A Large-scale Analysis of Human Mitochondrial DNA Sequences with Special Reference to the Population History of East Eurasian.

Oota, Hiroki; Saitou, Naruya; Ueda, Shintaroh

doi:10.1537/ase.110.293

Cited by 6 publications

(11 citation statements)

References 34 publications

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“…We identified 32 unique sequences, which varied at 52 polymorphic sites (see Table 2, which is published as supporting information on the PNAS web site). The ratio of transitions to transversions was 10-fold, similar to prior analyses (38). The 32 sequences clustered into two groups that were weakly supported by phylogenetic analyses (Fig.…”

Section: Hvs1supporting

confidence: 78%

“…We then compared the frequencies of the radiation groups within the entire sample from Ladakh with data from West Asia, Far-East Asia, continental East Asia, and Southeast Asia. The Ladakhi sample was not significantly different (P ϭ 0.533) from populations in continental East Asia (Taiwan Han Chinese, Cantonese, Chinese, Mongols, and Altai from central Siberia) but did differ significantly (P Ͻ 0.001) from all other major geographical populations that had been described (38).…”

Section: Hvs1mentioning

confidence: 67%

“…The reticulated network was reduced to a minimum-spanning tree as described (38). Interestingly, the network from the 39 Ladhakis contained all six radiation groups (I-VI) described by Oota et al (38) on the basis of 414 haplotypes. Each of the six radiation groups is characterized by specific single-nucleotide polymorphisms and occurs in nearly all Asiatic populations.…”

Section: Hvs1mentioning

confidence: 99%

“…In an attempt to infer the evolutionary status of the Ladakhi population within Eurasia, we used a subset of 185 nucleotides for which a large-scale analysis has been described (38). This region (16,378) contained 28 polymorphisms in 26 distinct haplotypes that were used to construct a reticulated network (Fig.…”

Section: Hvs1mentioning

confidence: 99%

“…We, therefore, compared the frequencies of the radiation groups between Buddhists and Muslims in Ladakh. There is no (38), and small open circles correspond to missing haplotypes. The network obtained from Ladakhi HVS1 sequences is completely congruent with the network of Oota et al (38), except that proband L133 shares typical Group II variant sites (C at np362 and G at np319) but is placed at a terminal node of Group VI.…”

Section: Hvs1mentioning

confidence: 99%

See 4 more Smart Citations

Distinguishing human ethnic groups by means of sequences from Helicobacter pylori : Lessons from Ladakh

Wirth

Wang

Linz

et al. 2004

Proc. Natl. Acad. Sci. U.S.A.

142

138

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The history of mankind remains one of the most challenging fields of study. However, the emergence of anatomically modern humans has been so recent that only a few genetically informative polymorphisms have accumulated. Here, we show that DNA sequences from Helicobacter pylori, a bacterium that colonizes the stomachs of most humans and is usually transmitted within families, can distinguish between closely related human populations and are superior in this respect to classical human genetic markers. H. pylori from Buddhists and Muslims, the two major ethnic communities in Ladakh (India), differ in their population-genetic structure. Moreover, the prokaryotic diversity is consistent with the Buddhists having arisen from an introgression of Tibetan speakers into an ancient Ladakhi population. H. pylori from Muslims contain a much stronger ancestral Ladakhi component, except for several isolates with an Indo-European signature, probably reflecting genetic flux from the Near East. These signatures in H. pylori sequences are congruent with the recent history of population movements in Ladakh, whereas similar signatures in human microsatellites or mtDNA were only marginally significant. H. pylori sequence analysis has the potential to become an important tool for unraveling short-term genetic changes in human populations.mtDNA ͉ microsatellites ͉ admixture ͉ human migrations ͉ population genetics

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Section: Hvs1supporting

confidence: 78%

Section: Hvs1mentioning

confidence: 67%

Section: Hvs1mentioning

confidence: 99%

Section: Hvs1mentioning

confidence: 99%

Section: Hvs1mentioning

confidence: 99%

See 3 more Smart Citations

Distinguishing human ethnic groups by means of sequences from Helicobacter pylori : Lessons from Ladakh

Wirth

Wang

Linz

et al. 2004

Proc. Natl. Acad. Sci. U.S.A.

142

138

View full text Add to dashboard Cite

show abstract

Whole genome variant analysis in three ethnically diverse Indians

2018

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India represents an amazing confluence of geographically, linguistically and socially disparate ethnic populations (Indian Genome Variation Consortium, J Genet 87:3-20, 2008). Understanding the genetic diversity of Indian population remains a daunting task. In this paper we present detailed analysis of genomic variations (high-depth coverage (~ 30×) using Illumina Hiseq 2000 platform) from three healthy Indian male individuals each belonging to three geographically delineated regions and linguistic phylum viz. high altitude region of Ladakh (Tibeto-Burman linguistic phylum), sub mountainous region of Kumaun (Indo-European linguistic phylum) and sea level region of Telangana (Dravidian linguistic phylum) for probing the extent of genetic diversity in our population. The sequencing analysis provided high quality data (~ 95% of the total reads aligned to the human reference genome for each sample) and very good alignment quality (> 80% of the filtered mapped reads had a quality score of 60). A total of 4.3, 3.7 and 4.3 million single nucleotide variations were identified in the genome of high altitude, sub mountainous and sea level respectively by comparing with human reference genome. Approximately 17.3, 18.2, 17.4% of the variants were unique in the three genomes. The study identified many novel variations in the three diverse genomes (132,970 in Ladakh, 112,317 in Kumaun and 128,881 in Telangana individual) and is an important resource for creating a baseline and a comprehensive catalogue of human genomic variation across the Indian as well as the Asian continent.

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Mitochondrial DNA analysis of Yayoi period human skeletal remains from the Doigahama site

et al. 2009

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We analyzed the mitochondrial DNA extracted from 14 human skeletal remains from the Doigahama site in Japan to clarify the genetic structure of the Doigahama Yayoi population and the relationship between burial style and kinship among individuals. The sequence types obtained in this study were compared with those of the modern Japanese, northern Kyushu Yayoi and ancient Chinese populations. We found that the northern Kyushu Yayoi populations belonged to the groups that include most of the modern Japanese population. In contrast, most of the Doigahama Yayoi population belonged to the group that includes a small number of the modern Japanese population. These results suggest that the Doigahama Yayoi population might have contributed less to the formation of the modern Japanese population than the northern Kyushu Yayoi populations. Moreover, when we examined the kinship between individuals in the Doigahama site, we found that the vicinal burial of adult skeletons indicated a maternal kinship, although that of juvenile skeletons did not. The vicinal burial style might have been influenced by many factors, such as paternal lineages, periods and geographical regions, as well as maternal lineages. In addition, skeletons considered to be those of shamans or leaders had the same sequence types. Their crucial social roles may have been inherited through maternal lineage.

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A Large-scale Analysis of Human Mitochondrial DNA Sequences with Special Reference to the Population History of East Eurasian.

Cited by 6 publications

References 34 publications

Distinguishing human ethnic groups by means of sequences from Helicobacter pylori : Lessons from Ladakh

Distinguishing human ethnic groups by means of sequences from Helicobacter pylori : Lessons from Ladakh

Whole genome variant analysis in three ethnically diverse Indians

Mitochondrial DNA analysis of Yayoi period human skeletal remains from the Doigahama site

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