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As far as I can see, Mallapaty tells us nothing new and proves nothing. The swabs were taken after the first human infections were known and infected people known to have frequented the market. It’s also well known, what kinds of animals were sold there. So finding both kinds of DNA in one swab is unsurprising and tells us no more, than that both species were present in the same place at the same time, not that they did so in the same body.
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In archaeology any phenomenon is often assumed to begin right at the time of our oldest surviving find pertaining to it. Statistically of course this is patent nonsense except for later times, when our finds become sufficiently dense and plentiful. So treating the accepted Oldowan sites as a small sample, the Lomekwian age is by no means a total outlier that can’t belong as Flicker & Key demonstrate.