Reply to Beavan, Bryant, and Storey and Matisoo-Smith: Ancestral Polynesian “D” haplotypes reflect authentic Pacific chicken lineages

Thomson, Vicki A.; Lebrasseur, Ophélie; Austin, Jeremy J.; Hunt, Terry L.; Burney, David A.; Denham, Tim; Rawlence, Nicolas J.; Wood, Jamie R.; Gongora, Jaime; Flink, Linus Girdland; Linderholm, Anna; Dobney, Keith; Larson, Greger; Cooper, Alan

doi:10.1073/pnas.1411566111

Cited by 8 publications

(5 citation statements)

References 12 publications

(13 reference statements)

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“…Additional results from a larger survey of chicken aDNA samples provided support for this hypothesis [71]. However, independent analyses of ancient and modern chicken mtDNA CR sequences robustly disputed this conclusion with suggestions of sloppy laboratory techniques and modern contamination [72,73], leading inevitably to heated scientific correspondence among the main protagonists [74][75][76][77].…”

Section: Ancient Dna: the Beginnings And Early Studies In Domestic Anmentioning

confidence: 99%

Unlocking the origins and biology of domestic animals using ancient DNA and paleogenomics

2019

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Animal domestication has fascinated biologists since Charles Darwin first drew the parallel between evolution via natural selection and human-mediated breeding of livestock and companion animals. In this review we show how studies of ancient DNA from domestic animals and their wild progenitors and congeners have shed new light on the genetic origins of domesticates, and on the process of domestication itself. High-resolution paleogenomic data sets now provide unprecedented opportunities to explore the development of animal agriculture across the world. In addition, functional population genomics studies of domestic and wild animals can deliver comparative information useful for understanding recent human evolution.

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Section: Ancient Dna: the Beginnings And Early Studies In Domestic Anmentioning

confidence: 99%

Unlocking the origins and biology of domestic animals using ancient DNA and paleogenomics

2019

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“…32 000 years for dry sites (Poinar et al ., ). Hot and humid locations do not favour DNA preservation, although small amounts may still be isolated if the microsite conditions are suitable (Larson et al ., ) and appropriate precautions against exogenous contamination are taken (Thomson et al ., ,). New in vitro DNA repair mechanisms and single‐stranded genomic library methods have the potential to increase the empirical limit of DNA detection to include mid‐Quaternary remains (see Meyer et al ., ).…”

Section: Climatic and Temporal Limits Of Palendna‐based Researchmentioning

confidence: 99%

Using palaeoenvironmental DNA to reconstruct past environments: progress and prospects

Rawlence

Lowe

Wood

et al. 2014

J Quaternary Science

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100

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Palaeoenvironmental DNA (PalEnDNA) is defined as ancient DNA (aDNA) originating from disseminated genetic material within palaeoenvironmental samples. Sources of PalEnDNA include marine and lake sediments, peat, loess, till, ice, permafrost, palaeosols, coprolites, preserved gut contents, dental calculus, tephras, and soils as well as deposits in caves/rockshelters and at archaeological sites. PalEnDNA analysis provides a relatively new tool for Quaternary and archaeological sciences and its applications have included palaeoenvironmental and palaeodietary reconstructions, testing hypotheses regarding megafaunal extinctions, human-environment interactions, taxonomic studies, and studies of DNA damage. Because PalEnDNA samples comprise markedly different materials, and represent wide-ranging depositional and taphonomic contexts, various issues must be addressed to achieve robust, reproducible findings. Such issues include climatic and temporal limitations, the biological origin and state (free versus bound) of PalEnDNA, stratigraphic reliability, sterile sampling, ability to distinguish modern from aDNA signals, DNA damage and PCR amplification, DNA extraction methods, and taxonomic resolution. In this review, we provide a non-specialist introduction to the use of PalEnDNA for Quaternary and archaeological researchers, assess attributes and limitations of this palaeoenvironmental tool, and discuss future prospects of using PalEnDNA to reconstruct past environments.

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“…Here, we focus on three high-profile cases of new claims that support Jones and Klar's model of Polynesian-American contact: (1) direct evidence for transfer of the domesticated chicken (Gallus gallus) from Polynesia to South America [96][97][98][99][100][101][102]; and, (2) skulls of two Polynesians within collections of human remains attributed to a Native American group in Central-Eastern Brazil (Botocudo) [103]; and, (3) full genomic study of modern Rapa Nui indicating pre-European contact admixture with Native Americans [104].…”

Section: Long-distance Contacts Between Polynesians and Native Americasmentioning

confidence: 99%

Dispersal, Isolation, and Interaction in the Islands of Polynesia: A Critical Review of Archaeological and Genetic Evidence

Horsburgh

McCoy

2017

Diversity

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Integration of archaeology, modern genetics, and ancient DNA holds promise for the reconstruction of the human past. We examine the advances in research on the indigenous peoples of Polynesia to determine: (1) what do archaeological and genetic data (ancient and modern DNA) tell us about the origins of Polynesians; and, (2) what evidence is there for long-distance travel and contacts between Polynesians and indigenous populations of the Americas? We note that the general dispersal pattern of founding human populations in the remote islands of the Pacific and long-distance interaction spheres continue to reflect well-established models. New research suggests that the formation of an Ancestral Polynesia Culture in Western Polynesia may have involved differential patterns of dispersal followed by significant later migrations. It has also been suggested that the pause between the settlement of Western and Eastern Polynesia was centuries longer than currently thought, followed by a remarkably rapid pulse of island colonization. Long-distance travel between islands of the Pacific is currently best documented through the sourcing of artifacts, while the discovery of admixture of Native American DNA within the genome of the people from Easter Island (Rapa Nui) is strong new evidence for sustained contacts between Polynesia and the Americas.

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Reply to Beavan, Bryant, and Storey and Matisoo-Smith: Ancestral Polynesian “D” haplotypes reflect authentic Pacific chicken lineages

Cited by 8 publications

References 12 publications

Unlocking the origins and biology of domestic animals using ancient DNA and paleogenomics

Unlocking the origins and biology of domestic animals using ancient DNA and paleogenomics

Using palaeoenvironmental DNA to reconstruct past environments: progress and prospects

Dispersal, Isolation, and Interaction in the Islands of Polynesia: A Critical Review of Archaeological and Genetic Evidence

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