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Title: 18S rRNA is a reliable normalisation gene for real time PCR based on influenza virus infected cells
Authors: Kuchipudi, Suresh V.
Tellabati, Meenu
Nelli, Rahul K.
White, Gavin A.
Perez, Belinda Baquero
Sebastian, Sujith
Slomka, Marek J.
Brookes, Sharon M.
Brown, Ian H.
Dunham, Stephen P.
Chang, Kin-Chow
Keywords: Reference gene
Housekeeping gene
qRT-PCR
Data normalisation
Influenza A viruses
H5N1
H1N1
H2N3
Issue Date: 2012
Publisher: © the Authors. Published by BioMed Central
Citation: KUCHIPUDI, S.V. ...et al., 2012. 18S rRNA is a reliable normalisation gene for real time PCR based on influenza virus infected cells. Virology Journal, 9(1):230.
Abstract: Background: One requisite of quantitative reverse transcription PCR (qRT-PCR) is to normalise the data with an internal reference gene that is invariant regardless of treatment, such as virus infection. Several studies have found variability in the expression of commonly used housekeeping genes, such as beta-actin (ACTB) and glyceraldehyde-3-phosphate dehydrogenase (GAPDH), under different experimental settings. However, ACTB and GAPDH remain widely used in the studies of host gene response to virus infections, including influenza viruses. To date no detailed study has been described that compares the suitability of commonly used housekeeping genes in influenza virus infections. The present study evaluated several commonly used housekeeping genes [ACTB, GAPDH, 18S ribosomal RNA (18S rRNA), ATP synthase, H+ transporting, mitochondrial F1 complex, beta polypeptide (ATP5B) and ATP synthase, H+ transporting, mitochondrial Fo complex, subunit C1 (subunit 9) (ATP5G1)] to identify the most stably expressed gene in human, pig, chicken and duck cells infected with a range of influenza A virus subtypes. Results: The relative expression stability of commonly used housekeeping genes were determined in primary human bronchial epithelial cells (HBECs), pig tracheal epithelial cells (PTECs), and chicken and duck primary lung-derived cells infected with five influenza A virus subtypes. Analysis of qRT-PCR data from virus and mock infected cells using NormFinder and BestKeeper software programmes found that 18S rRNA was the most stable gene in HBECs, PTECs and avian lung cells. Conclusions: Based on the presented data from cell culture models (HBECs, PTECs, chicken and duck lung cells) infected with a range of influenza viruses, we found that 18S rRNA is the most stable reference gene for normalising qRT-PCR data. Expression levels of the other housekeeping genes evaluated in this study (including ACTB and GPADH) were highly affected by influenza virus infection and hence are not reliable as reference genes for RNA normalisation.
Description: This is an Open Access Article. It is published by BioMed Central under the Creative Commons Attribution 2.0 Unported Licence (CC BY). Full details of this licence are available at: http://creativecommons.org/licenses/by/2.0/
Sponsor: This work was part funded by the BBSRC , the University of Nottingham and DEFRA (MJS, SMB and IHB).
Version: Published
DOI: 10.1186/1743-422X-9-230
URI: https://dspace.lboro.ac.uk/2134/26719
Publisher Link: http://dx.doi.org/10.1186/1743-422X-9-230
ISSN: 1743-422X
Appears in Collections:Published Articles (Mechanical, Electrical and Manufacturing Engineering)

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