“…scRNA-seq has been extensively used to analyse the immune response (Chattopadhyay et al ., 2014; Chattopadhyay and Roederer, 2015; Buchholz et al ., 2016; Buchholz and Flossdorf, 2018) and could be applied to study the host response to kinetoplastid infection. Comparison of parasites resident in differing host tissues, such as an invasion of the lymph and blood systems, skin (Capewell et al ., 2016), adipose tissue (Trindade et al ., 2016; Tanowitz et al ., 2017) and brain (Grab and Kennedy, 2008; Kristensson et al ., 2010) by African trypanosomes (Alfituri et al ., 2020), should also be facilitated by scRNA-seq. In the case of T. cruzi , 10–30% of infected individuals will develop chronic Chagas (World Health Organization, 2002), where parasites invade the heart (Bellotti et al ., 1996), and, in infected mice, parasites have been detected in the skeletal muscle, heart, bladder, peripheral nerve, liver, spleen, adrenal gland, brain and adipose tissue (Buckner et al ., 1999).…”