Human origins in a southern African palaeo-wetland and first migrations

Chan, Eva; Timmermann, Axel; Baldi, Benedetta Frida; Moore, A. E.; Lyons, Ruth J.; Lee, Sun‐Seon; Kalsbeek, Anton M.F.; Petersen, Desiree C.; Rautenbach, Hannes; Förtsch, Hagen E. A.; Bornman, M. S.; Hayes, Vanessa M.

doi:10.1038/s41586-019-1714-1

Cited by 87 publications

(62 citation statements)

References 75 publications

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“…As a whole, all populations of Dataset Ⅰ were clustered into two large clusters (AFR and others). The clustering relationships could provide circumstantial evidences for the out-of-Africa hypothesis (Eve hypothesis) [129][130][131][132][133][134][135][136][137][138][139][140][141]. Except the AFR cluster, the other cluster could separate two main sub-clusters (European and Asian cluster).…”

Section: Heatmapmentioning

confidence: 99%

The forensic landscape and the population genetic analyses of Hainan Li based on massively parallel sequencing DNA profiling

Fan

Wang

et al. 2020

Preprint

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Due to the formation of the Qiongzhou Strait by climate change and marine transition, Hainan island isolated from the mainland southern China during the Last Glacial Maximum. Hainan island, located at the southernmost part of China and separated from the Leizhou Peninsula by the Qiongzhou Strait, laid on one of the modern human northward migration routes from Southeast Asia to East Asia. The Hlai-language speaking Li minority, the second largest population after Han Chinese in Hainan island, is the direct descendants of the initial migrants in Hainan island and has unique ethnic properties and derived characteristics, however, the forensic associated studies on Hainan Li population are still insufficient.Hence, 136 Hainan Li individuals were genotyped in this study using the MPS-based ForenSeq™ DNA Signature Prep Kit (DNA Primer Set A) to characterize the forensic genetic polymorphism landscape, and DNA profiles were obtained from 152 different molecular genetic markers (27 autosomal STRs, 24 Y-STRs, 7 X-STRs, and 94 iiSNPs). A total of 419 distinct length variants and 586 repeat sequence sub-variants, with 31 novel alleles (at 17 loci), were identified across the 58 STR loci from the DNA profiles of Hainan Li population. We evaluated the forensic characteristics and efficiencies of DAPA, it demonstrated that the STRs and iiSNPs in DAPA were highly polymorphic in Hainan Li population and could be employed in forensic applications. In addition, we set up three Datasets, which included the genetic data of (Ⅰ). iiSNPs (27 populations, 2640 individuals), (Ⅱ). Y-STRs (42 populations, 8281 individuals), and (Ⅲ). Yhaplogroups (123 populations, 4837 individuals) along with the population ancestries and language families, to perform population genetic analyses separately from different perspectives.In conclusion, the phylogenetic analyses indicated that Hainan Li, with a southern East Asia origin and Tai-Kadai language-speaking language, is an isolated population relatively. But the genetic pool of Hainan Li influenced by the limited gene flows from other Tai-Kadai populations and Hainan populations. Furthermore, the establishment of isolated population models will be beneficial to clarify the exquisite population structures and develop specific genetic markers for subpopulations in forensic genetic fields. Signature Prep Kit; Massively parallel sequencing. mass landings of the Han (since BC 214 in Qin Dynasty) and Lingao people (about BC 500 during the Spring and Autumn period) compressed the living space of Hainan Li, making Li from the north to the south of Hainan island [1,2,9,29,30]. (Nowadays, the main distributions of Hainan Li minority are shown in Fig. 1C.) In all ages, ever since the primordial settlements in Hainan island, Hlai language was the dominant language for the original migrants and their descendants, and the intangible cultural and spiritual heritages within Hainan Li were preserved by oral transmission without ancient writings to hand down. Hlai, which is one important branch of the Tai-Kadai languag...

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Section: Heatmapmentioning

confidence: 99%

The forensic landscape and the population genetic analyses of Hainan Li based on massively parallel sequencing DNA profiling

Fan

Wang

et al. 2020

Preprint

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“…Although single‐origin theories still persist (e.g., Chan et al. 2019), in light of the evidence outlined above, a modern human origin scenario that includes multiple episodes of introgression with contributions from Africa and Eurasia, widespread interactions between populations across Africa, and early migrations out of Africa (and possibly back into Africa), seems to be our current best‐supported model.…”

Section: The Changing Narrative Of Modern Human Originsmentioning

confidence: 98%

Revolutionary Fossils, Ancient Biomolecules, and Reflections in Ethics and Decolonization: Paleoanthropology in 2019

Schroeder

2020

American Anthropologist

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Over the past few decades, paleoanthropology has undergone a transformative shift away from studies focused solely on traditional assessments of skeletal anatomy. Prior to this shift, a review highlighting a year of research may have primarily consisted of a description of new fossil discoveries; in 2019, however, this review also incorporates novel subject matters such as ancient DNA, paleoproteomics, and studies applying a wide array of new analytical methods and theoretical frameworks to paleoanthropological questions. Through these new advances, the nonlinearity and complexity of hominin evolution has been illuminated, emphasizing the importance of interdisciplinary work in progressing the field. In addition, similar to the broader discipline of biological anthropology, the topic of decolonization has been reflected on and discussed. Further, researchers in paleoanthropology are grappling with important issues related to open access and data sharing. In light of this widening scope, this review centers on a collection of studies that focus on five key themes: (1) new discoveries; (2) data sharing and ethics; (3) human origins research; (4) paleogenomics, and new advancements in paleoproteomics; and (5) introspection on a colonial history. Paleoanthropology is coming of age, and in 2019 especially, published research has been reflective of this. [Evolutionary anthropology; human evolution; year in review; human origins]

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“…Phylogeographic inference is an approach to reconstruct population histories that was especially popular in the early days of past demographic inference using genetic data (e.g. [8,9] but also [10]02/03/2020 15:16:00). Here, a phylogenetic tree is constructed based on the substitutions (mutations) in a single locus (usually a non-recombining part of the genome like the mitochondrial DNA or the Y chromosome).…”

Section: Pattern-based Approaches To Demographic Inferencementioning

confidence: 99%

Sometimes Hidden but Always There: Assumptions Behind Demographic Inference from Ancient DNA Data

Loog¹

2020

Preprint

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Demographic processes directly affect patterns of genetic variation within contemporary populations as well as future generations, allowing for demographic inference from patterns of both present day and past genetic variation. Advances in laboratory procedures and sequencing and genotyping technologies in the last decades have resulted in massive increases in high quality genome-wide genetic data from present day populations and allowed retrieving genetic data from archaeological material, also known as ancient DNA. This has resulted in an explosion of work exploring past changes in population size, structure, continuity and movement. However, as genetic processes are highly stochastic, patterns of genetic variation only indirectly reflect demographic histories. As a result, past demographic processes need to be reconstructed using an inferential approach. This usually involves comparing observed patterns of variation with model expectations from theoretical population genetics. A large number of approaches have been developed based on different population genetic models that each come with assumptions about the data and underlying demography. In this article I review some of the key models and assumptions underlying the most commonly used approaches for past demographic inference and their consequences for our ability to link the inferred demographic processes to the archaeological and climate records.

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Human origins in a southern African palaeo-wetland and first migrations

Cited by 87 publications

References 75 publications

The forensic landscape and the population genetic analyses of Hainan Li based on massively parallel sequencing DNA profiling

The forensic landscape and the population genetic analyses of Hainan Li based on massively parallel sequencing DNA profiling

Revolutionary Fossils, Ancient Biomolecules, and Reflections in Ethics and Decolonization: Paleoanthropology in 2019

Sometimes Hidden but Always There: Assumptions Behind Demographic Inference from Ancient DNA Data

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