Global research alliance in infectious disease: a collaborative effort to combat infectious diseases through dissemination of portable sequencing
Issued Date
2022-12-01
Resource Type
eISSN
17560500
Scopus ID
2-s2.0-85124636540
Pubmed ID
35151353
Journal Title
BMC Research Notes
Volume
15
Issue
1
Rights Holder(s)
SCOPUS
Bibliographic Citation
BMC Research Notes Vol.15 No.1 (2022)
Suggested Citation
Runtuwene L.R., Sathirapongsasuti N., Srisawat R., Komalamisra N., Tuda J.S.B., Mongan A.E., Aboge G.O., Shabardina V., Makalowski W., Nesti D.R., Artama W.T., Nguyen-Thi L.A., Wan K.L., Na B.K., Hall W., Pain A., Eshita Y., Maeda R., Yamagishi J., Suzuki Y. Global research alliance in infectious disease: a collaborative effort to combat infectious diseases through dissemination of portable sequencing. BMC Research Notes Vol.15 No.1 (2022). doi:10.1186/s13104-022-05927-2 Retrieved from: https://repository.li.mahidol.ac.th/handle/20.500.14594/87114
Title
Global research alliance in infectious disease: a collaborative effort to combat infectious diseases through dissemination of portable sequencing
Author's Affiliation
Medizinische Fakultät Münster
Ramathibodi Hospital
Faculty of Tropical Medicine, Mahidol University
King Abdullah University of Science and Technology
National Institute of Hygiene and Epidemiology Hanoi
Sam Ratulangi University
Universitas Gadjah Mada
University of Nairobi
Universitat Pompeu Fabra Barcelona
National Institute of Infectious Diseases
The University of Tokyo
Hokkaido University
Gyeongsang National University (GSNU), College of Medicine
University College Dublin
Universiti Kebangsaan Malaysia
Obihiro University of Agriculture and Veterinary Medicine
Ramathibodi Hospital
Faculty of Tropical Medicine, Mahidol University
King Abdullah University of Science and Technology
National Institute of Hygiene and Epidemiology Hanoi
Sam Ratulangi University
Universitas Gadjah Mada
University of Nairobi
Universitat Pompeu Fabra Barcelona
National Institute of Infectious Diseases
The University of Tokyo
Hokkaido University
Gyeongsang National University (GSNU), College of Medicine
University College Dublin
Universiti Kebangsaan Malaysia
Obihiro University of Agriculture and Veterinary Medicine
Other Contributor(s)
Abstract
Objective: To disseminate the portable sequencer MinION in developing countries for the main purpose of battling infectious diseases, we found a consortium called Global Research Alliance in Infectious Diseases (GRAID). By holding and inviting researchers both from developed and developing countries, we aim to train the participants with MinION’s operations and foster a collaboration in infectious diseases researches. As a real-life example in which resources are limited, we describe here a result from a training course, a metagenomics analysis from two blood samples collected from a routine cattle surveillance in Kulan Progo District, Yogyakarta Province, Indonesia in 2019. Results: One of the samples was successfully sequenced with enough sequencing yield for further analysis. After depleting the reads mapped to host DNA, the remaining reads were shown to map to Theileria orientalis using BLAST and OneCodex. Although the reads were also mapped to Clostridium botulinum, those were found to be artifacts derived from the cow genome. An effort to construct a consensus sequence was successful using a reference-based approach with Pomoxis. Hence, we concluded that the asymptomatic cow might be infected with T. orientalis and showed the usefulness of sequencing technology, specifically the MinION platform, in a developing country.