Literature DB >> 24492235

The impact of whole-genome sequencing on the reconstruction of human population history.

Krishna R Veeramah1, Michael F Hammer2.   

Abstract

Examining patterns of molecular genetic variation in both modern-day and ancient humans has proved to be a powerful approach to learn about our origins. Rapid advances in DNA sequencing technology have allowed us to characterize increasing amounts of genomic information. Although this clearly provides unprecedented power for inference, it also introduces more complexity into the way we use and interpret such data. Here, we review ongoing debates that have been influenced by improvements in our ability to sequence DNA and discuss some of the analytical challenges that need to be overcome in order to fully exploit the rich historical information that is contained in the entirety of the human genome.

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Year:  2014        PMID: 24492235     DOI: 10.1038/nrg3625

Source DB:  PubMed          Journal:  Nat Rev Genet        ISSN: 1471-0056            Impact factor:   53.242


  158 in total

1.  The human genetic history of the Americas: the final frontier.

Authors:  Dennis H O'Rourke; Jennifer A Raff
Journal:  Curr Biol       Date:  2010-02-23       Impact factor: 10.834

2.  Single, rapid coastal settlement of Asia revealed by analysis of complete mitochondrial genomes.

Authors:  Vincent Macaulay; Catherine Hill; Alessandro Achilli; Chiara Rengo; Douglas Clarke; William Meehan; James Blackburn; Ornella Semino; Rosaria Scozzari; Fulvio Cruciani; Adi Taha; Norazila Kassim Shaari; Joseph Maripa Raja; Patimah Ismail; Zafarina Zainuddin; William Goodwin; David Bulbeck; Hans-Jürgen Bandelt; Stephen Oppenheimer; Antonio Torroni; Martin Richards
Journal:  Science       Date:  2005-05-13       Impact factor: 47.728

3.  Testing for ancient admixture between closely related populations.

Authors:  Eric Y Durand; Nick Patterson; David Reich; Montgomery Slatkin
Journal:  Mol Biol Evol       Date:  2011-02-15       Impact factor: 16.240

Review 4.  Ancient DNA perspectives on American colonization and population history.

Authors:  Jennifer A Raff; Deborah A Bolnick; Justin Tackney; Dennis H O'Rourke
Journal:  Am J Phys Anthropol       Date:  2011-09-13       Impact factor: 2.868

5.  Host-interactive genes in Amerindian Helicobacter pylori diverge from their Old World homologs and mediate inflammatory responses.

Authors:  S P Mane; M G Dominguez-Bello; M J Blaser; B W Sobral; R Hontecillas; J Skoneczka; S K Mohapatra; O R Crasta; C Evans; T Modise; S Shallom; M Shukla; C Varon; F Mégraud; A L Maldonado-Contreras; K P Williams; J Bassaganya-Riera
Journal:  J Bacteriol       Date:  2010-04-16       Impact factor: 3.490

6.  The genetic legacy of Paleolithic Homo sapiens sapiens in extant Europeans: a Y chromosome perspective.

Authors:  O Semino; G Passarino; P J Oefner; A A Lin; S Arbuzova; L E Beckman; G De Benedictis; P Francalacci; A Kouvatsi; S Limborska; M Marcikiae; A Mika; B Mika; D Primorac; A S Santachiara-Benerecetti; L L Cavalli-Sforza; P A Underhill
Journal:  Science       Date:  2000-11-10       Impact factor: 47.728

7.  Genetic evidence for archaic admixture in Africa.

Authors:  Michael F Hammer; August E Woerner; Fernando L Mendez; Joseph C Watkins; Jeffrey D Wall
Journal:  Proc Natl Acad Sci U S A       Date:  2011-09-06       Impact factor: 11.205

Review 8.  Revising the human mutation rate: implications for understanding human evolution.

Authors:  Aylwyn Scally; Richard Durbin
Journal:  Nat Rev Genet       Date:  2012-09-11       Impact factor: 53.242

9.  Out-of-Africa migration and Neolithic coexpansion of Mycobacterium tuberculosis with modern humans.

Authors:  Iñaki Comas; Mireia Coscolla; Tao Luo; Sonia Borrell; Kathryn E Holt; Midori Kato-Maeda; Julian Parkhill; Bijaya Malla; Stefan Berg; Guy Thwaites; Dorothy Yeboah-Manu; Graham Bothamley; Jian Mei; Lanhai Wei; Stephen Bentley; Simon R Harris; Stefan Niemann; Roland Diel; Abraham Aseffa; Qian Gao; Douglas Young; Sebastien Gagneux
Journal:  Nat Genet       Date:  2013-09-01       Impact factor: 38.330

10.  A predominantly neolithic origin for European paternal lineages.

Authors:  Patricia Balaresque; Georgina R Bowden; Susan M Adams; Ho-Yee Leung; Turi E King; Zoë H Rosser; Jane Goodwin; Jean-Paul Moisan; Christelle Richard; Ann Millward; Andrew G Demaine; Guido Barbujani; Carlo Previderè; Ian J Wilson; Chris Tyler-Smith; Mark A Jobling
Journal:  PLoS Biol       Date:  2010-01-19       Impact factor: 8.029

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  49 in total

1.  Coalescent Times and Patterns of Genetic Diversity in Species with Facultative Sex: Effects of Gene Conversion, Population Structure, and Heterogeneity.

Authors:  Matthew Hartfield; Stephen I Wright; Aneil F Agrawal
Journal:  Genetics       Date:  2015-11-19       Impact factor: 4.562

2.  Modeling Human Population Separation History Using Physically Phased Genomes.

Authors:  Shiya Song; Elzbieta Sliwerska; Sarah Emery; Jeffrey M Kidd
Journal:  Genetics       Date:  2016-11-09       Impact factor: 4.562

3.  Quality score compression improves genotyping accuracy.

Authors:  Y William Yu; Deniz Yorukoglu; Jian Peng; Bonnie Berger
Journal:  Nat Biotechnol       Date:  2015-03       Impact factor: 54.908

4.  Coalescence and Linkage Disequilibrium in Facultatively Sexual Diploids.

Authors:  Matthew Hartfield; Stephen I Wright; Aneil F Agrawal
Journal:  Genetics       Date:  2018-08-10       Impact factor: 4.562

Review 5.  Adaptations to local environments in modern human populations.

Authors:  Choongwon Jeong; Anna Di Rienzo
Journal:  Curr Opin Genet Dev       Date:  2014-08-15       Impact factor: 5.578

6.  Early history of Neanderthals and Denisovans.

Authors:  Alan R Rogers; Ryan J Bohlender; Chad D Huff
Journal:  Proc Natl Acad Sci U S A       Date:  2017-08-07       Impact factor: 11.205

Review 7.  Next generation sequencing in cardiomyopathy: towards personalized genomics and medicine.

Authors:  Amitabh Biswas; V R Rao; Sandeep Seth; S K Maulik
Journal:  Mol Biol Rep       Date:  2014-08       Impact factor: 2.316

Review 8.  Inferences of African evolutionary history from genomic data.

Authors:  Marcia Holsbach Beltrame; Meagan A Rubel; Sarah A Tishkoff
Journal:  Curr Opin Genet Dev       Date:  2016-11-01       Impact factor: 5.578

Review 9.  CYP2C19 and CYP2D6 genotypes in Pacific peoples.

Authors:  Nuala A Helsby
Journal:  Br J Clin Pharmacol       Date:  2016-08-26       Impact factor: 4.335

Review 10.  Recent advances in the study of fine-scale population structure in humans.

Authors:  John Novembre; Benjamin M Peter
Journal:  Curr Opin Genet Dev       Date:  2016-09-20       Impact factor: 5.578

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