As I understand the Phys.org article poster 41 above has is about right. The mitochondrial DNA barcode for each species is like a genetic clock that diverges over time as mutations accumulate. All the article is suggesting is that there was a global event 100,000 to 200,000 years ago similar to one that caused the extinction of the dinosaurs 65 million years ago but less dramatic. It could have been a new virus or ice age or something that killed off most of the world’s species. The small number of survivors became the ancestors to all the current living species including us and essentially reset the mitDNA clock for all species to about the same zero hour. This probably has happened many time in the billions of years of evolution and further confirms the validity of evolutionary theory rather than refutes it.
The eruption of the Toba supervolcano 75,000 years ago has been estimated to have dropped the human population to around 10,000 globally. So I do agree that there can be lesser events than super-extinctions such as the Permian that can bottleneck species. However, that does not mean the species emerged at the point, just that an event came along that diminished the species to a few individuals. That is the drawback to such genetic studies - they pay no attention to the fossil record.