ArticlePloS one2008
Distilling artificial recombinants from large sets of complete mtDNA genomes.
Article in PloS one, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed.
- Article
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- Whole Mitochondrial DNA Sequencing Analysis in 47 Han Populations in Southwest China.Medical science monitor : international medical journal of experimental and clinical research · 2019Article
- Population resequencing of European mitochondrial genomes highlights sex-bias in Bronze Age demographic expansions.Scientific reports · 2017Article
- HaploGrep 2: mitochondrial haplogroup classification in the era of high-throughput sequencing.Nucleic acids research · 2016Article
- The complete mitogenome of a 500-year-old Inca child mummy.Scientific reports · 2015Article
- Ancient inland human dispersals from Myanmar into interior East Asia since the Late Pleistocene.Scientific reports · 2015Article
- A high-throughput Sanger strategy for human mitochondrial genome sequencing.BMC genomics · 2013Article
- MitoLSDB: a comprehensive resource to study genotype to phenotype correlations in human mitochondrial DNA variations.PloS one · 2013Article
- Haplogrouping mitochondrial DNA sequences in Legal Medicine/Forensic Genetics.International journal of legal medicine · 2012Article
- Evaluating mitochondrial DNA in patients with breast cancer and benign breast disease.Journal of cancer research and clinical oncology · 2011Article
- Inland post-glacial dispersal in East Asia revealed by mitochondrial haplogroup M9a'b.BMC biology · 2011Article
- Inferring the population expansions in peopling of Japan.PloS one · 2011Article
- Uncovering the profile of somatic mtDNA mutations in Chinese colorectal cancer patients.PloS one · 2011Article
- A reduced number of mtSNPs saturates mitochondrial DNA haplotype diversity of worldwide population groups.PloS one · 2010Article
- Mitochondrial genome evidence reveals successful Late Paleolithic settlement on the Tibetan Plateau.Proceedings of the National Academy of Sciences of the United States of America · 2009Article
- mtDNA data mining in GenBank needs surveying.American journal of human genetics · 2009Article
- Biomarker Validation for Aging: Lessons from mtDNA Heteroplasmy Analyses in Early Cancer Detection.Biomarker insights · 2009Article
- Correcting for purifying selection: an improved human mitochondrial molecular clock.American journal of human genetics · 2009Article
- Contamination and sample mix-up can best explain some patterns of mtDNA instabilities in buccal cells and oral squamous cell carcinoma.BMC cancer · 2009Article
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9 authors.
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Abstract
backgroundLarge-scale genome sequencing poses enormous problems to the logistics of laboratory work and data handling. When numerous fragments of different genomes are PCR amplified and sequenced in a laboratory, there is a high imminent risk of sample confusion. For genetic markers, such as mitochondrial DNA (mtDNA), which are free of natural recombination, single instances of sample mix-up involving different branches of the mtDNA phylogeny would give rise to reticulate patterns and should therefore be detectable. METHODOLOGY/PRINCIPAL
findingsWe have developed a strategy for comparing new complete mtDNA genomes, one by one, to a current skeleton of the worldwide mtDNA phylogeny. The mutations distinguishing the reference sequence from a putative recombinant sequence can then be allocated to two or more different branches of this phylogenetic skeleton. Thus, one would search for two (or three) near-matches in the total mtDNA database that together best explain the variation seen in the recombinants. The evolutionary pathway from the mtDNA tree connecting this pair together with the recombinant then generate a grid-like median network, from which one can read off the exchanged segments.
conclusionsWe have applied this procedure to a large collection of complete human mtDNA sequences, where several recombinants could be distilled by our method. All these recombinant sequences were subsequently corrected by de novo experiments--fully concordant with the predictions from our data-analytical approach.
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