TABLE 3

Cross-border clusters identified using an SNP-based approach

SNP-based cross-border clusters (≤5 SNPs threshold)
Cross-border cluster nameIsolates nCountries involved nLineage classification
snpCL 13034.8 (mainly T)
snpCL 22024.2.1 (Ural)
snpCL 31644.6.2 (Euro-American)
snpCL 41424.8 (mainly T)
snpCL 51324.2.1 (Ural)
snpCL 61334.8 (mainly T)
snpCL 71232.2.1 (Beijing)
snpCL 81244.2.2 (Euro-American)
snpCL 91224.8 (mainly T)
snpCL 101224.1.2.1 (Haarlem)
snpCL 111024.3.3 (LAM)
snpCL 121054.2.2 (Euro-American)
snpCL 13962.2.1 (Beijing)
snpCL 14742.2.1 (Beijing)
snpCL 15752.2.1 (Beijing)
snpCL 16722.2.1 (Beijing)
snpCL 17544.3.3 (LAM)
snpCL 18522.2.1 (Beijing)
snpCL 19524.8 (mainly T)
snpCL 20524.3.3 (LAM)
snpCL 21524.2.2.1 (TUR)
snpCL 22524.1.2.1 (Haarlem)
snpCL 23434.3.3 (LAM)
snpCL 24432.2.1 (Beijing)
snpCL 25–34#32 to 3
snpCL 35–5622

A sequential number from 1 to 56 was assigned to each cross-border cluster identified by SNP-based analysis, based on the size of the cluster and starting from the largest one. SNP: single nucleotide polymorphism; snpCL: SNP-based cluster. #: 10 clusters comprising three isolates from three (n=1) and two (n=9) countries, with the lineage distribution comprising 2.2.1 Beijing (n=3), 4.8 mainly T (n=2), 4.7 mainly T (n=1), 4.1.2.1 Haarlem (n=2), 4.2.2 Euro-American (n=1) and 4.1.1.1 X-type (n=1); : 22 clusters comprising two isolates from two countries, with the lineage distribution comprising 2.2.1 Beijing (n=7), 4.8 mainly T (n=3), 4.1.2.1 Haarlem (n=3), 4.2.1 Ural (n=2), 4.3.3 LAM (n=2), 4.3.1 LAM (n=1), 4.1.2 Euro-American (n=1), 4.2.2 Euro-American (n=1), 4.9, H37Rv-like (n=1) and 3 Delhi-CAS (n=1).