Abstract:
:Genetic studies have identified substantial non-African admixture in the Horn of Africa (HOA). In the most recent genomic studies, this non-African ancestry has been attributed to admixture with Middle Eastern populations during the last few thousand years. However, mitochondrial and Y chromosome data are suggestive of earlier episodes of admixture. To investigate this further, we generated new genome-wide SNP data for a Yemeni population sample and merged these new data with published genome-wide genetic data from the HOA and a broad selection of surrounding populations. We used multidimensional scaling and ADMIXTURE methods in an exploratory data analysis to develop hypotheses on admixture and population structure in HOA populations. These analyses suggested that there might be distinct, differentiated African and non-African ancestries in the HOA. After partitioning the SNP data into African and non-African origin chromosome segments, we found support for a distinct African (Ethiopic) ancestry and a distinct non-African (Ethio-Somali) ancestry in HOA populations. The African Ethiopic ancestry is tightly restricted to HOA populations and likely represents an autochthonous HOA population. The non-African ancestry in the HOA, which is primarily attributed to a novel Ethio-Somali inferred ancestry component, is significantly differentiated from all neighboring non-African ancestries in North Africa, the Levant, and Arabia. The Ethio-Somali ancestry is found in all admixed HOA ethnic groups, shows little inter-individual variance within these ethnic groups, is estimated to have diverged from all other non-African ancestries by at least 23 ka, and does not carry the unique Arabian lactase persistence allele that arose about 4 ka. Taking into account published mitochondrial, Y chromosome, paleoclimate, and archaeological data, we find that the time of the Ethio-Somali back-to-Africa migration is most likely pre-agricultural.
journal_name
PLoS Genetjournal_title
PLoS geneticsauthors
Hodgson JA,Mulligan CJ,Al-Meeri A,Raaum RLdoi
10.1371/journal.pgen.1004393subject
Has Abstractpub_date
2014-06-12 00:00:00pages
e1004393issue
6eissn
1553-7390issn
1553-7404pii
PGENETICS-D-13-01333journal_volume
10pub_type
杂志文章相关文献
PLoS Genetics文献大全abstract::Here we demonstrate association of variants in the mitochondrial asparaginyl-tRNA synthetase NARS2 with human hearing loss and Leigh syndrome. A homozygous missense mutation ([c.637G>T; p.Val213Phe]) is the underlying cause of nonsyndromic hearing loss (DFNB94) and compound heterozygous mutations ([c.969T>A; p.Tyr323*...
journal_title:PLoS genetics
pub_type: 杂志文章
doi:10.1371/journal.pgen.1005097
更新日期:2015-03-25 00:00:00
abstract::Aneuploidy refers to losses and/or gains of individual chromosomes from the normal chromosome set. The resulting gene dosage imbalance has a noticeable affect on the phenotype, as illustrated by aneuploid syndromes, including Down syndrome in humans, and by human solid tumor cells, which are highly aneuploid. Although...
journal_title:PLoS genetics
pub_type: 杂志文章
doi:10.1371/journal.pgen.1000226
更新日期:2008-10-01 00:00:00
abstract::Genomic concepts are based on the assumption that phenotypes arise from the expression of genetic variants. However, the presence of non-Mendelian inheritance patterns provides a direct challenge to this view and suggests an important role for alternative mechanisms of gene regulation and inheritance. Over the past fe...
journal_title:PLoS genetics
pub_type: 杂志文章,评审
doi:10.1371/journal.pgen.1004296
更新日期:2014-04-17 00:00:00
abstract::Piwi-interacting RNAs are a diverse class of small non-coding RNAs implicated in the silencing of transposable elements and the safeguarding of genome integrity. In mammals, male germ cells express two genetically and developmentally distinct populations of piRNAs at the pre-pachytene and pachytene stages of meiosis, ...
journal_title:PLoS genetics
pub_type: 杂志文章
doi:10.1371/journal.pgen.1003038
更新日期:2012-01-01 00:00:00
abstract::Sleep contributes to cognitive functioning and is sufficient to alter brain morphology and function. However, mechanisms underlying sleep regulation remain poorly understood. In mammals, tumor necrosis factor-alpha (TNFα) is known to regulate sleep, and cytokine expression may represent an evolutionarily ancient mecha...
journal_title:PLoS genetics
pub_type: 杂志文章
doi:10.1371/journal.pgen.1007724
更新日期:2018-10-31 00:00:00
abstract::The secondary structure of a pre-mRNA influences a number of processing steps including alternative splicing. Since most splicing regulatory proteins bind to single-stranded RNA, the sequestration of RNA into double strands could prevent their binding. Here, we analyzed the secondary structure context of experimentall...
journal_title:PLoS genetics
pub_type: 杂志文章
doi:10.1371/journal.pgen.0030204
更新日期:2007-11-01 00:00:00
abstract::The mechanism underlying immune system recognition of different types of pathogens has been extensively studied over the past few decades; however, the mechanism by which healthy self-tissue evades an attack by its own immune system is less well-understood. Here, we established an autoimmune model of melanotic mass fo...
journal_title:PLoS genetics
pub_type: 杂志文章
doi:10.1371/journal.pgen.1004683
更新日期:2014-10-16 00:00:00
abstract::The conserved protein kinase Sch9 is a central player in the nutrient-induced signaling network in yeast, although only few of its direct substrates are known. We now provide evidence that Sch9 controls the vacuolar proton pump (V-ATPase) to maintain cellular pH homeostasis and ageing. A synthetic sick phenotype arise...
journal_title:PLoS genetics
pub_type: 杂志文章
doi:10.1371/journal.pgen.1006835
更新日期:2017-06-12 00:00:00
abstract::Bromodomain proteins are key regulators of gene expression. How the levels of these factors are regulated in specific environmental conditions is unknown. Previous work has established that expression of yeast Bromodomain factor 2 (BDF2) is limited by spliceosome-mediated decay (SMD). Here we show that BDF2 is subject...
journal_title:PLoS genetics
pub_type: 杂志文章
doi:10.1371/journal.pgen.1004661
更新日期:2014-09-18 00:00:00
abstract::There is growing evidence that gene expression profiling of peripheral blood cells is a valuable tool for assessing gene signatures related to exposure, drug-response, or disease. However, the true promise of this approach can not be estimated until the scientific community has robust baseline data describing variatio...
journal_title:PLoS genetics
pub_type: 杂志文章
doi:10.1371/journal.pgen.1000873
更新日期:2010-03-12 00:00:00
abstract::The heteropentameric condensin complexes have been shown to participate in mitotic chromosome condensation and to be required for unperturbed chromatid segregation in nuclear divisions. Vertebrates have two condensin complexes, condensin I and condensin II, which contain the same structural maintenance of chromosomes ...
journal_title:PLoS genetics
pub_type: 杂志文章
doi:10.1371/journal.pgen.1003463
更新日期:2013-04-01 00:00:00
abstract::Plants utilize an innate immune system to protect themselves from disease. While many molecular components of plant innate immunity resemble the innate immunity of animals, plants also have evolved a number of truly unique defense mechanisms, particularly at the physiological level. Plant's flexible developmental prog...
journal_title:PLoS genetics
pub_type: 杂志文章
doi:10.1371/journal.pgen.1007132
更新日期:2017-12-18 00:00:00
abstract::In this study we have analysed AtASY3, a coiled-coil domain protein that is required for normal meiosis in Arabidopsis. Analysis of an Atasy3-1 mutant reveals that loss of the protein compromises chromosome axis formation and results in reduced numbers of meiotic crossovers (COs). Although the frequency of DNA double-...
journal_title:PLoS genetics
pub_type: 杂志文章
doi:10.1371/journal.pgen.1002507
更新日期:2012-02-01 00:00:00
abstract::Adipose tissue lipolysis occurs during the development of heart failure as a consequence of chronic adrenergic stimulation. However, the impact of enhanced adipose triacylglycerol hydrolysis mediated by adipose triglyceride lipase (ATGL) on cardiac function is unclear. To investigate the role of adipose tissue lipolys...
journal_title:PLoS genetics
pub_type: 杂志文章
doi:10.1371/journal.pgen.1007171
更新日期:2018-01-10 00:00:00
abstract::CTP synthase is an essential enzyme that plays a key role in energy metabolism. Several independent studies have demonstrated that CTP synthase can form an evolutionarily conserved subcellular structure termed cytoophidium. In budding yeast, there are two isoforms of CTP synthase and both isoforms localize in cytoophi...
journal_title:PLoS genetics
pub_type: 杂志文章
doi:10.1371/journal.pgen.1003256
更新日期:2013-01-01 00:00:00
abstract::Lymphotoxin-alpha (LTA) is a pro-inflammatory cytokine that plays an important role in the immune system and local inflammatory response. LTA is expressed in atherosclerotic plaques and has been implicated in the pathogenesis of atherosclerosis and coronary heart disease (CHD). Polymorphisms in the gene encoding lymph...
journal_title:PLoS genetics
pub_type: 杂志文章
doi:10.1371/journal.pgen.0020107
更新日期:2006-07-01 00:00:00
abstract::Cyclophilin B (CyPB), encoded by PPIB, is an ER-resident peptidyl-prolyl cis-trans isomerase (PPIase) that functions independently and as a component of the collagen prolyl 3-hydroxylation complex. CyPB is proposed to be the major PPIase catalyzing the rate-limiting step in collagen folding. Mutations in PPIB cause re...
journal_title:PLoS genetics
pub_type: 杂志文章
doi:10.1371/journal.pgen.1004465
更新日期:2014-06-26 00:00:00
abstract::The kinetochore is the central molecular machine that drives chromosome segregation in all eukaryotes. Genetic studies have suggested that protein sumoylation plays a role in regulating the inner kinetochore; however, the mechanism remains elusive. Here, we show that Saccharomyces cerevisiae Ulp2, an evolutionarily co...
journal_title:PLoS genetics
pub_type: 杂志文章
doi:10.1371/journal.pgen.1008477
更新日期:2019-11-20 00:00:00
abstract::Genome-wide association studies (GWAS) have identified over 40 loci that affect risk of coronary artery disease (CAD) and the causal mechanisms at the majority of loci are unknown. Recent studies have suggested that many causal GWAS variants influence disease through altered transcriptional regulation in disease-relev...
journal_title:PLoS genetics
pub_type: 杂志文章
doi:10.1371/journal.pgen.1005061
更新日期:2015-04-02 00:00:00
abstract::Nephrolithiasis is a common nephrologic disorder with complex etiology. To identify the genetic factor(s) for nephrolithiasis, we conducted a three-stage genome-wide association study (GWAS) using a total of 5,892 nephrolithiasis cases and 17,809 controls of Japanese origin. Here we found three novel loci for nephroli...
journal_title:PLoS genetics
pub_type: 杂志文章
doi:10.1371/journal.pgen.1002541
更新日期:2012-01-01 00:00:00
abstract::Dietary factors, including meat, fruits, vegetables and fiber, are associated with colorectal cancer; however, there is limited information as to whether these dietary factors interact with genetic variants to modify risk of colorectal cancer. We tested interactions between these dietary factors and approximately 2.7 ...
journal_title:PLoS genetics
pub_type: 杂志文章
doi:10.1371/journal.pgen.1004228
更新日期:2014-04-17 00:00:00
abstract::Arthrobacter sp. strains are among the most frequently isolated, indigenous, aerobic bacterial genera found in soils. Member of the genus are metabolically and ecologically diverse and have the ability to survive in environmentally harsh conditions for extended periods of time. The genome of Arthrobacter aurescens str...
journal_title:PLoS genetics
pub_type: 杂志文章
doi:10.1371/journal.pgen.0020214
更新日期:2006-12-01 00:00:00
abstract::ATP-dependent chromatin remodelers control DNA access for transcription, recombination, and other processes. Acf1 (also known as BAZ1A in mammals) is a defining subunit of the conserved ISWI-family chromatin remodelers ACF and CHRAC, first purified over 15 years ago from Drosophila melanogaster embryos. Much is known ...
journal_title:PLoS genetics
pub_type: 杂志文章
doi:10.1371/journal.pgen.1003945
更新日期:2013-11-01 00:00:00
abstract::Magnetosomes of magnetotactic bacteria contain well-ordered nanocrystals for magnetic navigation and have recently emerged as the most sophisticated model system to study the formation of membrane bounded organelles in prokaryotes. Magnetosome biosynthesis is thought to begin with the formation of a dedicated compartm...
journal_title:PLoS genetics
pub_type: 杂志文章
doi:10.1371/journal.pgen.1006101
更新日期:2016-06-10 00:00:00
abstract::Sleep is a nearly universal behavior that is regulated by diverse environmental stimuli and physiological states. A defining feature of sleep is a homeostatic rebound following deprivation, where animals compensate for lost sleep by increasing sleep duration and/or sleep depth. The fruit fly, Drosophila melanogaster, ...
journal_title:PLoS genetics
pub_type: 杂志文章
doi:10.1371/journal.pgen.1008270
更新日期:2020-03-11 00:00:00
abstract::Rheumatoid arthritis is a chronic inflammatory disease with a high prevalence and substantial socioeconomic burden. Despite intense research efforts, its aetiology and pathogenesis remain poorly understood. To identify novel genes and/or cellular pathways involved in the pathogenesis of the disease, we utilized a well...
journal_title:PLoS genetics
pub_type: 杂志文章
doi:10.1371/journal.pgen.0010048
更新日期:2005-10-01 00:00:00
abstract::The rate at which genomes adapt to environmental changes and the prevalence of adaptive processes in molecular evolution are two controversial issues in current evolutionary genetics. Previous attempts to quantify the genome-wide rate of adaptation through amino-acid substitution have revealed a surprising diversity o...
journal_title:PLoS genetics
pub_type: 杂志文章
doi:10.1371/journal.pgen.1005774
更新日期:2016-01-11 00:00:00
abstract::In recent years different types of structural variants (SVs) have been discovered in the human genome and their functional impact has become increasingly clear. Inversions, however, are poorly characterized and more difficult to study, especially those mediated by inverted repeats or segmental duplications. Here, we d...
journal_title:PLoS genetics
pub_type: 杂志文章
doi:10.1371/journal.pgen.1004208
更新日期:2014-03-20 00:00:00
abstract::Zeins, the predominent storage proteins in maize endosperm, are encoded by multiple genes and gene families. However, only a few transcriptional factors for zein gene regulation have been functionally characterized. In this study, a MADS-box protein, namely ZmMADS47, was identified as an Opaque2 (O2) interacting prote...
journal_title:PLoS genetics
pub_type: 杂志文章
doi:10.1371/journal.pgen.1005991
更新日期:2016-04-14 00:00:00
abstract::Tolerance to high levels of ethanol is an ecologically and industrially relevant phenotype of microbes, but the molecular mechanisms underlying this complex trait remain largely unknown. Here, we use long-term experimental evolution of isogenic yeast populations of different initial ploidy to study adaptation to incre...
journal_title:PLoS genetics
pub_type: 杂志文章
doi:10.1371/journal.pgen.1005635
更新日期:2015-11-06 00:00:00