Trypanothione (T(SH)
2
) is the main antioxidant metabolite for peroxide reduction in
Trypanosoma cruzi
; therefore, its metabolism has attracted attention for therapeutic intervention against Chagas disease. To validate drug targets within the T(SH)
2
metabolism, the strategies and methods of Metabolic Control Analysis and kinetic modeling of the metabolic pathway were used here, to identify the steps that mainly control the pathway fluxes and which could be appropriate sites for therapeutic intervention. For that purpose, gamma-glutamylcysteine synthetase (γECS), trypanothione synthetase (TryS), trypanothione reductase (TryR) and the tryparedoxin cytosolic isoform 1 (TXN1) were separately overexpressed to different levels in
T. cruzi
epimastigotes and their degrees of control on the pathway flux as well as their effect on drug resistance and infectivity determined. Both experimental
in vivo
as well as
in silico
analyses indicated that γECS and TryS control T(SH)
2
synthesis by 60–74% and 15–31%, respectively. γECS overexpression prompted up to a 3.5-fold increase in T(SH)
2
concentration, whereas TryS overexpression did not render an increase in T(SH)
2
levels as a consequence of high T(SH)
2
degradation. The peroxide reduction flux was controlled for 64–73% by TXN1, 17–20% by TXNPx and 11–16% by TryR. TXN1 and TryR overexpression increased H
2
O
2
resistance, whereas TXN1 overexpression increased resistance to the benznidazole
plus
buthionine sulfoximine combination. γECS overexpression led to an increase in infectivity capacity whereas that of TXN increased trypomastigote bursting. The present data suggested that inhibition of high controlling enzymes such as γECS and TXN1 in the T(SH)
2
antioxidant pathway may compromise the parasite's viability and infectivity.