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

Autor: Hebels DG, 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, Kleinjans JC, de Kok TM, Smith MT, Kyrtopoulos SA, EnviroGenomarkers Project Consortium, PANICO, SALVATORE
Přispěvatelé: Toxicogenomics, RS: GROW - School for Oncology and Reproduction, Medical Research Council (MRC), Hebels, Dg, 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, Salvatore, Kleinjans, Jc, de Kok, Tm, Smith, Mt, Kyrtopoulos, Sa, EnviroGenomarkers Project, Consortium
Jazyk: angličtina
Rok vydání: 2013
Předmět:
Time Factors
EnviroGenomarkers Project Consortium
Health
Toxicology and Mutagenesis
05 Environmental Sciences
Buffy coat
Proteomics
Toxicology
molecular epidemiology
SERUM
transcriptomics
0302 clinical medicine
URINE
TOOL
Food science
Public
Environmental & Occupational Health
Biological Specimen Banks
0303 health sciences
Genomics
11 Medical And Health Sciences
ENVIRONMENTAL SCIENCES
Biobank
metabolomics
030220 oncology & carcinogenesis
Life Sciences & Biomedicine
Environmental Health
Blood fractionation
Environmental Sciences & Ecology
Biology
Specimen Handling
03 medical and health sciences
Metabolomics
proteomics
Humans
metabonomics
030304 developmental biology
Science & Technology
business.industry
Research
Gene Expression Profiling
Public Health
Environmental and Occupational Health
Anticoagulants
biomarkers
Blood collection
Omics
Biotechnology
13. Climate action
PUBLIC
ENVIRONMENTAL & OCCUPATIONAL HEALTH
SCI
epigenomics
RNA
business
Zdroj: Environmental Health Perspectives
Environmental Health Perspectives, 121(4), 480-487. U.S. Department of Health and Human Services; National Institute of Environmental Health Sciences
ISSN: 1552-9924
0091-6765
Popis: 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.
Databáze: OpenAIRE
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