A universal fixation method based on quaternary ammonium salts (RNAlater) for omics-technologies: Saccharomyces cerevisiae as a case study

Biotechnology Letters

Volumn 35, Issue 6, 2013, Pages 891-900

  van Eijsden, Rudy G E ^a   Stassen, Catherine ^b   Daenen, Luk ^c   Van Mulders, Sebastiaan E ^c   Bapat, Prashant M ^d   Siewers, Verena ^e   Goossens, Katty V Y ^f   Nielsen, Jens ^e   Delvaux, Freddy R ^c   Van Hummelen, Paul ^g   Devreese, Bart ^b   Willaert, Ronnie G ^f  

^a DEPARTMENT OF PLANT SYSTEMS BIOLOGY   (Belgium)

^b GHENT UNIVERSITY   (Belgium)

^c UNIVERSITY OF LEUVEN   (Belgium)

^d TECHNICAL UNIVERSITY OF DENMARK   (Denmark)

^e CHALMERS UNIVERSITY OF TECHNOLOGY   (Sweden)

^f VRIJE UNIVERSITEIT BRUSSEL   (Belgium)

^g DANA FARBER CANCER INSTITUTE   (United States)

Author keywords

Fluxomics; Genomics; Omics; RNAlater; Saccharomyces cerevisiae; Transcriptomics

Indexed keywords

FLUXOMICS; GENOMICS; OMICS; RNALATER; TRANSCRIPTOMICS;

MOLECULAR BIOLOGY; RNA; TISSUE;

YEAST;

QUATERNARY AMMONIUM DERIVATIVE;

ARTICLE; DRUG EFFECT; LABORATORY DIAGNOSIS; METABOLISM; METHODOLOGY; PRESERVATION; SACCHAROMYCES CEREVISIAE;

PRESERVATION, BIOLOGICAL; QUATERNARY AMMONIUM COMPOUNDS; SACCHAROMYCES CEREVISIAE; SPECIMEN HANDLING;

SACCHAROMYCES CEREVISIAE;

EID: 84878395708     PISSN: 01415492     EISSN: 15736776     Source Type: Journal    
DOI: 10.1007/s10529-013-1163-0     Document Type: Article

References (28)

1. Abramoff MD, Magelhaes PJ, Ram SJ (2004) Image processing with Imagej. Biophotonics Int 11: 36-42.
2. Allewell NM, Sama A (1974) The effect of ammonium sulfate on the activity of ribonuclease A. Biochim Biophys Acta 341: 484-488.
3. Bachoon DS, Chen F, Hodson RE (2001) RNA recovery and detection of mRNA by RT-PCR from preserved prokaryotic samples FEMS. Microbiol Lett 201: 127-132.
4. Barrett MT, Glogovac J, Prevo LJ, Reid BJ, Porter P, Rabinovitch PS (2002) High-quality RNA and DNA from flow cytometrically sorted human epithelial cells and tissues. Biotechniques 32: 888-90, 892, 894, 896.
5. Brachmann CB, Davies A, Cost GJ, Caputo E, Li J, Hieter P, Boeke JD (1998) Designer deletion strains derived from Saccharomyces cerevisiae S288C: a useful set of strains and plasmids for PCR-mediated gene disruption and other applications. Yeast 14: 115-132.
6. 13C flux analysis and metabolomics. FEMS Yeast Res 11: 263-272.
7. Dekairelle AF, van der Vorst S, Tombal B, Gala JL (2007) Preservation of RNA for functional analysis of separated alleles in yeast: comparison of snap-frozen and RNALater solid tissue storage methods. Clin Chem Lab Med 45: 1283-1287.
8. Fraenkel-Conrat H, Olcott HS (1948) The reaction of formaldehyde with proteins; cross-linking between amino and primary amide or guanidyl groups. J Am Chem Soc 70: 2673-2684.
9. Gombert AK, Moreira dos Santos M, Christensen B, Nielsen J (2001) Network identification and flux quantification in the central metabolism of Saccharomyces cerevisiae under different conditions of glucose repression. J Bacteriol 183: 1441-1451.
10. Hammond DK, Becker J, Elliott TF, Holubee K, Baker TL, Love JE (2005) Antigenic protein in microgravity-grown human mixed Mullerian ovarian tumor (LN1) cells preserved in RNA stabilizing agent. Gravit Space Biol Bull 18: 99-100.
11. Kittang AI, Kvaloy B, Winge P, Iversen TH (2010) Ground testing of Arabidopsis preservation protocol for the microarray analysis to be used in the ISS EMCS Multigen-2 experiment. Adv Space Res 46: 1249-1256.
12. Lader ES (2001) Methods and reagents for preserving RNA in cell and tissue samples. US Patent 6(204): 375.
13. Laemmli UK (1970) Cleavage of structural proteins during the assembly of the head of bacteriophage. T4. Nature 227: 680-685.
14. Lord M, Inose F, Hiroko T, Hata T, Fujita A, Chant J (2002) Subcellular localization of Axl1, the cell type-specific regulator of polarity. Curr Biol 12: 1347-1352.
15. Medeiros M, Sharma VK, Ding R, Yamaji K, Li B, Muthukumar T, Valderde-Rosas S, Hernandez AM, Muñoz R, Suthanthiran M (2003) Optimization of RNA yield, purity and mRNA copy number by treatment of urine cell pellets with RNAlater. J Immunol Methods 279: 135-142.
16. Michaud CL, Foran DR (2011) Simplified field preservation of tissues for subsequent DNA analyses. J Forensic Sci 56: 846-852.
17. Mutter GL, Zahrieh D, Liu C, Neuberg D, Finkelstein D, Baker HE, Warrington JA (2004) Comparison of frozen and RNAlater solid tissue storage methods for use in RNA expression microarrays. BMC Genomics 5: 88.
18. Ottesen EA, Marin R, Preston CM, Young CR, Ryan JP, Scholin CA, Delong EF (2011) Metatranscriptomic analysis of autonomously collected and preserved marine bacterioplankton. ISME J 5: 1881-1895.
19. Park NJ, Yu T, Nabili V, Brinkman BM, Henry S, Wang J, Wong DT (2006) RNAprotect saliva: an optimal room-temperature stabilization reagent for the salivary transcriptome. Clin Chem 52: 2303-2304.
20. Pringle JR (1991) Staining of bud scars and other cell wall chitin with calcofluor. Methods Enzymol 194: 732-735.
21. Richert L, Boulmedais F, Lavalle P, Mutterer J, Ferreux E, Decher G, Schaaf P, Voegel JC, Picart C (2004) Improvement of stability and cell adhesion properties of polyelectrolyte multilayer films by chemical cross-linking. Biomacromolecules 5: 284-294.
22. Schroeder A, Mueller O, Stocker S, Salowsky R, Leiber M, Gassmann M, Lightfoot S, Menzel W, Granzow M, Ragg T (2006) The RIN: an RNA integrity number for assigning integrity values to RNA measurements. BMC Mol Biol 7: 3.
23. Sikulu M, Dowell KM, Hugo LE, Wirtz RA, Michel K, Peiris KH, Moore S, Killeen GF, Dowell FE (2011) Evaluating RNAlater® as a preservative for using near-infrared spectroscopy to predict Anopheles gambiae age and species. Malar J 10: 186.
24. Sirsat SA, Muthaiyan A, Ricke SC (2011) Optimization of the RNA extraction method for transcriptome studies of Salmonella inoculated on commercial raw chicken breast samples. BMC Res Notes 4: 60.
25. van den Broeck F, Geldof S, Polman K, Volckaert FA, Huyse T (2011) Optimal sample storage and extraction procotols for reliable multilocus genotyping of the human parasite Schistosoma mansoni. Infect Genet Evol 11: 1413-1418.
26. van Mulders SE, Stassen C, Daenen L, Devreese B, Siewers V, van Eijsden RG, Nielsen J, Delvaux FR, Willaert R (2011) The influence of microgravity on invasive growth in Saccharomyces cerevisiae. Astrobiology 11: 45-55.
27. Verduyn C, Postma E, Scheffers WA, van Dijken JP (1992) Effect of benzoic acid on metabolic fluxes in yeasts: a continuous-culture study on the regulation of respiration and alcoholic fermentation. Yeast 8: 501-517.
28. Williams MA (2010) Stabilizing the code-methods to preserve RNA prove their worth. Biomark Insights 5: 139-143.