Out-of-Africa migration and Neolithic co-expansion of Mycobacterium tuberculosis with modern humans
暂无分享,去创建一个
K. Holt | J. Parkhill | S. Bentley | S. Harris | S. Niemann | Q. Gao | R. Diel | A. Aseffa | I. Comas | D. Young | G. Thwaites | S. Borrell | S. Gagneux | M. Kato-Maeda | S. Berg | G. Bothamley | M. Coscollá | T. Luo | Bijaya Malla | D. Yeboah-Manu | J. Mei | Lanhai Wei | B. Malla | Julian Parkhill | Tao Luo | Abraham Aseffa | Douglas B. Young | Simon R Harris | Iñaki Comas | Tao Luo | Kathryn E. Holt | Stefan Berg | Guy Thwaites | G. Bothamley | Jian Mei | Lanhai Wei | S. Bentley | Stefan Niemann | Roland Diel | Qian Gao | Simon R. Harris
[1] S. Gordon,et al. Mycobacterial Lineages Causing Pulmonary and Extrapulmonary Tuberculosis, Ethiopia , 2013, Emerging infectious diseases.
[2] Ignazio Carbone,et al. A calibrated human Y-chromosomal phylogeny based on resequencing , 2013, Genome research.
[3] Daniel J. Wilson,et al. Whole-genome sequencing to delineate Mycobacterium tuberculosis outbreaks: a retrospective observational study , 2013, The Lancet. Infectious diseases.
[4] M. Pirmohamed,et al. Emergence and global spread of epidemic healthcare-associated Clostridium difficile , 2012, Nature Genetics.
[5] Marcus W. Feldman,et al. The great human expansion , 2012, Resonance.
[6] D. W. Kim,et al. Shigella sonnei genome sequencing and phylogenetic analysis indicate recent global dissemination from Europe , 2012, Nature Genetics.
[7] Saharon Rosset,et al. A "Copernican" reassessment of the human mitochondrial DNA tree from its root. , 2012, American journal of human genetics.
[8] E. Rocha,et al. After the bottleneck: Genome-wide diversification of the Mycobacterium tuberculosis complex by mutation, recombination, and natural selection. , 2012, Genome research.
[9] J. Stewart,et al. Human Evolution Out of Africa: The Role of Refugia and Climate Change , 2012, Science.
[10] W. Parson,et al. MtDNA diversity of Ghana: a forensic and phylogeographic view , 2012, Forensic science international. Genetics.
[11] V. Macaulay,et al. The Expansion of mtDNA Haplogroup L3 within and out of Africa. , 2012, Molecular biology and evolution.
[12] Stephen D. Bentley,et al. Microevolution of extensively drug-resistant tuberculosis in Russia. , 2012, Genome research.
[13] Matthias Meyer,et al. A draft genome of Yersinia pestis from victims of the Black Death , 2011, Nature.
[14] Robert J Wilkinson,et al. Reciprocal seasonal variation in vitamin D status and tuberculosis notifications in Cape Town, South Africa , 2011, Proceedings of the National Academy of Sciences.
[15] E. Pamer,et al. Role of the commensal microbiota in normal and pathogenic host immune responses. , 2011, Cell host & microbe.
[16] Yong Wang,et al. An Aboriginal Australian Genome Reveals Separate Human Dispersals into Asia , 2011, Science.
[17] M. Nei,et al. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. , 2011, Molecular biology and evolution.
[18] Julian Parkhill,et al. Evidence for several waves of global transmission in the seventh cholera pandemic , 2011, Nature.
[19] Didier Raoult,et al. Palaeogenomics of Mycobacterium tuberculosis: epidemic bursts with a degrading genome. , 2011, The Lancet. Infectious diseases.
[20] A. Rodrigo,et al. Time‐dependent rates of molecular evolution , 2011, Molecular ecology.
[21] M. Chase,et al. Use of whole genome sequencing to estimate the mutation rate of Mycobacterium tuberculosis during latent infection , 2011, Nature Genetics.
[22] Samadi Kafil Hossein,et al. Molecular diversity of mitochondrial DNA in Iranian Azeri ethnicities vis-à-vis other Azeris in Asia , 2011 .
[23] Christopher R. Gignoux,et al. Rapid, global demographic expansions after the origins of agriculture , 2011, Proceedings of the National Academy of Sciences.
[24] Q. Kong,et al. Mitochondrial DNA evidence supports northeast Indian origin of the aboriginal Andamanese in the Late Paleolithic. , 2011, Journal of genetics and genomics = Yi chuan xue bao.
[25] D. Falush,et al. Helicobacter pylori genome evolution during human infection , 2011, Proceedings of the National Academy of Sciences.
[26] Steven J. M. Jones,et al. Whole-genome sequencing and social-network analysis of a tuberculosis outbreak. , 2011, The New England journal of medicine.
[27] J. Burton,et al. Rapid Pneumococcal Evolution in Response to Clinical Interventions , 2011, Science.
[28] M. Waelkens,et al. Mitochondrial analysis of a Byzantine population reveals the differential impact of multiple historical events in South Anatolia , 2011, European Journal of Human Genetics.
[29] Mark G Thomas,et al. ANCIENT URBANIZATION PREDICTS GENETIC RESISTANCE TO TUBERCULOSIS , 2010, Evolution; international journal of organic evolution.
[30] M. Mitchell,et al. Genetic diversity on the Comoros Islands shows early seafaring as major determinant of human biocultural evolution in the Western Indian Ocean , 2011, European Journal of Human Genetics.
[31] Stefan Niemann,et al. Whole-genome sequencing of rifampicin-resistant Mycobacterium tuberculosis strains identifies compensatory mutations in RNA polymerase genes , 2011 .
[32] W. Parson,et al. Southeast Asian diversity: first insights into the complex mtDNA structure of Laos , 2011, BMC Evolutionary Biology.
[33] Giovanna Morelli,et al. Phylogenetic diversity and historical patterns of pandemic spread of Yersinia pestis , 2010, Nature Genetics.
[34] B. Budowle,et al. Reconstructing the population history of Nicaragua by means of mtDNA, Y-chromosome STRs, and autosomal STR markers. , 2010, American journal of physical anthropology.
[35] Q. Kong,et al. Tracing the Austronesian footprint in Mainland Southeast Asia: a perspective from mitochondrial DNA. , 2010, Molecular biology and evolution.
[36] Xingjin He,et al. S-DIVA (Statistical Dispersal-Vicariance Analysis): A tool for inferring biogeographic histories. , 2010, Molecular phylogenetics and evolution.
[37] H. Hakonarson,et al. ANNOVAR: functional annotation of genetic variants from high-throughput sequencing data , 2010, Nucleic acids research.
[38] Giovanna Morelli,et al. Microevolution of Helicobacter pylori during Prolonged Infection of Single Hosts and within Families , 2010, PLoS genetics.
[39] J. Galagan,et al. Human T cell epitopes of Mycobacterium tuberculosis are evolutionarily hyperconserved , 2010, Nature Genetics.
[40] Paramvir S. Dehal,et al. FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments , 2010, PloS one.
[41] D. van Soolingen,et al. Possible underlying mechanisms for successful emergence of the Mycobacterium tuberculosis Beijing genotype strains. , 2010, The Lancet. Infectious diseases.
[42] Julian Parkhill,et al. Evolution of MRSA During Hospital Transmission and Intercontinental Spread , 2010, Science.
[43] J. Flynn,et al. Infection with Helicobacter pylori Is Associated with Protection against Tuberculosis , 2010, PloS one.
[44] Richard Durbin,et al. Fast and accurate long-read alignment with Burrows–Wheeler transform , 2010, Bioinform..
[45] M. Mirazón-Lahr,et al. Philippine mitochondrial DNA diversity: a populated viaduct between Taiwan and Indonesia? , 2010, Molecular biology and evolution.
[46] J. Flynn,et al. The spectrum of latent tuberculosis: rethinking the biology and intervention strategies , 2009, Nature Reviews Microbiology.
[47] I. Comas,et al. The Past and Future of Tuberculosis Research , 2009, PLoS pathogens.
[48] W. Parson,et al. Forensic and phylogeographic characterization of mtDNA lineages from northern Thailand (Chiang Mai) , 2009, International Journal of Legal Medicine.
[49] Ángel Carracedo,et al. Mitochondrial Echoes of First Settlement and Genetic Continuity in El Salvador , 2009, PloS one.
[50] Alexei J. Drummond,et al. Bayesian Phylogeography Finds Its Roots , 2009, PLoS Comput. Biol..
[51] Arne Röhl,et al. Correcting for purifying selection: an improved human mitochondrial molecular clock. , 2009, American journal of human genetics.
[52] Gonçalo R. Abecasis,et al. The Sequence Alignment/Map format and SAMtools , 2009, Bioinform..
[53] Richard Durbin,et al. Sequence analysis Fast and accurate short read alignment with Burrows – Wheeler transform , 2009 .
[54] R. Bettinger,et al. Agricultural origins and the isotopic identity of domestication in northern China , 2009, Proceedings of the National Academy of Sciences.
[55] C. Tyler-Smith,et al. The Peopling of Korea Revealed by Analyses of Mitochondrial DNA and Y-Chromosomal Markers , 2009, PloS one.
[56] D. Maddison,et al. Mesquite: a modular system for evolutionary analysis. Version 2.6 , 2009 .
[57] A. Torroni,et al. Mitochondrial and Y-chromosome diversity of the Tharus (Nepal): a reservoir of genetic variation , 2009, BMC Evolutionary Biology.
[58] Richard Durbin,et al. A large genome center's improvements to the Illumina sequencing system , 2008, Nature Methods.
[59] Stefan Niemann,et al. High Functional Diversity in Mycobacterium tuberculosis Driven by Genetic Drift and Human Demography , 2008, PLoS biology.
[60]
R. Durbin,et al.
Mapping Quality Scores Mapping Short Dna Sequencing Reads and Calling Variants Using P ,
2022
.
[61]
P. Small,et al.
Progression to active tuberculosis, but not transmission, varies by Mycobacterium tuberculosis lineage in The Gambia.
,
2008,
The Journal of infectious diseases.
[62]
Helena Fracchia.
The Neolithic Demographic Transition and its Consequences
,
2008
.
[63]
Falk Hildebrand,et al.
Origin, Spread and Demography of the Mycobacterium tuberculosis Complex
,
2008,
PLoS pathogens.
[64]
A. Sucena,et al.
Haplogroup H sub-lineages with mitochondrial SNPs
,
2008
.
[65]
P. Deschavanne,et al.
Horizontally acquired genomic islands in the tubercle bacilli.
,
2008,
Trends in microbiology.
[66]
Shuhua Xu,et al.
A spatial analysis of genetic structure of human populations in China reveals distinct difference between maternal and paternal lineages
,
2008,
European Journal of Human Genetics.
[67]
O. Pybus,et al.
Correlating viral phenotypes with phylogeny: accounting for phylogenetic uncertainty.
,
2008,
Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases.
[68]
Alexei J Drummond,et al.
mtDNA variation predicts population size in humans and reveals a major Southern Asian chapter in human prehistory.
,
2008,
Molecular biology and evolution.
[69]
Peter Bellwood,et al.
The Expansions of Farming Societies and the Role of the Neolithic Demographic Transition
,
2008
.
[70]
Rodrigo Lopez,et al.
Clustal W and Clustal X version 2.0
,
2007,
Bioinform..
[71]
M. Blaser,et al.
The equilibria that allow bacterial persistence in human hosts
,
2007,
Nature.
[72]
Holly M. Mortensen,et al.
History of click-speaking populations of Africa inferred from mtDNA and Y chromosome genetic variation.
,
2007,
Molecular biology and evolution.
[73]
Bruce T. Milne,et al.
The complex structure of hunter–gatherer social networks
,
2007,
Proceedings of the Royal Society B: Biological Sciences.
[74]
Nathan D. Wolfe,et al.
Origins of major human infectious diseases
,
2007,
Nature.
[75]
Holly M. Mortensen,et al.
Whole-mtDNA genome sequence analysis of ancient African lineages.
,
2007,
Molecular biology and evolution.
[76]
Daniel Falush,et al.
An African origin for the intimate association between humans and Helicobacter pylori
,
2007,
Nature.
[77]
P. Forster,et al.
A mitochondrial stratigraphy for island southeast Asia.
,
2007,
American journal of human genetics.
[78]
Alexandros Stamatakis,et al.
RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models
,
2006,
Bioinform..
[79]
S. Ho,et al.
Relaxed Phylogenetics and Dating with Confidence
,
2006,
PLoS biology.
[80]
M. Raviglione.
The Global Plan to Stop TB, 2006-2015.
,
2006,
The international journal of tuberculosis and lung disease : the official journal of the International Union against Tuberculosis and Lung Disease.
[81]
Stefan Niemann,et al.
Variable host-pathogen compatibility in Mycobacterium tuberculosis.
,
2006,
Proceedings of the National Academy of Sciences of the United States of America.
[82]
D. Comas,et al.
Paternal and maternal lineages in the Balkans show a homogeneous landscape over linguistic barriers, except for the isolated Aromuns
,
2005,
Annals of human genetics.
[83]
D. Maher,et al.
The Global Plan to Stop TB, 2006-2015. actions for life: towards a world free of tuberculosis.
,
2006,
The international journal of tuberculosis and lung disease : the official journal of the International Union against Tuberculosis and Lung Disease.
[84]
Sohini Ramachandran,et al.
Support from the relationship of genetic and geographic distance in human populations for a serial founder effect originating in Africa.
,
2005,
Proceedings of the National Academy of Sciences of the United States of America.
[85]
David C. McLean,et al.
Mitochondrial DNA genetic diversity among four ethnic groups in Sierra Leone.
,
2005,
American journal of physical anthropology.
[86]
J. Martínez-Cruzado,et al.
Reconstructing the population history of Puerto Rico by means of mtDNA phylogeographic analysis.
,
2005,
American journal of physical anthropology.
[87]
R. Brosch,et al.
Ancient Origin and Gene Mosaicism of the Progenitor of Mycobacterium tuberculosis
,
2005,
PLoS pathogens.
[88]
L. G. Wilson.
Commentary: Medicine, population, and tuberculosis.
,
2005,
International journal of epidemiology.
[89]
R. Villems,et al.
Ethiopian mitochondrial DNA heritage: tracking gene flow across and around the gate of tears.
,
2004,
American journal of human genetics.
[90]
Hidetoshi Shimodaira,et al.
Mitochondrial genome variation in eastern Asia and the peopling of Japan.
,
2004,
Genome research.
[91]
S. Mastana,et al.
Most of the extant mtDNA boundaries in South and Southwest Asia were likely shaped during the initial settlement of Eurasia by anatomically modern humans
,
2004,
BMC Genetics.
[92]
R. Villems,et al.
MtDNA Profile of West Africa Guineans: Towards a Better Understanding of the Senegambia Region
,
2004,
Annals of human genetics.
[93]
C. Tyler-Smith,et al.
Where west meets east: the complex mtDNA landscape of the southwest and Central Asian corridor.
,
2004,
American journal of human genetics.
[94]
Marcus W Feldman,et al.
Stable association between strains of Mycobacterium tuberculosis and their human host populations.
,
2004,
Proceedings of the National Academy of Sciences of the United States of America.
[95]
Alicia Aranaz,et al.
Genomic deletions suggest a phylogeny for the Mycobacterium tuberculosis complex.
,
2002,
The Journal of infectious diseases.
[96]
C. Buchrieser,et al.
A new evolutionary scenario for the Mycobacterium tuberculosis complex
,
2002,
Proceedings of the National Academy of Sciences of the United States of America.
[97]
B. Su,et al.
Natives or immigrants: modern human origin in east asia
,
2000,
Nature Reviews Genetics.
[98]
A. Knight,et al.
mtDNA affinities of the peoples of North-Central Mexico.
,
2000,
American journal of human genetics.
[99]
J. Diamond,et al.
Guns, Germs, and Steel: The Fates of Human Societies
,
1999
.
[100]
T. A. Hall,et al.
BIOEDIT: A USER-FRIENDLY BIOLOGICAL SEQUENCE ALIGNMENT EDITOR AND ANALYSIS PROGRAM FOR WINDOWS 95/98/ NT
,
1999
.
[101]
A. Torroni,et al.
Classification of European mtDNAs from an analysis of three European populations.
,
1996,
Genetics.
[102]
R. Ferrell,et al.
mtDNA variation indicates Mongolia may have been the source for the founding population for the New World.
,
1996,
American journal of human genetics.