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  1. Article ; Online: Takeaways from Mobile DNA Barcoding with BentoLab and MinION.

    Chang, Jia Jin Marc / Ip, Yin Cheong Aden / Ng, Chin Soon Lionel / Huang, Danwei

    Genes

    2020  Volume 11, Issue 10

    Abstract: ... for nanopore-based DNA barcoding in situ for species identification and discovery, yet the existing sample ... in the remotest and harshest of environments, and even in space. One of the most common applications of MinION is ... Since the release of the MinION sequencer in 2014, it has been applied to great effect ...

    Abstract Since the release of the MinION sequencer in 2014, it has been applied to great effect in the remotest and harshest of environments, and even in space. One of the most common applications of MinION is for nanopore-based DNA barcoding in situ for species identification and discovery, yet the existing sample capability is limited (
    MeSH term(s) Animals ; Aquatic Organisms/genetics ; Biodiversity ; Coral Reefs ; DNA Barcoding, Taxonomic/methods ; High-Throughput Nucleotide Sequencing/methods ; Nanopores ; Sequence Analysis, DNA/methods ; Software
    Keywords covid19
    Language English
    Publishing date 2020-09-24
    Publishing country Switzerland
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2527218-4
    ISSN 2073-4425 ; 2073-4425
    ISSN (online) 2073-4425
    ISSN 2073-4425
    DOI 10.3390/genes11101121
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article: Takeaways from Mobile DNA Barcoding with BentoLab and MinION

    Chang, Jia Jin Marc / Ip, Yin Cheong Aden / Ng, Chin Soon Lionel / Huang, Danwei

    Genes. 2020 Sept. 24, v. 11, no. 10

    2020  

    Abstract: ... for nanopore-based DNA barcoding in situ for species identification and discovery, yet the existing sample ... of the newly released R10.3 nanopore flow cell for DNA barcoding, and showed that the barcodes generated were ... capability is limited (n ≤ 10). Here, we assembled a portable sequencing setup comprising the BentoLab and ...

    Abstract Since the release of the MinION sequencer in 2014, it has been applied to great effect in the remotest and harshest of environments, and even in space. One of the most common applications of MinION is for nanopore-based DNA barcoding in situ for species identification and discovery, yet the existing sample capability is limited (n ≤ 10). Here, we assembled a portable sequencing setup comprising the BentoLab and MinION and developed a workflow capable of processing 32 samples simultaneously. We demonstrated this enhanced capability out at sea, where we collected samples and barcoded them onboard a dive vessel moored off Sisters’ Islands Marine Park, Singapore. In under 9 h, we generated 105 MinION barcodes, of which 19 belonged to fresh metazoans processed immediately after collection. Our setup is thus viable and would greatly fortify existing portable DNA barcoding capabilities. We also tested the performance of the newly released R10.3 nanopore flow cell for DNA barcoding, and showed that the barcodes generated were ~99.9% accurate when compared to Illumina references. A total of 80% of the R10.3 nanopore barcodes also had zero base ambiguities, compared to 50–60% for R9.4.1, suggesting an improved homopolymer resolution and making the use of R10.3 highly recommended.
    Keywords Animalia ; DNA barcoding ; marine parks ; nanopores ; polymers ; species identification ; Singapore
    Language English
    Dates of publication 2020-0924
    Publishing place Multidisciplinary Digital Publishing Institute
    Document type Article
    ZDB-ID 2527218-4
    ISSN 2073-4425
    ISSN 2073-4425
    DOI 10.3390/genes11101121
    Database NAL-Catalogue (AGRICOLA)

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