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Age of DiscoveryMedicine & Health

Cocoliztli epidemics in Mexico

1545NotableContested

Epidemics in 1545 and 1576 kill millions of Indigenous people in New Spain; the cause is still debated.

The story

In 1545, a devastating epidemic swept through central and southern Mexico, then the colony of New Spain. The Nahuatl word cocoliztli simply means "pestilence". Sufferers had high fevers, headaches and bleeding, and died within days. Indigenous communities were hit hardest. Contemporary accounts and later estimates suggest the 1545 to 1548 outbreak killed somewhere between 5 and 15 million people, perhaps half or more of the surviving Indigenous population. A second great cocoliztli in 1576 to 1580 killed perhaps 2 million more.

The conquest had already shattered Indigenous societies through war, smallpox and other diseases. Its cause is still debated. In 2018 scientists analyzing DNA from victims buried at Teposcolula-Yucundaa in Oaxaca found the bacterium Salmonella enterica Paratyphi C, which causes enteric fever, suggesting it was introduced from Europe. Others argue the symptoms fit a native hemorrhagic fever spread by rodents, perhaps triggered by severe drought followed by rain, which tree rings record. Several diseases may have struck at once.

Why it mattered

  • Indigenous population collapse in Mexico deepened labor shortages that pushed Spain toward the repartimiento and African slavery.
  • Colonial authorities moved survivors into new towns (congregaciones), reshaping settlement patterns across Mexico.
  • Ancient DNA research on cocoliztli became a landmark in using genetics to identify historical epidemics.

Contested history

Consensus: Cocoliztli epidemics killed millions of Indigenous people in 16th-century Mexico, but the pathogen or pathogens responsible are debated.

Salmonella enterica Paratyphi C (enteric fever) caused the 1545 epidemicDebated
Ancient DNA from victims at Teposcolula-Yucundaa supports this, though one site cannot settle the cause everywhere.
A native hemorrhagic fever spread by rodents after drought caused itDebated
Rodolfo Acuna-Soto and colleagues argue the symptoms and tree-ring drought records fit this explanation.
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Several diseases struck at once among weakened populationsDebated
Many historians think multiple pathogens and colonial conditions combined.
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