Performance in Omics Analyses of Blood Samples in Long-Term Storage: Opportunities for the Exploitation of Existing Biobanks in Environmental Health Research

被引:119
作者
Hebels, Dennie G. A. J. [1 ]
Georgiadis, Panagiotis [2 ]
Keun, Hector C. [3 ,4 ]
Athersuch, Toby J. [3 ,4 ]
Vineis, Paolo [3 ]
Vermeulen, Roel [5 ]
Portengen, Lutzen [5 ]
Bergdahl, Ingvar A. [6 ,7 ]
Hallmans, Goran [6 ,8 ]
Palli, Domenico [9 ]
Bendinelli, Benedetta [9 ]
Krogh, Vittorio [10 ]
Tumino, Rosario [11 ,12 ]
Sacerdote, Carlotta [13 ,14 ]
Panico, Salvatore [15 ]
Kleinjans, Jos C. S. [1 ]
de Kok, Theo M. C. M. [1 ]
Smith, Martyn T. [16 ]
Kyrtopoulos, Soterios A. [2 ]
机构
[1] Maastricht Univ, Dept Toxicogen, Maastricht, Netherlands
[2] Natl Hellen Res Fdn, Inst Biol Med Chem & Biotechnol, Athens 11635, Greece
[3] Univ London Imperial Coll Sci Technol & Med, MRC HPA Ctr Environm & Hlth, Dept Epidemiol & Biostat, Sch Publ Hlth,Fac Med, London, England
[4] Univ London Imperial Coll Sci Technol & Med, Dept Surg & Canc, Fac Med, London, England
[5] Univ Utrecht, Inst Risk Assessment Sci, Div Environm Epidemiol, Utrecht, Netherlands
[6] Umea Univ, Dept Publ Hlth & Clin Med, Umea, Sweden
[7] Umea Univ, Dept Biobank Res Occupat & Environm Med, Umea, Sweden
[8] Umea Univ, Dept Biobank Res, Umea, Sweden
[9] Inst Canc Res & Prevent, Florence, Italy
[10] Fdn IRCCS Ist Nazl Tumori, Epidemiol & Prevent Unit, Milan, Italy
[11] Civile MP Arezzo Hosp, Canc Registry, Ragusa, Italy
[12] Civile MP Arezzo Hosp, Histopathol Unit, Ragusa, Italy
[13] Ctr Canc Prevent CPO Piemonte, Turin, Italy
[14] Human Genet Fdn HuGeF, Unit Epidemiol & Mol Genet, Turin, Italy
[15] Univ Naples Federico II, Dept Clin & Expt Med, Naples, Italy
[16] Univ Calif Berkeley, Sch Publ Hlth, Genes & Environm Lab, Berkeley, CA 94720 USA
关键词
biomarkers; epigenomics; metabolomics; metabonomics; molecular epidemiology; proteomics; transcriptomics; SERUM; URINE; TOOL; RNA;
D O I
10.1289/ehp.1205657
中图分类号
X [环境科学、安全科学];
学科分类号
08 ; 0830 ;
摘要
BACKGROUND: The suitability for omic analysis of biosamples collected in previous decades and currently stored in biobanks is unknown. OBJECTIVES: We evaluated the influence of handling and storage conditions of blood-derived biosamples on transcriptomic, epigenomic (CpG methylation), plasma metabolomic [ UPLC-ToFMS (ultra performance liquid chromatography-time-of-flight mass spectrometry)], and wide-target proteomic profiles. METHODS: We collected fresh blood samples without RNA preservative in heparin, EDTA, or citrate and held them at room temperature for <= 24 hr before fractionating them into buffy coat, erythrocytes, and plasma and freezing the fractions at -80 degrees C or in liquid nitrogen. We developed methodology for isolating RNA from the buffy coats and conducted omic analyses. Finally, we analyzed analogous samples from the EPIC-Italy and Northern Sweden Health and Disease Study biobanks. RESULTS: Microarray-quality RNA could be isolated from buffy coats (including most biobank samples) that had been frozen within 8 hr of blood collection by thawing the samples in RNA preservative. Different anti-coagulants influenced the metabolomic, proteomic, and to a lesser extent transcriptomic profiles. Transcriptomic profiles were most affected by the delay (as little as 2 hr) before blood fractionation, whereas storage temperature had minimal impact. Effects on metabolomic and proteomic profiles were noted in samples processed >= 8 hr after collection, but no effects were due to storage temperature. None of the variables examined significantly influenced the epigenomic profiles. No systematic influence of time-in-storage was observed in samples stored over a period of 13-17 years. CONCLUSIONS: Most samples currently stored in biobanks are amenable to meaningful omics analysis, provided that they satisfy collection and storage criteria defined in this study.
引用
收藏
页码:480 / 487
页数:8
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