Literature DB >> 19211544

MtDNA mutation pattern in tumors and human evolution are shaped by similar selective constraints.

Ilia Zhidkov1, Erez A Livneh, Eitan Rubin, Dan Mishmar.   

Abstract

Multiple human mutational landscapes of normal and cancer conditions are currently available. However, while the unique mutational patterns of tumors have been extensively studied, little attention has been paid to similarities between malignant and normal conditions. Here we compared the pattern of mutations in the mitochondrial genomes (mtDNAs) of cancer (98 sequences) and natural populations (2400 sequences). De novo mtDNA mutations in cancer preferentially colocalized with ancient variants in human phylogeny. A significant portion of the cancer mutations was organized in recurrent combinations (COMs), reaching a length of seven mutations, which also colocalized with ancient variants. Thus, by analyzing similarities rather than differences in patterns of mtDNA mutations in tumor and human evolution, we discovered evidence for similar selective constraints, suggesting a functional potential for these mutations.

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Year:  2009        PMID: 19211544      PMCID: PMC2665776          DOI: 10.1101/gr.086462.108

Source DB:  PubMed          Journal:  Genome Res        ISSN: 1088-9051            Impact factor:   9.043


  32 in total

1.  Human mtDNA haplogroups associated with high or reduced spermatozoa motility.

Authors:  E Ruiz-Pesini; A C Lapeña; C Díez-Sánchez; A Pérez-Martos; J Montoya; E Alvarez; M Díaz; A Urriés; L Montoro; M J López-Pérez; J A Enríquez
Journal:  Am J Hum Genet       Date:  2000-08-09       Impact factor: 11.025

2.  Effects of purifying and adaptive selection on regional variation in human mtDNA.

Authors:  Eduardo Ruiz-Pesini; Dan Mishmar; Martin Brandon; Vincent Procaccio; Douglas C Wallace
Journal:  Science       Date:  2004-01-09       Impact factor: 47.728

Review 3.  Signatures of natural selection in the human genome.

Authors:  Michael Bamshad; Stephen P Wooding
Journal:  Nat Rev Genet       Date:  2003-02       Impact factor: 53.242

4.  A haplotype map of the human genome.

Authors: 
Journal:  Nature       Date:  2005-10-27       Impact factor: 49.962

5.  Mitochondrial DNA G10398A polymorphism and invasive breast cancer in African-American women.

Authors:  Jeffrey A Canter; Asha R Kallianpur; Fritz F Parl; Robert C Millikan
Journal:  Cancer Res       Date:  2005-09-01       Impact factor: 12.701

6.  Initial sequence of the chimpanzee genome and comparison with the human genome.

Authors: 
Journal:  Nature       Date:  2005-09-01       Impact factor: 49.962

7.  Mutation and cancer: statistical study of retinoblastoma.

Authors:  A G Knudson
Journal:  Proc Natl Acad Sci U S A       Date:  1971-04       Impact factor: 11.205

8.  Natural selection shaped regional mtDNA variation in humans.

Authors:  Dan Mishmar; Eduardo Ruiz-Pesini; Pawel Golik; Vincent Macaulay; Andrew G Clark; Seyed Hosseini; Martin Brandon; Kirk Easley; Estella Chen; Michael D Brown; Rem I Sukernik; Antonel Olckers; Douglas C Wallace
Journal:  Proc Natl Acad Sci U S A       Date:  2002-12-30       Impact factor: 11.205

9.  A scan for positively selected genes in the genomes of humans and chimpanzees.

Authors:  Rasmus Nielsen; Carlos Bustamante; Andrew G Clark; Stephen Glanowski; Timothy B Sackton; Melissa J Hubisz; Adi Fledel-Alon; David M Tanenbaum; Daniel Civello; Thomas J White; John J Sninsky; Mark D Adams; Michele Cargill
Journal:  PLoS Biol       Date:  2005-05-03       Impact factor: 8.029

10.  Genetic progression and the waiting time to cancer.

Authors:  Niko Beerenwinkel; Tibor Antal; David Dingli; Arne Traulsen; Kenneth W Kinzler; Victor E Velculescu; Bert Vogelstein; Martin A Nowak
Journal:  PLoS Comput Biol       Date:  2007-11       Impact factor: 4.475

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  15 in total

1.  Mitochondrial DNA heteroplasmy in diabetes and normal adults: role of acquired and inherited mutational patterns in twins.

Authors:  Gal Avital; Mor Buchshtav; Ilia Zhidkov; Jeanette Tuval Feder; Sarah Dadon; Eitan Rubin; Dan Glass; Timothy D Spector; Dan Mishmar
Journal:  Hum Mol Genet       Date:  2012-06-26       Impact factor: 6.150

Review 2.  Mitochondrial ROS in cancer: initiators, amplifiers or an Achilles' heel?

Authors:  Simran S Sabharwal; Paul T Schumacker
Journal:  Nat Rev Cancer       Date:  2014-11       Impact factor: 60.716

3.  Mutational patterns in the breast cancer mitochondrial genome, with clinical correlates.

Authors:  Sarah McMahon; Thomas LaFramboise
Journal:  Carcinogenesis       Date:  2014-01-18       Impact factor: 4.944

4.  Detecting heteroplasmy from high-throughput sequencing of complete human mitochondrial DNA genomes.

Authors:  Mingkun Li; Anna Schönberg; Michael Schaefer; Roland Schroeder; Ivane Nasidze; Mark Stoneking
Journal:  Am J Hum Genet       Date:  2010-08-13       Impact factor: 11.025

5.  Fluorescent duplex allele-specific PCR and amplicon melting for rapid homogeneous mtDNA haplogroup H screening and sensitive mixture detection.

Authors:  Harald Niederstätter; Walther Parson
Journal:  PLoS One       Date:  2009-12-18       Impact factor: 3.240

6.  Functional recurrent mutations in the human mitochondrial phylogeny: dual roles in evolution and disease.

Authors:  Liron Levin; Ilia Zhidkov; Yotam Gurman; Hadas Hawlena; Dan Mishmar
Journal:  Genome Biol Evol       Date:  2013       Impact factor: 3.416

Review 7.  Early evolution without a tree of life.

Authors:  William F Martin
Journal:  Biol Direct       Date:  2011-06-30       Impact factor: 4.540

8.  Plastids, genomes, and the probability of gene transfer.

Authors:  Nick Lane
Journal:  Genome Biol Evol       Date:  2011-02-03       Impact factor: 3.416

Review 9.  Somatic mitochondrial DNA mutations in cancer escape purifying selection and high pathogenicity mutations lead to the oncocytic phenotype: pathogenicity analysis of reported somatic mtDNA mutations in tumors.

Authors:  Luísa Pereira; Pedro Soares; Valdemar Máximo; David C Samuels
Journal:  BMC Cancer       Date:  2012-02-02       Impact factor: 4.430

10.  Mitochondrial mutations in adenoid cystic carcinoma of the salivary glands.

Authors:  Suhail K Mithani; Chunbo Shao; Marietta Tan; Ian M Smith; Joseph A Califano; Adel K El-Naggar; Patrick K Ha
Journal:  PLoS One       Date:  2009-12-30       Impact factor: 3.240

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