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Ancient DNA reveals a family ossuary and long-distance migration on the Pacific coast before the Inca Empire

PRJEB98110 Original Paper / DOI2026-05-2221 samples (study)

AI interpretationAI-generated

Ancient DNA from Peru's Chincha Valley reveals coastal migration and a family ossuary before the Inca Empire.

This study analyzes genomes from 21 individuals buried in a family ossuary in Peru's Chincha Valley. They share ancestry with groups about 700 km north, showing long-distance coastal migration by the 13th century. Early migrants had unmixed ancestry, but later generations intermarried with neighboring coastal groups. The family practiced close-kin marriage. A Bayesian model using DNA and diet data provided precise dating, showing population continuity from the 13th to 15th centuries, alongside traditions of cranial modification and red pigment use.

Sample interpretation

All 21 individuals were from the Chincha Valley. Y-chromosome analysis resolved 12 samples, all belonging to haplogroup Q, with Q-Z5910 (4 samples) and Q-Y805 (3) most common. Mitochondrial DNA showed B2 (5), B2b (2), C1b (2), D1 (2), and A2 (1). These lineages are typical of ancient and modern Indigenous South Americans, supporting local continuity and coastal connections.

For genealogy enthusiasts

For ancestry enthusiasts, this study shows how ancient DNA can trace family structures, migration, and marriage patterns in pre-Inca Peru. It highlights the power of combining genetics with archaeological context to reveal complex social networks along the Pacific coast.

Abstract

This paper tracks long-distance migration on the Pacific coast that began no later than the thirteenth century CE. Genome-wide data for all 21 sampled individuals from the Chincha Valley of southern Peru show shared ancestry with groups ~700 km to the north. The earliest migrants have unadmixed ancestry, whereas in subsequent generations, intermarriage produced admixtures from neighboring coastal areas. Relatives buried together in a family ossuary practiced consanguineous endogamy. We built a generation-scale Bayesian model informed by an aDNA-based family tree and individual calibration curves for estimated proportions of marine diet, overcoming long-standing difficulties with temporal precision on the Pacific coast. These data demonstrate population continuity from the thirteenth to fifteenth centuries, coinciding with persistent traditions of cranial modification and postmortem red pigment application. We reveal close-knit and far-reaching coastal interaction networks that shaped the sociopolitical landscape encountered by Inca emissaries before they integrated these communities into their empire.

Samples & Data on TheYtree

21samples on site
12Y haplogroup resolved

Paternal (Y-DNA) Haplogroups

HaplogroupSamples
Q-Z5910 4
Q-Y805 3
Q-M848 2
Q-FT317594 1
Q-Z5908 1
Q-Y165190 1

Maternal (mtDNA) Haplogroups

Sample Highlights More samples →

SampleY-DNAmtDNACulture / Period
iPCR138_SC128_L1704 Q-Z5910 C1 · the thirteenth to fifteenth centuries
iPCR138_SC128_L1705 Q-Z5908 A2-x-T16111C! · the thirteenth to fifteenth centuries
iPCR146_SC135_L1815 Q-M848 B2 · the thirteenth to fifteenth centuries
iPCR146_SC135_L1816 Q-Z5910 B2 · the thirteenth to fifteenth centuries
iPCR146_SC135_L1818 Q-FT317594 A-a1 · the thirteenth to fifteenth centuries
iPCR146_SC135_L1820 Q-Y805 B2 · the thirteenth to fifteenth centuries
iPCR183_SC168_L2495 Q-Z5910 C1b · the thirteenth to fifteenth centuries
iPCR183_SC168_L2499 Q-Z5910 C1b · the thirteenth to fifteenth centuries
iPCR183_SC168_L2500 Q-Y165190 D1 · the thirteenth to fifteenth centuries
iPCR183_SC168_L2503 Q-Y805 B2b · the thirteenth to fifteenth centuries