A5049108661- Forensic and Genetic Research
- Genetic diversity and population structure
- Global Maritime and Colonial Histories
- Pacific and Southeast Asian Studies
- Genomics and Phylogenetic Studies
- Asian Studies and History
- Epigenetics and DNA Methylation
- Forensic Anthropology and Bioarchaeology Studies
- RNA modifications and cancer
- Identification and Quantification in Food
- RNA Research and Splicing
- Genetic Associations and Epidemiology
- Gut microbiota and health
- Anthropological Studies and Insights
- Genetic Mapping and Diversity in Plants and Animals
- Bacterial Identification and Susceptibility Testing
- Plant Disease Resistance and Genetics
- Cleft Lip and Palate Research
- Food Security and Socioeconomic Dynamics
- Language and cultural evolution
- Linguistic Variation and Morphology
- Chromosomal and Genetic Variations
- HIV Research and Treatment
- Peanut Plant Research Studies
- RNA and protein synthesis mechanisms
Institute of Nanotechnology
2024
Eijkman Institute for Molecular Biology
2015-2022
Nanyang Technological University
2019-2022
AMIS - Laboratoire d'anthropologie moléculaire et imagerie de synthèse
2015-2018
Université de Toulouse
2015-2018
Université Toulouse III - Paul Sabatier
2016-2018
Centre National de la Recherche Scientifique
2016-2018
Islamic University of Indonesia
2017
University of Agricultural Sciences, Dharwad
2010
It is commonly thought that human genetic diversity in non-African populations was shaped primarily by an out-of-Africa dispersal 50–100 thousand yr ago (kya). Here, we present a study of 456 geographically diverse high-coverage Y chromosome sequences, including 299 newly reported samples. Applying ancient DNA calibration, date the Y-chromosomal most recent common ancestor (MRCA) Africa at 254 (95% CI 192–307) kya and detect cluster major founder haplogroups narrow time interval 47–52 kya,...
Significance The origins of the Malagasy raise questions about ancient connections between continents; moreover, because ancestors are fundamental to society, is also a heated topic around country, with numerous proposed hypotheses. This study provides comprehensive view genomic diversity (including maternal lineages, paternal and genome-wide data) based on sampling 257 villages across Madagascar. observed spatial patterns lead scenario recent sex-biased admixture Bantu Austronesian island....
Linguistic, cultural and genetic characteristics of the Malagasy suggest that both Africans Island Southeast Asians were involved in colonization Madagascar. Populations from Indonesian archipelago played an especially important role because linguistic evidence suggests language branches Barito family southern Borneo, Indonesia, with closest spoken today by Ma'anyan. To test for a link between these linguistically related populations, we studied Ma'anyan other ethnic groups (including sea...
Malagasy genetic diversity results from an exceptional protoglobalization process that took place over a thousand years ago across the Indian Ocean. Previous efforts to locate Asian origin of highlighted Borneo broadly as potential source, but so far no firm source populations were identified. Here, we have generated genome-wide data two Southeast populations, Banjar and Ngaju, together with published Ocean region. We find strong support for ancestry among Banjar. This group emerged...
Abstract The Austronesian expansion, one of the last major human migrations, influenced regions as distant tropical Asia, Remote Oceania and Madagascar, off east coast Africa. identity Asian groups that settled Madagascar is particularly mysterious. While language connects to Ma’anyan southern Borneo, haploid genetic data are more ambiguous. Here, we screened genome-wide diversity in 211 individuals from surrounding Borneo. Surprisingly, characterized by a distinct, high frequency genomic...
The Bajo, the world's largest remaining sea nomad group, are scattered across hundreds of recently settled communities in Island Southeast Asia, along coasts Indonesia, Malaysia and Philippines. With a significant role historical trading, Bajo lived until as nomads, spending their entire lives on houseboats while moving long distances to fish trade. Along routes they traveled, intermarried with local land-based groups, leading 'maritime creolization', process whereby retained culture, but...
The Austronesian dispersal across the Indonesian Ocean to Madagascar and Comoros has been well documented, but in an unexplained anomaly, few no traces have found of expansion East Africa or Arabian Peninsula. To revisit this peculiarity, we surveyed Western Indian rim populations identify potential genetic ancestry. We generated full mitochondrial DNA genomes genome-wide genotyping data for these individuals compared them with Banjar, source population westward dispersal. find strong...
The Indian Ocean has long been a hub of interacting human populations. Following land- and sea-based routes, trade drove cultural contacts between far-distant ethnic groups in Asia, India, the Middle East Africa, creating one world's first proto-globalized environments. However, extent to which population mixing was mediated by is poorly understood. Reconstructing admixture times from genomic data 3,006 individuals 187 regional populations reveals close association bouts migration volumes...
Indonesia is the world's fourth most populous country, host to striking levels of human diversity, regional patterns admixture, and varying degrees introgression from both Neanderthals Denisovans. However, it has been largely excluded genomics sequencing boom last decade. To serve as a benchmark dataset molecular phenotypes across region, we generated genome-wide CpG methylation gene expression measurements in over 100 individuals three locations that capture major genomic geographical axes...
Lack of diversity in human genomics limits our understanding the genetic underpinnings complex traits, hinders precision medicine, and contributes to health disparities. To map effects on gene regulation underrepresented Indonesian population, we have integrated genotype, expression, CpG methylation data from 115 participants across three island populations that capture major sources genomic region. In a comparison with European datasets, identify eQTLs shared between Indonesia Europe as...
Despite established roles in human health and profound global diversity, existing gut microbiome datasets are biased toward Western urban cohorts, with especial under-representation of Southeast Asia. Here, we present a novel dataset from 116 Indonesian individuals representing diverse cline transitional hunter-gatherers to rural agricultural lifestyles. We identify 1,304 species 3,258 subspecies by assembling 11,070 metagenome-assembled genomes, revealing substantial (15%) subspecies-level...
Theories of early cooperation in human society often draw from a small sample ethnographic studies surviving populations hunter-gatherers, most which are now sedentary. Borneo hunter-gatherers (Punan, Penan) have seldom figured comparative research because decades-old controversy about whether they the descendants farmers who adopted hunting and gathering way life. In 2018 we began an study group still-nomadic call themselves Punan Batu (Cave Punan). Our genetic analysis clearly indicates...
Borneo was a crossroad of ancient dispersals, with some the earliest Southeast Asian human remains and rock art. The island is home to traditionally hunter-gatherer Punan communities, whose origins, whether subsistence reversion or long-term foraging, are unclear. connection between its past present-day agriculturalist inhabitants, who currently speak Austronesian languages have composite complex genetic ancestry, equally opaque. Here, we analyze ancestry northeastern Bornean Batu (who still...
SummaryOne of the regulatory mechanisms influencing functional capacity genes is alternative splicing (AS). Previous studies exploring landscape human tissues have shown that AS has contributed to biology, especially in disease progression and immune response. Nonetheless, this phenomenon remains poorly characterized across populations, it unclear how genetic environmental variation contribute AS. Here, we examine a set 115 Indonesian samples from three traditional island populations...
Abstract One of the regulatory mechanisms influencing functional capacity genes is alternative splicing (AS). Previous studies exploring landscape human tissues have shown that AS has contributed to biology, especially in disease progression and immune response. Nonetheless, this phenomenon remains poorly characterised across populations, it unclear how genetic environmental variation contribute splicing. Here, we examine a set 115 Indonesian samples from three traditional island populations...
Abstract Indonesia is the world’s fourth most populous country, host to striking levels of human diversity, regional patterns admixture, and varying degrees introgression from both Neanderthals Denisovans. However, it has been largely excluded genomics sequencing boom last decade. To serve as a benchmark dataset molecular phenotypes across region, we generated genome-wide CpG methylation gene expression measurements in over 100 individuals three locations that capture major genomic...