Performance in omics analyses of blood samples in long-term storage: opportunities for the exploitation of existing biobanks in environmental health research.

TitlePerformance in omics analyses of blood samples in long-term storage: opportunities for the exploitation of existing biobanks in environmental health research.
Publication TypeJournal Article
Year of Publication2013
AuthorsHebels DGAJ, Georgiadis P, Keun HC, Athersuch TJ, Vineis P, Vermeulen R, Portengen L, Bergdahl IA, Hallmans G, Palli D, Bendinelli B, Krogh V, Tumino R, Sacerdote C, Panico S, Kleinjans JCS, de Kok TMCM, Smith MT, Kyrtopoulos SA
Corporate AuthorsEnviroGenomarkers Project Consortium
JournalEnviron Health Perspect
Volume121
Issue4
Pagination480-7
Date Published04/2013
ISSN1552-9924
KeywordsAnticoagulants, Biological Markers, Biological Specimen Banks, Environmental Health, Gene Expression Profiling, Genomics, Humans, Metabolomics, RNA, Specimen Handling, Time Factors
Abstract

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 -80oC 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 anticoagulants 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.

DOI10.1289/ehp.1205657
Alternate JournalEnviron. Health Perspect.
PubMed ID23384616
PubMed Central IDPMC3620742
Grant ListG0801056 / / Medical Research Council / United Kingdom
P42 ES004705 / ES / NIEHS NIH HHS / United States