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Comparison of Mycobacterium avium complex ( n = 66) identification based on line probe assay (LPA) and whole-genome average nucleotide identity using FastANI.

Journal: Scientific Reports

Article Title: Diversity and antimicrobial resistance profiles of Mycobacterium avium complex clinical isolates in Thailand based on whole genome comparative analysis

doi: 10.1038/s41598-024-84511-z

Figure Lengend Snippet: Comparison of Mycobacterium avium complex ( n = 66) identification based on line probe assay (LPA) and whole-genome average nucleotide identity using FastANI.

Article Snippet: These isolates were identified to species or complex level based on LPA kits using the GenoType Mycobacterium CM VER 2.0 (Hain Lifescience) ( M. avium and M. intracellulare ), GenoType NTM-DR assay (Hain Lifescience) ( M. avium , M. intracellulare , and M. chimaera ), or INNO-LiPA MYCOBACTERIA v2 (Fujirebio) ( M. avium and M. intracellulare ) following the manufacturer’s protocol.

Techniques: Comparison

SNP-based phylogenetic tree of Mycobacterium intracellulare / Mycobacterium paraintracellulare isolates in Thailand. The phylogenetic tree based on SNPs from the Snippy pipeline showed the diversity of M. intracellulare / M. paraintracellulare isolates in Thailand and their phylogenetic relationships compared to global reference strains. The tree presented three clades, including M. intracellulare subsp. intracellulare group (MI; blue), M. intracellulare subsp. chimaera group (MC; red), and unknown clade. Drug susceptibility, specimen types, and origins are presented as a color strip labelled beside the tips of the tree.

Journal: Scientific Reports

Article Title: Diversity and antimicrobial resistance profiles of Mycobacterium avium complex clinical isolates in Thailand based on whole genome comparative analysis

doi: 10.1038/s41598-024-84511-z

Figure Lengend Snippet: SNP-based phylogenetic tree of Mycobacterium intracellulare / Mycobacterium paraintracellulare isolates in Thailand. The phylogenetic tree based on SNPs from the Snippy pipeline showed the diversity of M. intracellulare / M. paraintracellulare isolates in Thailand and their phylogenetic relationships compared to global reference strains. The tree presented three clades, including M. intracellulare subsp. intracellulare group (MI; blue), M. intracellulare subsp. chimaera group (MC; red), and unknown clade. Drug susceptibility, specimen types, and origins are presented as a color strip labelled beside the tips of the tree.

Article Snippet: These isolates were identified to species or complex level based on LPA kits using the GenoType Mycobacterium CM VER 2.0 (Hain Lifescience) ( M. avium and M. intracellulare ), GenoType NTM-DR assay (Hain Lifescience) ( M. avium , M. intracellulare , and M. chimaera ), or INNO-LiPA MYCOBACTERIA v2 (Fujirebio) ( M. avium and M. intracellulare ) following the manufacturer’s protocol.

Techniques: Stripping Membranes

Pan-genome analysis of Mycobacterium intracellulare / Mycobacterium paraintracellulare isolates from Thailand. ( A ) The pie chart shows the number of core- and accessory-gene clusters in the genomes of isolates and references of M. intracellulare / M. paraintracellulare ( n = 176) analyzed by PanExplorer. The 65 genomes of CU and KKU isolates were analyzed for ( B ) subsystem of protein families shown as a pie chart using NCBI BV-BRC system. In addition, protein families which were specific for ( C ) MI group and unknown clade and ( D ) MC group are shown as heatmaps.

Journal: Scientific Reports

Article Title: Diversity and antimicrobial resistance profiles of Mycobacterium avium complex clinical isolates in Thailand based on whole genome comparative analysis

doi: 10.1038/s41598-024-84511-z

Figure Lengend Snippet: Pan-genome analysis of Mycobacterium intracellulare / Mycobacterium paraintracellulare isolates from Thailand. ( A ) The pie chart shows the number of core- and accessory-gene clusters in the genomes of isolates and references of M. intracellulare / M. paraintracellulare ( n = 176) analyzed by PanExplorer. The 65 genomes of CU and KKU isolates were analyzed for ( B ) subsystem of protein families shown as a pie chart using NCBI BV-BRC system. In addition, protein families which were specific for ( C ) MI group and unknown clade and ( D ) MC group are shown as heatmaps.

Article Snippet: These isolates were identified to species or complex level based on LPA kits using the GenoType Mycobacterium CM VER 2.0 (Hain Lifescience) ( M. avium and M. intracellulare ), GenoType NTM-DR assay (Hain Lifescience) ( M. avium , M. intracellulare , and M. chimaera ), or INNO-LiPA MYCOBACTERIA v2 (Fujirebio) ( M. avium and M. intracellulare ) following the manufacturer’s protocol.

Techniques: