the manipulation and analysis of genetic material.

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Lab products found in correlation

Gelcompar 2 software, by bioMérieux (1 mentions) Gel doc xr system, by Bio-Rad (1 mentions) Megascript t7 kit, by Thermo Fisher Scientific (1 mentions)

Close spelling variants of this product

XbaI enzyme Restriction enzymes XbaI

4 protocols using xbai restriction enzyme

1

Pulsed-Field Gel Electrophoresis Typing

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For PFGE typing, the isolates were cultivated overnight on trypticase soy agar (TSA) plates, and PFGE was performed according to the internationally standardized PulseNet protocol [49 ] using 15 U XbaI restriction enzyme (Roche, Basel, Switzerland) for each plug. XbaI-digested S. Braenderup (H9812) served as a DNA size marker. Banding patterns were analysed using BioNumerics v.6.6 (AppliedMaths, Kortrijk, Belgium). The bands within a size range of 33 kb and 1135 kb were included in the analysis, and isolates differing even in one banding position or in thickness of the band were assigned as different PFGE types. An unweighted pair group method with arithmetic mean (UPGMA) dendrogram was constructed using a Dice coefficient.
Lienemann T., Kyyhkynen A., Halkilahti J., Haukka K, & Siitonen A. (2015). Characterization of Salmonella Typhimurium isolates from domestically acquired infections in Finland by phage typing, antimicrobial susceptibility testing, PFGE and MLVA. BMC Microbiology, 15, 131.
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2

Genotyping B. pertussis Isolates via PFGE

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Pulsed-field gel electrophoresis (PFGE) of B pertussis isolates, including the control isolate Salmonella Braenderup H9812 (kindly provided by the Minnesota Department of Health), was performed using XbaI restriction enzyme (Roche Applied Science) as previously described.12 ,13 The gel image was captured on a Gel Doc XR system (Bio-Rad Laboratories, Inc). Analysis of PFGE patterns was performed with GelCompar II software (Applied Maths). Similarity coefficients were calculated using the Dice algorithm.
Theofiles A.G., Cunningham S.A., Chia N., Jeraldo P.R., Quest D.J., Mandrekar J.N, & Patel R. (2014). Pertussis Outbreak, Southeastern Minnesota, 2012. Mayo Clinic proceedings, 89(10), 1378-1388.
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3

PFGE Analysis of Non-O157 STEC Isolates

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PFGE was performed for all 84 non-O157 STEC isolates according to the
standardized PulseNet protocol (Ribot et al.,
2006). All isolates were analyzed using XbaI
restriction enzyme (Roche Applied Science, Indianapolis, IN). Twenty-three
isolates from the CDC were also analyzed using BlnI restriction
enzyme (Roche Applied Science) (Table 2).
PFGE patterns were analyzed with BioNumerics software version 5.01 (Applied
Maths, Kortrijk, Belgium), uploaded to the PulseNet PFGE pattern database, and
named according to the standard nomenclature system (Swaminathan et al., 2001 (link)).
Timmons C., Trees E., Ribot E.M., Gerner-Smidt P., LaFon P., Im S, & Ma L.M. (2016). Multiple-locus variable-number tandem repeat analysis for strain discrimination of non-O157 Shiga toxin-producing Escherichia coli. Journal of microbiological methods, 125, 70-80.
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4

Chimeric Gene Transcription Protocol

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The igVR-1a chimera gene, GND, and JFH1 vectors were digested with the XbaI restriction enzyme (Roche, USA). For in vitro RNA transcription, mung bean nuclease catalyst was used in the degradation of single-stranded DNA and RNA (Promega, USA). In vitro RNA transcription was performed with a MEGAscript T7 kit (Ambion, Germany) according to the manufacturer’s recommendations. After DNase I treatment, RNA was used for transfection (12 (link)).
Ghasemi F., Ghayour-Mobarhan M., Pasdar A., Pourianfar H., Reza Aghasadeghi M., Gouklani H, & Meshkat Z. (2016). Design, Construction and Evaluation of 1a/JFH1 HCV Chimera by Replacing the Intergenotypic Variable Region. Hepatitis Monthly, 16(10), e38261.
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