Dataset Information

Global research alliance in infectious disease: a collaborative effort to combat infectious diseases through dissemination of portable sequencing.

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.

SUBMITTER: Runtuwene LR

PROVIDER: S-EPMC8840504 | biostudies-literature | 2022 Feb

REPOSITORIES: biostudies-literature

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Publications

Global research alliance in infectious disease: a collaborative effort to combat infectious diseases through dissemination of portable sequencing.

Runtuwene Lucky R LR Sathirapongsasuti Nuankanya N Srisawat Raweewan R Komalamisra Narumon N Tuda Josef S B JSB Mongan Arthur E AE Aboge Gabriel O GO Shabardina Victoria V Makalowski Wojciech W Nesti Dela Ria DR Artama Wayan T WT Nguyen-Thi Lan Anh LA Wan Kiew-Lian KL Na Byoung-Kuk BK Hall William W Pain Arnab A Eshita Yuki Y Maeda Ryuichiro R Yamagishi Junya J Suzuki Yutaka Y

BMC research notes 20220212 1

<h4>Objective</h4>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 ...[more]

PMID: 35151353

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Dataset Information

Global research alliance in infectious disease: a collaborative effort to combat infectious diseases through dissemination of portable sequencing.

Objective

Results

Publications

Global research alliance in infectious disease: a collaborative effort to combat infectious diseases through dissemination of portable sequencing.

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