Table 1 Overview of all newly sequenced Mycobacterium leprae genomes. The age of the samples is either given in archeological dates (italic) or radiocarbon dates. The age of all directly dated samples is provided in calibrated CE. The listed SNP types are determined according to the new SNP typing system [46]. Following this new system, a new SNP was determined for the BEL024 sample (labeled with an asterisk), but according to the SNP typing system by Monot and colleagues [42] the sample would be classified as 3L
From: Mycobacterium leprae diversity and population dynamics in medieval Europe from novel ancient genomes
Sample | Sample age (14C dates: non-italics; archeological ages: italics) | Location | Mean coverage | Coverage ≥ 1× in % | Coverage ≥ 3× in % | Genotype (new) | Branch |
|---|---|---|---|---|---|---|---|
R7546-671 | 19th–20th century CE | St. Petersburg, Russia | 16.51 | 97.16 | 94.96 | 2F | 2F |
UF11 | 18th century CE | Sant Llàtzer, Barcelona, Spain | 6.71 | 85.67 | 61.80 | 3I-1 | 3 |
UF8 | 16th century CE | Sant Llàtzer, Barcelona, Spain | 1.46 | 67.52 | 18.99 | 3I-1 | 3 |
UF21 | 1431–1611 cal CE | Sant Llàtzer, Barcelona, Spain | 4.11 | 92.14 | 67.70 | 3I-1 | 3 |
UF25 | 1423–1466 cal CE | Sant Llàtzer, Barcelona, Spain | 33.09 | 97.40 | 95.73 | 3K-0 | 0 |
JDS097 | 1231–1384 cal CE | Hospital of St. John, Cambridge, UK | 12.81 | 96.89 | 94.27 | 3I-1 | 3 |
PAVd’09_I.5 | 1283–1396 cal CE | Valle da Gafaria, Lagos, Portugal | 96.82 | 97.40 | 97.44 | 3I-1 | 3 |
Bergen | 1268–1388 cal CE | Nonneseter, Bergen, Norway | 110.61 | 97.45 | 97.44 | 3I-1 | 3 |
UF700 | 1035–1165 cal CE | Sant Llàtzer, Barcelona, Spain | 19.45 | 97.53 | 96.91 | 3I-1 | 3 |
UF101 | 1027–1157 cal CE | Sant Llàtzer, Barcelona, Spain | 21.28 | 13.70 | 97.39 | 3I-1 | 3 |
UF800 | 12th–early 13th century CE | Sant Llàtzer, Barcelona, Spain | 3.34 | 86.27 | 52.63 | 2F | 2F |
COR_XVIII | 12th–early 13th century CE | Cordiñanes de Valdeón, León, Spain | 2.49 | 67.28 | 32.39 | 3K-0 | 0 |
UF703 | 1040–1208 cal CE | Sant Llàtzer, Barcelona, Spain | 26.94 | 97.44 | 96.19 | 3K-0 | 0 |
KirkHill | 1030–1155 cal CE | Kirk Hill, St Andrews, Scotland | 6.86 | 94.85 | 81.01 | 3I-1 | 3 |
UF803 | 1023–1157 cal CE | Sant Llàtzer, Barcelona, Spain | 6.18 | 91.01 | 69.77 | 3K-0 | 0 |
CHRY044 | 1034–1175 cal CE | Cherry Hinton, Cambridge, UK | 18.09 | 96.31 | 92.35 | 3I-1 | 3 |
BEL024 | 1035–1203 cal CE | Byhau, Magileu, Belarus | 43.86 | 97.71 | 97.51 | 3Q (New*) | 4 |
CHRY023 | 1034–1162 cal CE | Cherry Hinton, Cambridge, UK | 7.01 | 96.53 | 89.75 | 3I-1 | 3 |
EDI006 | 575–650 cal CE | Edix Hill, Cambridgeshire, UK | 23.71 | 97.64 | 97.43 | 3I-1 | 3 |