Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Experiment Videos

Universal external RNA controls for microbial gene expression analysis using microarray and qRT-PCR.

Z Lewis Liu1, Patricia J Slininger

  • 1National Center for Agricultural Utilization Research USDA-ARS, 1815 North University Street, Peoria, IL 61604, USA. liuzl@ncaur.usda.gov

Journal of Microbiological Methods
|December 19, 2006
PubMed
Summary
This summary is machine-generated.

Related Concept Videos

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Protoplast fusion as a strategy to increase ploidy in Rhodotorula toruloides for strain development.

Journal of industrial microbiology & biotechnology·2025
Same author

Expanded genome and proteome reallocation in a novel, robust <i>Bacillus coagulans</i> strain capable of utilizing pentose and hexose sugars.

mSystems·2024
Same author

Determining mating type and ploidy in Rhodotorula toruloides and its effect on growth on sugars from lignocellulosic biomass.

Journal of industrial microbiology & biotechnology·2023
Same author

Draft genome sequence of <i>Yarrowia lipolytica</i> NRRL Y-64008, an oleaginous yeast capable of growing on lignocellulosic hydrolysates.

Microbiology resource announcements·2023
Same author

Near-complete genome sequence of <i>Lipomyces tetrasporous</i> NRRL Y-64009, an oleaginous yeast capable of growing on lignocellulosic hydrolysates.

Microbiology resource announcements·2023
Same author

Discovery of new strains for furfural degradation using adaptive laboratory evolution in Saccharomyces cerevisiae.

Journal of hazardous materials·2023
Same journal

Kombucha tea as a natural coagulant in legume-based milk systems: Optimization and characterization of fermented curds.

Journal of microbiological methods·2026
Same journal

A single-cell isolation strategy for screening diverse functional Haloarchaea strains.

Journal of microbiological methods·2026
Same journal

Body site-dependent variation in the human forensic microbiome: A comparative analysis of publicly available 16S rRNA gene amplicon data.

Journal of microbiological methods·2026
Same journal

Crude sap based colorimetric duplex RT-RPA assay for rapid detection of citrus yellow vein clearing virus and citrus yellow mottle-associated virus in citrus.

Journal of microbiological methods·2026
Same journal

Real-time quantitative PCR combined with propidium Monoazide for simultaneous detection and quantification of Escherichia coli, Staphylococcus aureus and Salmonella spp. during processing of animal-based food products.

Journal of microbiological methods·2026
Same journal

A low-cost microbial bioassay for comparative assessment of nitrogen fixation in pesticide-exposed cyanobacteria.

Journal of microbiological methods·2026
See all related articles

New universal external RNA quality controls enable reliable microbial gene expression analysis across DNA microarray and real-time qRT-PCR platforms, ensuring data reproducibility.

Area of Science:

  • Microbiology
  • Molecular Biology
  • Genomics

Background:

  • Gene expression analysis is crucial for understanding biological regulation.
  • Challenges exist in acquiring, reproducing, and verifying quality data due to a lack of universal quality controls across assay platforms.

Purpose of the Study:

  • To develop and validate universal external RNA quality controls for microbial mRNA expression analysis.
  • To ensure reliability and reproducibility of gene expression data across different platforms.

Main Methods:

  • Developed six universal external RNA quality controls.
  • Applied controls to DNA oligo microarray and real-time qRT-PCR (SYBR Green and TaqMan) assays.
  • Tested on Saccharomyces cerevisiae and Pseudomonas fluorescens Pf-5.

Related Experiment Videos

Main Results:

  • Established linear relationships between signal intensity and mRNA input.
  • Defined valid mRNA detection ranges for microarray (10-7000 pg) and qRT-PCR (100 fg-1000 pg).
  • Demonstrated high correlation between microarray and qRT-PCR estimates in the overlapping range (10-1000 pg).

Conclusions:

  • Universal external RNA controls facilitate comparison and verification of microbial gene expression data across experiments and platforms.
  • These controls enhance data reliability, reproducibility, and provide unbiased normalization.
  • Application improves efficiency and throughput for gene expression analysis, particularly with qRT-PCR.