nd 1000

Journal: BMC Molecular Biology

Article Title: Analysis of current and alternative phenol based RNA extraction methodologies for cyanobacteria

doi: 10.1186/1471-2199-10-79

Figure Lengend Snippet: Extracted RNA yield and purity . Yield and absorption ratios for the different extraction methods were determined. For each method, 6 cyanobacteria aliquots were used for RNA extraction and 1 μl analysed using the NanoDrop ND-1000 UV/Vis spectrophotometer. The resulting bars shown are the average, and the standard deviation, from values obtained for each extraction method.

Article Snippet: The authors would like to thank Elin Övernäs and Marie Englund, from the Department of Evolution, Genomics and Systematics, Uppsala University, for access to, and help with the use of the NanoDrop ND-1000 UV/Vis spectrophotometer.

Techniques: RNA Extraction, Spectrophotometry, Standard Deviation

Journal: BMC Molecular Biology

Article Title: Analysis of current and alternative phenol based RNA extraction methodologies for cyanobacteria

doi: 10.1186/1471-2199-10-79

Figure Lengend Snippet: Extraction contamination analysis . Absorption spectra in the UV-region for purified RNA using 6 different extraction methods. For each method, 6 cyanobacteria aliquots were used for RNA extraction. From all obtained RNA samples, 1 μl was analysed using the NanoDrop ND-1000 UV/Vis spectrophotometer. The resulting lines shown are averaged from values obtained for each extraction method.

Article Snippet: The authors would like to thank Elin Övernäs and Marie Englund, from the Department of Evolution, Genomics and Systematics, Uppsala University, for access to, and help with the use of the NanoDrop ND-1000 UV/Vis spectrophotometer.

Techniques: Purification, RNA Extraction, Spectrophotometry

Journal:

Article Title: Extraction of mRNA from Soil

doi: 10.1128/AEM.03047-09

Figure Lengend Snippet: Correspondence between the efficiency of humic acid removal and the pH of the extraction buffer, as assessed by eye (A) and NanoDrop ND-1000 spectrophotometry at 400 nm (B). Total RNA was extracted under either high-pH or low-pH conditions and was subsequently

Article Snippet: Using NanoDrop ND-1000 spectrophotometry, a linear relationship between absorbance at 400 nm ( A 400 ) and the concentration of humic acids was determined for both commercial and forest soil-derived humic acids (see Fig. S1 in the supplemental material), thus showing that a reliable quantitation of humic acids in RNA extracts is possible.

Techniques: Spectrophotometry

Journal: Virology Journal

Article Title: A novel dengue virus detection method that couples DNAzyme and gold nanoparticle approaches

doi: 10.1186/1743-422X-10-201

Figure Lengend Snippet: Analysis of DDZ-AuNP sensitivity. A) DDZ-M-AuNP colorimetric assays were performed on DENV-2 NGC titers of 1 × 10 1 , 1 × 10 2 , 1 × 10 4 , and 1 × 10 6 to determine the limits of detection. Samples were assembled as described in Methods, incubated at 37°C for 30 minutes and photographed. Results show that the DDZ-M-AuNP colorimetric assay is capable of detecting DENV-2 at a titer as low as 1 × 10 1 . DDZ-M = anti-dengue virus DNAzyme, DDZin-M = inactive anti-dengue virus DNAzyme. B) Analysis of DDZ-AuNP sensitivity by UV/Vis spectrophotometry. Ten microliters (10 uL) of cell culture fluid from Mock, DENV-2 NGC (titers of 1 × 10 1 , 1 × 10 2 1 × 10 6 /mL), or CHIKV vaccine strain 181/25 (1 × 10 6/ mL) infected C6/36 cells, or DENV serially diluted from 1 × 10 1 (Dil1 through Dil5) or were added to separate mixtures as described in A) . UV/Vis spectrophotometric analysis was performed using the ND-1000 spectrophotometer at an absorbance of 520 nm. Absorbance measurements were graphed in log scale to illustrate sensitivity and accuracy of the colorimetric DENV detection method.

Article Snippet: Quantification of these oligonucleotides was performed with the ND-1000 spectrophotometer from NanoDrop (Wilmington, DE).

Techniques: Incubation, Colorimetric Assay, Spectrophotometry, Cell Culture, Infection

Journal: Virology Journal

Article Title: A novel dengue virus detection method that couples DNAzyme and gold nanoparticle approaches

doi: 10.1186/1743-422X-10-201

Figure Lengend Snippet: Assessment of DDZ-AuNP specificity. A) DENV-2 and CHIKV (1 × 106/mL each) were placed in a buffered solution containing 10 mM MgCl2, 1 × 105 DDZ-AuNP particles/mL, 1.5 M NaCl, and 0.5% (w/v) SDS. Eppendorf tubes containing these mixes were incubated at 37°C for 30 minutes and photographed. CHIKV = chikungunya virus. DENV-2 = dengue virus serotype 2, DDZ-M = anti-dengue virus DNAzyme, DDZin-M = inactive anti-dengue virus DNAzyme. B) Analysis of DENV detection by UV/Vis Spectrophotometry. Samples were assembled as was performed for in A, mixed, incubated at 37°C for 5 minutes, and spectrophotometric analysis was performed using the ND-1000 spectrophotometer. C) Detection of DENV by DDZ-M-AuNP in comparison to several other flaviviruses. The specificity of our DDZ-M-AuNP device to detect DENV and not other fellow flavivirus members YFV, JEV or ZV was determined as described earlier (see Figure 4 ). D) An alignment was performed on consensus sequences of each of the four DENV serotypes to determine the most optimal regions for the design of serotype specific DDZ-AuNP devices by determining the region of least conservation one serotype has with the other DENV serotypes. E) Colorimetric serotype-specific detection of DENV. Cell culture supernatants from C6/36 cells mock infected (Mock), or from cells infected with either DENV serotypes 1 through 4 or CHIKV (1 × 106/mL each) were placed in buffered solutions containing the necessary cofactors and AuNPs tethered with our all purpose DENV serotype specific DNAzyme, DDZ-M, or one of the serotype-specific DDZs (designated DDZ-1 through-4) designed to specifically target the corresponding DENV serotype (Table 1 ). Eppendorf tubes containing these mixes were incubated at 37°C for 5 minutes and photographed.

Article Snippet: Quantification of these oligonucleotides was performed with the ND-1000 spectrophotometer from NanoDrop (Wilmington, DE).

Techniques: Incubation, Spectrophotometry, Cell Culture, Infection

Journal: PLoS ONE

Article Title: A Comparison of Collection Techniques for Gene Expression Analysis of Human Oral Taste Tissue

doi: 10.1371/journal.pone.0152157

Figure Lengend Snippet: Flowchart of study design to identify collection techniques that enable quantitative measures of taste gene expression. Samples were collected from 8 volunteers using the six different methods, the RNA was extracted and analysed with the NanoDrop ND-1000 Spectrophotometer (for quantity and purity) and Bio-analyser (analysis of RNA integrity). Real-time quantitative PCR was completed on taste tissue markers and taste genes, allowing for the identification of methods enabling quantitative measures of taste gene expression.

Article Snippet: Samples were assessed for RNA quantity using NanoDrop ND-1000 Spectrophotometer, with the purity determined by absorbance ratio measurement at 260nm/280nm (ideal ratio of 2.0).

Techniques: Expressing, Spectrophotometry, Real-time Polymerase Chain Reaction

Journal: Journal of Insect Science

Article Title: Non-Enzymatic Hydrolysis of RNA in Workers of the Ant Nylanderia pubens

doi: 10.1673/031.012.14601

Figure Lengend Snippet: (A) Microfluidic analyses of total RNA prepared from different life stages of Nylanderia pubens by the Trizol method. RNA standards and their corresponding sizes are provided in the left-most column. (B) PCR of a portion of the N. pubens ubiquin gene. DNase-treated RNA (from panel A) of larvae (lane 1 ) and adults (lane 2) was reverse transcribed and subsequently amplified by PCR. MW = molecular weight markers. Sizes shown on the left. (C) Results of spectrophotometric analysis of the RNA preparations from workers and larvae from the upper panel on an ND-1000 spectrophotometer. Standard deviation values are indicated by error bars. The mean 260:280 nm ratio is provided for each life stage within the bar. High quality figures are available online.

Article Snippet: For comparison, RNA quality and quantity were determined spectrophotometrically on an ND-1000 spectrophotometer (Nanodrop Technologies, Inc., http://www.nanodrop.com/ ).

Techniques: Polymerase Chain Reaction, Amplification, Molecular Weight, Spectrophotometry, Standard Deviation

Journal: Oncotarget

Article Title: miR-758-3p: a blood-based biomarker that’s influence on the expression of CERP/ABCA1 may contribute to the progression of obesity to metabolic syndrome

doi: 10.18632/oncotarget.24314

Figure Lengend Snippet: Plasma-based RNA quantification and characterisation (A) Concentration of RNA isolated from plasma specimens, as assessed by NanoDrop ND-1000 spectrophotometer. (B(i)) Electropherograms show the presence of 5S and 5.8S subunits, tRNAs and small RNA fragments (

Article Snippet: RNA quantity was subsequently assessed using a NanoDrop ND-1000 (Labtech International, Uckfield, England) and Agilent Pico 6000 and Small RNA kits (Agilent Technologies, CA, USA) as per manufacturers’ instructions.

Techniques: Concentration Assay, Isolation, Spectrophotometry

Journal: PLoS ONE

Article Title: Shotgun Pyrosequencing Metagenomic Analyses of Dusts from Swine Confinement and Grain Facilities

doi: 10.1371/journal.pone.0095578

Figure Lengend Snippet: DNA yield of dust isolated from swine confinement facilities, grain elevators and households without pets. Total genomic DNA was isolated by a bead-beating protocol (Mo Bio, Power Clean, Carlsbad, CA) and quantified using a Nanodrop ND-1000 UV spectrophotometer (NanoDrop Technologies, Wilmington, DE). Each bar represents the mean DNA yield (µg/mg dust) ± SEM from two independent dust samples.

Article Snippet: Total genomic DNA was isolated by bead beating following the manufacturer’s instructions (Mo Bio, PowerSoil Kit, Carlsbad, CA), then assayed using a Nanodrop ND-1000 UV spectrophotometer (NanoDrop Technologies, Wilmington, DE).

Techniques: Isolation, Spectrophotometry