Abstract Monopisthocotylan parasites have been proposed as tags for studying host population structure due to their direct life cycles and short generation times. However, their effectiveness in reflecting host population connectivity remains under scrutiny. The poorly-understood connectivity of fisheries stocks in Lake Tanganyika, the second deepest lake in the world with a permanently stratified, relatively species-poor and well-delimited pelagic zone, serves as a case-study to test utility of parasites for fish stock identification. This study investigates the population structure of two Kapentagyrus species parasitizing dorosomatid fish in Lake Tanganyika, by analyzing variation in mitochondrial protein-coding genes across a geographic gradient. The study comprised 12 population genomic datasets from the central and southern subbasins of the lake sampled within the same week to account for host migration. We observed differences in geographic population structure of the two parasite species, with restricted gene flow in Kapentagyrus limnotrissae infecting a single dorosomatid species and smaller hosts preferring the littoral zone. Conversely, K. tanganicanus exhibited no geographical structure, reflecting its broader host range and preference for larger hosts preferring the pelagic zone. The results also highlight that other mitochondrial genes such as those from the dehydrogenase family or atp6 provide higher resolution for population genetic studies in these parasites than the frequently used cox1 . The study also compared two sequencing strategies—individual versus pooled sequencing (PoolSeq)—for assessing population structure of monopisthocotylan parasites, and found that PoolSeq yielded similar results with lower demands on individual DNA quantity and sequencing costs. This work supports the use of host-specific, directly transmitted parasites as ecosystem tags and provides valuable insights into the role of host ecology and parasite life-history traits in shaping population dynamics.
Kmentová et al. (2026) studied this question.