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Giri J, Pezzi L, Cachay R, Gèlvez Ramirez RM, Tami A, Bethencourt S, Lozano A, Gotuzzo Herencia JE, Poje J, Jaenisch T, Chu M. Specimen sharing for epidemic preparedness: Building a virtual biorepository system from local governance to global partnerships. PLOS GLOBAL PUBLIC HEALTH 2023; 3:e0001568. [PMID: 37819913 PMCID: PMC10566708 DOI: 10.1371/journal.pgph.0001568] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/14/2023] [Accepted: 09/03/2023] [Indexed: 10/13/2023]
Abstract
We present a framework for a federated, virtual biorepository system (VBS) with locally collected and managed specimens, as a 'global public good' model based on principles of equitable access and benefit sharing. The VBS is intended to facilitate timely access to biological specimens and associated data for outbreak-prone infectious diseases to accelerate the development and evaluation of diagnostics, assess vaccine efficacy, and to support surveillance and research needs. The VBS is aimed to be aligned with the WHO BioHub and other specimen sharing efforts as a force multiplier to meet the needs of strengthening global tools for countering epidemics. The purpose of our initial research is to lay the basis of the collaboration, management and principles of equitable sharing focused on low- and middle-income country partners. Here we report on surveys and interviews undertaken with biorepository-interested parties to better understand needs and barriers for specimen access and share examples from the ZIKAlliance partnership on the governance and operations of locally organized biorepositories.
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Affiliation(s)
- Judith Giri
- Center for Global Health, Colorado School of Public Health, Anschutz Medical Center, Aurora, Colorado, United States of America
| | - Laura Pezzi
- Unité des Virus Émergents (UVE: Aix-Marseille Univ-IRD 190-Inserm 1207), Marseille, France
| | - Rodrigo Cachay
- Instituto de Medicina Tropical Alexander von Humboldt, Universidad Peruana Cayetano Heredia, San Martín de Porres, Lima, Peru
| | | | - Adriana Tami
- Facultad de Ciencias de la Salud, Departamento de Parasitología, Universidad de Carabobo, Valencia, Venezuela
| | - Sarah Bethencourt
- Departamento de Estudios Clínicos-Department of Clinical Studies, Universidad de Carabobo, Valencia, Venezuela
| | - Anyela Lozano
- Centro de Investigaciones Epidemiológicas, Universidad Industrial de Santander, Bucamaranga, Colombia
| | - José Eduardo Gotuzzo Herencia
- Instituto de Medicina Tropical Alexander von Humboldt, Universidad Peruana Cayetano Heredia, San Martín de Porres, Lima, Peru
| | - Julia Poje
- Center for Global Health, Colorado School of Public Health, Anschutz Medical Center, Aurora, Colorado, United States of America
| | - Thomas Jaenisch
- Center for Global Health, Colorado School of Public Health, Anschutz Medical Center, Aurora, Colorado, United States of America
| | - May Chu
- Center for Global Health, Colorado School of Public Health, Anschutz Medical Center, Aurora, Colorado, United States of America
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Schmid A, Kozlakidis Z, Bledsoe M. Biobanking in the Asia-Pacific Region: The Challenges of International Biospecimen Sharing. Biopreserv Biobank 2023; 21:316-317. [PMID: 37594516 DOI: 10.1089/bio.2023.29124.editorial] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 08/19/2023] Open
Affiliation(s)
- Annette Schmid
- Global Science Policy, Takeda Pharmaceutical Company Limited, Cambridge, Massachusetts, USA
| | - Zisis Kozlakidis
- International Agency for Research on Cancer, World Health Organization, Lyon, France
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Bajerski F, Nagel M, Overmann J. Microbial occurrence in liquid nitrogen storage tanks: a challenge for cryobanking? Appl Microbiol Biotechnol 2021; 105:7635-7650. [PMID: 34559283 PMCID: PMC8460408 DOI: 10.1007/s00253-021-11531-4] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/04/2021] [Revised: 08/13/2021] [Accepted: 08/18/2021] [Indexed: 11/30/2022]
Abstract
Abstract Modern biobanks maintain valuable living materials for medical diagnostics, reproduction medicine, and conservation purposes. To guarantee high quality during long-term storage and to avoid metabolic activities, cryostorage is often conducted in the N2 vapour phase or in liquid nitrogen (LN) at temperatures below − 150 °C. One potential risk of cryostorage is microbial cross contamination in the LN storage tanks. The current review summarises data on the occurrence of microorganisms that may compromise the safety and quality of biological materials during long-term storage. We assess the potential for the microbial contamination of LN in storage tanks holding different biological materials based on the detection by culture-based and molecular approaches. The samples themselves, the LN, the human microbiome, and the surrounding environment are possible routes of contamination and can cause cross contaminations via the LN phase. In general, the results showed that LN is typically not the source of major contaminations and only a few studies provided evidence for a risk of microbial cross contamination. So far, culture-based and culture-independent techniques detected only low amounts of microbial cells, indicating that cross contamination may occur at a very low frequency. To further minimise the potential risk of microbial cross contaminations, we recommend reducing the formation of ice crystals in cryotanks that can entrap environmental microorganisms and using sealed or second sample packing. A short survey demonstrated the awareness for microbial contaminations of storage containers among different culture collections. Although most participants consider the risk of cross contaminations in LN storage tanks as low, they prevent potential contaminations by using sealed devices and − 150 °C freezers. It is concluded that the overall risk for cross contaminations in biobanks is relatively low when following standard operating procedures (SOPs). We evaluated the potential sources in detail and summarised our results in a risk assessment spreadsheet which can be used for the quality management of biobanks. Key points • Identification of potential contaminants and their sources in LN storage tanks. • Recommendations to reduce this risk of LN storage tank contamination. • Development of a risk assessment spreadsheet to support quality management. Supplementary Information The online version contains supplementary material available at 10.1007/s00253-021-11531-4.
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Affiliation(s)
- Felizitas Bajerski
- Leibniz Institute DSMZ-German Collection of Microorganisms and Cell Cultures, Inhoffenstraße 7B, 38124, Brunswick, Germany.
| | - Manuela Nagel
- Genebank Department, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), 06466, Seeland OT Gatersleben, Germany
| | - Joerg Overmann
- Leibniz Institute DSMZ-German Collection of Microorganisms and Cell Cultures, Inhoffenstraße 7B, 38124, Brunswick, Germany.,Institute of Microbiology, Braunschweig University of Technology, 38106, Brunswick, Germany
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Tarling T, Matzke LAM, Rush A, Gali B, Byrne JA, Watson PH. Vignettes to Illustrate the Value of Tumor Biobanks in Cancer Research in Canada. Biopreserv Biobank 2021; 20:75-83. [PMID: 34165356 DOI: 10.1089/bio.2021.0002] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022] Open
Abstract
Background: Tumor biobanks are a common research infrastructure. As a collection of biospecimens and annotated data collected to support a multitude of research projects, biobanks facilitate access to materials that are the critical fuel for the generation of data in up to 40% of cancer research publications. However, quantifying how to measure biobanks' impact and their value on the field of cancer research discoveries and findings, has not been well elucidated. Methods: We have used a qualitative case study approach to illustrate the impact of tumor biobanks. We assessed the impact of three research studies published between 2010 and 2012 that required easily accessible "classic" biobanks. Each study utilized preassembled collections of tumor biospecimens with associated patient outcomes data at the outset of the research project. We compared the resulting journal impact factor, altmetric and field-weighted citation impact factor scores for each article to a set of six "benchmark" articles that represent cancer research and treatment discoveries from the same time period and two sentinel scientific discovery articles. Results: We developed a value model using a literature search and design-thinking methodologies to illustrate the contributions of these "classic" model biobanks to these research studies. Assessment of the three example articles supported by biobanks demonstrates that the output can have impact that is comparable to the impact of a set of benchmark articles describing milestones in the field of cancer research and cancer care. Conclusions: These case studies illustrate the value of the sustained investment of funds, planning, time, and effort on the part of the biobanks before the conduct of the research study to be able to ultimately support high-value research. The "value" model will enable further discussion around impact and may be useful in better delineating qualitative metrics of biobank value in the future.
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Affiliation(s)
- Tamsin Tarling
- Office of Biobank Education and Research, Department of Pathology and Laboratory Medicine, University of British Columbia, Vancouver, British Columbia, Canada
| | - Lise Anne Marie Matzke
- Office of Biobank Education and Research, Department of Pathology and Laboratory Medicine, University of British Columbia, Vancouver, British Columbia, Canada
| | - Amanda Rush
- School of Medical Sciences, Faculty Medicine and Health, The Children's Hospital at Westmead Clinical School, The University of Sydney, New South Wales, Australia.,New South Wales Statewide Biobank, New South Wales Health Pathology, Camperdown, New South Wales, Australia
| | - Brent Gali
- Biobanking and Biospecimen Research Services, Deeley Research Center, BC Cancer Victoria Center, Victoria, British Columbia, Canada
| | - Jennifer A Byrne
- New South Wales Statewide Biobank, New South Wales Health Pathology, Camperdown, New South Wales, Australia
| | - Peter H Watson
- Office of Biobank Education and Research, Department of Pathology and Laboratory Medicine, University of British Columbia, Vancouver, British Columbia, Canada.,Biobanking and Biospecimen Research Services, Deeley Research Center, BC Cancer Victoria Center, Victoria, British Columbia, Canada.,Canadian Tissue Repository Network, BC Cancer Research Center, Vancouver, British Columbia, Canada
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The Future of Biobanking: What Is Next? BIOTECH 2020; 9:biotech9040023. [PMID: 35822826 PMCID: PMC9258311 DOI: 10.3390/biotech9040023] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/27/2020] [Revised: 11/19/2020] [Accepted: 11/20/2020] [Indexed: 11/25/2022] Open
Abstract
Biobanks are an extraordinary tool for research and scientific progress. Since their origin, the debate on the main technical, regulatory and ethical aspects has not stopped. The future of biobanks should take into account many factors: the need to improve the technical standards of collection, conservation and use of the sample, the usefulness of achieving forms of harmonization and common governance, the improvement of biobank networks, including through public–private partnerships and improving the sustainability of these infrastructures.
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Craciun L, Spinette SA, Rassy M, Salgado R, de Wind A, Demetter P, Verset L, Gomez-Galdon M, Chintinne M, Sirtaine N, de St Aubain N, Laios I, Roy F, Larsimont D. Tumor Banks: A Quality Control Scheme Proposal. Front Med (Lausanne) 2019; 6:225. [PMID: 31681781 PMCID: PMC6811598 DOI: 10.3389/fmed.2019.00225] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2019] [Accepted: 09/30/2019] [Indexed: 01/09/2023] Open
Abstract
Introduction: Tumor banks make a considerable contribution to translational research. Using emerging molecular tests on frozen material facilitates the development of new diagnostic and therapeutic strategies, especially in rare cases. However, standard quality control schemes are lacking in the current literature. Methods: In 2017, we have conducted a robust quality control test on 100 of 15,000 fresh frozen samples collected between 2000 and 2013 at the Jules Bordet Tumor Bank (Brussels). RNA and DNA extraction was done. The quality of RNA, DNA and proteins were evaluated, respectively by measuring RNA Integrity Number (RIN), by checking Electrophoretic Integrity (EI) and by performing Immunohistochemistry staining (IHC). A score, ranging from poor (1) to excellent (4), was attributed based on technical analysis. Results: RNA purity was scored 4 in 97% of the cases, 3 in 2%, and 2 in 1%. RIN scores were similarly 4 in 89%, 3 in 10%, and 2 in 1% of the cases. DNA purity was scored 4 in 94% and 3 in 6%, EI was scored 4 in 100% of the cases. Despite morphology loss after freezing, HER2, ER, and Ki67 IHC stainings yielded a score of 4 in the majority of samples. Furthermore, participating in the ISBER Proficiency Testing helped us validate our techniques and the technician's work. Seven processing schemes were carried out, the scores obtained were very satisfactory (20/27) or satisfactory (7/27). Conclusion: Tumor Banks can be precious for translational research. Nevertheless, firm quality controls should be applied to ensure high quality material delivery. Only then can biobanks contribute to diagnostics, biomarkers discovery and reliable molecular test development.
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Affiliation(s)
- Ligia Craciun
- Tumor Bank, Institut Jules Bordet, Brussels, Belgium.,Department of Anatomical Pathology, Jules Bordet Institute, Brussels, Belgium
| | - Selim Alex Spinette
- Tumor Bank, Institut Jules Bordet, Brussels, Belgium.,Department of Anatomical Pathology, Jules Bordet Institute, Brussels, Belgium
| | - Marc Rassy
- Department of Anatomical Pathology, Jules Bordet Institute, Brussels, Belgium
| | - Roberto Salgado
- Department of Anatomical Pathology, Jules Bordet Institute, Brussels, Belgium
| | - Alexandre de Wind
- Department of Anatomical Pathology, Jules Bordet Institute, Brussels, Belgium
| | - Pieter Demetter
- Department of Anatomical Pathology, Jules Bordet Institute, Brussels, Belgium
| | - Laurine Verset
- Department of Anatomical Pathology, Jules Bordet Institute, Brussels, Belgium
| | - Maria Gomez-Galdon
- Department of Anatomical Pathology, Jules Bordet Institute, Brussels, Belgium
| | - Marie Chintinne
- Department of Anatomical Pathology, Jules Bordet Institute, Brussels, Belgium
| | - Nicolas Sirtaine
- Department of Anatomical Pathology, Jules Bordet Institute, Brussels, Belgium
| | | | - Ioanna Laios
- Department of Anatomical Pathology, Jules Bordet Institute, Brussels, Belgium
| | - Francoise Roy
- Department of Anatomical Pathology, Jules Bordet Institute, Brussels, Belgium
| | - Denis Larsimont
- Tumor Bank, Institut Jules Bordet, Brussels, Belgium.,Department of Anatomical Pathology, Jules Bordet Institute, Brussels, Belgium
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Domínguez-Vigil IG, Barajas-Olmos VH, Gallardo-Alvarado L, Pérez-Maya AA, Garza-Rodríguez ML, Magallanes-Garza GI, Cardona-Huerta S, Méndez-Lozano DH, Vidal-Gutiérrez O, Cantú De León DF, Barrera-Saldaña HA. Comparison of Automated and Manual DNA Isolation Methods of Liquid-Based Cytology Samples. Biopreserv Biobank 2019; 17:591-597. [PMID: 31556699 PMCID: PMC6921247 DOI: 10.1089/bio.2018.0148] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022] Open
Abstract
Liquid-based cytology (LBC) has been used as a diagnostic tool for cervical cancer for years and is now being adopted for other gynecological cancers. LBC represents an important challenge to ensure that the process yields representative biospecimens for quality control (QC) of diagnostic procedures. In this study, we compare QC parameters (integrity, yield and purity, and polymerase chain reaction [PCR] amplification) of DNA isolated from LBC (N = 296) using two different nucleic acid isolation methods, manual (n = 233) or automated (n = 63). We also evaluated two different types of cytological brushes for sampling from the cervix. Our results suggest that manual isolation (yield 22.81 ± 1.92 μg) resulted in increased DNA recovery when compared with automated isolation (yield 9.96 ± 1.11 μg) from LBC samples, with a p-value of <0.0003. We estimated that 98% (53/54) of the samples preserved the integrity of DNA and were suitable for standard molecular biology analyses. The β-globin gene was amplified in 100% (296/296) of the DNA samples by endpoint PCR. We found no significant difference between the performance of the cytological brushes (p value of <0.6711) in a general overview. However, when looking at the results from using each brush individually, the manual isolation method was statistically superior to the automated method. Our work illustrates the impact of good QC of preanalytic conditions, which will be important for the application of LBC for developing early detection methods for gynecological cancers.
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Affiliation(s)
- Irma G Domínguez-Vigil
- Departamento de Bioquímica y Medicina Molecular, Facultad de Medicina, Universidad Autónoma de Nuevo León, Monterrey, NL, Mexico.,Laboratory for Translational Research, Rudy L. Ruggles Biomedical Research Institute, Western Connecticut Health Network, Danbury, Connecticut
| | - Víctor H Barajas-Olmos
- Departamento de Bioquímica y Medicina Molecular, Facultad de Medicina, Universidad Autónoma de Nuevo León, Monterrey, NL, Mexico
| | - Lenny Gallardo-Alvarado
- Subdireccion de Investigación Clínica, Instituto Nacional de Cancerología, Ciudad de México, Mexico
| | - Antonio A Pérez-Maya
- Departamento de Bioquímica y Medicina Molecular, Facultad de Medicina, Universidad Autónoma de Nuevo León, Monterrey, NL, Mexico
| | - Maria L Garza-Rodríguez
- Servicio de Oncología, Hospital Universitario "Dr. José Eleuterio González," Universidad Autónoma de Nuevo León, Monterrey, Nuevo León, Mexico
| | | | | | | | - Oscar Vidal-Gutiérrez
- Servicio de Oncología, Hospital Universitario "Dr. José Eleuterio González," Universidad Autónoma de Nuevo León, Monterrey, Nuevo León, Mexico
| | - David F Cantú De León
- Subdireccion de Investigación Clínica, Instituto Nacional de Cancerología, Ciudad de México, Mexico
| | - Hugo A Barrera-Saldaña
- Departamento de Bioquímica y Medicina Molecular, Facultad de Medicina, Universidad Autónoma de Nuevo León, Monterrey, NL, Mexico.,Mexican Biobanks Network at Vitagénesis, SA.,National Laboratory of Specialized Services of Research, Development, and Innovation for Chemical and Biotechnological Drugs at Innbiogem, SC, Monterrey, Mexico
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Rosado M, Silva R, G Bexiga M, G Jones J, Manadas B, Anjo SI. Advances in biomarker detection: Alternative approaches for blood-based biomarker detection. Adv Clin Chem 2019; 92:141-199. [PMID: 31472753 DOI: 10.1016/bs.acc.2019.04.003] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
In the clinical setting, a blood sample is typically the starting point for biomarker search and discovery. Mass spectrometry (MS) is a highly sensitive and informative method for characterizing a very wide range of metabolites and proteins and is therefore a potentially powerful tool for biomarker discovery. However, the physicochemical characteristics of blood coupled with very large ranges of protein and metabolite concentrations present a significant technical obstacle for resolving and quantifying putative biomarkers by MS. Blood fractionation procedures are being developed to reduce the proteome/metabolome complexity and concentration ranges, allowing a greater diversity of analytes, including those at very low concentrations, to be quantified. In this chapter, several strategies for enriching and/or isolating specific blood components are summarized, including methods for the analysis of low and high molecular weight compounds, usually neglected in this type of assays, extracellular vesicles, and peripheral blood mononuclear cells (PBMCs). For each method, relevant practical information is presented for effective implementation.
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Affiliation(s)
- Miguel Rosado
- CNC-Center for Neuroscience and Cell Biology, University of Coimbra, Coimbra, Portugal; Faculty of Pharmacy, University of Coimbra, Coimbra, Portugal
| | - Rafael Silva
- CNC-Center for Neuroscience and Cell Biology, University of Coimbra, Coimbra, Portugal
| | - Mariana G Bexiga
- i3S-Instituto de Investigação e Inovação em Saúde, Universidade do Porto, Porto, Portugal; INEB-Instituto de Engenharia Biomédica, Universidade do Porto, Porto, Portugal
| | - John G Jones
- CNC-Center for Neuroscience and Cell Biology, University of Coimbra, Coimbra, Portugal
| | - Bruno Manadas
- CNC-Center for Neuroscience and Cell Biology, University of Coimbra, Coimbra, Portugal
| | - Sandra I Anjo
- CNC-Center for Neuroscience and Cell Biology, University of Coimbra, Coimbra, Portugal.
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9
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Henderson MK, Kozlakidis Z. ISBER and the Biobanking and Cohort Network (BCNet): A Strengthened Partnership. Biopreserv Biobank 2018; 16:393-394. [PMID: 30325663 PMCID: PMC6206592 DOI: 10.1089/bio.2018.29043.mkh] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023] Open
Affiliation(s)
- Marianne Krall Henderson
- Center for Global Health, National Cancer Institute, National Institutes of Health, DHHS, Bethesda, Maryland
| | - Zisis Kozlakidis
- International Agency for Research on Cancer (IARC), World Health Organizaton (WHO), Lyon, France
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