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When Earth forms a large supercontinent then it looks like that plate tectonic activity does greatly reduce. The ocean traps CO2 and becomes stratified. Only the uppermost layer has oxygen recirculating and can support life, the deeps ocean becomes anoxic. Eventually heat build up under the continent breaks it apart and restarts the tectonics.
here is a recent article: Intermittent Plate tectonics Presumeably a waterworld would act in the same way, except without any trigger to release C02, so tectonics might not reactivate
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Then there's the "young Sun problem", where greenhouse gases are even more important. It's a pretty tricky business, we probably have our hands full with just understanding the perturbations to the current climate conditions on decadel timescales, let alone understanding the full history of the climate over billions of years!
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I disagree with the article. Life is much more resilent than our own ideas of that it can do. How long didn't life need to go from microbes to us? A few hundred millions of years? Take Mars for example. It's had liquid water oceans for about 700 million years. That's enough time for an intelligent species to emerge and go extinct long before the water dried up and the Hellas Impact Site happened.
What if a smaller earth had more radioactive elements and was tectonically active for a longer period of time?
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It's not just a case of "any germ will do".
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