Rigorous
studies of water, sanitation, and hygiene interventions
in low- and middle-income countries (LMICs) suggest that children
are exposed to enteric pathogens via multiple interacting pathways,
including soil ingestion. In 30 compounds (household clusters) in
low-income urban Maputo, Mozambique, we cultured
Escherichia
coli
and quantified gene targets from soils (
E. coli
:
ybbW
,
Shigella
/
enteroinvasive
E. coli
(EIEC):
ipaH
,
Giardia duodenalis
:
β-giardin
) using droplet digital PCR at
three compound locations (latrine entrance, solid waste area, dishwashing
area). We found that 88% of samples were positive for culturable
E. coli
(mean = 3.2 log
10
CFUs
per gram of dry soil), 100% for molecular
E. coli
(mean = 5.9 log
10
gene copies per gram of dry
soil), 44% for
ipaH
(mean = 2.5 log
10
), and 41% for
β-giardin
(mean = 2.1 log
10
). Performing stochastic quantitative microbial risk assessment
using soil ingestion parameters from an LMIC setting for children
12–23 months old, we estimated that the median annual infection
risk by
G. duodenalis
was 7100-fold
(71% annual infection risk) and by
Shigella
/EIEC
was 4000-fold (40% annual infection risk) greater than the EPA’s
standard for drinking water. Compounds in Maputo, and similar settings,
require contact and source control strategies to reduce the ingestion
of contaminated soil and achieve acceptable levels of risk.