Amazon Biobank: a Blockchain-based Genomic Database for Bioeconomy

  • Leonardo T. Kimura USP
  • Marcos A. Simplício Jr. USP

Resumo


The bioeconomy, an industrial production model based on biological resources and sustainable development, can be considered an emerging opportunity for biodiversity-abundant regions, such as the Amazon rainforest. However, existing genomic repositories lack data traceability and economic benefit-sharing mechanisms, resulting in limited motivation for data providers to contribute. To address this challenge, we present Amazon Biobank, a communitydriven genetic database. By leveraging blockchain and peer-to-peer (P2P) technologies, we enable distributed and transparent data sharing; meanwhile, by using smart contracts directly registered in the system, we enforce fair benefit-sharing among all system participants. Moreover, Amazon Biobank is designed to be auditable by any user, reducing the need for trusted system managers. To validate our approach, we implemented a prototype using Hyperledger Fabric and BitTorrent and evaluated its performance. Our results show that the prototype can support at least 400 transactions per second in a small network and that it can be further improved by adding new nodes or allocating additional computational resources. We expect that Amazon Biobank will serve as a vital tool for collaborative biotechnology research, fostering sustainable development in high-biodiversity regions.

Referências

Alghazwi, M., Turkmen, F., Van Der Velde, J., and Karastoyanova, D. (2022). Blockchain for genomics: A systematic literature review. Distrib. Ledger Technol., 1(2).

Buck, M. and Hamilton, C. (2011). The Nagoya protocol on access to genetic resources and the fair and equitable sharing of benefits arising from their utilization to the convention on biological diversity. Review of ECIEL, 20(1):47–61.

Cohen, B. (2003). Incentives build robustness in BitTorrent. In Workshop on Economics of Peer-to-Peer systems, volume 6, pages 68–72.

Glowka, L., Burhenne-Guilmin, F., Synge, H., McNeely, J. A., and Gündling, L. (1994). A guide to the convention on biological diversity.

Grishin, D., Obbad, K., Estep, P., Cifric, M., Zhao, Y., and Church, G. (2018). Blockchain-enabled genomic data sharing and analysis platform. Technical report, Nebula Genomics.

Hoorn, C., Wesselingh, F. P., ter Steege, H., Bermudez, M. A., Mora, A., Sevink, J., Sanmartín, I., Sanchez-Meseguer, A., Anderson, C. L., Figueiredo, J. P., Jaramillo, C., Riff, D., Negri, F. R., Hooghiemstra, H., Lundberg, J., Stadler, T., Särkinen, T., and Antonelli, A. (2010). Amazonia through time: Andean uplift, climate change, landscape evolution, and biodiversity. Science, 330(6006):927–931.

Kimura, L., Andrade, E., Carvalho, T., and Junior, M. S. (2021). Amazon biobank - a community-based genetic database. In Proc. of the XXI Brazilian Symposium on Information and Computational Systems Security (SBSeg), pages 74–81, Porto Alegre/RS, Brazil. SBC.

Kimura, L. T., Andrade, E. R., Nobre, I., Nobre, C. A., de Medeiros, B. A. S., Riaño-Pachón, D. M., Shiraishi, F. K., Carvalho, T. C. M. B., and Simplicio, M. A. (2023). Amazon biobank: a collaborative genetic database for bioeconomy development. Functional & Integrative Genomics, 23(2):101.

Kimura, L. T., Shiraishi, F. K., Andrade, E. R., Carvalho, T. C. M. B., and Simplicio, M. A. (2024). Amazon biobank: Assessing the implementation of a blockchain-based genomic database. IEEE Access, 12:9632–9647.

Li, F.-W. (2021). Decolonizing botanical genomics. Nature Plants, 7(12):1542–1543.

Mgbeoji, I. (2007). Global biopiracy: patents, plants, and indigenous knowledge. ubc Press.

Nobre, C. A., Sampaio, G., Borma, L. S., Castilla-Rubio, J. C., Silva, J. S., and Cardoso, M. (2016). Land-use and climate change risks in the Amazon and the need of a novel sustainable development paradigm. Proc. of the National Academy of Sciences, 113(39):10759–10768.

Nobre, I. and Nobre, C. A. (2019). The Amazonia third way initiative: the role of technology to unveil the potential of a novel tropical biodiversity-based economy. Land use. Assessing the Past, Envisioning the Future.

Ozercan, H. I., Ileri, A. M., Ayday, E., and Alkan, C. (2018). Realizing the potential of blockchain technologies in genomics. Genome research, 28(9):1255–1263.

Rech, E. (2011). Genomics and synthetic biology as a viable option to intensify sustainable use of biodiversity. Nature Precedings.

Shiraishi, F., Perles, V., Yassuda, H., Kimura, L., Andrade, E., and Simplicio, M. (2021). Torrente, a micropayment based Bittorrent extension to mitigate free riding. In Proc. of the XXI Brazilian Symposium on Information and Computational Systems Security (SBSeg), pages 82–89, Porto Alegre/RS, Brazil. SBC.

Strand, J., Soares-Filho, B., Costa, M. H., Oliveira, U., Ribeiro, S. C., Pires, G. F., Oliveira, A., Rajão, R., May, P., van der Hoff, R., Siikamäki, J., da Motta, R. S., and Toman, M. (2018). Spatially explicit valuation of the Brazilian Amazon forest’s ecosystem services. Nature Sustainability, 1(11):657–664.

UNDP (2021). A pilot to improve genetic resources traceability through blockchain technology launched by the UNDP GEF Global ABS project. [link]. Acessed on 29-06-2021.
Publicado
16/09/2024
KIMURA, Leonardo T.; SIMPLÍCIO JR., Marcos A.. Amazon Biobank: a Blockchain-based Genomic Database for Bioeconomy. In: CONCURSO DE TESES E DISSERTAÇÕES - SIMPÓSIO BRASILEIRO DE SEGURANÇA DA INFORMAÇÃO E DE SISTEMAS COMPUTACIONAIS (SBSEG), 24. , 2024, São José dos Campos/SP. Anais [...]. Porto Alegre: Sociedade Brasileira de Computação, 2024 . p. 1-8. DOI: https://doi.org/10.5753/sbseg_estendido.2024.242034.

Artigos mais lidos do(s) mesmo(s) autor(es)