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•Syngnathids are highly susceptible to overfishing and exploitation.•Shipments often contain specimens from various species and locations.•The COI mitochondrial gene is suitable to identify specimens to species level.•The COI gene is unable to identify the precise origin of a specimen.

Fourteen species of subtidal macrobenthos present in thirteen Eastern Cape estuaries, South Africa, were compared with regard to correlations with two important environmental variables (salinity and sediment mud content). Species were divided into five different faunal components based on their affinity with one of the two variables, namely marine species, oligohaline species, estuarine sand species, estuarine mud species, and species whose distribution seemed independent of either environmental variable. Although most species exhibited wide tolerance ranges to both environmental variables, preference ranges could be identified in many cases. Among the fourteen species studied, three were found mostly at high salinities, two were confined to sandy substratum, and four showed a clear preference for muddy sediment. The crab Paratylodiplax algoensewas identified as a euryhaline marine species and the larvae of chironomid midges, previously believed to be oligohaline species, were found to be tolerant to near seawater salinities.

Unusually low genetic diversity can be a warning of an urgent need to mitigate causative anthropogenic activities. However, current low levels of genetic diversity in a population could also be due to natural historical events, including recent evolutionary divergence, or long-term persistence at a small population size. Here, we determine whether the relatively low genetic diversity of pygmy blue whales (Balaenoptera musculus brevicauda) in Australia is due to natural causes or overexploitation. We apply recently developed analytical approaches in the largest genetic dataset ever compiled to study blue whales (297 samples collected after whaling and representing lineages from Australia, Antarctica and Chile). We find that low levels of genetic diversity in Australia are due to a natural founder event from Antarctic blue whales (Balaenoptera musculus intermedia) that occurred around the Last Glacial Maximum, followed by evolutionary divergence. Historical climate change has therefore driven the evolution of blue whales into genetically, phenotypically and behaviourally distinct lineages that will likely be influenced by future climate change.