Tissue fractionation by hydrostatic pressure cycling technology:The unified sample preparation technique for systems biology studies

Journal of Biomolecular Techniques

Volumn 19, Issue 3, 2008, Pages 189-199

  Gross, Vera ^a   Carlson, Greta ^a   Kwan, Ada T ^a   Smejkal, Gary ^a   Freeman, Emily ^b   Ivanov, Alexander R ^b   Lazarev, Alexander ^a  

^a Pressure BioSciences Inc   (United States)

^b HARVARD SCHOOL OF PUBLIC HEALTH   (United States)

Author keywords

DNA; Genomics; Lipidomics; Lipids; Metabolomics; Pressure cycling technology (PCT); Proteins; Proteomics; Proteosolve LRS; RNA; Sample preparation

Indexed keywords

LIPID; NUCLEIC ACID; PROTEIN;

ANIMAL; ARTICLE; BIOTECHNOLOGY; CELL FRACTIONATION; EVALUATION; GENOMICS; HISTOLOGY; HYDROSTATIC PRESSURE; ISOLATION AND PURIFICATION; METABOLOMICS; METHODOLOGY; POLYACRYLAMIDE GEL ELECTROPHORESIS; PROTEOMICS; RAT; SYSTEMS BIOLOGY;

ANIMALS; BIOTECHNOLOGY; CELL FRACTIONATION; ELECTROPHORESIS, POLYACRYLAMIDE GEL; GENOMICS; HISTOLOGICAL TECHNIQUES; HYDROSTATIC PRESSURE; LIPIDS; METABOLOMICS; NUCLEIC ACIDS; PROTEINS; PROTEOMICS; RATS; SYSTEMS BIOLOGY;

EID: 63449106609     PISSN: 15240215     EISSN: 19434731     Source Type: Journal    
DOI: None     Document Type: Article

References (27)

1. Chomczynski P, Sacchi N. The single-step method of RNA isolation by acid guanidinium thiocyanate-phenol-chloro-form extraction: Twenty-something years on. Nat Protoc 2006;1(2):581-585.
2. Chomczynski P, Sacchi N. Single-step method of RNA isolation by acid guanidinium thiocyanate-phenol-chloroform extraction. Anal Biochem 1987;162(1):156-159.
3. Gauthier ER, Madison SD, Michel RN. Rapid RNA isolation without the use of commercial kits: Application to small tissue samples. Pflugers Arch 1997;433(5):664-668.
4. Gilchrist M, MacDonald AJ, Neverova I, Ritchie B, Befus AD. Optimization of the isolation and effective use of mRNA from rat mast cells. J Immunol Methods 1997;201(2):207-214.
5. Gill SS, Aubin R A, Bura CA, Curran IH, Matula TI. Ensuring recovery of intact RNA from rat pancreas. Mol Biotechnol 1996;6(3):359-362.
6. Verhofstede C, Fransen K, Marissens D, et al. Isolation of HIV-1 RNA from plasma: Evaluation of eight different extraction methods. J Virol Methods 1996;60(2):155-159.
7. Monstein HJ, Nylander AG, Chen D. RNA extraction from gastrointestinal tract and pancreas by a modified Chomczynski and Sacchi method. Biotechniques 1995;19(3):340-344.
8. Louveau I, Chaudhuri S, Etherton TD. An improved method for isolating RNA from porcine adipose tissue. Anal Biochem 1991;196(2):308-310.
9. Riol H, Jeune B, Moskovic A, Bathum L, Wang E. Optimized lymphocyte protein extraction performed simultaneously with DNA and RNA isolation: Application to the study of factors affecting DNA, RNA, and protein recovery from lymphocytes of the oldest individuals. Anal Biochem 1999;275(2):192-201.
10. Yang K, Zhao Z, Gross RW, Han X. Shotgun lipidomics identifies a paired rule for the presence of isomeric ether phospholipid molecular species. PLoS ONE 2007;2(12):e1368.
11. Byrdwell WC. Dual parallel liquid chromatography with dual mass spectrometry (LC2/MS2) for a total lipid analysis. Front Biosci 2008;13:100-120.
12. Han X. Neurolipidomics: Challenges and developments. Front Biosci 2007;12:2601-2615.
13. Adibhatla RM, Hatcher JF, Dempsey RJ. Lipids and lipidomics in brain injury and diseases. Aaps J 2006;8(2):E314-321.
14. Zhang G, Terry AV Jr, Bartlett MG. Sensitive liquid chromatography/tandem mass spectrometry method for the simultaneous determination of olanzapine, risperidone, 9-hydroxyrisperidone, clozapine, haloperidol and ziprasidone in rat brain tissue. J Chromatogr B Analyt Technol Biomed Life Sci 2007;858(1-2):276-281.
15. Zhang G, Terry AV Jr, Bartlett MG. Sensitive liquid chromatography/tandem mass spectrometry method for the determination of the lipophilic antipsychotic drug chlorpromazine in rat plasma and brain tissue. J Chromatogr B Analyt Technol Biomed Life Sci 2007;854(1-2):68-76.
16. Tao F, Li C, Smejkal G, Lazarev A, Lawrence N, Schumacher RT. Pressure cycling technology (PCT) applications in extraction of biomolecules from challenging biological samples. The 4th International Conference on High Pressure Bioscience and Biotechnology; 2007. Kyoto, Japan: Wiley International; 2007:166-173.
17. Tao F, Behnke J, Li C, Saravis C, Schumacher RT, Lawrence NP. Applications of pressure cycling technology (PCT) in proteomics. In Smejkal G, Lazarev A (eds): Separation Methods in Proteomics. Boca Raton, FL: Taylor and Francis, 2006:3-18.
18. Lazarev AV, Smejkal G, Romanovsky I, Cao H, Hotamisligil GS, Ivanov AR. Proteomic analysis of adipose tissue using detergent-free protein extraction by pressure cycling and high resolution tandem mass spectrometry. J Am Soc Mass Spectrom, 2007 (May):93S.
19. Romanovsky I, Smejkal G, Lazarev A, Lawrence N, Schumacher RT. Pressure cycling technology (PCT): A novel sample preparation approach to biomarker discovery and drug development in lipid-rich samples. Next Generation Pharmaceutical 2007;270872.
20. Redeby T, Emmer A. Membrane protein and peptide sample handling for MS analysis using a structured MALDI target. Anal Bioanal Chem 2005;381(1):225-232.
21. Redeby T, Roeraade J, Emmer A. Simple fabrication of a structured matrix-assisted laser desorption/ionization target coating for increased sensitivity in mass spectrometric analysis of membrane proteins. Rapid Commun Mass Spectrom 2004;18(10):1161-1166.
22. Smejkal GB, Witzmann FA, Ringham H, et al. Sample preparation for two-dimensional gel electrophoresis using pressure cycling technology. Anal Biochem 2007;363(2):309-311.
23. Smejkal GB, Li C, Robinson MH, Lazarev AV, Lawrence NP, Chernokalskaya E. Simultaneous reduction and alkylation of protein disulfides in a centrifugal ultrafiltration device prior to two-dimensional gel electrophoresis. J Proteome Res 2006;5(4):983-7.
24. Smejkal GB, Robinson MH, Lazarev A. Comparison of fluorescent stains: relative photostability and differential staining of proteins in two-dimensional gels. Electrophoresis 2004;25(15):2511-2519.
25. Shevchenko A, Tomas H, Havlis J, Olsen JV, Mann M. In-gel digestion for mass spectrometric characterization of proteins and proteomes. Nat Protoc 2006;1(6):2856-2860.
26. Woods AS, Jackson SN. Brain tissue lipidomics: direct probing using matrix-assisted laser desorption/ionization mass spectrometry. Aaps J 2006;8(2):E391-E395.
27. Invitrogen. Trizol Technical Note. In: On-line technical literature; 2005. http://tools.invitrogen.com/content/sfs/productnotes/F_071215_Trizol%20and%20Trizol%20LS.pdf.