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Biochem. Biophys. Res. Commun. 468, 248-54. Critical role of ARID3B in the expression of pro-apoptotic p53 target genes and apoptosis. 2015

Pratama, E., Tian, X., Lestari, W., Iseki, S., Ichwan, S.J.A. and Ikeda, M.-A.

Notes: U2OS and H1299 cells were transfected with expression vectors and analyzed for either protein levels or mRNA levels. Cells for mRNA level detection were transfected with the ViaFect™ Transfection Reagent (details not provided). Total RNA from siRNA treated cells was isolated and used in semi-quantitative RT-PCR with the PCR portion provided by the GoTaq® Hot Start Green Master Mix. The proteins ARID3A and ARID3B were expressed in with the TNT® Coupled Reticulocyte Lysate System for use in electrophoretic mobility shift assays. (4677)

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Nucl. Acids Res. 41, e112. Reflex: Intramolecular barcoding of long-range PCR products for sequencing multiple pooled DNAs. 2013

Casbon, J.A., Slatter, A.F., Musgrave-Brown, E., Osborne, R.J., Lichtenstein, C.P. and Brenner, S.

Notes: A 50µl long-range polymerase chain reaction (LRPCR) used 1.25U of GoTaq® Hot Start Polymerase to amplify 250ng of genomic DNA and generate amplicons with multiplex identifier (MID) tags. Reflex extension reactions (25µl) included 1.25U of GoTaq® Hot Start DNA Polymerase in 1X Herculase II Reaction Buffer, 0.5µl of Herculase II Fusion DNA Polymerase) and 0.3pM LRPCR products. (4550)

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Nucl. Acids Res. 39, e81. A method for counting PCR template molecules with application to next-generation sequencing. 2011

Casbon, J.A., Osborne, R.J., Brenner, S. and Lichtenstein, C.P.

Notes: DNA templates are often amplified by PCR during library generation prior to next-generation sequencing, but amplification can introduce biases and duplications that are not easily corrected. In this paper, the authors developed a simple method to count the number of input template molecules to reduce these PCR-related problems: The ligation of a degenerate base region to all fragments during library creation. To evaluate their approach to correct for biases and duplications, the authors created a library using Human Genomic DNA, amplified the library by inverse PCR using the GoTaq® Hot Start Polymerase and 1X Colorless GoTaq® Flexi Buffer, sequenced the resulting DNA fragments and assessed the quality of the next-generation sequencing data. (4160)

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Appl. Environ. Microbiol. 77, 2589–95. Detecting potentially virulent Vibrio vulnificus strains in raw oysters by quantitative loop-mediated isothermal amplification. 2011

Han, F., Wang, F. and Ge, B.

Notes: The authors developed a loop-mediated isothermal amplification (LAMP) assay to distinguish between virulent and nonvirulent strains of Vibrio vulnificus by targeting the virulence-correlated gene (vcg). The authors performed PCR using vcg-specific primers and GoTaq® Hot Start Polymerase in parallel to confirm the LAMP results. (4163)

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J. Exp. Bot. 62, 5217–31. The barley amo1 locus is tightly linked to the starch synthase IIIa gene and negatively regulates expression of granule-bound starch synthetic genes. 2011

Li, Z., Li, D., Du, X., Wang, H., Larroque, O., Jenkins, C.L., Jobling, S.A. and Morell, M.K.

Notes: The authors investigated starch synthesis in barley (Hordeum vulgare) by examining mutations in class I, class II and class III starch synthases (ssI, ssII and ssIII, respectively). Mutations of ssIIa and ssIIIa were detected by PCR using the GoTaq® Hot Start Polymerase. (4162)

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Appl. Environ. Microbiol. 76, 3863–8. Comparison of normalization methods for construction or large multiplex amplicon pools for next-generation sequencing 2010

Harris, J.K., Sahl, J.W., Castoe, T.A., Wagner, B.D., Pollack, D.D. and Spear, J.R.

Notes: GoTaq® Master Mix was used for PCR of bacterial ribosomal RNA genes prior to pyrosequencing. (4529)

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Am. J. Bot. 97, 1574–8. Clonal structure of wild populations and origins of horticultural stocks of Illicium parviflorum (Illiciaceae). 2010

Newell, D.L. and Morris, A.B.

Notes: The authors investigated genetic diversity in a Florida population of Illicium parviflorum, an endangered evergreen shrub, by amplifying intersimple sequence repeats (ISSRs). Amplifications were performed using GoTaq® Hot Start Polymerase. (4161)

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Nucl. Acids Res. 37, 2070–86. HMGB1 and HMGB2 proteins up-regulate cellular expression of human topoisomerase IIα. 2009

Stros, M., Polanská, E., Struncová, S. and Pospísilová, S.

Notes: The authors examined whether HMGB1 and HMGB2 proteins could affect promoter activity of the topoisomerase IIα gene. Portions of the topoisomerase IIα gene promoter were cloned into the pGL3 Basic Vector, and Saos-2 cells were cotransfected with the resulting constructs, an HMGB1- or HMGB2-expressing plasmid and the pRL-tk Vector as a control for normalization. Firefly and Renilla luciferase activities were determined using the Dual-Luciferase Reporter Assay. To determine whether HMGB1 and HMGB2 promoted binding of the transcription factor nuclear factor-Y (NF-Y) to the topoisomerase IIα promoter, the authors used a chromatin immunoprecipitation (ChIP) assay. Two populations of Saos-2 cells, one of which expressed HMGB1 or HMGB2 and one that had expression inhibited, were fixed with formaldehyde, then treated to shear chromatin. Immunoprecipitation was performed using an anti-NF-Y antibody, and the amount of DNA bound to the NF-Y was quantified by semi-quantitative PCR using GoTaq® Hot Start DNA Polymerase and Green GoTaq® Flexi Reaction Buffer. (4037)

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