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J. Endocrinol. 197, 201–12. Neonatal exposure to bisphenol A modifies the abundance of estrogen receptor alpha transcripts with alternative 5'-untranslated regions in the female rat preoptic area. 2007

Monje, L., Varayoud, J., Luque, E.H. and Ramos, J.G.

Notes: The authors investigated the effect of neonatal bisphenol A (BPA) exposure in rats on expression of estrogen receptor α (ERα) transcripts. Alternative ERα transcripts in preoptic area of treated and untreated rats were quantified using real-time RT-PCR. Reverse transcription was performed using 4µg of total RNA, 200pmol random primers and 300 units M-MLV Reverse Transcriptase. Real-time PCR was performed using SYBR® Green I to quantify amplified products. To determine if the changes in BPA-induced ERα transcript expression were caused by DNA methylation, the methylation status of the five ERα promoters was examined by bisulfite modification. Genomic DNA was isolated from rat tissue using the Wizard® Genomic DNA Purification Kit, denatured with NaOH, then treated with hydroquinone and sodium bisulfite. Prior to methylation-specific PCR, DNA was cleaned up using the Wizard® DNA Purification Resin as directed by the manufacturer. PCR products were cleaned up again using the Wizard® SV Gel and PCR Clean-Up System, then subjected to restriction enzyme digestion and agarose gel electrophoresis to reveal methylation-dependent sequence differences. (3911)

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Genetics 176, 161–180. Role of the mod(mdg4) common region in homolog segregation in Drosophila male meiosis. 2007

Soltani-Bejnood, M., Thomas, S.E., Villeneuve, L., Schwarz, K.T., Hong, C.S. and McKee, B.D.

Notes: In this paper, the authors studied the common region of mod(mdg4) and its role in homolog conjunction during meiosis. Genomic DNA was isolated from adult Drosophila using the Wizard® Genomic DNA Purification Kit and mutations identified by PCR and sequencing of the introns. (3576)

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J. Virol. 81, 4397-4404. tRNA isoacceptor preference prior to retrovirus Gag-Pol junction links primer selection and viral translation. 2007

Palmer, M.T., Kirkman, R., Kosloff, B.R., Eipers, P.G. and Morrow, C.D.

Notes: These authors examined how the retrovirus Moloney murine leukemia virus (MuLV) selected tRNA, which is used for primer binding and initiating reverse transcription, by mutating in the primer binding sites (PBS). At various time points, high-molecular-weight DNA was isolated from cells infected with MuLV using the Wizard® Genomic DNA Purification Kit. The purified DNA was amplified using primers to the PBS, sequenced and analyzed by an alignment program. (3742)

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Behav. Ecol. 17, 419–429. Cichlids do not adjust reproductive skew to the availability of independent breeding options. 2006

Heg, D., Bergmuller, R., Bonfils, D., Otti, O., Bachar, A., Burri, R., Heckel, G. and Taborskya, M.

Notes: These authors sought to determine whether helpers in cooperatively breeding species reproduced or if all offspring were from the breeders. They created 32 breeding groups and tested the possibilities of reproductive skew under various conditions. Genomic DNA from breeders and helpers was isolated from ethanol-preserved 1–2 mm2 finclip samples or from whole offspring using the Wizard® Genomic DNA Purification Kit. Purified DNA was resuspended in 50µl of DNA Rehydration Solution and analyzed by PCR using seven microsatellite primer pairs. (3679)

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J. Biol. Chem. 281, 9901–9908. CpG sites preferentially methylated by Dnmt3a in vivo. 2006

Oka, M., Rodic, N., Graddy, J., Chang, L.J. and Terada, N.

Notes: The Wizard® Genomic DNA Purification Kit was used to isolate genomic DNA from mouse embryonic stem (ES) cells, embryonic bodies (EB) and adult tissues. The purified genomic DNA was subjected to methylation-sensitive restriction fingerprinting (MSRF; digestion with methylation-sensitive restriction enzymes followed by amplification of 100ng of digested DNA), or 2µg DNA treated with bisulfite. (3419)

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Infect. Immun. 74, 682–693. Genome engineering in Bacillus anthracis using Cre recombinase. 2006

Pomerantsev, A.P., Sitaraman, R., Galloway, C.R., Kivovich, V. and Leppla, S.H.

Notes: Chromosomal DNA from Gram-positive Bacillus anthracis was isolated using the Wizard® Genomic DNA Purification Kit. (3420)

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Appl. Environ. Microbiol. 72, 2050–2063. Genome sequence of the chemolithoautotrophic nitrite-oxidizing bacterium Nitrobacter winogradskyi Nb-255. 2006

Starkenburg, S.R., Chain, P.S., Sayavedra-Soto, L.A., Hauser, L., Land, M.L., Larimer, F.W., Malfatti, S.A., Klotz, M.G., Bottomley, P.J., Arp, D.J. and Hickey, W.J.

Notes: To construct a genome library of the nitrite-oxidizing bacterium Nitrobacter winogradskyi Nb-255, genomic DNA was isolated from batch cultures using the Wizard® Genomic DNA Purification Kit. (3416)

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Cancer Res. 66, 755–762. In utero exposure of mice to dibenzo[a,l]pyrene produces lymphoma in the offspring: role of the aryl hydrocarbon receptor. 2006

Yu, Z., Loehr, C.V., Fischer, K.A., Louderback, M.A., Krueger, S.K., Dashwood, R.H., Kerkvliet, N.I., Pereira, C.B., Jennings-Gee, J.E., Dance, S.T., Miller, M.S., Bailey, G.S. and Williams, D.E.

Notes: To examine the role of aryl hydrocarbon receptor (AHR) in dibenzo[a,l]pyrene (DBP) tumor development, AHR-responsive and nonresponsive murine fetuses were treated in utero with DBP. Genomic DNA was isolated from lymphomas using the Wizard® Genomic DNA Purification Kit. Two microliters of the purified DNA was PCR-amplified for analysis of the Ki-ras locus, where mutations are associated with tumor susceptibility. (3421)

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Clin. Chem. 52, 2250–2257. Sensitive detection of KIT D816V in patients with mastocytosis. 2006

Tan, A., Westerman, D., McArthur, G.A., Lynch, K., Waring, P. and Dobrovic, A.

Notes: The authors wanted to develop a more sensitive assay to detect codon 816 pathogenic variations in people diagnosed with systemic mastocytosis. The Wizard® Genomic DNA Purification Kit was used to isolate DNA from peripheral blood and bone marrow aspirate samples. To extract DNA from 2–5 micron, paraffin-embedded samples of bone marrow trephine, skin, spleen or liver, the tissues were digested with Proteinase K for four days at 56°C prior to DNA purification using the Magnesil® Genomic Fixed Tissue System. The isolated DNA was subjected to two assays: enriched sequencing of mutant alleles (ESMA) after BsmAI restriction enzyme digestion, and allele-specific competitive blocker PCR (ACB-PCR). (3575)

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Nucl. Acids Res. 34, 2109–2116. The Drosophila termination factor DmTTF regulates in vivo mitochondrial transcription. 2006

Roberti, M., Bruni, F., Polosa, P.L., Gadaleta, M.N. and Cantatore, P.

Notes: To examine if the depletion of Drosophila transcription termination factor (DmTTF) after RNAi treatment could reduce the gene copy number, genomic DNA was isolated from RNAi-treated and untreated Drosophila embryonic D.Mel-2 cells using the Wizard® Genomic DNA Purification Kit. The mitochondrial ND3 gene and the nuclear H2B histone gene were used as probes for the Xho I-digested, Southern-blotted genomic DNA to compare the treatment groups. The Wizard® SV Gel and PCR Clean-Up System was used to clean up the PCR-amplified probes. (3418)

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Eukaryot. Cell 5, 1990–2000. The Tetrahymena thermophila phagosome proteome. 2006

Jacobs, M.E., DeSouza, L.V., Samaranayake, H., Pearlman, R.E., Siu, K.W., and Klobutcher, L.A.

Notes: The authors wanted to learn more about the proteins that comprise the Tetrahymena
phagosome proteome. Proteins were isolated from phagosome preparations, denatured by adding 5mM dithiothreitol and heating to 60°C for 1 hour. The samples were cooled to room temperature and alkylated by incubation with 10mM iodoacetamide for 1 hour protected from light. Sequencing Grade Modified Trypsin, at a 1:20 concentration (wt/wt) with an equal volume of 50mM ammonium bicarbonate, was added to the sample and incubated overnight at 37°C. Each sample was analyzed by two-dimensional liquid chromatography–tandem mass spectrometry (LC-MS/MS). Whole-cell Tetrahymena DNA was isolated using the Wizard® Genomic DNA Purification Kit protocol for isolating genomic DNA from plant tissue omitting the use of liquid nitrogen with mortar and pestle. The isolated DNA was then used for restriction digestion, ligation and sequencing. (3680)

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Poult. Sci. 84, 1022–1030. Effect of Bt corn on broiler growth performance and fate of feed-derived DNA in the digestive tract. 2005

Rossi, F., Morlacchini, M., Fusconi, G., Pietri, A., Mazza, R., and Piva, G.

Notes: These authors studied the effect of transgenic Bacillus thuringiensis (Bt) corn feed containing the Cry1A gene on broiler chicken performance. They also analyzed the degradation of the Cry1A(b) transgene in the digestive tract of the chickens. Blood and samples from cecum, jejunum, gizzard, and crop were collected from ten broilers per treatment (fed Bt corn versus near isogenic corn). Genomic DNA was isolated from blood samples and the intestinal contents of the crop and gizzard using the Wizard® Genomic DNA Purification Kit. Fifty nanograms of purified DNA were then used in PCR analysis. (3678)

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J. Bacteriol. 186, 3214-3223. Salmonella enterica Serovar Typhi strains from which SPI7, a 134-kilobase island with genes for Vi exopolysaccharide and other functions, has been deleted. 2004

Nair, S., Alokam, S., Kothapalli, S., Porwollik, S., Proctor, E., Choy, C., McClelland, M., Liu, S.L. and Sanderson, K.E.

Notes: In this study, the Wizard® Genomic DNA Purification Kit was used to isolate chromosomal DNA from Salmonella enterica serovar Typhi. The isolated DNA was used in multiplex PCR to determine the presence or absence of certain DNA regions in various clinical isolates.  (3127)

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Appl. Environ. Microbiol. 70, 2779–2785. Acquisition of an Agrobacterium Ri plasmid and pathogenicity by other α-Proteobacteria in cucumber and tomato crops affected by root mat. 2004

Weller, S.A., Stead, D.E. and Young, J.P.W.

Notes: Researchers used the Wizard® Genomic DNA Purification Kit to isolate genomic DNA from non-Agrobacterium field bacteria samples. The isolated genomic DNA was used in PCR to amplify regions of the 16S rRNA gene. The PCR products were cleaned up using the Wizard® SV Gel and PCR Clean-Up System and used in sequencing reactions. The paper also mentions the use of the Wizard® Magnetic DNA Purification System for Food to isolate Agrobacterium radiobacter from cucumber root mats grown in the lab. (3190)

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Infect. Immun. 72, 4172–4187. Contribution of gene loss to the pathogenic evolution of Burkholderia pseudomallei and Burkholderia mallei. 2004

Moore, R.A., Reckseidler-Zenteno, S., Kim, H., Nierman, W., Yu, Y., Tuanyok, A., Warawa, J., DeShazer, D., and Woods, D.E.

Notes: The Wizard® Genomic DNA Purification Kit was used to purify genomic DNA from Burkholderia thailandensis and Burkholderia pseudomallei.  The genomic DNA was used in PCR to amplify the arabinose assimilation operon.  (3104)

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Infect. Immun. 72, 908–915. Generation of Yersinia pestis attenuated strains by signature-tagged mutagenesis in search of novel vaccine candidates. 2004

Flashner, Y., Mamroud, E., Tidhar, A., Ber, R., Aftalion, M., Gur, D., Lazar, S., Zvi, A., Bino, T., Ariel, N., Velan, B., Shafferman, A. and Cohen, S.

Notes: The Wizard® Genomic DNA Purification Kit was used to purify genomic DNA from Yersinia pestis Kimberley53 strain.  The isolated genomic DNA was digested with restriction endonucleases and then used in PCR amplifications. The amplified products were sequenced to verify the presence of a transposon insertion site.  (3103)

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Minerva Ginecol. 56(3), 189-96. Intracytoplasmic sperm injection. Accomplishments and qualms. 2004

Neri, Q.V., Tanaka, N., Wang, A., Katagiri, Y., Takeuchi, T., Rosenwaks, Z. and Palermo, G.D.

Notes: These authors assessed the risk of transmitting genetic defects to children after intracytoplasmic sperm injection (ICSI) for treatment of male factor infertility. Genomic DNA was isolated from blood of both parents and children using the Wizard® Genomic DNA Purification Kit. Multiplex amplification of 22 sequence tagged sites on the Y chromosome was then performed on 123 samples using the Y Chromosome Deletion Detection System, Version 1.1 and a prototype Multiplex E from Promega. (3117)

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J. Bacteriol. 186, 316–325. The alternative sigma factor σB of Bacillus cereus: Response to stress and role in heat adaptation. 2004

van Schaik, W., Tempelaars, M.H., Wouters, J.A., de Vos, W.M. and Abee, T.

Notes: The Wizard® Genomic DNA Purification Kit was used to purify genomic DNA from Bacillus cereus.  The isolated DNA was used in PCR to create probes for Northern blotting Bacillus cereus total RNA to detect rsbV and orf4 gene transcripts.  (3100)

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Forensic Sci. Int. 136, 86-88. Allelic frequencies at 12 STR loci in Colombian population. 2003

Benítez-Páez, A. and Reyes, H.O.

Notes: Allele frequencies for a Mestizo population in Columbia were determined with the PowerPlex® 16 System. DNA was purified using the Wizard® Genomic DNA Purification Kit.  (3003)

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Infect. Immun. 71, 3914–3919. Detection of a luxS-signaling molecule in Bacillus anthracis. 2003

Jones M.B. and Blaser, M.J.

Notes: The Wizard® Genomic DNA Purification Kit was used to purify Bacillus anthracis chromosomal DNA, which was then used in PCR to amplify a luxN ortholog (named open reading frame BA5047). Amplified DNA containing the luxN ortholog region was then cloned into the pGEM®-T Easy Vector. This construct, when transformed into Vibrio harveyi (AI-1-, and AI-2+), allowed the detection of an upregulated signaling system by a bioluminescent assay. (3092)

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J. Clin. Microbiol. 41, 3481–3486. Identification of Streptococcus sanguinis with a PCR-generated species-specific DNA probe. 2003

Li, Y., Pan, Y., Qi, F., and Caufield, P.W.

Notes: The Wizard® Genomic DNA Purification Kit was used to purify genomic DNA from various Streptococcal strains (Streptococcus sanguinis, S. oralis, S. gordonii, S. cristatus, S. mitis, S. parasanguinis, S. pneumoniae, S. mutans, S. salivarius, S. sobrinus, S. ratti, and S. vestibularis), Lactobacillus acidophilus, Actinomyces naeslundii, and E. coli JM109. The genomic DNA was diluted to 50μg/ml and used in Arbitrarily Primed PCR (AP-PCR) experiments to identify common amplimers from clinical Streptococcus sanguinis samples. The authors were able to identify a specific probe that may be helpful in identification of  S. sanguinis clinical isolates. (2836)

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J. Clin. Microbiol. 41, 3064–3069. Invasive disease due to nontypeable Haemophilus influenzae among children in Arkansas. 2003

O’Neill, J.M., St. Geme III, J.W., Cutter, D., Adderson, E.E., Anyanwu, J., Jacobs, R.F. and Schutze, G.E.

Notes: The Wizard® Genomic DNA Purification System was used to isolate genomic DNA from clinically isolated Haemophilus influenzae samples.  The genomic DNA was then digested with EcoRI and used in Southern blots to identify the presence of various Haemophilus influenzae adhesin genes. (3102)

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J. Clin. Microbiol. 41, 4537-4541. Madurella mycetomatis Strains from Mycetoma Lesions in Sudanese Patients Are Clonal. 2003

Ahmed, A., van de Sande, W., Verbrugh, H., Fahal, A., and van Belkum, A.

Notes: Genomic DNA was isolated from Madurella mycetomatis samples.  A modified  Wizard® Genomic DNA Purification Kit protocol was used for the isolations.  Mycelia were sonicated and ground in liquid nitrogen before the addition of Nuclei Lysis Solution. The purified DNA was used in PCR.  (3049)

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Anal. Biochem. 316, 259–269. Quantitative intra-short interspersed element PCR for species-specific DNA identification. 2003

Walker, J.A., Hughes, D.A., Anders, B.A., Shewale, J., Sinha, S.K. and Batzer, M.A.

Notes: Cow (Bos taurus), horse (Equus caballus), sheep (Ovis aries), antelope (Antilocapra americana), dog (Canis familiaris), cat (Felis catus), and rabbit (Oryctolagus cuniculus) genomic DNA were obtained by extraction from tissue and blood samples using the Wizard® Genomic DNA Purification kit. SINEs (short interspersed elements) PCR was performed on various combinations of purified DNA from the above species. (3260)

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Infect. Immun. 70, 1984–1990. Helicobacter pylori uses motility for initial colonization and to attain robust infection. 2002

Ottemann K.M. and Lowenthal, A.C.

Notes: The authors of this paper describe using the Wizard® Genomic DNA Purification Kit to isolate genomic DNA from Helicobacter pylori. The isolated genomic DNA was used in PCR to analyze motB gene mutations.  (3101)

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