@article{fdi:010062551,
  title = {{O}ptimized multilocus sequence typing ({MLST}) scheme for {T}rypanosoma cruzi},
  author = {{D}iosque, {P}. and {T}omasini, {N}. and {L}authier, {J}. {J}. and {M}essenger, {L}. {A}. and {R}umi, {M}. {M}. {M}. and {R}agone, {P}. {G}. and {A}lberti-{D}'{A}mato, {A}. {M}. and {B}randan, {C}. {P}. and {B}arnab{\'e}, {C}hristian and {T}ibayrenc, {M}ichel and {L}ewis, {M}. {D}. and {L}lewellyn, {M}. {S}. and {M}iles, {M}. {A}. and {Y}eo, {M}.},
  editor = {},
  language = {{ENG}},
  abstract = {{T}rypanosoma cruzi, the aetiological agent of {C}hagas disease possess extensive genetic diversity. {T}his has led to the development of a plethora of molecular typing methods for the identification of both the known major genetic lineages and for more fine scale characterization of different multilocus genotypes within these major lineages. {W}hole genome sequencing applied to large sample sizes is not currently viable and multilocus enzyme electrophoresis, the previous gold standard for {T}. cruzi typing, is laborious and time consuming. {I}n the present work, we present an optimized {M}ultilocus {S}equence {T}yping ({MLST}) scheme, based on the combined analysis of two recently proposed {MLST} approaches. {H}ere, thirteen concatenated gene fragments were applied to a panel of {T}. cruzi reference strains encompassing all known genetic lineages. {C}oncatenation of 13 fragments allowed assignment of all strains to the predicted {D}iscrete {T}yping {U}nits ({DTU}s), or near-clades, with the exception of one strain that was an outlier for {T}c{V}, due to apparent loss of heterozygosity in one fragment. {M}onophyly for all {DTU}s, along with robust bootstrap support, was restored when this fragment was subsequently excluded from the analysis. {A}ll possible combinations of loci were assessed against predefined criteria with the objective of selecting the most appropriate combination of between two and twelve fragments, for an optimized {MLST} scheme. {T}he optimum combination consisted of 7 loci and discriminated between all reference strains in the panel, with the majority supported by robust bootstrap values. {A}dditionally, a reduced panel of just 4 gene fragments displayed high bootstrap values for {DTU} assignment and discriminated 21 out of 25 genotypes. {W}e propose that the seven-fragment {MLST} scheme could be used as a gold standard for {T}. cruzi typing, against which other typing approaches, particularly single locus approaches or systematic {PCR} assays based on amplicon size, could be compared.},
  keywords = {{AMERIQUE} {LATINE}},
  booktitle = {},
  journal = {{P}los {N}eglected {T}ropical {D}iseases},
  volume = {8},
  numero = {8},
  pages = {e3117},
  ISSN = {1935-2735},
  year = {2014},
  DOI = {10.1371/journal.pntd.0003117},
  URL = {https://www.documentation.ird.fr/hor/fdi:010062551},
}