East Asian mtDNA haplogroup determination in Koreans: Haplogroup‐level coding region SNP analysis and subhaplogroup‐level control region sequence analysis

@article{Lee2006EastAM,
  title={East Asian mtDNA haplogroup determination in Koreans: Haplogroup‐level coding region SNP analysis and subhaplogroup‐level control region sequence analysis},
  author={Hwan Young Lee and Ji-Eun Yoo and Myung Jin Park and Ukhee Chung and Chong-Youl Kim and Kyoung-Jin Shin},
  journal={ELECTROPHORESIS},
  year={2006},
  volume={27}
}
The present study analyzed 21 coding region SNP markers and one deletion motif for the determination of East Asian mitochondrial DNA (mtDNA) haplogroups by designing three multiplex systems which apply single base extension methods. [...] Key Result Using two multiplex systems, all 593 Korean mtDNAs were allocated into 15 haplogroups: M, D, D4, D5, G, M7, M8, M9, M10, M11, R, R9, B, A, and N9.Expand
Mitochondrial DNA haplogroups and homogeneity in the Korean population
TLDR
The distribution of mtDNA haplogroup variation using a 20-plex SNaPshot assay for determination of the major East Asian haplogroups was analyzed to evaluate the possible genetic structure and differentiation from 708 unrelated individuals residing in six major provinces in Korea. Expand
The Use and Effectiveness of Triple Multiplex System for Coding Region Single Nucleotide Polymorphism in Mitochondrial DNA Typing of Archaeologically Obtained Human Skeletons from Premodern Joseon Tombs of Korea
TLDR
Considering that ancient samples in previous studies make no small number of errors in control region mtDNA sequencing, coding region SNP analysis can be used as good complimentary to the conventional haplogroup determination, especially of archaeological human bone samples buried underground over long periods. Expand
A one step multiplex PCR assay for rapid screening of East Asian mtDNA haplogroups on forensic samples.
TLDR
A multiplex mutagenically separated (MS) polymerase chain reaction (PCR) system was developed for simultaneous rapid detection of 14 coding region SNPs and one deletion motif representing common mtDNA haplogroups of East Asia. Expand
Entire Mitochondrial DNA Sequencing on Massively Parallel Sequencing for the Korean Population
TLDR
The complete mtGenome data for 186 Koreans, obtained using Ion Torrent Personal Genome Machine (PGM) technology and retrieved from rather common mtDNA haplogroups based on the control region sequence, showed that 24 haplog groups, determined with hypervariable regions only, branched into 47 subhaplogroups, and point heteroplasmy was more frequent in the coding regions. Expand
Development of Multiple Assays using 46 SNPs for Comprehensive mtDNA Haplogrouping and Application to Highly Degraded DNA
TLDR
It is concluded that the present systems are powerful screening tools for major haplogroups of mtDNA in addition to the prevalent subhaplogroups in the Japanese population and that these systems are capable of analyzing highly degraded DNA samples in forensic studies. Expand
Multiplex APLP System for High-Resolution Haplogrouping of Extremely Degraded East-Asian Mitochondrial DNAs
TLDR
A new APLP system that relies on a novel amplified product-length polymorphisms (APLP) method that uses inosine-flapped primers and is specifically designed for the detailed haplogrouping of extremely degraded East-Asian mtDNAs is successfully applied and proved to be more robust than conventional APLP analysis. Expand
Announcement of Population Data Mitochondrial DNA control region variation in Dubai
entire mtDNA control region sequences were generated and analyzed in a population sample from Dubai, one of the seven United Arab Emirates. The control region was amplified in one piece and sequencedExpand
Typing of 24 mtDNA SNPs in a Chinese population using SNaPshot minisequencing
Three SNaPshot multiplex assays were developed to test 23 coding region single nucleotide polymorphisms (SNPs) and one control region SNP outside hypervariable regions (HVR)I and II, which was aimedExpand
Typing of 24 mtDNA SNPs in a Chinese population using SNaPshot minisequencing
SummaryThree SNaPshot multiplex assays were developed to test 23 coding region single nucleotide polymorphisms (SNPs) and one control region SNP outside hypervariable regions (HVR)I and II, which wasExpand
Mitochondrial DNA analysis of ancient human bones excavated from Nukdo island, S.Korea.
TLDR
It is suggested that phylogenetic analyses of ancient DNA have significant advantages for clarifying the origins and migrations of ethnic groups, or human races. Expand
...
1
2
3
4
5
...

References

SHOWING 1-10 OF 26 REFERENCES
Sequence polymorphisms of the mitochondrial DNA control region and phylogenetic analysis of mtDNA lineages in the Japanese population
TLDR
The present database can be used not only for personal identification but also as an aid for geographic or phenotype (race) estimation in forensic casework in Japan. Expand
Mitochondrial DNA control region sequences in Koreans: identification of useful variable sites and phylogenetic analysis for mtDNA data quality control
We have established a high-quality mtDNA control region sequence database for Koreans. To identify polymorphic sites and to determine their frequencies and haplotype frequencies, the complete mtDNAExpand
Mitochondrial DNA sequence polymorphisms of five ethnic populations from northern China
TLDR
The haplogroup distribution frequencies varied in the five ethnic populations, but in general they all harbored a large amount of north-prevalent haplogroups, such as D, G, C, and Z, and thus were in agreement with their ethnohistory of northern origin. Expand
Control region sequences for East Asian individuals in the Scientific Working Group on DNA Analysis Methods forensic mtDNA data set.
TLDR
The various analyses revealed that the SWGDAM data set was similar to published East Asian data sets such as those from Han Chinese, and these rapidly changing sites are consistent with other published analyses. Expand
Typing of mitochondrial DNA coding region SNPs of forensic and anthropological interest using SNaPshot minisequencing.
TLDR
A rapid and robust assay to simultaneously genotype 17 mitochondrial DNA (mtDNA) coding region SNPs by minisequencing using SNaPshot, which shows high accuracy and robustness avoiding both the use of alternative time-consuming classical strategies and the need for high quantities of DNA template. Expand
Rapid screening of mtDNA coding region SNPs for the identification of west European Caucasian haplogroups
TLDR
This work presents a selection of 16 SNPs from the coding region of the human mitochondrial DNA, used for the assignment of individuals to one of the nine major European Caucasian mitochondrial haplogroups. Expand
The emerging limbs and twigs of the East Asian mtDNA tree.
TLDR
The phylogenetic backbone of the East Asian mtDNA tree is determined by using published complete mtDNA sequences and assessing both coding and control region variation in 69 Han individuals from southern China, confirming that the East Asia mtDNA pool is locally region-specific and completely covered by the two superhaplogroups M and N. Expand
Multiplex amplified product‐length polymorphism analysis of 36 mitochondrial single‐nucleotide polymorphisms for haplogrouping of East Asian populations
TLDR
This multiplex APLP analysis of coding‐region mtSNPs for haplogrouping is especially useful not only for molecular phylogenetic studies but also for large‐scale association studies due to its rapid and economical nature. Expand
Genetic structure of Hmong-Mien speaking populations in East Asia as revealed by mtDNA lineages.
  • Bo Wen, H. Li, +15 authors L. Jin
  • Biology, Medicine
  • Molecular biology and evolution
  • 2005
TLDR
The results indicate that the Hmong populations had experienced more contact with the northern East Asians, a finding consistent with historical evidence. Expand
Updating the East Asian mtDNA phylogeny: a prerequisite for the identification of pathogenic mutations.
TLDR
A reassessment of the mtDNA data from a series of disease studies testified to the usefulness of such a refined mtDNA tree in evaluating the pathogenicity of mtDNA mutations and a guideline based on the phylogenetic knowledge as proposed here could help avoiding similar problems in the future. Expand
...
1
2
3
...