product photo of Qubit Fluorometer and assay kit  

Here you can find the most up-to-date technical resources for your Qubit™ 3.0 Fluorometer, including a variety of application and technical notes such as Qubit Quantitation Platform vs. the Nanodrop™ Spectrophotometer and Testing for Bias in the Qubit RNA Assay, and the Qubit Frequently Asked Questions (FAQs).

 

Product literature


Software update

From the Qubit 3.0 Fluorometer Home screen, touch Settings, then touch About instrument to verify the version of software currently on your instrument. If your instrument requires a software upgrade, you can transfer the latest software onto the Qubit 3.0 Fluorometer using a USB drive or USB cable and install it by touching Settings, and then Update software. For more detailed instructions, please consult the Qubit 3.0 product manual.


Connecting the Qubit 3.0 to a computer running Windows® XP operating system

Connecting the Qubit 3.0 Fluorometer to a computer running Windows® XP operating system requires installation of a driver. You can download both the driver and installation instructions below.


FAQs

Below are some frequently asked questions and answers regarding the Qubit Fluorometer and Qubit Fluorometric Quantitation. If you have a question that is not listed below or need additional information, please contact our Technical Support department.

Q. I already have a Nanodrop instrument. Why should I use the Qubit Fluorometer?
A.
The Nanodrop instrument uses UV absorbance, which cannot distinguish between DNA, RNA, free nucleotides, and other contaminants.The Qubit assays are more sensitive than the NanoDrop instrument. NanoDrop Spectrophotometer full-spectrum absorption readings can give peaks revealing the presence of contaminants. This may be useful information for downstream applications in which the contaminants might be detrimental. When used together, the Qubit Fluorometer can accurately measure low concentrations of sample and the Nanodrop spectrophotometer can measure contaminants.

Q. Why are my UV absorbance readings higher than the Qubit Fluorometer readings?
A.
UV absorbance readings measure anything that absorbs at 260 nm, including DNA, RNA, protein, free nucleotides, and excess salt. Qubit Fluorometric Quantitation only measures the molecule you are interested in, so the number is almost always lower than the A260 reading.

Q. Can the Qubit Fluorometer give an indication of sample quality?
A.
Yes. You can use one of the DNA quantitation kits to measure DNA concentration, one of the RNA kits to measure RNA concentration, and the protein kit to measure protein concentration. Use a combination of whichever kits you need for the biomolecule you are interested in and the contaminant of concern. Together, they give you accurate information about how much DNA, RNA, and protein you have in your sample.

Q. I already have a Qubit Fluorometer, is Qubit 3.0 Fluorometer any different?
A.
 The Qubit 3.0 Fluorometer employs a large, robust color touch screen for seamless workflow navigation and exports data to a USB drive or directly to your computer via a USB cable for efficient data management. Also, the instrument can be personalized to show only the frequently used assays, to add new assays, including user-defined assays created with the MyQubit assay design tool, and to display in the language of your choice including English, French, Spanish, Italian, German, simplified Chinese, and Japanese.

Q. Can I use my old Quant-iT Kits labeled “for use with Qubit Fluorometer” with the Qubit 3.0 Fluorometer?
A.
 Yes, these kits will work with all Qubit Fluorometers.

Q. How many lines of data can the Qubit Fluorometers store?
A.
 The Qubit 3.0 Fluorometer can store up to 1,000 samples’ worth of data in a .csv file.
The Qubit 2.0 Fluorometer can store up to 200 lines of data in a .csv file.
The original Qubit Fluorometer can store up to 20 lines of data in a .csv file.

Q. Do I have to use new standards every time?
A.
 No. But we do recommend using new standards every time you make a new working solution, so that the working solution used in your standards is the same as that used in your samples.

Q. How long can the diluted standards be saved and reused? What if there is evaporation over time (obvious or not obvious)?
A.
 The diluted standards can be used for up to three hours if using the same working solution for the samples.

Q. Can Qubit Fluorometric Quantitation quantify plasmids?
A.
 Yes. Use the Qubit DNA BR assay for a typical plasmid miniprep with lots of DNA (over 50 ng/μL). Use the Qubit DNA HS assay for “plasmid rescue” or methods that yield only small amounts of DNA.

Q. Is there a difference in signal between supercoiled and relaxed DNA?
A.
 Yes. For supercoiled DNA, we recommend nicking the DNA so it is not supercoiled, or using supercoiled DNA as Standard 2.

Q. Does the Qubit Protein Assay work well in the presence of detergents?
A.
 It is compatible with very small amounts of detergent. See “Contaminants Tolerated by the Qubit Protein Assay,” Table 2 on page 6 of the Qubit Protein Assay Kit product manual for specific amounts.

Q. How long does the lamp last? How do I change the lamp?
A.
 There are two light sources in the Qubit® 2.0 and 3.0 Fluorometers—both are LEDs. They are expected to last at least 5 years.

Q. Can I repair my Qubit® Fluorometer?
A.
 No. The warranty will be voided if the instrument is disassembled or a customer has attempted to repair the instrument.

Q. What if my Qubit® Fluorometer fails under warranty?
A.
 We will replace your Qubit® Fluorometer. Please contact Technical Support for details.

Q. What kind of tubes do I need to buy?
A.
 Use thin-wall, clear 0.5 mL PCR tubes such as Qubit® assay tubes or Axygen PCR-05-C tubes.

Citations

  • Spencer A, Mithraprabhu S, et al. (2015) Evaluation of circulating tumour DNA for the mutational characterisation of multiple myeloma. Blood, 126: 368.
  • Kapp JR, Diss T, et al. (2015) Variation in pre-PCR processing of FFPE samples leads to discrepancies in BRAF and EGFR mutation detection: a diagnostic RING trial. J. Clin. Pathol 68:111-118.
  • Oh JE, Ohta T, et al. (2015) Alterations in the NF2/LATS1/LATS2/YAP Pathway in Schwannomas. J Neuropathol Exp Neurol 74: 952-959. 
  • Bjorn-Mortensen K, Zallet J, et al. (2015) Direct DNA Extraction from Mycobacterium tuberculosis Frozen Stocks as a Reculture-Independent Approach to Whole-Genome Sequencing. J. Clin. Microbiol. 53: 2716-2719.
  • Camp JG, Badsha F, Florio M, et al. (2015) Human cerebral organoids recapitulate gene expression programs of fetal neocortex development. PNAS 112:15672-15677.
  • Forero-Torres A, Varley KE, Abramson G, et al. (2015) TBCRC 019: A Phase II Trial of Nanoparticle Albumin-Bound Paclitaxel with or without the Anti-Death Receptor 5 Monoclonal Antibody Tigatuzumab in Patients with Triple-Negative Breast Cancer Clin Cancer Res 21:2722-2729.
  • Rowan BA, Patel V, Weigel D, et al. (2015) Rapid and Inexpensive Whole-Genome Genotyping-by-Sequencing for Crossover Localization and Fine-Scale Genetic Mapping. g3 5:385-398.
  • Romero-Maraccini OC, Shisler JL, Nguyen TH, et al. (2015) Solar and Temperature Treatments Affect the Ability of Human Rotavirus Wa To Bind to Host Cells and Synthesize Viral RNA. Appl Envir Microbiol 81:4090-4097.
  • Simon A, Bindschedler S, Job D, et al. (2015) Exploiting the fungal highway: development of a novel tool for the in situ isolation of bacteria migrating along fungal mycelium.  FEMS Microbiol Ecol 91:fiv116.
  • Goodwin S, Gurtowski J, Ethe-Sayers S, et al. (2015) Oxford Nanopore sequencing, hybrid error correction, and de novo assembly of a eukaryotic genome.  Genome Res 25:1750-1756.
  • Peng X, Wu J, Brunmeir R, et al. (2015) TELP, a sensitive and versatile library construction method for next-generation sequencing.  Nucleic Acids Res 43:e35.
  • Legendre M, Lartigue A, Bertaux L, et al. (2015) In-depth study of Mollivirus sibericum, a new 30,000-y-old giant virus infecting Acanthamoeba. PNAS   112:E5327-E5335.
  • Lam V, Gomez MS, Graham SW, et al. (2015) The Highly Reduced Plastome of Mycoheterotrophic Sciaphila (Triuridaceae) Is Colinear with Its Green Relatives and Is under Strong Purifying Selection. Genome Biol Evol 7:2220-2236.
  • Andrade S, Novo M, Kawauchi GY, et al. (2015) Articulating "Archiannelids": Phylogenomics and Annelid Relationships, with Emphasis on Meiofaunal Taxa. Mol Biol Evol 32:2860-2875.
  • Putnam H and Gates RD (2015) Preconditioning in the reef-building coral Pocillopora damicornis and the potential for trans-generational acclimatization in coral larvae under future climate change conditions. J Exp Biol 218:2365-2372.
  • Sillence KA, Roberts LA, Hollands HJ, et al. (2015) Fetal Sex and RHD Genotyping with Digital PCR Demonstrates Greater Sensitivity than Real-time PCR. Clin Chem 61:1399-1407.
  • Tosar J, Gámbaro F, Sanguinetti J, et al. (2015) Assessment of small RNA sorting into different extracellular fractions revealed by high-throughput sequencing of breast cell lines. Nucleic Acids Res 43:5601-5616.
  • Bhusari S, P Andiri AR, Nagai H, et al. (2015) Genomic Profiling Reveals Unique Molecular Alterations in Hepatoblastomas and Adjacent Hepatocellular Carcinomas in B6C3F1 Mice. Toxicol Pathol 43:1114-1126.
  • Li C, Corrigan S, Yang L, et al. (2015) DNA capture reveals transoceanic gene flow in endangered river sharks. PNAS  112:13302-13307.
  • Rivière A, Gagnon M, Weckx S, et al. (2015) Mutual Cross-Feeding Interactions between Bifidobacterium longum subsp.  longum NCC2705 and Eubacterium rectale ATCC 33656 Explain the Bifidogenic and Butyrogenic Effects of Arabinoxylan Oligosaccharides. Appl Envir Microbiol 81:7767-7781.
  • Dai K, He LA, Khan SN, et al. (2015) Rhesus Macaque B-Cell Responses to an HIV-1 Trimer Vaccine Revealed by Unbiased Longitudinal Repertoire Analysis. mBio 6:e01375-15.
  • Leray M and Knowlton N. (2015) DNA barcoding and metabarcoding of standardized samples reveal patterns of marine benthic diversity. PNAS 112:2076-2081.
  • González V, Andrade SCS, Bieler R, et al. (2015) A phylogenetic backbone for Bivalvia: an RNA-seq approach. Proc R Soc B 282:20142332.
  • Sant DW, Margraf Rl, Stevenson DA, et al. (2015) Evaluation of somatic mutations in tibial pseudarthrosis samples in neurofibromatosis type 1. J Med Genet 52:256-261.
  • Nys J, Smolders K, Laramée M, et al. (2015) Regional Specificity of GABAergic Regulation of Cross-Modal Plasticity in Mouse Visual Cortex after Unilateral Enucleation. J Neurosci 35:11174-11189.
  • Stoy C, Sundaram A, Garcia MR, et al. (2015) Transcriptional co-factor Transducin beta-like (TBL) 1 acts as a checkpoint in pancreatic cancer malignancy. EMBO Mol Med 7:1048-1062.
  • Shi X, Hanson MR, Bentolila S, et al. (2015) Two RNA recognition motif-containing proteins are plant mitochondrial editing factors. Nucleic Acids Res 43:3814-3825.
  • Higa-Nakamine S, Maeda N, Toku S, et al. (2015) Involvement of Protein Kinase D1 in Signal Transduction from the Protein Kinase C Pathway to the Tyrosine Kinase Pathway in Response to Gonadotropin-releasing Hormone. J Biol Chem 290:25974-25985.
  • Trost B, Moir CA, Gillespie ZE, et al. (2015) Concordance between RNA-sequencing data and DNA microarray data in transcriptome analysis of proliferative and quiescent fibroblasts. R Soc open sci 2:150402.
  • Ferrando L and Scavino AF (2015) Strong shift in the diazotrophic endophytic bacterial community inhabiting rice (Oryza sativa) plants after flooding. FEMS Microbiol Ecol 91:fiv104.
  • Miya M, Sato Y, Fukunaga T, et al. (2015) MiFish, a set of universal PCR primers for metabarcoding environmental DNA from fishes: detection of more than 230 subtropical marine species. R Soc open sci 2:150088.
  • Zhao C, Jurat-Fuentes JL, Abdelgaffar HM, et al. (2015) Identification of a New cry1I-Type Gene as a Candidate for Gene Pyramiding in Corn To Control Ostrinia Species Larvae. Appl Envir Microbiol 81:3699-3705.
  • Martyushev AP, Petravic J, Grimm AJ, et al. (2015) Epitope-Specific CD8+ T Cell Kinetics Rather than Viral Variability Determine the Timing of Immune Escape in Simian Immunodeficiency Virus Infection. J Immunol 194:4112-4121.
  • Zhao W, Yang X, Yu H, et al. (2015) RNA-Seq-Based Transcriptome Profiling of Early Nitrogen Deficiency Response in Cucumber Seedlings Provides New Insight into the Putative Nitrogen Regulatory Network. Plant Cell Physiol 56:455-467.
  • Stevens S, Cornmell R, Taylor D, et al. (2015) Spatial variations in the microbial community structure and diversity of the human foot is associated with the production of odorous volatiles. FEMS Microbiol Ecol 91:1-11.
  • Ericsson AC, Davis DJ, Franklin CL, et al. (2015) Exoelectrogenic capacity of host microbiota predicts lymphocyte recruitment to the gut. Physiol Genomics 47:243-252.
  • Urschel MR, Kubo MD, Hoehler TM, et al. (2015) Carbon Source Preference in Chemosynthetic Hot Spring Communities. Appl Envir Microbiol 81:3834-3847.
  • Azad AA, Volik SV, Wyatt AW, et al. (2015) Androgen Receptor Gene Aberrations in Circulating Cell-Free DNA: Biomarkers of Therapeutic Resistance in Castration-Resistant Prostate Cancer. Clin Cancer Res 21:2315-2324.
  • Krug PW, Holinka LG, O'Donnell V, et al. (2015) The Progressive Adaptation of a Georgian Isolate of African Swine Fever Virus to Vero Cells Leads to a Gradual Attenuation of Virulence in Swine Corresponding to Major Modifications of the Viral Genome. J Virol 89:2324-2332.
  • Stasulli NM, Eichelberger KR, Price PA, et al. (2015) Spatially Distinct Neutrophil Responses within the Inflammatory Lesions of Pneumonic Plague. mBio 6:e01530-15.
  • Chiarello M, Villéger S, Bouvier C, et al. (2015) High diversity of skin-associated bacterial communities of marine fishes is promoted by their high variability among body parts, individuals and species. FEMS Microbiol Ecol 91:fiv061.
  • Metzler-Zebeli BU, Schmitz-Esser S, Mann E, et al. (2015) Adaptation of the Cecal Bacterial Microbiome of Growing Pigs in Response to Resistant Starch Type 4. Appl Envir Microbiol 81:8489-8499.
  • Leenen FAD, Vernocchi S, Hunewald OE, et al. (2015) Where does transcription start? 5'-RACE adapted to next-generation sequencing. Nucleic Acids Res 10. 1093/nar/gkv1328.
  • Wang Q, Holmes N, Martinez E, et al. (2015) It Is Not All about Single Nucleotide Polymorphisms: Comparison of Mobile Genetic Elements and Deletions in Listeria monocytogenes Genomes Links Cases of Hospital-Acquired Listeriosis to the Environmental Source. J Clin Microbiol 53:3492-3500.
  • Kapoor V, Pitkänen T, Ryu H, et al. (2015) Distribution of Human-Specific Bacteroidales and Fecal Indicator Bacteria in an Urban Watershed Impacted by Sewage Pollution, Determined Using RNA- and DNA-Based Quantitative PCR Assays. Appl Envir Microbiol 81:91-99.
  • Ziels R, Beck DAC, Martí M, et al. (2015) Monitoring the dynamics of syntrophic β-oxidizing bacteria during anaerobic degradation of oleic acid by quantitative PCR. FEMS Microbiol Ecol 91:fiv028.
  • Votintseva AA, Pankhurst LJ, Anson LW, et al. (2015) Mycobacterial DNA Extraction for Whole-Genome Sequencing from Early Positive Liquid (MGIT) Cultures. J Clin Microbiol 53:1137-1143.
  • Jaing CJ, Thissen JB, Gardner SN, et al. (2015) Application of a pathogen microarray for the analysis of viruses and bacteria in clinical diagnostic samples from pigs. J Veterinary Diagnostic Investigation 27:313-325.
  • Bushell KR, Kim Y, Chan FC, et al. (2015) Genetic inactivation of TRAF3 in canine and human B-cell lymphoma. Blood 125:999-1005.
  • Nadimi M, Stefani FOP, Hijri M (2015) The Mitochondrial Genome of the Glomeromycete Rhizophagus sp.  DAOM 213198 Reveals an Unusual Organization Consisting of Two Circular Chromosomes. Genome Biol Evol 7:96-105.
  • Plaza DF, Schmieder SS, Lipzen A, et al. (2015) Identification of a Novel Nematotoxic Protein by Challenging the Model Mushroom Coprinopsis cinerea with a Fungivorous Nematode. g3 6:87-98.
  • Boothby TC, Tenlen JR, Smith FW, et al. (2015) Evidence for extensive horizontal gene transfer from the draft genome of a tardigrade. PNAS 112:15976-15981.
  • Shakya A, Goren A, Shalek A, et al. (2015) Oct1 and OCA-B are selectively required for CD4 memory T cell function. J Exp Med 212:2115-2131.
  • Simon JM, Parker JS, Liu F, et al. (2015) A Role for Widely Interspaced Zinc Finger (WIZ) in Retention of the G9a Methyltransferase on Chromatin. J Biol Chem 290:26088-26102.
  • Frenel JS, Carreira S, Goodall J, et al. (2015) Serial Next-Generation Sequencing of Circulating Cell-Free DNA Evaluating Tumor Clone Response To Molecularly Targeted Drug Administration. Clin Cancer Res 21:4586-4596.
  • Vuong LM, Chellappa K, Dhahbi JM, et al. (2015) Differential Effects of Hepatocyte Nuclear Factor 4α Isoforms on Tumor Growth and T-Cell Factor 4/AP-1 Interactions in Human Colorectal Cancer Cells. Mol Cell Biol 35:3471-3490.
  • Sharma R, Xia X, Riess K, et al. (2015) Comparative Genomics Including the Early-Diverging Smut Fungus Ceraceosorus bombacis Reveals Signatures of Parallel Evolution within Plant and Animal Pathogens of Fungi and Oomycetes. Genome Biol Evol 7:2781-2798.
  • Wong W, An D, Caffrey SM, et al. (2015) Roles of Thermophiles and Fungi in Bitumen Degradation in Mostly Cold Oil Sands Outcrops. Appl Envir Microbiol 81:6825-6838.
  • Sawin EA, De Wolfw TJ, Aktas B, et al. (2015) Glycomacropeptide is a prebiotic that reduces Desulfovibrio bacteria, increases cecal short-chain fatty acids, and is anti-inflammatory in mice. Am J Physiol Gastrointest Liver Physiol 309:G590-G601.
  • Chaput DL, Hansel CM, Burgos WD, et al. (2015) Profiling Microbial Communities in Manganese Remediation Systems Treating Coal Mine Drainage. Appl Envir Microbiol 81:2189-2198.
  • Clemente P, Pajak A, Laine I, et al. (2015) SUV3 helicase is required for correct processing of mitochondrial transcripts. Nucleic Acids Res 43:7398-7413.
  • Nagel DH, Doherty CJ, Pruneda-Paz JL, et al. (2015) Genome-wide identification of CCA1 targets uncovers an expanded clock network in Arabidopsis. PNAS 112:E4802-E4810.
  • Schneider S, Hendriksen NB, Melin PA, et al. (2015) Chromosome-Directed PCR-Based Detection and Quantification of Bacillus cereus Group Members with Focus on B.  thuringiensis Serovar israelensis Active against Nematoceran Larvae. Appl Envir Microbiol 81:4894-4903.
  • Sabat AJ, Pournaras S, Akkerboom V, et al. (2015) Whole-genome analysis of an oxacillin-susceptible CC80 mecA-positive Staphylococcus aureus clinical isolate: insights into the mechanisms of cryptic methicillin resistance. J Antimicrob Chemother 70:2956-2964.
  • Wang X, Sharp CE, Jones GM, et al. (2015) Stable-Isotope Probing Identifies Uncultured Planctomycetes as Primary Degraders of a Complex Heteropolysaccharide in Soil. Appl Envir Microbiol 81:4607-4615.
  • Eddens T, Elsegeiny W, Nelson MP, et al. (2015) Eosinophils Contribute to Early Clearance of Pneumocystis murina Infection. J Immunol 195:185-193.
  • Fernández R and Giribet G. (2015) Unnoticed in the tropics: phylogenomic resolution of the poorly known arachnid order Ricinulei (Arachnida). R Soc open sci 2:150065.
  • Prasse CE, Baldwin AH, Yarwood SA, et al. (2015) Site History and Edaphic Features Override the Influence of Plant Species on Microbial Communities in Restored Tidal Freshwater Wetlands. Appl Envir Microbiol 81:3482-3491.
  • Bliem R, Schauer S, Plicka H, et al. (2015) A Novel Triplex Quantitative PCR Strategy for Quantification of Toxigenic and Nontoxigenic Vibrio cholerae in Aquatic Environments. Appl Envir Microbiol 81:3077-3085.

Featured Application

Qualifying DNA preparations for next-generation sequencing (NGS)
Prior to committing the effort and resources required for next-generation sequencing (NGS), it’s important for researchers to be able to quantify and assess the quality of the DNA starting material. In a 2013 publication, Simbolo et al. reported a reliable and cost-effective method to qualify various DNA preparations for NGS, including those derived from frozen tissue and FFPE samples. Of the instruments they tested, their data showed that DNA quantification results obtained using the Qubit® Fluorometer were highly reproducible and were consistent with qPCR data for DNA quantity—even for partially degraded DNA from FFPE samples.