Resolving a clinical tuberculosis outbreak using palaeogenomic genome reconstruction methodologies
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Resolving a clinical tuberculosis outbreak using palaeogenomic genome reconstruction methodologies. / Jones, Rhys; Velasco, Marcela Sandoval; Harris, Llinos G.; Morgan, Sue; Temple, Mark; Ruddy, Michael C.; Williams, Rhian; Perry, Michael D.; Hitchings, Matt; Wilkinson, Thomas S.; Humphrey, Thomas; Gilbert, M. Thomas P.; Davies, Angharad P.
In: Tuberculosis, Vol. 119, 101865, 12.2019.Research output: Contribution to journal › Journal article › Research › peer-review
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TY - JOUR
T1 - Resolving a clinical tuberculosis outbreak using palaeogenomic genome reconstruction methodologies
AU - Jones, Rhys
AU - Velasco, Marcela Sandoval
AU - Harris, Llinos G.
AU - Morgan, Sue
AU - Temple, Mark
AU - Ruddy, Michael C.
AU - Williams, Rhian
AU - Perry, Michael D.
AU - Hitchings, Matt
AU - Wilkinson, Thomas S.
AU - Humphrey, Thomas
AU - Gilbert, M. Thomas P.
AU - Davies, Angharad P.
PY - 2019/12
Y1 - 2019/12
N2 - This study describes the analysis of DNA from heat-killed (boilate) isolates of Mycobacterium tuberculosis from two UK outbreaks where DNA was of sub-optimal quality for the standard methodologies routinely used in microbial genomics. An Illumina library construction method developed for sequencing ancient DNA was successfully used to obtain whole genome sequences, allowing analysis of the outbreak by gene-by-gene MLST, SNP mapping and phylogenetic analysis. All cases were spoligotyped to the same Haarlem H1 sub-lineage. This is the first described application of ancient DNA library construction protocols to allow whole genome sequencing of a clinical tuberculosis outbreak. Using this method it is possible to obtain epidemiologically meaningful data even when DNA is of insufficient quality for standard methods.
AB - This study describes the analysis of DNA from heat-killed (boilate) isolates of Mycobacterium tuberculosis from two UK outbreaks where DNA was of sub-optimal quality for the standard methodologies routinely used in microbial genomics. An Illumina library construction method developed for sequencing ancient DNA was successfully used to obtain whole genome sequences, allowing analysis of the outbreak by gene-by-gene MLST, SNP mapping and phylogenetic analysis. All cases were spoligotyped to the same Haarlem H1 sub-lineage. This is the first described application of ancient DNA library construction protocols to allow whole genome sequencing of a clinical tuberculosis outbreak. Using this method it is possible to obtain epidemiologically meaningful data even when DNA is of insufficient quality for standard methods.
KW - Ancient DNA library construction
KW - Mycobacterium tuberculosis
KW - Outbreak investigation
KW - Palaeogenomics
KW - Whole genome sequencing
U2 - 10.1016/j.tube.2019.101865
DO - 10.1016/j.tube.2019.101865
M3 - Journal article
C2 - 31563810
AN - SCOPUS:85072609410
VL - 119
JO - Tuberculosis
JF - Tuberculosis
SN - 1472-9792
M1 - 101865
ER -
ID: 230200977