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Sample records for admixture mapping studies

  1. The Admixture Structure and Genetic Variation of the Archipelago of Cape Verde and Its Implications for Admixture Mapping Studies

    PubMed Central

    Beleza, Sandra; Campos, Joana; Lopes, Jailson; Araújo, Isabel Inês; Hoppfer Almada, Ana; e Silva, António Correia; Parra, Esteban J.; Rocha, Jorge

    2012-01-01

    Recently admixed populations offer unique opportunities for studying human history and for elucidating the genetic basis of complex traits that differ in prevalence between human populations. Historical records, classical protein markers, and preliminary genetic data indicate that the Cape Verde islands in West Africa are highly admixed and primarily descended from European males and African females. However, little is known about the variation in admixture levels, admixture dynamics and genetic diversity across the islands, or about the potential of Cape Verde for admixture mapping studies. We have performed a detailed analysis of phenotypic and genetic variation in Cape Verde based on objective skin color measurements, socio-economic status (SES) evaluations and data for 50 autosomal, 34 X-chromosome, and 21 non-recombinant Y-chromosome (NRY) markers in 845 individuals from six islands of the archipelago. We find extensive genetic admixture between European and African ancestral populations (mean West African ancestry = 0.57, sd = 0.08), with individual African ancestry proportions varying considerably among the islands. African ancestry proportions calculated with X and Y-chromosome markers confirm that the pattern of admixture has been sex-biased. The high-resolution NRY-STRs reveal additional patterns of variation among the islands that are most consistent with differentiation after admixture. The differences in the autosomal admixture proportions are clearly evident in the skin color distribution across the islands (Pearson r = 0.54, P-value<2e–16). Despite this strong correlation, there are significant interactions between SES and skin color that are independent of the relationship between skin color and genetic ancestry. The observed distributions of admixture, genetic variation and skin color and the relationship of skin color with SES relate to historical and social events taking place during the settlement history of Cape Verde, and have

  2. Admixture mapping identifies a quantitative trait locus associated with FEV1/FVC in the COPDGene Study.

    PubMed

    Parker, Margaret M; Foreman, Marilyn G; Abel, Haley J; Mathias, Rasika A; Hetmanski, Jacqueline B; Crapo, James D; Silverman, Edwin K; Beaty, Terri H

    2014-11-01

    African Americans are admixed with genetic contributions from European and African ancestral populations. Admixture mapping leverages this information to map genes influencing differential disease risk across populations. We performed admixture and association mapping in 3,300 African American current or former smokers from the COPDGene Study. We analyzed estimated local ancestry and SNP genotype information to identify regions associated with FEV1 /FVC, the ratio of forced expiratory volume in one second to forced vital capacity, measured by spirometry performed after bronchodilator administration. Global African ancestry inversely associated with FEV1 /FVC (P = 0.035). Genome-wide admixture analysis, controlling for age, gender, body mass index, current smoking status, pack-years smoked, and four principal components summarizing the genetic background of African Americans in the COPDGene Study, identified a region on chromosome 12q14.1 associated with FEV1 /FVC (P = 2.1 × 10(-6) ) when regressed on local ancestry. Allelic association in this region of chromosome 12 identified an intronic variant in FAM19A2 (rs348644) as associated with FEV1 /FVC (P = 1.76 × 10(-6) ). By combining admixture and association mapping, a marker on chromosome 12q14.1 was identified as being associated with reduced FEV1 /FVC ratio among African Americans in the COPDGene Study.

  3. GWAS and admixture mapping identify different asthma-associated loci in Latinos: The GALA II Study

    PubMed Central

    Galanter, Joshua M; Gignoux, Christopher R; Torgerson, Dara G; Roth, Lindsey A; Eng, Celeste; Oh, Sam S; Nguyen, Elizabeth A; Drake, Katherine A; Huntsman, Scott; Hu, Donglei; Sen, Saunak; Davis, Adam; Farber, Harold J.; Avila, Pedro C.; Brigino-Buenaventura, Emerita; LeNoir, Michael A.; Meade, Kelley; Serebrisky, Denise; Borrell, Luisa N; Rodríguez-Cintrón, William; Estrada, Andres Moreno; Mendoza, Karla Sandoval; Winkler, Cheryl A.; Klitz, William; Romieu, Isabelle; London, Stephanie J.; Gilliland, Frank; Martinez, Fernando; Bustamante, Carlos; Williams, L Keoki; Kumar, Rajesh; Rodríguez-Santana, José R.; Burchard, and Esteban G.

    2013-01-01

    Background Asthma is a complex disease with both genetic and environmental causes. Genome-wide association studies of asthma have mostly involved European populations and replication of positive associations has been inconsistent. Objective To identify asthma-associated genes in a large Latino population with genome-wide association analysis and admixture mapping. Methods Latino children with asthma (n = 1,893) and healthy controls (n = 1,881) were recruited from five sites in the United States: Puerto Rico, New York, Chicago, Houston, and the San Francisco Bay Area. Subjects were genotyped on an Affymetrix World Array IV chip. We performed genome-wide association and admixture mapping to identify asthma-associated loci. Results We identified a significant association between ancestry and asthma at 6p21 (lowest p-value: rs2523924, p < 5 × 10−6). This association replicates in a meta-analysis of the EVE Asthma Consortium (p = 0.01). Fine mapping of the region in this study and the EVE Asthma Consortium suggests an association between PSORS1C1 and asthma. We confirmed the strong allelic association between the 17q21 asthma in Latinos (IKZF3, lowest p-value: rs90792, OR: 0.67, 95% CI 0.61 – 0.75, p = 6 × 10−13) and replicated associations in several genes that had previously been associated with asthma in genome-wide association studies. Conclusions Admixture mapping and genome-wide association are complementary techniques that provide evidence for multiple asthma-associated loci in Latinos. Admixture mapping identifies a novel locus on 6p21 that replicates in a meta-analysis of several Latino populations, while genome-wide association confirms the previously identified locus on 17q21. PMID:24406073

  4. Results from a prostate cancer admixture mapping study in African-American men.

    PubMed

    Bock, Cathryn Hufford; Schwartz, Ann G; Ruterbusch, Julie J; Levin, Albert M; Neslund-Dudas, Christine; Land, Susan J; Wenzlaff, Angela S; Reich, David; McKeigue, Paul; Chen, Wei; Heath, Elisabeth I; Powell, Isaac J; Kittles, Rick A; Rybicki, Benjamin A

    2009-11-01

    There are considerable racial disparities in prostate cancer risk, with a 60% higher incidence rate among African-American (AA) men compared with European-American (EA) men, and a 2.4-fold higher mortality rate in AA men than in EA men. Recently, studies have implicated several African-ancestry associated prostate cancer susceptibility loci on chromosome 8q24. In the current study, we performed admixture mapping in AA men from two independent case-control studies of prostate cancer to confirm the 8q24 ancestry association and also identify other genomic regions that may harbor prostate cancer susceptibility genes. A total of 482 cases and 261 controls were genotyped for 1,509 ancestry informative markers across the genome. The mean estimated individual admixture proportions were 20% European and 80% African. The most significant observed increase in European ancestry occurred at rs2141360 on chromosome 7q31 in both the case-only (P = 0.0000035) and case-control analyses. The most significant observed increase in African ancestry across the genome occurred at a locus on chromosome 5q35 identified by SNPs rs7729084 (case-only analysis P = 0.002), and rs12474977 (case-control analysis P = 0.004), which are separated by 646 kb and were adjacent to one another on the panel. On chromosome 8, rs4367565 was associated with the greatest excess African ancestry in both the case-only and case-control analyses (case-only and case-control P = 0.02), confirming previously reported African-ancestry associations with chromosome 8q24. In conclusion, we confirmed ancestry associations on 8q24, and identified additional ancestry-associated regions potentially harboring prostate cancer susceptibility loci.

  5. Admixture mapping of serum vitamin D and parathyroid hormone concentrations in the African American-Diabetes Heart Study.

    PubMed

    Palmer, Nicholette D; Divers, Jasmin; Lu, Lingyi; Register, Thomas C; Carr, J Jeffrey; Hicks, Pamela J; Smith, S Carrie; Xu, Jianzhao; Judd, Suzanne E; Irvin, Marguerite R; Gutierrez, Orlando M; Bowden, Donald W; Wagenknecht, Lynne E; Langefeld, Carl D; Freedman, Barry I

    2016-06-01

    Vitamin D and intact parathyroid hormone (iPTH) concentrations differ between individuals of African and European descent and may play a role in observed racial differences in bone mineral density (BMD). These findings suggest that mapping by admixture linkage disequilibrium (MALD) may be informative for identifying genetic variants contributing to these ethnic disparities. Admixture mapping was performed for serum 25-hydroxyvitamin D, 1,25-dihydroxyvitamin D, vitamin D-binding protein (VDBP), bioavailable vitamin D, and iPTH concentrations and computed tomography measured thoracic and lumbar vertebral volumetric BMD in 552 unrelated African Americans with type 2 diabetes from the African American-Diabetes Heart Study. Genotyping was performed using a custom Illumina ancestry informative marker (AIM) panel. For each AIM, the probability of inheriting 0, 1, or 2 copies of a European-derived allele was determined. Non-parametric linkage analysis was performed by testing for association between each AIM using these probabilities among phenotypes, accounting for global ancestry, age, and gender. Fine-mapping of MALD peaks was facilitated by genome-wide association study (GWAS) data. VDBP levels were significantly linked in proximity to the protein coding locus (rs7689609, LOD=11.05). Two loci exhibited significant linkage signals for 1,25-dihydroxyvitamin D on 13q21.2 (rs1622710, LOD=3.20) and 12q13.2 (rs11171526, LOD=3.10). iPTH was significantly linked on 9q31.3 (rs7854368, LOD=3.14). Fine-mapping with GWAS data revealed significant known (rs7041 with VDBP, P=1.38×10(-82)) and novel (rs12741813 and rs10863774 with VDBP, P<6.43×10(-5)) loci with plausible biological roles. Admixture mapping in combination with fine-mapping has focused efforts to identify loci contributing to ethnic differences in vitamin D-related traits. PMID:27032714

  6. A Genomewide Admixture Map for Latino Populations

    PubMed Central

    Price, Alkes L. ; Patterson, Nick ; Yu, Fuli ; Cox, David R. ; Waliszewska, Alicja ; McDonald, Gavin J. ; Tandon, Arti ; Schirmer, Christine ; Neubauer, Julie ; Bedoya, Gabriel ; Duque, Constanza ; Villegas, Alberto ; Bortolini, Maria Catira ; Salzano, Francisco M. ; Gallo, Carla ; Mazzotti, Guido ; Tello-Ruiz, Marcela ; Riba, Laura ; Aguilar-Salinas, Carlos A. ; Canizales-Quinteros, Samuel ; Menjivar, Marta ; Klitz, William ; Henderson, Brian ; Haiman, Christopher A. ; Winkler, Cheryl ; Tusie-Luna, Teresa ; Ruiz-Linares, Andrés ; Reich, David 

    2007-01-01

    Admixture mapping is an economical and powerful approach for localizing disease genes in populations of recently mixed ancestry and has proven successful in African Americans. The method holds equal promise for Latinos, who typically inherit a mix of European, Native American, and African ancestry. However, admixture mapping in Latinos has not been practical because of the lack of a map of ancestry-informative markers validated in Native American and other populations. To address this, we screened multiple databases, containing millions of markers, to identify 4,186 markers that were putatively informative for determining the ancestry of chromosomal segments in Latino populations. We experimentally validated each of these markers in at least 232 new Latino, European, Native American, and African samples, and we selected a subset of 1,649 markers to form an admixture map. An advantage of our strategy is that we focused our map on markers distinguishing Native American from other ancestries and restricted it to markers with very similar frequencies in Europeans and Africans, which decreased the number of markers needed and minimized the possibility of false disease associations. We evaluated the effectiveness of our map for localizing disease genes in four Latino populations from both North and South America. PMID:17503322

  7. Admixture in Hispanic Americans: its impact on ITGAM association and implications for admixture mapping in SLE.

    PubMed

    Molineros, J E; Kim-Howard, X; Deshmukh, H; Jacob, C O; Harley, J B; Nath, S K

    2009-07-01

    Systemic Lupus Erythematosus (SLE) disproportionately affects minorities, such as Hispanic Americans (HA). Prevalence of SLE is 3-5 times higher in HA than in European-derived populations and have more active disease at the time of diagnosis, with more serious organ system involvement. HA is an admixed population, it is possible that there is an effect of admixture on the relative risk of the disease. This admixture can create substantial increase of linkage disequilibrium (LD) in both magnitude and range, which can provide a unique opportunity for admixture mapping. The main objectives of this study are to (a) estimate hidden population structure in HA individuals; (b) estimate individual ancestry proportions and its impact on SLE risk; (c) assess impact of admixture on ITGAM association, a recently identified SLE susceptibility gene; and (d) estimate power of admixture mapping in HA. Our dataset contained 1125 individuals, of whom 884 (657 SLE cases and 227 controls) were self-classified as HA. Using 107 unlinked ancestry informative markers (AIMs), we estimated hidden population structure and individual ancestry in HA. Out of 5671 possible pairwise LD, 54% were statistically significant, indicating recent population admixture. The best-fitted model for HA was a four-population model with average ancestry of European (48%), American-Indian (AI) (40%), African (8%) and a fourth population (4%) with unknown ancestry. We also identified significant higher risk associated with AI ancestry (odds ratio (OR)=4.84, P=0.0001, 95% CI (confidence interval)=2.14-10.95) on overall SLE. We showed that ITGAM is associated as a risk factor for SLE (OR=2.06, P=8.74 x 10(-5), 95% CI=1.44-2.97). This association is not affected by population substructure or admixture. We have shown that HA have great potential and are an appropriate population for admixture mapping. As expected, the case-only design is more powerful than case-control design, for any given admixture proportion or

  8. Genome-wide Association Study and Admixture Mapping Reveal New Loci Associated with Total IgE Levels in Latinos

    PubMed Central

    Pino-Yanes, Maria; Gignoux, Christopher R.; Galanter, Joshua M.; Levin, Albert M.; Campbell, Catarina D.; Eng, Celeste; Huntsman, Scott; Nishimura, Katherine K.; Gourraud, Pierre-Antoine; Mohajeri, Kiana; O'Roak, Brian J.; Hu, Donglei; Mathias, Rasika A.; Nguyen, Elizabeth A.; Roth, Lindsey A.; Padhukasahasram, Badri; Moreno-Estrada, Andres; Sandoval, Karla; Winkler, Cheryl A.; Lurmann, Fred; Davis, Adam; Farber, Harold J.; Meade, Kelley; Avila, Pedro C.; Serebrisky, Denise; Chapela, Rocio; Ford, Jean G.; Lenoir, Michael A.; Thyne, Shannon M.; Brigino-Buenaventura, Emerita; Borrell, Luisa N.; Rodriguez-Cintron, William; Sen, Saunak; Kumar, Rajesh; Rodriguez-Santana, Jose R.; Bustamante, Carlos D.; Martinez, Fernando D.; Raby, Benjamin A.; Weiss, Scott T.; Nicolae, Dan L.; Ober, Carole; Meyers, Deborah A.; Bleecker, Eugene R.; Mack, Steven J.; Hernandez, Ryan D.; Eichler, Evan E.; Barnes, Kathleen C.; Williams, L. Keoki; Torgerson, Dara G.; Burchard, Esteban G.

    2014-01-01

    Background Immunoglobulin E (IgE) is a key mediator of allergic inflammation and is frequently elevated in allergic disorders. Objective To identify genetic variants associated with IgE levels in Latinos. Methods We performed a genome-wide association study (GWAS) and admixture mapping of total IgE levels in 3,334 Latinos from the Genes-environments & Admixture in Latino Americans (GALA II) study. Replication was evaluated in 454 Latinos, 1,564 European Americans, and 3,187 African Americans from independent studies. Results We confirmed associations of six genes identified by previous GWAS and identified a novel genome-wide significant association of a polymorphism in ZNF365 with total IgE (rs200076616, p=2.3x10−8). We next identified four admixture mapping peaks (6p21.32-p22.1, 13p22-31, 14q23.2, and 22q13.1) where local African, European, and/or Native American ancestry was significantly associated with IgE levels. The most significant peak was 6p21.32-p22.1, where Native American ancestry was associated with lower levels of IgE (p=4.95x10−8). All but 22q13.1 were replicated in an independent sample of Latinos, and two of the peaks were replicated in African Americans (6p21.32-p22.1 and 14q23.2). Fine mapping of 6p21.32-p22.1 identified six genome-wide significant single nucleotide polymorphisms in Latinos, two of which replicated in European Americans. Another SNP was peak-wide significant within 14q23.2 in African Americans (rs1741099, p=3.7x10−6), and replicated in non-African American samples (p=0.011). Conclusion We confirmed genetic associations at six genes, and identified novel associations within ZNF365, HLA-DQA1, and 14q23.2. Our results highlight the importance of studying diverse, multi-ethnic populations to uncover novel loci associated with total IgE levels. PMID:25488688

  9. Follow-up to genome-wide linkage and admixture mapping studies implicates components of the extracellular matrix in susceptibility to and size of uterine fibroids

    PubMed Central

    Aissani, Brahim; Zhang, Kui; Wiener, Howard

    2014-01-01

    Objective To conduct a follow-up association mapping to independent genome-wide linkage and admixture mapping studies of uterine leiomyoma. Design Case-control study. Setting Cross sectional study. Patients A total of 1,045 premenopausal North American women participants to the NIEHS uterine fibroid study. Intervention(s) None. Main Outcome Measure(s) We genotyped 2,772 single nucleotide polymorphisms from candidate genes located in peaks from linkage mapping (2q37, 3p21, 5p13, 10p11, 11p15, 12q14, 17q25) or admixture linkage disequilibrium mapping (2q37, 4p16.1, 10q26) and reported to have regulated expression in uterine fibroids. Results We report significant associations of variant members of the collagen gene family with the risk and tumor size, including missense variants in COL6A3 and COL13A, with replications in the African and European American study groups. Furthermore, the cell-matrix Rho GTPase-encoding ARHGAP26 gene and MAN1C1, a gene encoding a Golgi mannosidase involved in the maturation of procollagens emerged as new candidate UL genes affecting both the risk and tumor size. Conclusion Our data converge onto a model of UL pathogenesis possibly resulting from altered regulation, maintenance and/or renewal of the extracellular matrix. PMID:25455875

  10. Admixture mapping of white cell count: genetic locus responsible for lower white blood cell count in the Health ABC and Jackson Heart studies.

    PubMed

    Nalls, Michael A; Wilson, James G; Patterson, Nick J; Tandon, Arti; Zmuda, Joseph M; Huntsman, Scott; Garcia, Melissa; Hu, Donglei; Li, Rongling; Beamer, Brock A; Patel, Kushang V; Akylbekova, Ermeg L; Files, Joe C; Hardy, Cheryl L; Buxbaum, Sarah G; Taylor, Herman A; Reich, David; Harris, Tamara B; Ziv, Elad

    2008-01-01

    White blood cell count (WBC) is an important clinical marker that varies among different ethnic groups. African Americans are known to have a lower WBC than European Americans. We surveyed the entire genome for loci underlying this difference in WBC by using admixture mapping. We analyzed data from African American participants in the Health, Aging, and Body Composition Study and the Jackson Heart Study. Participants of both studies were genotyped across >or= 1322 single nucleotide polymorphisms that were pre-selected to be informative for African versus European ancestry and span the entire genome. We used these markers to estimate genetic ancestry in each chromosomal region and then tested the association between WBC and genetic ancestry at each locus. We found a locus on chromosome 1q strongly associated with WBC (p < 10(-12)). The strongest association was with a marker known to affect the expression of the Duffy blood group antigen. Participants who had both copies of the common West African allele had a mean WBC of 4.9 (SD 1.3); participants who had both common European alleles had a mean WBC of 7.1 (SD 1.3). This variant explained approximately 20% of population variation in WBC. We used admixture mapping, a novel method for conducting genetic-association studies, to find a region that was significantly associated with WBC on chromosome 1q. Additional studies are needed to determine the biological mechanism for this effect and its clinical implications.

  11. Admixture Mapping of White Cell Count: Genetic Locus Responsible for Lower White Blood Cell Count in the Health ABC and Jackson Heart Studies

    PubMed Central

    Nalls, Michael A.; Wilson, James G.; Patterson, Nick J.; Tandon, Arti; Zmuda, Joseph M.; Huntsman, Scott; Garcia, Melissa; Hu, Donglei; Li, Rongling; Beamer, Brock A.; Patel, Kushang V.; Akylbekova, Ermeg L.; Files, Joe C.; Hardy, Cheryl L.; Buxbaum, Sarah G.; Taylor, Herman A.; Reich, David; Harris, Tamara B.; Ziv, Elad

    2008-01-01

    White blood cell count (WBC) is an important clinical marker that varies among different ethnic groups. African Americans are known to have a lower WBC than European Americans. We surveyed the entire genome for loci underlying this difference in WBC by using admixture mapping. We analyzed data from African American participants in the Health, Aging, and Body Composition Study and the Jackson Heart Study. Participants of both studies were genotyped across ≥ 1322 single nucleotide polymorphisms that were pre-selected to be informative for African versus European ancestry and span the entire genome. We used these markers to estimate genetic ancestry in each chromosomal region and then tested the association between WBC and genetic ancestry at each locus. We found a locus on chromosome 1q strongly associated with WBC (p < 10−12). The strongest association was with a marker known to affect the expression of the Duffy blood group antigen. Participants who had both copies of the common West African allele had a mean WBC of 4.9 (SD 1.3); participants who had both common European alleles had a mean WBC of 7.1 (SD 1.3). This variant explained ∼20% of population variation in WBC. We used admixture mapping, a novel method for conducting genetic-association studies, to find a region that was significantly associated with WBC on chromosome 1q. Additional studies are needed to determine the biological mechanism for this effect and its clinical implications. PMID:18179887

  12. A genomewide admixture mapping panel for Hispanic/Latino populations.

    PubMed

    Mao, Xianyun; Bigham, Abigail W; Mei, Rui; Gutierrez, Gerardo; Weiss, Ken M; Brutsaert, Tom D; Leon-Velarde, Fabiola; Moore, Lorna G; Vargas, Enrique; McKeigue, Paul M; Shriver, Mark D; Parra, Esteban J

    2007-06-01

    Admixture mapping (AM) is a promising method for the identification of genetic risk factors for complex traits and diseases showing prevalence differences among populations. Efficient application of this method requires the use of a genomewide panel of ancestry-informative markers (AIMs) to infer the population of origin of chromosomal regions in admixed individuals. Genomewide AM panels with markers showing high frequency differences between West African and European populations are already available for disease-gene discovery in African Americans. However, no such a map is yet available for Hispanic/Latino populations, which are the result of two-way admixture between Native American and European populations or of three-way admixture of Native American, European, and West African populations. Here, we report a genomewide AM panel with 2,120 AIMs showing high frequency differences between Native American and European populations. The average intermarker genetic distance is ~1.7 cM. The panel was identified by genotyping, with the Affymetrix GeneChip Human Mapping 500K array, a population sample with European ancestry, a Mesoamerican sample comprising Maya and Nahua from Mexico, and a South American sample comprising Aymara/Quechua from Bolivia and Quechua from Peru. The main criteria for marker selection were both high information content for Native American/European ancestry (measured as the standardized variance of the allele frequencies, also known as "f value") and small frequency differences between the Mesoamerican and South American samples. This genomewide AM panel will make it possible to apply AM approaches in many admixed populations throughout the Americas. PMID:17503334

  13. A Genomewide Admixture Mapping Panel for Hispanic/Latino Populations

    PubMed Central

    Mao, Xianyun ; Bigham, Abigail W. ; Mei, Rui ; Gutierrez, Gerardo ; Weiss, Ken M. ; Brutsaert, Tom D. ; Leon-Velarde, Fabiola ; Moore, Lorna G. ; Vargas, Enrique ; McKeigue, Paul M. ; Shriver, Mark D. ; Parra, Esteban J. 

    2007-01-01

    Admixture mapping (AM) is a promising method for the identification of genetic risk factors for complex traits and diseases showing prevalence differences among populations. Efficient application of this method requires the use of a genomewide panel of ancestry-informative markers (AIMs) to infer the population of origin of chromosomal regions in admixed individuals. Genomewide AM panels with markers showing high frequency differences between West African and European populations are already available for disease-gene discovery in African Americans. However, no such a map is yet available for Hispanic/Latino populations, which are the result of two-way admixture between Native American and European populations or of three-way admixture of Native American, European, and West African populations. Here, we report a genomewide AM panel with 2,120 AIMs showing high frequency differences between Native American and European populations. The average intermarker genetic distance is ∼1.7 cM. The panel was identified by genotyping, with the Affymetrix GeneChip Human Mapping 500K array, a population sample with European ancestry, a Mesoamerican sample comprising Maya and Nahua from Mexico, and a South American sample comprising Aymara/Quechua from Bolivia and Quechua from Peru. The main criteria for marker selection were both high information content for Native American/European ancestry (measured as the standardized variance of the allele frequencies, also known as “f value”) and small frequency differences between the Mesoamerican and South American samples. This genomewide AM panel will make it possible to apply AM approaches in many admixed populations throughout the Americas. PMID:17503334

  14. Admixture mapping of lung cancer in 1812 African-Americans.

    PubMed

    Schwartz, Ann G; Wenzlaff, Angela S; Bock, Cathryn H; Ruterbusch, Julie J; Chen, Wei; Cote, Michele L; Artis, Amanda S; Van Dyke, Alison L; Land, Susan J; Harris, Curtis C; Pine, Sharon R; Spitz, Margaret R; Amos, Christopher I; Levin, Albert M; McKeigue, Paul M

    2011-03-01

    Lung cancer continues to be the leading cause of cancer death in the USA and the best example of a cancer with undisputed evidence of environmental risk. However, a genetic contribution to lung cancer has also been demonstrated by studies of familial aggregation, family-based linkage, candidate gene studies and most recently genome-wide association studies (GWAS). The African-American population has been underrepresented in these genetic studies and has patterns of cigarette use and linkage disequilibrium that differ from patterns in other populations. Therefore, studies in African-Americans can provide complementary data to localize lung cancer susceptibility genes and explore smoking dependence-related genes. We used admixture mapping to further characterize genetic risk of lung cancer in a series of 837 African-American lung cancer cases and 975 African-American controls genotyped at 1344 ancestry informative single-nucleotide polymorphisms. Both case-only and case-control analyses were conducted using ADMIXMAP adjusted for age, sex, pack-years of smoking, family history of lung cancer, history of emphysema and study site. In case-only analyses, excess European ancestry was observed over a wide region on chromosome 1 with the largest excess seen at rs6587361 for non-small-cell lung cancer (NSCLC) (Z-score = -4.33; P = 1.5 × 10⁻⁵) and for women with NSCLC (Z-score = -4.82; P = 1.4 × 10⁻⁶). Excess African ancestry was also observed on chromosome 3q with a peak Z-score of 3.33 (P = 0.0009) at rs181696 among ever smokers with NSCLC. These results add to the findings from the GWAS in Caucasian populations and suggest novel regions of interest.

  15. African Ancestry Analysis and Admixture Genetic Mapping for Proliferative Diabetic Retinopathy in African Americans

    PubMed Central

    Tandon, Arti; Chen, Ching J.; Penman, Alan; Hancock, Heather; James, Maurice; Husain, Deeba; Andreoli, Christopher; Li, Xiaohui; Kuo, Jane Z.; Idowu, Omolola; Riche, Daniel; Papavasilieou, Evangelia; Brauner, Stacey; Smith, Sataria O.; Hoadley, Suzanne; Richardson, Cole; Kieser, Troy; Vazquez, Vanessa; Chi, Cheryl; Fernandez, Marlene; Harden, Maegan; Cotch, Mary Frances; Siscovick, David; Taylor, Herman A.; Wilson, James G.; Reich, David; Wong, Tien Y.; Klein, Ronald; Klein, Barbara E. K.; Rotter, Jerome I.; Patterson, Nick; Sobrin, Lucia

    2015-01-01

    Purpose. To examine the relationship between proportion of African ancestry (PAA) and proliferative diabetic retinopathy (PDR) and to identify genetic loci associated with PDR using admixture mapping in African Americans with type 2 diabetes (T2D). Methods. Between 1993 and 2013, 1440 participants enrolled in four different studies had fundus photographs graded using the Early Treatment Diabetic Retinopathy Study scale. Cases (n = 305) had PDR while controls (n = 1135) had nonproliferative diabetic retinopathy (DR) or no DR. Covariates included diabetes duration, hemoglobin A1C, systolic blood pressure, income, and education. Genotyping was performed on the Affymetrix platform. The association between PAA and PDR was evaluated using logistic regression. Genome-wide admixture scanning was performed using ANCESTRYMAP software. Results. In the univariate analysis, PDR was associated with increased PAA (odds ratio [OR] = 1.36, 95% confidence interval [CI] = 1.16–1.59, P = 0.0002). In multivariate regression adjusting for traditional DR risk factors, income and education, the association between PAA and PDR was attenuated and no longer significant (OR = 1.21, 95% CI = 0.59–2.47, P = 0.61). For the admixture analyses, the maximum genome-wide score was 1.44 on chromosome 1. Conclusions. In this largest study of PDR in African Americans with T2D to date, an association between PAA and PDR is not present after adjustment for clinical, demographic, and socioeconomic factors. No genome-wide significant locus (defined as having a locus-genome statistic > 5) was identified with admixture analysis. Further analyses with even larger sample sizes are needed to definitively assess if any admixture signal for DR is present. PMID:26098467

  16. Admixture mapping of end stage kidney disease genetic susceptibility using estimated mutual information ancestry informative markers

    PubMed Central

    2010-01-01

    Background The question of a genetic contribution to the higher prevalence and incidence of end stage kidney disease (ESKD) among African Americans (AA) remained unresolved, until recent findings using admixture mapping pointed to the association of a genomic locus on chromosome 22 with this disease phenotype. In the current study we utilize this example to demonstrate the utility of applying a multi-step admixture mapping approach. Methods A multi-step case only admixture mapping study, consisted of the following steps was designed: 1) Assembly of the sample dataset (ESKD AA); 2) Design of the estimated mutual information ancestry informative markers (n = 2016) screening panel 3); Genotyping the sample set whose size was determined by a power analysis (n = 576) appropriate for the initial screening panel; 4) Inference of local ancestry for each individual and identification of regions with increased AA ancestry using two different ancestry inference statistical approaches; 5) Enrichment of the initial screening panel; 6) Power analysis of the enriched panel 7) Genotyping of additional samples. 8) Re-analysis of the genotyping results to identify a genetic risk locus. Results The initial screening phase yielded a significant peak using the ADMIXMAP ancestry inference program applying case only statistics. Subgroup analysis of 299 ESKD patients with no history of diabetes yielded peaks using both the ANCESTRYMAP and ADMIXMAP ancestry inference programs. The significant peak was found on chromosome 22. Genotyping of additional ancestry informative markers on chromosome 22 that took into account linkage disequilibrium in the ancestral populations, and the addition of samples increased the statistical significance of the finding. Conclusions A multi-step admixture mapping analysis of AA ESKD patients replicated the finding of a candidate risk locus on chromosome 22, contributing to the heightened susceptibility of African Americans to develop non-diabetic ESKD, and

  17. A Genomewide Single-Nucleotide–Polymorphism Panel for Mexican American Admixture Mapping

    PubMed Central

    Tian, Chao ; Hinds, David A. ; Shigeta, Russell ; Adler, Sharon G. ; Lee, Annette ; Pahl, Madeleine V. ; Silva, Gabriel ; Belmont, John W. ; Hanson, Robert L. ; Knowler, William C. ; Gregersen, Peter K. ; Ballinger, Dennis G. ; Seldin, Michael F. 

    2007-01-01

    For admixture mapping studies in Mexican Americans (MAM), we define a genomewide single-nucleotide–polymorphism (SNP) panel that can distinguish between chromosomal segments of Amerindian (AMI) or European (EUR) ancestry. These studies used genotypes for >400,000 SNPs, defined in EUR and both Pima and Mayan AMI, to define a set of ancestry-informative markers (AIMs). The use of two AMI populations was necessary to remove a subset of SNPs that distinguished genotypes of only one AMI subgroup from EUR genotypes. The AIMs set contained 8,144 SNPs separated by a minimum of 50 kb with only three intermarker intervals >1 Mb and had EUR/AMI FST values >0.30 (mean FST=0.48) and Mayan/Pima FST values <0.05 (mean FST<0.01). Analysis of a subset of these SNP AIMs suggested that this panel may also distinguish ancestry between EUR and other disparate AMI groups, including Quechuan from South America. We show, using realistic simulation parameters that are based on our analyses of MAM genotyping results, that this panel of SNP AIMs provides good power for detecting disease-associated chromosomal segments for genes with modest ethnicity risk ratios. A reduced set of 5,287 SNP AIMs captured almost the same admixture mapping information, but smaller SNP sets showed substantial drop-off in admixture mapping information and power. The results will enable studies of type 2 diabetes, rheumatoid arthritis, and other diseases among which epidemiological studies suggest differences in the distribution of ancestry-associated susceptibility. PMID:17557415

  18. Admixture mapping of genetic variants for uterine fibroids

    PubMed Central

    Zhang, Kui; Wiener, Howard; Aissani, Brahim

    2015-01-01

    Uterine leiomyoma (UL) are benign neoplasms arising from the smooth muscle cells of the uterus. One of the established risk factors for UL is African American ethnicity. Studies have consistently shown that African Americans have 2-3 times higher risk compared with that of non-Hispanic Whites. However, there is still no adequate explanation for the higher risk among African Americans. To investigate the genetic contribution to the observed difference between the African American and European American populations, we conducted an admixture scan in 525 eligible African American women participants to the NIEHS uterine fibroid study (NIEHS-UFS). In models with no stratification, we found multiple genomic regions showing significant and suggestive evidence of association, with chromosomal band 2q32.2 at rs256552 showing the highest score (Z-score = 7.86, Bonferroni adjusted p-value = 5.5×10-12) consistent with the suggestive evidence reported for this genomic region in the Black Women's Health Study. However, in models stratified by the body mass index (BMI) covariate, chromosomal 1q42.2 was the sole genomic region that consistently showed suggestive associations across the BMI categories tested (Z-scores ≤ -3.96, Bonferroni adjusted p-values ≤ 0.107). In age-stratified models, a significant association was observed in the older category (age > 40) reaching a Z-score of 6.44 (Bonferroni-adjusted p-value = 1.64 × 10-7) at rs256552. The mean percentage of European ancestry among cases was lower than that among controls in the NIEHS-UFS study. However, our study did not show a significant association between mean percentage of European ancestry and UL. PMID:26040208

  19. Admixture mapping of genetic variants for uterine fibroids.

    PubMed

    Zhang, Kui; Wiener, Howard; Aissani, Brahim

    2015-09-01

    Uterine leiomyoma (UL) are benign neoplasms arising from the smooth muscle cells of the uterus. One of the established risk factors for UL is African American ethnicity. Studies have consistently shown that African Americans have two to three times higher risk compared with that of non-Hispanic Whites. However, there is still no adequate explanation for the higher risk among African Americans. To investigate the genetic contribution to the observed difference between the African American and European American populations, we conducted an admixture scan in 525 eligible African American women participants to the NIEHS uterine fibroid study (NIEHS-UFS). In models with no stratification, we found multiple genomic regions showing significant and suggestive evidence of association, with chromosomal band 2q32.2 at rs256552 showing the highest score (Z-score=7.86, Bonferroni adjusted P-value=5.5 × 10(-12)) consistent with the suggestive evidence reported for this genomic region in the Black Women's Health Study. However, in models stratified by the body mass index (BMI) covariate, chromosome 1q42.2 was the sole genomic region that consistently showed suggestive associations across the BMI categories tested (Z-scores ⩽-3.96, Bonferroni adjusted P-values ⩽0.107). In age-stratified models, a significant association was observed in the older category (age >40) reaching a Z-score of 6.44 (Bonferroni-adjusted P-value=1.64 × 10(-7)) at rs256552. The mean percentage of European ancestry among cases was lower than that among controls in the NIEHS-UFS study. However, our study did not show a significant association between mean percentage of European ancestry and UL. PMID:26040208

  20. Admixture Aberration Analysis: Application to Mapping in Admixed Population Using Pooled DNA

    NASA Astrophysics Data System (ADS)

    Bercovici, Sivan; Geiger, Dan

    Admixture mapping is a gene mapping approach used for the identification of genomic regions harboring disease susceptibility genes in the case of recently admixed populations such as African Americans. We present a novel method for admixture mapping, called admixture aberration analysis (AAA), that uses a DNA pool of affected admixed individuals. We demonstrate through simulations that AAA is a powerful and economical mapping method under a range of scenarios, capturing complex human diseases such as hypertension and end stage kidney disease. The method has a low false-positive rate and is robust to deviation from model assumptions. Finally, we apply AAA on 600 prostate cancer-affected African Americans, replicating a known risk locus. Simulation results indicate that the method can yield over 96% reduction in genotyping. Our method is implemented as a Java program called AAAmap and is freely available.

  1. Admixture mapping identifies introgressed genomic regions in North American canids.

    PubMed

    vonHoldt, Bridgett M; Kays, Roland; Pollinger, John P; Wayne, Robert K

    2016-06-01

    Hybrid zones typically contain novel gene combinations that can be tested by natural selection in a unique genetic context. Parental haplotypes that increase fitness can introgress beyond the hybrid zone, into the range of parental species. We used the Affymetrix canine SNP genotyping array to identify genomic regions tagged by multiple ancestry informative markers that are more frequent in an admixed population than expected. We surveyed a hybrid zone formed in the last 100 years as coyotes expanded their range into eastern North America. Concomitant with expansion, coyotes hybridized with wolves and some populations became more wolflike, such that coyotes in the northeast have the largest body size of any coyote population. Using a set of 3102 ancestry informative markers, we identified 60 differentially introgressed regions in 44 canines across this admixture zone. These regions are characterized by an excess of exogenous ancestry and, in northeastern coyotes, are enriched for genes affecting body size and skeletal proportions. Further, introgressed wolf-derived alleles have penetrated into Southern US coyote populations. Because no wolves currently exist in this area, these alleles are unlikely to have originated from recent hybridization. Instead, they probably originated from intraspecific gene flow or ancient admixture. We show that grey wolf and coyote admixture has far-reaching effects and, in addition to phenotypically transforming admixed populations, allows for the differential movement of alleles from different parental species to be tested in new genomic backgrounds.

  2. Admixture mapping identifies introgressed genomic regions in North American canids.

    PubMed

    vonHoldt, Bridgett M; Kays, Roland; Pollinger, John P; Wayne, Robert K

    2016-06-01

    Hybrid zones typically contain novel gene combinations that can be tested by natural selection in a unique genetic context. Parental haplotypes that increase fitness can introgress beyond the hybrid zone, into the range of parental species. We used the Affymetrix canine SNP genotyping array to identify genomic regions tagged by multiple ancestry informative markers that are more frequent in an admixed population than expected. We surveyed a hybrid zone formed in the last 100 years as coyotes expanded their range into eastern North America. Concomitant with expansion, coyotes hybridized with wolves and some populations became more wolflike, such that coyotes in the northeast have the largest body size of any coyote population. Using a set of 3102 ancestry informative markers, we identified 60 differentially introgressed regions in 44 canines across this admixture zone. These regions are characterized by an excess of exogenous ancestry and, in northeastern coyotes, are enriched for genes affecting body size and skeletal proportions. Further, introgressed wolf-derived alleles have penetrated into Southern US coyote populations. Because no wolves currently exist in this area, these alleles are unlikely to have originated from recent hybridization. Instead, they probably originated from intraspecific gene flow or ancient admixture. We show that grey wolf and coyote admixture has far-reaching effects and, in addition to phenotypically transforming admixed populations, allows for the differential movement of alleles from different parental species to be tested in new genomic backgrounds. PMID:27106273

  3. Mapping by admixture linkage disequilibrium in human populations: Limits and guidelines

    SciTech Connect

    Stephens, J.C.; Briscoe, D.; O`Brien, S.J.

    1994-10-01

    Certain human hereditary conditions, notably those with low penetrance and those which require an environmental event such as infectious disease exposure, are difficult to localize in pedigree analysis, because of uncertainty in the phenotype of an affected patient`s relatives. An approach to locating these genes in human cohort studies would be to use association analysis, which depends on linkage disequilibrium of flanking polymorphic DNA markers. In theory, a high degree of linkage disequilibrium between genes separated by 10-20 cM will be generated and persist in populations that have a history of recent (3-20 generations ago) admixture between genetically differentiated racial groups, such as has occurred in African Americans and Hispanic populations. We have conducted analytic and computer simulations to quantify the effect of genetic, genomic, and population parameters that affect the amount and ascertainment of linkage disequilibrium in populations with a history of genetic admixture. Our goal is to thoroughly explore the ranges of all relevant parameters or factors (e.g., sample size and degree of genetic differentiation between populations) that may be involved in gene localization studies, in hopes of prescribing guidelines for an efficient mapping strategy. The results provide reasonable limits on sample size (200-300 patients), marker number (200-300 in 20-cM intervals), and allele differentiation (loci with allele frequency difference of {ge}.3 between admixed parent populations) to produce an efficient approach (>95% ascertainment) for locating genes not easily tracked in human pedigrees. 321 refs., 8 figs., 7 tabs.

  4. Admixture Mapping of African–American Women in the AMBER Consortium Identifies New Loci for Breast Cancer and Estrogen-Receptor Subtypes

    PubMed Central

    Ruiz-Narváez, Edward A.; Sucheston-Campbell, Lara; Bensen, Jeannette T.; Yao, Song; Haddad, Stephen; Haiman, Christopher A.; Bandera, Elisa V.; John, Esther M.; Bernstein, Leslie; Hu, Jennifer J.; Ziegler, Regina G.; Deming, Sandra L.; Olshan, Andrew F.; Ambrosone, Christine B.; Palmer, Julie R.; Lunetta, Kathryn L.

    2016-01-01

    Recent genetic admixture coupled with striking differences in incidence of estrogen receptor (ER) breast cancer subtypes, as well as severity, between women of African and European ancestry, provides an excellent rationale for performing admixture mapping in African American women with breast cancer risk. We performed the largest breast cancer admixture mapping study with in African American women to identify novel genomic regions associated with the disease. We conducted a genome-wide admixture scan using 2,624 autosomal ancestry informative markers (AIMs) in 3,629 breast cancer cases (including 1,968 ER-positive, 1093 ER-negative, and 601 triple-negative) and 4,658 controls from the African American Breast Cancer Epidemiology and Risk (AMBER) Consortium, a collaborative study of four large geographically different epidemiological studies of breast cancer in African American women. We used an independent case-control study to test for SNP association in regions with genome-wide significant admixture signals. We found two novel genome-wide significant regions of excess African ancestry, 4p16.1 and 17q25.1, associated with ER-positive breast cancer. Two regions known to harbor breast cancer variants, 10q26 and 11q13, were also identified with excess of African ancestry. Fine-mapping of the identified genome-wide significant regions suggests the presence of significant genetic associations with ER-positive breast cancer in 4p16.1 and 11q13. In summary, we identified three novel genomic regions associated with breast cancer risk by ER status, suggesting that additional previously unidentified variants may contribute to the racial differences in breast cancer risk in the African American population. PMID:27708667

  5. Genome-wide association mapping in tomato (Solanum lycopersicum) is possible using genome admixture of Solanum lycopersicum var. cerasiforme.

    PubMed

    Ranc, Nicolas; Muños, Stephane; Xu, Jiaxin; Le Paslier, Marie-Christine; Chauveau, Aurélie; Bounon, Rémi; Rolland, Sophie; Bouchet, Jean-Paul; Brunel, Dominique; Causse, Mathilde

    2012-08-01

    Genome-wide association mapping is an efficient way to identify quantitative trait loci controlling the variation of phenotypes, but the approach suffers severe limitations when one is studying inbred crops like cultivated tomato (Solanum lycopersicum). Such crops exhibit low rates of molecular polymorphism and high linkage disequilibrium, which reduces mapping resolution. The cherry type tomato (S. lycopersicum var. cerasiforme) genome has been described as an admixture between the cultivated tomato and its wild ancestor, S. pimpinellifolium. We have thus taken advantage of the properties of this admixture to improve the resolution of association mapping in tomato. As a proof of concept, we sequenced 81 DNA fragments distributed on chromosome 2 at different distances in a core collection of 90 tomato accessions, including mostly cherry type tomato accessions. The 81 Sequence Tag Sites revealed 352 SNPs and indels. Molecular diversity was greatest for S. pimpinellifolium accessions, intermediate for S. l. cerasiforme accessions, and lowest for the cultivated group. We assessed the structure of molecular polymorphism and the extent of linkage disequilibrium over genetic and physical distances. Linkage disequilibrium decreased under r(2) = 0.3 within 1 cM, and minimal estimated value (r(2) = 0.13) was reached within 20 kb over the physical regions studied. Associations between polymorphisms and fruit weight, locule number, and soluble solid content were detected. Several candidate genes and quantitative trait loci previously identified were validated and new associations detected. This study shows the advantages of using a collection of S. l. cerasiforme accessions to overcome the low resolution of association mapping in tomato. PMID:22908034

  6. Admixture mapping of quantitative trait loci for blood lipids in African-Americans.

    PubMed

    Basu, Analabha; Tang, Hua; Lewis, Cora E; North, Kari; Curb, J David; Quertermous, Thomas; Mosley, Thomas H; Boerwinkle, Eric; Zhu, Xiaofeng; Risch, Neil J

    2009-06-01

    Blood lipid levels, including low-density lipoprotein cholesterol (LDL-C), high-density lipoprotein cholesterol (HDL-C) and triglycerides (TG), are highly heritable traits and major risk factors for atherosclerotic cardiovascular disease (CVD). Using individual ancestry estimates at marker locations across the genome, we present a novel quantitative admixture mapping analysis of all three lipid traits in a large sample of African-Americans from the Family Blood Pressure Program. Regression analysis was performed with both total and marker-location-specific European ancestry as explanatory variables, along with demographic covariates. Robust permutation analysis was used to assess statistical significance. Overall European ancestry was significantly correlated with HDL-C (negatively) and TG (positively), but not with LDL-C. We found strong evidence for a novel locus underlying HDL-C on chromosome 8q, which correlated negatively with European ancestry (P = .0014); the same location also showed positive correlation of European ancestry with TG levels. A region on chromosome 14q also showed significant negative correlation between HDL-C levels and European ancestry. On chromosome 15q, a suggestive negative correlation of European ancestry with TG and positive correlation with HDL-C was observed. Results with LDL-C were less significant overall. We also found significant evidence for genome-wide ancestry effects underlying the joint distribution of HDL-C and TG, not fully explained by the locus on chromosome 8. Our results are consistent with a genetic contribution to and may explain the healthier HDL-C and TG profiles found in Blacks versus Whites. The identified regions provide locations for follow-up studies of genetic variants underlying lipid variation in African-Americans and possibly other populations.

  7. Intrahepatic Cholestasis of Pregnancy (ICP) in U.S. Latinas and Chileans: Clinical features, Ancestry Analysis, and Admixture Mapping.

    PubMed

    Bull, Laura N; Hu, Donglei; Shah, Sohela; Temple, Luisa; Silva, Karla; Huntsman, Scott; Melgar, Jennifer; Geiser, Mary T; Sanford, Ukina; Ortiz, Juan A; Lee, Richard H; Kusanovic, Juan P; Ziv, Elad; Vargas, Juan E

    2015-01-01

    In the Americas, women with Indigenous American ancestry are at increased risk of intrahepatic cholestasis of pregnancy (ICP), relative to women of other ethnicities. We hypothesized that ancestry-related genetic factors contribute to this increased risk. We collected clinical and laboratory data, and performed biochemical assays on samples from U.S. Latinas and Chilean women, with and without ICP. The study sample included 198 women with ICP (90 from California, U.S., and 108 from Chile) and 174 pregnant control women (69 from California, U.S., and 105 from Chile). SNP genotyping was performed using Affymetrix arrays. We compared overall genetic ancestry between cases and controls, and used a genome-wide admixture mapping approach to screen for ICP susceptibility loci. We identified commonalities and differences in features of ICP between the 2 countries and determined that cases had a greater proportion of Indigenous American ancestry than did controls (p = 0.034). We performed admixture mapping, taking country of origin into account, and identified one locus for which Native American ancestry was associated with increased risk of ICP at a genome-wide level of significance (P = 3.1 x 10(-5), Pcorrected = 0.035). This locus has an odds ratio of 4.48 (95% CI: 2.21-9.06) for 2 versus zero Indigenous American chromosomes. This locus lies on chromosome 2, with a 10 Mb 95% confidence interval which does not contain any previously identified hereditary 'cholestasis genes.' Our results indicate that genetic factors contribute to the risk of developing ICP in the Americas, and support the utility of clinical and genetic studies of ethnically mixed populations for increasing our understanding of ICP. PMID:26126184

  8. Intrahepatic Cholestasis of Pregnancy (ICP) in U.S. Latinas and Chileans: Clinical features, Ancestry Analysis, and Admixture Mapping

    PubMed Central

    Bull, Laura N.; Hu, Donglei; Shah, Sohela; Temple, Luisa; Silva, Karla; Huntsman, Scott; Melgar, Jennifer; Geiser, Mary T.; Sanford, Ukina; Ortiz, Juan A.; Lee, Richard H.; Kusanovic, Juan P.

    2015-01-01

    In the Americas, women with Indigenous American ancestry are at increased risk of intrahepatic cholestasis of pregnancy (ICP), relative to women of other ethnicities. We hypothesized that ancestry-related genetic factors contribute to this increased risk. We collected clinical and laboratory data, and performed biochemical assays on samples from U.S. Latinas and Chilean women, with and without ICP. The study sample included 198 women with ICP (90 from California, U.S., and 108 from Chile) and 174 pregnant control women (69 from California, U.S., and 105 from Chile). SNP genotyping was performed using Affymetrix arrays. We compared overall genetic ancestry between cases and controls, and used a genome-wide admixture mapping approach to screen for ICP susceptibility loci. We identified commonalities and differences in features of ICP between the 2 countries and determined that cases had a greater proportion of Indigenous American ancestry than did controls (p = 0.034). We performed admixture mapping, taking country of origin into account, and identified one locus for which Native American ancestry was associated with increased risk of ICP at a genome-wide level of significance (P = 3.1 x 10-5, Pcorrected = 0.035). This locus has an odds ratio of 4.48 (95% CI: 2.21-9.06) for 2 versus zero Indigenous American chromosomes. This locus lies on chromosome 2, with a 10 Mb 95% confidence interval which does not contain any previously identified hereditary ‘cholestasis genes.’ Our results indicate that genetic factors contribute to the risk of developing ICP in the Americas, and support the utility of clinical and genetic studies of ethnically mixed populations for increasing our understanding of ICP. PMID:26126184

  9. Admixture mapping of 15,280 African Americans identifies obesity susceptibility loci on chromosomes 5 and X.

    PubMed

    Cheng, Ching-Yu; Kao, W H Linda; Patterson, Nick; Tandon, Arti; Haiman, Christopher A; Harris, Tamara B; Xing, Chao; John, Esther M; Ambrosone, Christine B; Brancati, Frederick L; Coresh, Josef; Press, Michael F; Parekh, Rulan S; Klag, Michael J; Meoni, Lucy A; Hsueh, Wen-Chi; Fejerman, Laura; Pawlikowska, Ludmila; Freedman, Matthew L; Jandorf, Lina H; Bandera, Elisa V; Ciupak, Gregory L; Nalls, Michael A; Akylbekova, Ermeg L; Orwoll, Eric S; Leak, Tennille S; Miljkovic, Iva; Li, Rongling; Ursin, Giske; Bernstein, Leslie; Ardlie, Kristin; Taylor, Herman A; Boerwinckle, Eric; Zmuda, Joseph M; Henderson, Brian E; Wilson, James G; Reich, David

    2009-05-01

    The prevalence of obesity (body mass index (BMI) > or =30 kg/m(2)) is higher in African Americans than in European Americans, even after adjustment for socioeconomic factors, suggesting that genetic factors may explain some of the difference. To identify genetic loci influencing BMI, we carried out a pooled analysis of genome-wide admixture mapping scans in 15,280 African Americans from 14 epidemiologic studies. Samples were genotyped at a median of 1,411 ancestry-informative markers. After adjusting for age, sex, and study, BMI was analyzed both as a dichotomized (top 20% versus bottom 20%) and a continuous trait. We found that a higher percentage of European ancestry was significantly correlated with lower BMI (rho = -0.042, P = 1.6x10(-7)). In the dichotomized analysis, we detected two loci on chromosome X as associated with increased African ancestry: the first at Xq25 (locus-specific LOD = 5.94; genome-wide score = 3.22; case-control Z = -3.94); and the second at Xq13.1 (locus-specific LOD = 2.22; case-control Z = -4.62). Quantitative analysis identified a third locus at 5q13.3 where higher BMI was highly significantly associated with greater European ancestry (locus-specific LOD = 6.27; genome-wide score = 3.46). Further mapping studies with dense sets of markers will be necessary to identify the alleles in these regions of chromosomes X and 5 that may be associated with variation in BMI.

  10. Admixture mapping of tuberculosis and pigmentation-related traits in an African–European hybrid cattle population

    PubMed Central

    Kassahun, Yonas; Mattiangeli, Valeria; Ameni, Gobena; Hailu, Elena; Aseffa, Abraham; Young, Douglas B.; Hewinson, R. Glyn; Vordermeier, H. Martin; Bradley, Daniel G.

    2015-01-01

    Admixture mapping affords a powerful approach to genetic mapping of complex traits and may be particularly suited to investigation in cattle where many breeds and populations are hybrids of the two divergent ancestral genomes, derived from Bos taurus and Bos indicus. Here we design a minimal genome wide SNP panel for tracking ancestry in recent hybrids of Holstein–Friesian and local Arsi zebu in a field sample from a region of high bovine tuberculosis (BTB) endemicity in the central Ethiopian highlands. We first demonstrate the utility of this approach by mapping the red coat color phenotype, uncovering a highly significant peak over the MC1R gene and a second peak with no previously known candidate gene. Secondly, we exploit the described differential susceptibility to BTB between the ancestral strains to identify a region in which Bos taurus ancestry associates, at suggestive significance, with skin test positivity. Interestingly, this association peak contains the toll-like receptor gene cluster on chromosome 6. With this work we have shown the potential of admixture mapping in hybrid domestic animals with divergent ancestral genomes, a recurring condition in domesticated species. PMID:26124773

  11. Experimental study on durability improvement of fly ash concrete with durability improving admixture.

    PubMed

    Quan, Hong-zhu; Kasami, Hideo

    2014-01-01

    In order to improve the durability of fly ash concrete, a series of experimental studies are carried out, where durability improving admixture is used to reduce drying shrinkage and improve freezing-thawing resistance. The effects of durability improving admixture, air content, water-binder ratio, and fly ash replacement ratio on the performance of fly ash concrete are discussed in this paper. The results show that by using durability improving admixture in nonair-entraining fly ash concrete, the compressive strength of fly ash concrete can be improved by 10%-20%, and the drying shrinkage is reduced by 60%. Carbonation resistance of concrete is roughly proportional to water-cement ratio regardless of water-binder ratio and fly ash replacement ratio. For the specimens cured in air for 2 weeks, the freezing-thawing resistance is improved. In addition, by making use of durability improving admixture, it is easier to control the air content and make fly ash concrete into nonair-entraining one. The quality of fly ash concrete is thereby optimized.

  12. Experimental Study on Durability Improvement of Fly Ash Concrete with Durability Improving Admixture

    PubMed Central

    Quan, Hong-zhu; Kasami, Hideo

    2014-01-01

    In order to improve the durability of fly ash concrete, a series of experimental studies are carried out, where durability improving admixture is used to reduce drying shrinkage and improve freezing-thawing resistance. The effects of durability improving admixture, air content, water-binder ratio, and fly ash replacement ratio on the performance of fly ash concrete are discussed in this paper. The results show that by using durability improving admixture in nonair-entraining fly ash concrete, the compressive strength of fly ash concrete can be improved by 10%–20%, and the drying shrinkage is reduced by 60%. Carbonation resistance of concrete is roughly proportional to water-cement ratio regardless of water-binder ratio and fly ash replacement ratio. For the specimens cured in air for 2 weeks, the freezing-thawing resistance is improved. In addition, by making use of durability improving admixture, it is easier to control the air content and make fly ash concrete into nonair-entraining one. The quality of fly ash concrete is thereby optimized. PMID:25013870

  13. Admixture Mapping in Lupus Identifies Multiple Functional Variants within IFIH1 Associated with Apoptosis, Inflammation, and Autoantibody Production

    PubMed Central

    Looger, Loren L.; Han, Shizhong; Kim-Howard, Xana; Glenn, Stuart; Adler, Adam; Kelly, Jennifer A.; Niewold, Timothy B.; Gilkeson, Gary S.; Brown, Elizabeth E.; Alarcón, Graciela S.; Edberg, Jeffrey C.; Petri, Michelle; Ramsey-Goldman, Rosalind; Reveille, John D.; Vilá, Luis M.; Freedman, Barry I.; Tsao, Betty P.; Criswell, Lindsey A.; Jacob, Chaim O.; Moore, Jason H.; Vyse, Timothy J.; Langefeld, Carl L.; Guthridge, Joel M.; Gaffney, Patrick M.; Moser, Kathy L.; Scofield, R. Hal; Alarcón-Riquelme, Marta E.; Williams, Scott M.; Merrill, Joan T.; James, Judith A.; Kaufman, Kenneth M.; Kimberly, Robert P.; Harley, John B.; Nath, Swapan K.

    2013-01-01

    Systemic lupus erythematosus (SLE) is an inflammatory autoimmune disease with a strong genetic component. African-Americans (AA) are at increased risk of SLE, but the genetic basis of this risk is largely unknown. To identify causal variants in SLE loci in AA, we performed admixture mapping followed by fine mapping in AA and European-Americans (EA). Through genome-wide admixture mapping in AA, we identified a strong SLE susceptibility locus at 2q22–24 (LOD = 6.28), and the admixture signal is associated with the European ancestry (ancestry risk ratio ∼1.5). Large-scale genotypic analysis on 19,726 individuals of African and European ancestry revealed three independently associated variants in the IFIH1 gene: an intronic variant, rs13023380 [Pmeta = 5.20×10−14; odds ratio, 95% confidence interval = 0.82 (0.78–0.87)], and two missense variants, rs1990760 (Ala946Thr) [Pmeta = 3.08×10−7; 0.88 (0.84–0.93)] and rs10930046 (Arg460His) [Pdom = 1.16×10−8; 0.70 (0.62–0.79)]. Both missense variants produced dramatic phenotypic changes in apoptosis and inflammation-related gene expression. We experimentally validated function of the intronic SNP by DNA electrophoresis, protein identification, and in vitro protein binding assays. DNA carrying the intronic risk allele rs13023380 showed reduced binding efficiency to a cellular protein complex including nucleolin and lupus autoantigen Ku70/80, and showed reduced transcriptional activity in vivo. Thus, in SLE patients, genetic susceptibility could create a biochemical imbalance that dysregulates nucleolin, Ku70/80, or other nucleic acid regulatory proteins. This could promote antibody hypermutation and auto-antibody generation, further destabilizing the cellular network. Together with molecular modeling, our results establish a distinct role for IFIH1 in apoptosis, inflammation, and autoantibody production, and explain the molecular basis of these three risk alleles for SLE pathogenesis. PMID

  14. Admixture mapping in lupus identifies multiple functional variants within IFIH1 associated with apoptosis, inflammation, and autoantibody production.

    PubMed

    Molineros, Julio E; Maiti, Amit K; Sun, Celi; Looger, Loren L; Han, Shizhong; Kim-Howard, Xana; Glenn, Stuart; Adler, Adam; Kelly, Jennifer A; Niewold, Timothy B; Gilkeson, Gary S; Brown, Elizabeth E; Alarcón, Graciela S; Edberg, Jeffrey C; Petri, Michelle; Ramsey-Goldman, Rosalind; Reveille, John D; Vilá, Luis M; Freedman, Barry I; Tsao, Betty P; Criswell, Lindsey A; Jacob, Chaim O; Moore, Jason H; Vyse, Timothy J; Langefeld, Carl L; Guthridge, Joel M; Gaffney, Patrick M; Moser, Kathy L; Scofield, R Hal; Alarcón-Riquelme, Marta E; Williams, Scott M; Merrill, Joan T; James, Judith A; Kaufman, Kenneth M; Kimberly, Robert P; Harley, John B; Nath, Swapan K

    2013-01-01

    Systemic lupus erythematosus (SLE) is an inflammatory autoimmune disease with a strong genetic component. African-Americans (AA) are at increased risk of SLE, but the genetic basis of this risk is largely unknown. To identify causal variants in SLE loci in AA, we performed admixture mapping followed by fine mapping in AA and European-Americans (EA). Through genome-wide admixture mapping in AA, we identified a strong SLE susceptibility locus at 2q22-24 (LOD=6.28), and the admixture signal is associated with the European ancestry (ancestry risk ratio ~1.5). Large-scale genotypic analysis on 19,726 individuals of African and European ancestry revealed three independently associated variants in the IFIH1 gene: an intronic variant, rs13023380 [P(meta) = 5.20×10(-14); odds ratio, 95% confidence interval = 0.82 (0.78-0.87)], and two missense variants, rs1990760 (Ala946Thr) [P(meta) = 3.08×10(-7); 0.88 (0.84-0.93)] and rs10930046 (Arg460His) [P(dom) = 1.16×10(-8); 0.70 (0.62-0.79)]. Both missense variants produced dramatic phenotypic changes in apoptosis and inflammation-related gene expression. We experimentally validated function of the intronic SNP by DNA electrophoresis, protein identification, and in vitro protein binding assays. DNA carrying the intronic risk allele rs13023380 showed reduced binding efficiency to a cellular protein complex including nucleolin and lupus autoantigen Ku70/80, and showed reduced transcriptional activity in vivo. Thus, in SLE patients, genetic susceptibility could create a biochemical imbalance that dysregulates nucleolin, Ku70/80, or other nucleic acid regulatory proteins. This could promote antibody hypermutation and auto-antibody generation, further destabilizing the cellular network. Together with molecular modeling, our results establish a distinct role for IFIH1 in apoptosis, inflammation, and autoantibody production, and explain the molecular basis of these three risk alleles for SLE pathogenesis. PMID:23441136

  15. Understanding admixture patterns in supplemented populations: a case study combining molecular analyses and temporally explicit simulations in Atlantic salmon

    PubMed Central

    Perrier, Charles; Baglinière, Jean-Luc; Evanno, Guillaume

    2013-01-01

    Genetic admixture between wild and introduced populations is a rising concern for the management of endangered species. Here, we use a dual approach based on molecular analyses of samples collected before and after hatchery fish introduction in combination with a simulation study to obtain insight into the mechanisms of admixture in wild populations. Using 17 microsatellites, we genotyped pre- and post-stocking samples from four Atlantic salmon populations supplemented with non-native fish to estimate genetic admixture. We also used individual-based temporally explicit simulations based on realistic demographic and stocking data to predict the extent of admixture. We found a low admixture by hatchery stocks within prestocking samples but moderate to high values in post-stocking samples (from 12% to 60%). The simulation scenarios best fitting the real data suggested a 10–25 times lower survival of stocked fish relative to wild individuals. Simulations also suggested relatively high dispersal rates of stocked and wild fish, which may explain some high levels of admixture in weakly stocked populations and the persistence of indigenous genotypes in heavily stocked populations. This study overall demonstrates that combining genetic analyses with simulations can significantly improve the understanding of admixture mechanisms in wild populations. PMID:23798972

  16. Comparison of Statistical Methods for Estimating Genetic Admixture in a Lung Cancer Study of African Americans and Latinos

    PubMed Central

    Selvin, Steve; Hansen, Helen M.; Barcellos, Lisa F.; Wrensch, Margaret R.; Sison, Jennette D.; Quesenberry, Charles P.; Kittles, Rick A.; Silva, Gabriel; Buffler, Patricia A.; Seldin, Michael F.; Wiencke, John K.

    2008-01-01

    A variety of methods are available for estimating genetic admixture proportions in populations; however, few investigators have conducted detailed comparisons using empirical data. The authors characterized admixture proportions among self-identified African Americans (n = 535) and Latinos (n = 412) living in the San Francisco Bay Area who participated in a lung cancer case-control study (1998–2003). Individual estimates of genetic ancestry based on 184 informative markers were obtained from a Bayesian approach and 2 maximum likelihood approaches and were compared using descriptive statistics, Pearson correlation coefficients, and Bland-Altman plots. Case-control differences in individual admixture proportions were assessed using 2-sample t tests and logistic regression analysis. Results indicated that Bayesian and frequentist approaches to estimating admixture provide similar estimates and inferences. No difference was observed in admixture proportions between African-American cases and controls, but Latino cases and controls significantly differed according to Amerindian and European genetic ancestry. Differences in admixture proportions between Latino cases and controls were not unexpected, since cases were more likely to have been born in the United States. Genetic admixture proportions provide a quantitative measure of ancestry differences among Latinos that can be used in analyses of genetic risk factors. PMID:18791191

  17. Experimental study on the electrical resistivity of soil cement admixtures

    NASA Astrophysics Data System (ADS)

    Liu, Song Yu; Du, Yan Jun; Han, L. H.; Gu, M. F.

    2008-05-01

    Recently in China, soil cement is widely used to improve the soft ground in the highway construction engineering. Literature studies are mainly investigating the mechanical properties of the soil cement, while its properties of the electrical resistivity are not well addressed. In this paper, the properties of the electrical resistivity of the reconstituted soil-cement and the in situ soil cement columns are investigated. The test results show that the electrical resistivity of the soil cement increases with the increase in the cement-mixing ratio and curing time, whereas it decreases with the increase in the water content, degree of saturation and water cement ratio. A simple equation is proposed to predict the electrical resistivity of soil cement under the condition of the specified curing time and water cement ratio. It is found that the electrical resistivity has a good relationship with the unconfined compression strength and blow count of SPT. It is expected that the electrical resistivity method can be widely used for checking/controlling the quality of soil cement in practice.

  18. CYP2C9 and VKORC1 Genotypes in Puerto Ricans: A Case for Admixture-Matching in Clinical Pharmacogenetic Studies

    PubMed Central

    Villagra, David; Duconge, Jorge; Windemuth, Andreas; Cadilla, Carmen L; Kocherla, Mohan; Gorowski, Krystyna; Bogaard, Kali; Renta, Jessica Y; Cruz, Irelys A; Mirabal, Sara; Seip, Richard L; Ruaño, Gualberto

    2010-01-01

    Backgrounds Admixture is of great relevance to the clinical application of pharmacogenetics and personalized medicine, but unfortunately these studies have been scarce in Puerto Ricans. Besides, allele frequencies for clinically relevant genetic markers in warfarin response (i.e., CYP2C9 and VKORC1) have not yet been fully characterized in this population. Accordingly, this study is aimed at investigating whether a correlation between overall genetic similarity and CYP2C9 and/or VKORC1 genotypes could be established. Methods 98 DNA samples from Puerto Ricans were genotyped for major CYP2C9 and VKORC1 polymorphisms and tested on a physiogenomic (PG)-array to infer population structure and admixture pattern. Results Analysis affirmed that Puerto Ricans are broadly admixed. A genetic distance dendrogram was constructed by clustering those subjects with similar genetic profiles. Individual VKORC1 and CYP2C9 genotypes were visually overlaid atop the three dendrogram sectors. Sector-1, representing Amerindian ancestry, showed higher VKORC1-1639G>A variant frequency than the rest of the population (p=0.051). Although CYP2C9*3 allele frequencies matched the expected HapMap values, admixture may explain deviations from published findings regarding VKORC1-1639G>A and CYP2C9*2 allele frequencies in sector-3. Conclusions Results suggest that the observed inter-individual variations in ancestral contributions have significant implications for the way each Puerto Rican responds to warfarin therapy. Our findings provide valuable evidence on the importance of controlling for admixture in pharmacogenetic studies of Puerto Rican Hispanics. PMID:20488169

  19. Geographic Patterns of Genome Admixture in Latin American Mestizos

    PubMed Central

    Wang, Sijia; Ray, Nicolas; Rojas, Winston; Parra, Maria V.; Bedoya, Gabriel; Gallo, Carla; Poletti, Giovanni; Hill, Kim; Hurtado, Ana M.; Camrena, Beatriz; Nicolini, Humberto; Klitz, William; Barrantes, Ramiro; Molina, Julio A.; Freimer, Nelson B.; Bortolini, Maria Cátira; Salzano, Francisco M.; Petzl-Erler, Maria L.; Tsuneto, Luiza T.; Dipierri, José E.; Alfaro, Emma L.; Bailliet, Graciela; Bianchi, Nestor O.; Llop, Elena; Rothhammer, Francisco; Excoffier, Laurent; Ruiz-Linares, Andrés

    2008-01-01

    The large and diverse population of Latin America is potentially a powerful resource for elucidating the genetic basis of complex traits through admixture mapping. However, no genome-wide characterization of admixture across Latin America has yet been attempted. Here, we report an analysis of admixture in thirteen Mestizo populations (i.e. in regions of mainly European and Native settlement) from seven countries in Latin America based on data for 678 autosomal and 29 X-chromosome microsatellites. We found extensive variation in Native American and European ancestry (and generally low levels of African ancestry) among populations and individuals, and evidence that admixture across Latin America has often involved predominantly European men and both Native and African women. An admixture analysis allowing for Native American population subdivision revealed a differentiation of the Native American ancestry amongst Mestizos. This observation is consistent with the genetic structure of pre-Columbian populations and with admixture having involved Natives from the area where the Mestizo examined are located. Our findings agree with available information on the demographic history of Latin America and have a number of implications for the design of association studies in population from the region. PMID:18369456

  20. The Complex Admixture History and Recent Southern Origins of Siberian Populations

    PubMed Central

    Pugach, Irina; Matveev, Rostislav; Spitsyn, Viktor; Makarov, Sergey; Novgorodov, Innokentiy; Osakovsky, Vladimir; Stoneking, Mark; Pakendorf, Brigitte

    2016-01-01

    Although Siberia was inhabited by modern humans at an early stage, there is still debate over whether it remained habitable during the extreme cold of the Last Glacial Maximum or whether it was subsequently repopulated by peoples with recent shared ancestry. Previous studies of the genetic history of Siberian populations were hampered by the extensive admixture that appears to have taken place among these populations, because commonly used methods assume a tree-like population history and at most single admixture events. Here we analyze geogenetic maps and use other approaches to distinguish the effects of shared ancestry from prehistoric migrations and contact, and develop a new method based on the covariance of ancestry components, to investigate the potentially complex admixture history. We furthermore adapt a previously devised method of admixture dating for use with multiple events of gene flow, and apply these methods to whole-genome genotype data from over 500 individuals belonging to 20 different Siberian ethnolinguistic groups. The results of these analyses indicate that there have been multiple layers of admixture detectable in most of the Siberian populations, with considerable differences in the admixture histories of individual populations. Furthermore, most of the populations of Siberia included here, even those settled far to the north, appear to have a southern origin, with the northward expansions of different populations possibly being driven partly by the advent of pastoralism, especially reindeer domestication. These newly developed methods to analyze multiple admixture events should aid in the investigation of similarly complex population histories elsewhere. PMID:26993256

  1. The Complex Admixture History and Recent Southern Origins of Siberian Populations.

    PubMed

    Pugach, Irina; Matveev, Rostislav; Spitsyn, Viktor; Makarov, Sergey; Novgorodov, Innokentiy; Osakovsky, Vladimir; Stoneking, Mark; Pakendorf, Brigitte

    2016-07-01

    Although Siberia was inhabited by modern humans at an early stage, there is still debate over whether it remained habitable during the extreme cold of the Last Glacial Maximum or whether it was subsequently repopulated by peoples with recent shared ancestry. Previous studies of the genetic history of Siberian populations were hampered by the extensive admixture that appears to have taken place among these populations, because commonly used methods assume a tree-like population history and at most single admixture events. Here we analyze geogenetic maps and use other approaches to distinguish the effects of shared ancestry from prehistoric migrations and contact, and develop a new method based on the covariance of ancestry components, to investigate the potentially complex admixture history. We furthermore adapt a previously devised method of admixture dating for use with multiple events of gene flow, and apply these methods to whole-genome genotype data from over 500 individuals belonging to 20 different Siberian ethnolinguistic groups. The results of these analyses indicate that there have been multiple layers of admixture detectable in most of the Siberian populations, with considerable differences in the admixture histories of individual populations. Furthermore, most of the populations of Siberia included here, even those settled far to the north, appear to have a southern origin, with the northward expansions of different populations possibly being driven partly by the advent of pastoralism, especially reindeer domestication. These newly developed methods to analyze multiple admixture events should aid in the investigation of similarly complex population histories elsewhere.

  2. The Complex Admixture History and Recent Southern Origins of Siberian Populations.

    PubMed

    Pugach, Irina; Matveev, Rostislav; Spitsyn, Viktor; Makarov, Sergey; Novgorodov, Innokentiy; Osakovsky, Vladimir; Stoneking, Mark; Pakendorf, Brigitte

    2016-07-01

    Although Siberia was inhabited by modern humans at an early stage, there is still debate over whether it remained habitable during the extreme cold of the Last Glacial Maximum or whether it was subsequently repopulated by peoples with recent shared ancestry. Previous studies of the genetic history of Siberian populations were hampered by the extensive admixture that appears to have taken place among these populations, because commonly used methods assume a tree-like population history and at most single admixture events. Here we analyze geogenetic maps and use other approaches to distinguish the effects of shared ancestry from prehistoric migrations and contact, and develop a new method based on the covariance of ancestry components, to investigate the potentially complex admixture history. We furthermore adapt a previously devised method of admixture dating for use with multiple events of gene flow, and apply these methods to whole-genome genotype data from over 500 individuals belonging to 20 different Siberian ethnolinguistic groups. The results of these analyses indicate that there have been multiple layers of admixture detectable in most of the Siberian populations, with considerable differences in the admixture histories of individual populations. Furthermore, most of the populations of Siberia included here, even those settled far to the north, appear to have a southern origin, with the northward expansions of different populations possibly being driven partly by the advent of pastoralism, especially reindeer domestication. These newly developed methods to analyze multiple admixture events should aid in the investigation of similarly complex population histories elsewhere. PMID:26993256

  3. Native American Admixture in the Quebec Founder Population

    PubMed Central

    Moreau, Claudia; Lefebvre, Jean-François; Jomphe, Michèle; Bhérer, Claude; Ruiz-Linares, Andres; Vézina, Hélène; Roy-Gagnon, Marie-Hélène; Labuda, Damian

    2013-01-01

    For years, studies of founder populations and genetic isolates represented the mainstream of genetic mapping in the effort to target genetic defects causing Mendelian disorders. The genetic homogeneity of such populations as well as relatively homogeneous environmental exposures were also seen as primary advantages in studies of genetic susceptibility loci that underlie complex diseases. European colonization of the St-Lawrence Valley by a small number of settlers, mainly from France, resulted in a founder effect reflected by the appearance of a number of population-specific disease-causing mutations in Quebec. The purported genetic homogeneity of this population was recently challenged by genealogical and genetic analyses. We studied one of the contributing factors to genetic heterogeneity, early Native American admixture that was never investigated in this population before. Consistent admixture estimates, in the order of one per cent, were obtained from genome-wide autosomal data using the ADMIXTURE and HAPMIX software, as well as with the fastIBD software evaluating the degree of the identity-by-descent between Quebec individuals and Native American populations. These genomic results correlated well with the genealogical estimates. Correlations are imperfect most likely because of incomplete records of Native founders’ origin in genealogical data. Although the overall degree of admixture is modest, it contributed to the enrichment of the population diversity and to its demographic stratification. Because admixture greatly varies among regions of Quebec and among individuals, it could have significantly affected the homogeneity of the population, which is of importance in mapping studies, especially when rare genetic susceptibility variants are in play. PMID:23776491

  4. Plastic shrinkage of mortars with shrinkage reducing admixture and lightweight aggregates studied by neutron tomography

    SciTech Connect

    Wyrzykowski, Mateusz; Trtik, Pavel; Münch, Beat; Weiss, Jason; Vontobel, Peter; Lura, Pietro

    2015-07-15

    Water transport in fresh, highly permeable concrete and rapid water evaporation from the concrete surface during the first few hours after placement are the key parameters influencing plastic shrinkage cracking. In this work, neutron tomography was used to determine both the water loss from the concrete surface due to evaporation and the redistribution of fluid that occurs in fresh mortars exposed to external drying. In addition to the reference mortar with a water to cement ratio (w/c) of 0.30, a mortar with the addition of pre-wetted lightweight aggregates (LWA) and a mortar with a shrinkage reducing admixture (SRA) were tested. The addition of SRA reduced the evaporation rate from the mortar at the initial stages of drying and reduced the total water loss. The pre-wetted LWA released a large part of the absorbed water as a consequence of capillary pressure developing in the fresh mortar due to evaporation.

  5. Posterior predictive checks to quantify lack-of-fit in admixture models of latent population structure

    PubMed Central

    Mimno, David; Blei, David M.; Engelhardt, Barbara E.

    2015-01-01

    Admixture models are a ubiquitous approach to capture latent population structure in genetic samples. Despite the widespread application of admixture models, little thought has been devoted to the quality of the model fit or the accuracy of the estimates of parameters of interest for a particular study. Here we develop methods for validating admixture models based on posterior predictive checks (PPCs), a Bayesian method for assessing the quality of fit of a statistical model to a specific dataset. We develop PPCs for five population-level statistics of interest: within-population genetic variation, background linkage disequilibrium, number of ancestral populations, between-population genetic variation, and the downstream use of admixture parameters to correct for population structure in association studies. Using PPCs, we evaluate the quality of the admixture model fit to four qualitatively different population genetic datasets: the population reference sample (POPRES) European individuals, the HapMap phase 3 individuals, continental Indians, and African American individuals. We found that the same model fitted to different genomic studies resulted in highly study-specific results when evaluated using PPCs, illustrating the utility of PPCs for model-based analyses in large genomic studies. PMID:26071445

  6. Development of a Panel of Genome-Wide Ancestry Informative Markers to Study Admixture Throughout the Americas

    PubMed Central

    Galanter, Joshua Mark; Fernandez-Lopez, Juan Carlos; Gignoux, Christopher R.; Barnholtz-Sloan, Jill; Fernandez-Rozadilla, Ceres; Via, Marc; Hidalgo-Miranda, Alfredo; Contreras, Alejandra V.; Figueroa, Laura Uribe; Raska, Paola; Jimenez-Sanchez, Gerardo; Silva Zolezzi, Irma; Torres, Maria; Ponte, Clara Ruiz; Ruiz, Yarimar; Salas, Antonio; Nguyen, Elizabeth; Eng, Celeste; Borjas, Lisbeth; Zabala, William; Barreto, Guillermo; Rondón González, Fernando; Ibarra, Adriana; Taboada, Patricia; Porras, Liliana; Moreno, Fabián; Bigham, Abigail; Gutierrez, Gerardo; Brutsaert, Tom; León-Velarde, Fabiola; Moore, Lorna G.; Vargas, Enrique; Cruz, Miguel; Escobedo, Jorge; Rodriguez-Santana, José; Rodriguez-Cintrón, William; Chapela, Rocio; Ford, Jean G.; Bustamante, Carlos; Seminara, Daniela; Shriver, Mark; Ziv, Elad; Gonzalez Burchard, Esteban; Haile, Robert

    2012-01-01

    Most individuals throughout the Americas are admixed descendants of Native American, European, and African ancestors. Complex historical factors have resulted in varying proportions of ancestral contributions between individuals within and among ethnic groups. We developed a panel of 446 ancestry informative markers (AIMs) optimized to estimate ancestral proportions in individuals and populations throughout Latin America. We used genome-wide data from 953 individuals from diverse African, European, and Native American populations to select AIMs optimized for each of the three main continental populations that form the basis of modern Latin American populations. We selected markers on the basis of locus-specific branch length to be informative, well distributed throughout the genome, capable of being genotyped on widely available commercial platforms, and applicable throughout the Americas by minimizing within-continent heterogeneity. We then validated the panel in samples from four admixed populations by comparing ancestry estimates based on the AIMs panel to estimates based on genome-wide association study (GWAS) data. The panel provided balanced discriminatory power among the three ancestral populations and accurate estimates of individual ancestry proportions (R2>0.9 for ancestral components with significant between-subject variance). Finally, we genotyped samples from 18 populations from Latin America using the AIMs panel and estimated variability in ancestry within and between these populations. This panel and its reference genotype information will be useful resources to explore population history of admixture in Latin America and to correct for the potential effects of population stratification in admixed samples in the region. PMID:22412386

  7. Biogeographic ancestry, self-identified race, and admixture-phenotype associations in the Heart SCORE Study.

    PubMed

    Halder, Indrani; Kip, Kevin E; Mulukutla, Suresh R; Aiyer, Aryan N; Marroquin, Oscar C; Huggins, Gordon S; Reis, Steven E

    2012-07-15

    Large epidemiologic studies examining differences in cardiovascular disease (CVD) risk factor profiles between European Americans and African Americans have exclusively used self-identified race (SIR) to classify individuals. Recent genetic epidemiology studies of some CVD risk factors have suggested that biogeographic ancestry (BGA) may be a better predictor of CVD risk than SIR. This hypothesis was investigated in 464 African Americans and 771 European Americans enrolled in the Heart Strategies Concentrating on Risk Evaluation (Heart SCORE) Study in March and April 2010. Individual West African and European BGA were ascertained by means of a panel of 1,595 genetic ancestry informative markers. Individual BGA varied significantly among African Americans and to a lesser extent among European Americans. In the total cohort, BGA was not found to be a better predictor of CVD risk factors than SIR. Both measures predicted differences in the presence of the metabolic syndrome, waist circumference, triglycerides, body mass index, very low density lipoprotein cholesterol, lipoprotein A, and systolic and diastolic blood pressure between European Americans and African Americans. These results suggest that for most nongenetic cardiovascular epidemiology studies, SIR is sufficient for predicting CVD risk factor differences between European Americans and African Americans. However, higher body mass index and diastolic blood pressure were significantly associated with West African BGA among African Americans, suggesting that BGA should be considered in genetic cardiovascular epidemiology studies carried out among African Americans.

  8. Study on performance of concrete with over-burnt bricks aggregates and micro-silica admixture

    NASA Astrophysics Data System (ADS)

    Praveen, K.; Sathyan, Dhanya; Mini, K. M.

    2016-09-01

    Concrete is made by mixing cement, sand, aggregates and water in required proportion, where aggregates occupy the major volume. Addition of aggregates in concrete improves properties of concrete. With the natural resources depleting rapidly, limiting the use of natural resources and enhancing the use of waste materials is very important for sustainable development. Over-burnt bricks are a waste material which cannot be used in construction directly because of their irregular shape and dark colour. Use of over-burnt bricks helps to preserve natural aggregate source. The present study focuses on the effects of microsilica at various percentages as a partial cement replacement in concrete with over-burnt bricks as coarse aggregates. The mechanical properties of hardened concrete such as splitting tensile strength, flexural strength and compressive strength are studied and analyzed.

  9. Population admixture associated with disease prevalence in the Boston Puerto Rican health study.

    PubMed

    Lai, Chao-Qiang; Tucker, Katherine L; Choudhry, Shweta; Parnell, Laurence D; Mattei, Josiemer; García-Bailo, Bibiana; Beckman, Kenny; Burchard, Esteban González; Ordovás, José M

    2009-03-01

    Older Puerto Ricans living in the continental U.S. suffer from higher rates of diabetes, obesity, cardiovascular disease and depression compared to non-Hispanic White populations. Complex diseases, such as these, are likely due to multiple, potentially interacting, genetic, environmental and social risk factors. Presumably, many of these environmental and genetic risk factors are contextual. We reasoned that racial background may modify some of these risk factors and be associated with health disparities among Puerto Ricans. The contemporary Puerto Rican population is genetically heterogeneous and originated from three ancestral populations: European settlers, native Taíno Indians, and West Africans. This rich-mixed ancestry of Puerto Ricans provides the intrinsic variability needed to untangle complex gene-environment interactions in disease susceptibility and severity. Herein, we determined whether a specific ancestral background was associated with either of four major disease outcomes (diabetes, obesity, cardiovascular disease, and depression). We estimated the genetic ancestry of 1,129 subjects from the Boston Puerto Rican Health Study based on genotypes of 100 ancestry informative markers (AIMs). We examined the effects of ancestry on tests of association between single AIMs and disease traits. The ancestral composition of this population was 57.2% European, 27.4% African, and 15.4% Native American. African ancestry was negatively associated with type 2 diabetes and cardiovascular disease, and positively correlated with hypertension. It is likely that the high prevalence rate of diabetes in Africans, Hispanics, and Native Americans is not due to genetic variation alone, but to the combined effects of genetic variation interacting with environmental and social factors.

  10. Cartographic mapping study

    NASA Technical Reports Server (NTRS)

    Wilson, C.; Dye, R.; Reed, L.

    1982-01-01

    The errors associated with planimetric mapping of the United States using satellite remote sensing techniques are analyzed. Assumptions concerning the state of the art achievable for satellite mapping systems and platforms in the 1995 time frame are made. An analysis of these performance parameters is made using an interactive cartographic satellite computer model, after first validating the model using LANDSAT 1 through 3 performance parameters. An investigation of current large scale (1:24,000) US National mapping techniques is made. Using the results of this investigation, and current national mapping accuracy standards, the 1995 satellite mapping system is evaluated for its ability to meet US mapping standards for planimetric and topographic mapping at scales of 1:24,000 and smaller.

  11. Studies on the compressibility of wax matrix granules of acetaminophen and their admixtures with various tableting bases.

    PubMed

    Uhumwangho, M U; Okor, R S

    2006-04-01

    Matrix granules of acetaminophen have been formed by a melt granulation process whereby the acetaminophen powder was triturated with the melted wax--goat wax, glyceryl monostearate or carnuba wax. The compressibility of the matrix granules and their admixture, with diluent granules (lactose, alpha-cellulose or microcrystalline cellulose) was investigated. The granules were compressed to tablets at a constant load (30 arbitrary units on the load scale) of a manesty single punch machine. Resulting tablets were evaluated for tensile strength (T) and disintegration times (DT). Granule flow was determined by measuring their angle of repose when allowed to fall freely on a level surface. Matrix granules prepared by melt granulation with goat wax or glyceryl monostearate were too sticky and therefore did not flow at all. They were also poorly compressible (T values = 0.20MN/m2). Inclusion of the diluent remarkably improved granule flow property and compressibility. The T values of the tablets (measure of compressibility) increased from about 0.24 to 0.65 MN/m2 during increase in diluent (lactose) content from 20 to 80 %w/w. Microcrystalline cellulose and alpha-cellulose were more effective than lactose in promoting compressibility of the granules. By contrast the matrix granules formed with carnuba wax were free flowing (angle of repose, 18.60). Addition of the diluent further improved flowability slightly. The matrix granules (without a diluent) were readily compressible (T value, 1.79MN/m2). Addition of the diluent (80%w/w) reduced T values (MN/m2) slightly to 1.32 (lactose), 1.48 (alpha-cellulose) and 1.74 (microcrystalline cellulose). Tablets of the matrix granules only, disintegrated rapidly within 3 minutes. DT was further reduced to <30 s by addition of any of the diluents. The indication is that the inclusion of the diluents studied can be used to improve the compressibility of the otherwise poorly compressible matrix granules. Based on the flowability

  12. Studies on the compressibility of wax matrix granules of acetaminophen and their admixtures with various tableting bases.

    PubMed

    Uhumwangho, M U; Okor, R S

    2006-04-01

    Matrix granules of acetaminophen have been formed by a melt granulation process whereby the acetaminophen powder was triturated with the melted wax--goat wax, glyceryl monostearate or carnuba wax. The compressibility of the matrix granules and their admixture, with diluent granules (lactose, alpha-cellulose or microcrystalline cellulose) was investigated. The granules were compressed to tablets at a constant load (30 arbitrary units on the load scale) of a manesty single punch machine. Resulting tablets were evaluated for tensile strength (T) and disintegration times (DT). Granule flow was determined by measuring their angle of repose when allowed to fall freely on a level surface. Matrix granules prepared by melt granulation with goat wax or glyceryl monostearate were too sticky and therefore did not flow at all. They were also poorly compressible (T values = 0.20MN/m2). Inclusion of the diluent remarkably improved granule flow property and compressibility. The T values of the tablets (measure of compressibility) increased from about 0.24 to 0.65 MN/m2 during increase in diluent (lactose) content from 20 to 80 %w/w. Microcrystalline cellulose and alpha-cellulose were more effective than lactose in promoting compressibility of the granules. By contrast the matrix granules formed with carnuba wax were free flowing (angle of repose, 18.60). Addition of the diluent further improved flowability slightly. The matrix granules (without a diluent) were readily compressible (T value, 1.79MN/m2). Addition of the diluent (80%w/w) reduced T values (MN/m2) slightly to 1.32 (lactose), 1.48 (alpha-cellulose) and 1.74 (microcrystalline cellulose). Tablets of the matrix granules only, disintegrated rapidly within 3 minutes. DT was further reduced to <30 s by addition of any of the diluents. The indication is that the inclusion of the diluents studied can be used to improve the compressibility of the otherwise poorly compressible matrix granules. Based on the flowability

  13. Informativeness of the CODIS STR loci for admixture analysis.

    PubMed

    Barnholtz-Sloan, Jill S; Pfaff, Carrie L; Chakraborty, Ranajit; Long, Jeffrey C

    2005-11-01

    Population admixture (or ancestry) is used as an approach to gene discovery in complex diseases, particularly when the disease prevalence varies widely across geographic populations. Admixture analysis could be useful for forensics because an indication of a perpetrator's ancestry would narrow the pool of suspects for a particular crime. The purpose of this study was to use Fisher's information to identify informative sets of markers for admixture analysis. Using published founding population allele frequencies we test three marker sets for efficacy for estimating admixture: the FBI CODIS Core STR loci, the HGDP-CEPH Human Genome Diversity Cell Line Panel and the set of 39 ancestry informative SNPS from the Shriver lab at Pennsylvania State University. We conclude that the FBI CODIS Core STR set is valid for admixture analysis, but not the most precise. We recommend using a combination of the most informative markers from the HGDP-CEPH and Shriver loci sets.

  14. Survey and coping strategies for job stress of new nurses in pharmacy intravenous admixture service: a pilot study.

    PubMed

    Wang, Feng-Shuang; Jin, Ou; Feng, Hua; Wang, Feng-Hua; Ren, Chun-Hui

    2015-01-01

    To survey the nurse stress and analyze stressors in new nurses from pharmacy intravenous admixture service (PIAS). A questionnaire survey referring to the revised stressor scale was carried out on 52 new nurses of PIAS in four hospitals in Harbin. The average stress score for all participants was 2.43±0.63, as medium level of stress. The stressors were classified into 6 categories: ensuring up-to-date knowledge of professional nursing skills, increased workload and work-time, interpersonal relationship, ensuring knowledge of equipments, attending educational programs, and decreased occupational demand. The most important stressors included fear of medical accident occurrence, fear of failure in performance assessment, fear of occupational injuries, feeling fatigue and lack of sleep. Considering the various kinds of stressors in the working places, it was necessary for managers' to use appropriate strategies to cope with the job stress in new nurses of PIAS.

  15. Survey and coping strategies for job stress of new nurses in pharmacy intravenous admixture service: a pilot study.

    PubMed

    Wang, Feng-Shuang; Jin, Ou; Feng, Hua; Wang, Feng-Hua; Ren, Chun-Hui

    2015-01-01

    To survey the nurse stress and analyze stressors in new nurses from pharmacy intravenous admixture service (PIAS). A questionnaire survey referring to the revised stressor scale was carried out on 52 new nurses of PIAS in four hospitals in Harbin. The average stress score for all participants was 2.43±0.63, as medium level of stress. The stressors were classified into 6 categories: ensuring up-to-date knowledge of professional nursing skills, increased workload and work-time, interpersonal relationship, ensuring knowledge of equipments, attending educational programs, and decreased occupational demand. The most important stressors included fear of medical accident occurrence, fear of failure in performance assessment, fear of occupational injuries, feeling fatigue and lack of sleep. Considering the various kinds of stressors in the working places, it was necessary for managers' to use appropriate strategies to cope with the job stress in new nurses of PIAS. PMID:26770583

  16. The role of racial genetic admixture with endometrial cancer outcomes: An NRG Oncology/Gynecologic Oncology Group study

    PubMed Central

    Rocconi, Rodney P.; Lankes, Heather A.; Brady, William E.; Goodfellow, Paul J.; Ramirez, Nilsa C.; Alvarez, Ronald D.; Creasman, William; Fernández, José R.

    2016-01-01

    Purpose Racial genetic admixture (RGA), a measure to account for ancestral genetic background that correlates with individual's racial classification, could provide insights on causation of racial disparity in endometrial cancer (EC). Our objective is to evaluate the association of RGA with EC outcomes. Methods EC patients enrolled onto the GOG-210 protocol were eligible. A randomized subcohort stratified by stage and self-reported race/ethnicity of black or white was used. Genotyping was performed using custom-selected Ancestry Informative Markers to calculate individual admixture estimates of African and European ancestral background. Results A total of 149 patients were evaluated (self-reported race: 70 black & 79 white). Mean RGA for African ancestry for self-reported black patients was 0.65 (range 0.04–0.86); while mean RGA for European ancestry for self-reported white patients was 0.77 (range 0.12–0.88). Progression-free survival (PFS) analysis using proportional hazards models stratified by stage and race revealed that each 0.10 increase in African ancestry was associated with worse PFS with hazard ratio (HR) of 1.11 (95% CI 0.90–1.37). Each 0.10 increase in European RGA was associated with improved PFS with HR of 0.86 (95% CI 0.69–1.07). Using tertiles of African RGA showed increasing risk of progression of death with increasing African RGA (with 0–5% as reference), HR (95% CIs) for top two tertiles are: 6%–66%: 1.38 (0.64, 2.97), and 67%–86%: 2.27 (0.74, 6.95). Conclusion RGA demonstrated a trend with PFS in self-reported black and white patients with EC. Patients with increased levels of African ancestry showed a trend towards worse survival after stratifying by stage/race. PMID:26603970

  17. Polymorphic Admixture Typing in Human Ethnic Populations

    PubMed Central

    Dean, Michael; Stephens, J. Claiborne; Winkler, Cheryl; Lomb, Deborah A.; Ramsburg, Mark; Boaze, Raleigh; Stewart, Claudia; Charbonneau, Lauren; Goldman, David; Albaugh, Bernard J.; Goedert, James J.; Beasley, R. Palmer; Hwang, Lu-Yu; Buchbinder, Susan; Weedon, Michael; Johnson, Patricia A.; Eichelberger, Mary; O'Brien, Stephen J.

    1994-01-01

    A panel of 257 RFLP loci was selected on the basis of high heterozygosity in Caucasian DNA surveys and equivalent spacing throughout the human genome. Probes from each locus were used in a Southern blot survey of allele frequency distribution for four human ethnic groups: Caucasian, African American, Asian (Chinese), and American Indian (Cheyenne). Nearly all RFLP loci were polymorphic in each group, albeit with a broad range of differing allele frequencies (δ). The distribution of frequency differences (δ values) was used for three purposes: (1) to provide estimates for genetic distance (differentiation) among these ethnic groups, (2) to revisit with a large data set the proportion of human genetic variation attributable to differentiation within ethnic groups, and (3) to identify loci with high δ values between recently admixed populations of use in mapping by admixture linkage disequilibrium (MALD). Although most markers display significant allele frequency differences between ethnic groups, the overall genetic distances between ethnic groups were small (.066–.098), and <10% of the measured overall molecular genetic diversity in these human samples can be attributed to “racial” differentiation. The median δ values for pairwise comparisons between groups fell between .15 and .20, permitting identification of highly informative RFLP loci for MALD disease association studies. PMID:7942857

  18. Map Study Committee. Final Report.

    ERIC Educational Resources Information Center

    Heidlage, Bob; And Others

    A study undertaken to evaluate the status of the University of Missouri-Columbia's map collections is described in this report, and forecasts are made for necessary facilities, equipment, and personnel to accomplish a proposed reorganization and online cataloging of the university's geology and geography map collections. Included in plans for…

  19. Maps and Map Learning in Social Studies

    ERIC Educational Resources Information Center

    Bednarz, Sarah Witham; Acheson, Gillian; Bednarz, Robert S.

    2006-01-01

    The importance of maps and other graphic representations has become more important to geography and geographers. This is due to the development and widespread diffusion of geographic (spatial) technologies. As computers and silicon chips have become more capable and less expensive, geographic information systems (GIS), global positioning satellite…

  20. Estimation of race admixture--a new method.

    PubMed

    Chakraborty, R

    1975-05-01

    The contribution of a parental population in the gene pool of a hybrid population which arose by hybridization with one or more other populations is estimated here at the population level from the probability of gene identity. The dynamics of accumulation of such admixture is studied incorporating the fluctuations due to finite size of the hybrid population. The method is illustrated with data on admixture in Cherokee Indians. PMID:1146991

  1. EOS mapping accuracy study

    NASA Technical Reports Server (NTRS)

    Forrest, R. B.; Eppes, T. A.; Ouellette, R. J.

    1973-01-01

    Studies were performed to evaluate various image positioning methods for possible use in the earth observatory satellite (EOS) program and other earth resource imaging satellite programs. The primary goal is the generation of geometrically corrected and registered images, positioned with respect to the earth's surface. The EOS sensors which were considered were the thematic mapper, the return beam vidicon camera, and the high resolution pointable imager. The image positioning methods evaluated consisted of various combinations of satellite data and ground control points. It was concluded that EOS attitude control system design must be considered as a part of the image positioning problem for EOS, along with image sensor design and ground image processing system design. Study results show that, with suitable efficiency for ground control point selection and matching activities during data processing, extensive reliance should be placed on use of ground control points for positioning the images obtained from EOS and similar programs.

  2. Lightning mapping sensor study

    NASA Technical Reports Server (NTRS)

    Norwood, V.

    1983-01-01

    A technology assessment to determine how a world-wide, continuous measurement of lightning could be achieved from a geostationary platform is provided. Various approaches to the detector sensors are presented. It was first determined that any existing detector chips would require some degree of modification in order to meet the lightning mapper sensor requirements. The elements of the system were then analyzed, categorized, and graded for study emphasis. The recommended approach for the lightning mapper sensor is to develop a monolithic array in which each detector cell has circuitry that implements a two-step photon-collecting method for a very high dynamic range with good measurement accuracy. The efficiency of the array is compatible with the use of a conventional refractive optics design having an aperture in the neighborhood of 7 to 10 cm.

  3. A Spatial Framework for Understanding Population Structure and Admixture.

    PubMed

    Bradburd, Gideon S; Ralph, Peter L; Coop, Graham M

    2016-01-01

    Geographic patterns of genetic variation within modern populations, produced by complex histories of migration, can be difficult to infer and visually summarize. A general consequence of geographically limited dispersal is that samples from nearby locations tend to be more closely related than samples from distant locations, and so genetic covariance often recapitulates geographic proximity. We use genome-wide polymorphism data to build "geogenetic maps," which, when applied to stationary populations, produces a map of the geographic positions of the populations, but with distances distorted to reflect historical rates of gene flow. In the underlying model, allele frequency covariance is a decreasing function of geogenetic distance, and nonlocal gene flow such as admixture can be identified as anomalously strong covariance over long distances. This admixture is explicitly co-estimated and depicted as arrows, from the source of admixture to the recipient, on the geogenetic map. We demonstrate the utility of this method on a circum-Tibetan sampling of the greenish warbler (Phylloscopus trochiloides), in which we find evidence for gene flow between the adjacent, terminal populations of the ring species. We also analyze a global sampling of human populations, for which we largely recover the geography of the sampling, with support for significant histories of admixture in many samples. This new tool for understanding and visualizing patterns of population structure is implemented in a Bayesian framework in the program SpaceMix. PMID:26771578

  4. A Spatial Framework for Understanding Population Structure and Admixture

    PubMed Central

    Bradburd, Gideon S.; Ralph, Peter L.; Coop, Graham M.

    2016-01-01

    Geographic patterns of genetic variation within modern populations, produced by complex histories of migration, can be difficult to infer and visually summarize. A general consequence of geographically limited dispersal is that samples from nearby locations tend to be more closely related than samples from distant locations, and so genetic covariance often recapitulates geographic proximity. We use genome-wide polymorphism data to build “geogenetic maps,” which, when applied to stationary populations, produces a map of the geographic positions of the populations, but with distances distorted to reflect historical rates of gene flow. In the underlying model, allele frequency covariance is a decreasing function of geogenetic distance, and nonlocal gene flow such as admixture can be identified as anomalously strong covariance over long distances. This admixture is explicitly co-estimated and depicted as arrows, from the source of admixture to the recipient, on the geogenetic map. We demonstrate the utility of this method on a circum-Tibetan sampling of the greenish warbler (Phylloscopus trochiloides), in which we find evidence for gene flow between the adjacent, terminal populations of the ring species. We also analyze a global sampling of human populations, for which we largely recover the geography of the sampling, with support for significant histories of admixture in many samples. This new tool for understanding and visualizing patterns of population structure is implemented in a Bayesian framework in the program SpaceMix. PMID:26771578

  5. pH-stabilization of predegraded PDLLA by an admixture of water-soluble sodiumhydrogenphosphate--results of an in vitro- and in vivo-study.

    PubMed

    Heidemann, Wolfgang; Jeschkeit-Schubbert, Stephanie; Ruffieux, Kurt; Fischer, Jürgen Hartmut; Jung, Hedda; Krueger, Gerhard; Wintermantel, Erich; Gerlach, Klaus Louis

    2002-09-01

    Aim of the study was to examine if the addition of buffering sodiumhydrogenphosphate to poly(D,L)lactide(PDLLA) would stabilize the pH-value in the in vivo environment of implanted material and whether this improves its biocompatibility. The material was predegraded just to the point of viscous disintegration to test the PDLLA in the moment of its most aggressive effect on the surrounding tissue. Racemic amorphous PDLLA was injection-molded with or without the admixture of 1 mol NaP per 100 mol lactate, the degradation product of PDLLA (=1 mol%) to form 20mm x 3 mm x 2mm rods. Predegradation was performed by storing the rods at 55 degrees C for 14 days, just to the point of beginning dissolution. Predegraded PDLLA or PDLLA + NaP samples were used for in vitro incubation tests, as well as for the in vivo study, where the rods were implanted into the spinal muscles of 30 male Wistar rats. Repeatedly, measurements of the pH-value were made in the incubation solutions in vitro. The surrounding tissue of the implanted samples as well as the normal contralateral muscle tissue was checked for its pH-value in a group of 3 rats, respectively, anaesthesized at various time intervals after implantation. After these measurements the implants and their surrounding tissues were excised for histological examination. In Ringer's solution pH-values dropped immediately within the first week of incubation of both predegraded materials reaching -4 pH units after 4 weeks in the PDLLA containing medium, after 6 weeks in the PDLLA + NaP containing medium. Soerensen buffer slowed the pH decrease with significant differences between the material groups up to the 28th week. In vivo, the pH of the surrounding tissue was influenced by the implanted PDLLA material up to the 4th week, while the admixture of NaP resulted in a significant pH stabilization. A higher quantity of macrophages and giant cells were seen between the 2nd and 6th week after the implantation in the environment of pure

  6. Experimental and numerical study on the dynamics of a μs helium plasma gun discharge with various amounts of N2 admixture

    NASA Astrophysics Data System (ADS)

    Bourdon, Anne; Darny, Thibault; Robert, Eric; Pechereau, Francois; Viegas, Pedro; Pouvesle, Jean-Michel

    2015-09-01

    These last years, atmospheric pressure plasma jets formed by pulsed helium discharges ignited in thin dielectric tubes have been extensively studied due to their potential for biomedical applications. So far, most experiments have been dedicated to the study of the plasma plume. For endoscopic treatments, it is also important to better understand and optimize the propagation of discharges in long dielectric tubes as catheters. First we present an experimental and numerical study on the dynamics of a μs helium plasma discharge with N2 admixture in a long dielectric tube. We compare the velocity of the discharge front for various amounts of N2 and different applied voltages and show a good agreement between experiments and simulations. Second, we compare time-resolved measurements and simulations of longitudinal and radial electric fields associated with plasma propagation in the dielectric tube and in the plasma plume. It is interesting to note that measurements obtained with a probe located outside the dielectric tube are in excellent agreement with simulations. This allows to infer from simulations the time evolution of the electric field on the discharge axis which is a key parameter for applications. The authors acknowledge the computational resources of the Mesocentre of Ecole Centrale Paris.

  7. Spatial assessment of Argentinean genetic admixture with geographical information systems.

    PubMed

    Diaz-Lacava, Amalia; Walier, Maja; Penacino, Gustavo; Wienker, Thomas F; Baur, Max P

    2011-08-01

    In recent years there has been much attention to Argentinean population stratification. We were interested in assessing population stratification from a geographical perspective and summarizing it in form of maps. We mapped the genetic admixture of the extant male population in central and northern Argentina on the basis of forensic Y-chromosomal haplotypes. We addressed the question which group of genetically similar individuals is predominant in this area. Haplotypes containing seven Y-chromosomal short tandem repeat polymorphisms (Y-STRs), also known as microsatellites - DYS19, DYS389I, DYS389II, DYS390, DYS391, DYS392, DYS393 - were constructed for 145 individuals, recruited in 10 provinces. 97 distinct haplotypes were clustered into four clusters according to molecular distances. A genetic geostatistical analysis was conducted with the open-source geographical information system GRASS GIS. For each haplotype cluster, the according frequency was spatially interpolated over the total study area. Juxtaposing the interpolation surfaces, we screened point-wisely the maximal frequency as well as the label of the respective cluster. The screening results were combined in one summary map. We repeated this procedure for the second maximal frequencies. The resulting maps subdivide the study area into continuous regions comprising one predominant group of similar haplotypes. The first summary map divides the study area into three regions and the second summary map divides the area into four regions. The results of our analysis indicate that two groups of similar European haplotypes alternatively dominate the largest extension of the Argentinean territory. A third group, including South-American haplotypes, dominates the indigenous northwestern Argentinean area. The last group, including worldwide dispersed haplotypes, preponderates in frequency in second place in central Argentina. Our findings confirm a widespread European paternal ancestry, a substantial Amerindian

  8. Topological Signatures for Population Admixture

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Topological Signatures for Population AdmixtureDeniz Yorukoglu1, Filippo Utro1, David Kuhn2, Saugata Basu3 and Laxmi Parida1* Abstract Background: As populations with multi-linear transmission (i.e., mixing of genetic material from two parents, say) evolve over generations, the genetic transmission...

  9. Heterogeneity in Genetic Admixture across Different Regions of Argentina

    PubMed Central

    Avena, Sergio; Via, Marc; Ziv, Elad; Pérez-Stable, Eliseo J.; Gignoux, Christopher R.; Dejean, Cristina; Huntsman, Scott; Torres-Mejía, Gabriela; Dutil, Julie; Matta, Jaime L.; Beckman, Kenneth; Burchard, Esteban González; Parolin, María Laura; Goicoechea, Alicia; Acreche, Noemí; Boquet, Mariel; Ríos Part, María Del Carmen; Fernández, Vanesa; Rey, Jorge; Stern, Mariana C.; Carnese, Raúl F.; Fejerman, Laura

    2012-01-01

    The population of Argentina is the result of the intermixing between several groups, including Indigenous American, European and African populations. Despite the commonly held idea that the population of Argentina is of mostly European origin, multiple studies have shown that this process of admixture had an impact in the entire Argentine population. In the present study we characterized the distribution of Indigenous American, European and African ancestry among individuals from different regions of Argentina and evaluated the level of discrepancy between self-reported grandparental origin and genetic ancestry estimates. A set of 99 autosomal ancestry informative markers (AIMs) was genotyped in a sample of 441 Argentine individuals to estimate genetic ancestry. We used non-parametric tests to evaluate statistical significance. The average ancestry for the Argentine sample overall was 65% European (95%CI: 63–68%), 31% Indigenous American (28–33%) and 4% African (3–4%). We observed statistically significant differences in European ancestry across Argentine regions [Buenos Aires province (BA) 76%, 95%CI: 73–79%; Northeast (NEA) 54%, 95%CI: 49–58%; Northwest (NWA) 33%, 95%CI: 21–41%; South 54%, 95%CI: 49–59%; p<0.0001] as well as between the capital and immediate suburbs of Buenos Aires city compared to more distant suburbs [80% (95%CI: 75–86%) versus 68% (95%CI: 58–77%), p = 0.01]. European ancestry among individuals that declared all grandparents born in Europe was 91% (95%CI: 88–94%) compared to 54% (95%CI: 51–57%) among those with no European grandparents (p<0.001). Our results demonstrate the range of variation in genetic ancestry among Argentine individuals from different regions in the country, highlighting the importance of taking this variation into account in genetic association and admixture mapping studies in this population. PMID:22506044

  10. Genetic admixture, self-reported ethnicity, self-estimated admixture, and skin pigmentation among Hispanics and Native Americans.

    PubMed

    Klimentidis, Yann C; Miller, Geoffrey F; Shriver, Mark D

    2009-04-01

    The relationship between ethnicity and biology is of interest to anthropologists, biomedical scientists, and historians in understanding how human groups are constructed. Ethnic self-identification in recently admixed groups such as Hispanics, African Americans, and Native Americans (NA) is likely to be complex due to the heterogeneity in individual admixture proportions and social environments within these groups. This study examines the relationships between self-identified ethnicity, self-estimated admixture proportions, skin pigmentation, and genetic marker estimated admixture proportions. These measures were assessed using questionnaires, skin color measurements, and genotyping of a panel of 76 ancestry informative markers, among 170 Hispanics and NAs from New Mexico, a state known for its complex history of interactions between people of NA and European (EU) ancestry. Results reveal that NAs underestimate their degree of EU admixture, and that Hispanics underestimate their degree of NA admixture. Within Hispanics, genetic-marker estimated admixture is better predicted by forehead skin pigmentation than by self-estimated admixture. We also find that Hispanic individuals self-identified as "half-White, half Hispanic" and "Spanish" have lower levels of NA admixture than those self-identified as "Mexican" and "Mexican American." Such results highlight the interplay between culture and biology in how individuals identify and view themselves, and have implications for how ethnicity and disease risk are assessed in a medical setting. PMID:18951390

  11. Turbulent diffusion of chemically reacting gaseous admixtures

    NASA Astrophysics Data System (ADS)

    Elperin, T.; Kleeorin, N.; Liberman, M.; Rogachevskii, I.

    2014-11-01

    We study turbulent diffusion of chemically reacting gaseous admixtures in a developed turbulence. In our previous study [Phys. Rev. Lett. 80, 69 (1998), 10.1103/PhysRevLett.80.69] using a path-integral approach for a delta-correlated in a time random velocity field, we demonstrated a strong modification of turbulent transport in fluid flows with chemical reactions or phase transitions. In the present study we use the spectral τ approximation that is valid for large Reynolds and Peclet numbers and show that turbulent diffusion of the reacting species can be strongly depleted by a large factor that is the ratio of turbulent and chemical times (turbulent Damköhler number). We have demonstrated that the derived theoretical dependence of a turbulent diffusion coefficient versus the turbulent Damköhler number is in good agreement with that obtained previously in the numerical modeling of a reactive front propagating in a turbulent flow and described by the Kolmogorov-Petrovskii-Piskunov-Fisher equation. We have found that turbulent cross-effects, e.g., turbulent mutual diffusion of gaseous admixtures and turbulent Dufour effect of the chemically reacting gaseous admixtures, are less sensitive to the values of stoichiometric coefficients. The mechanisms of the turbulent cross-effects differ from the molecular cross-effects known in irreversible thermodynamics. In a fully developed turbulence and at large Peclet numbers the turbulent cross-effects are much larger than the molecular ones. The obtained results are applicable also to heterogeneous phase transitions.

  12. Maximum-likelihood estimation of admixture proportions from genetic data.

    PubMed Central

    Wang, Jinliang

    2003-01-01

    For an admixed population, an important question is how much genetic contribution comes from each parental population. Several methods have been developed to estimate such admixture proportions, using data on genetic markers sampled from parental and admixed populations. In this study, I propose a likelihood method to estimate jointly the admixture proportions, the genetic drift that occurred to the admixed population and each parental population during the period between the hybridization and sampling events, and the genetic drift in each ancestral population within the interval between their split and hybridization. The results from extensive simulations using various combinations of relevant parameter values show that in general much more accurate and precise estimates of admixture proportions are obtained from the likelihood method than from previous methods. The likelihood method also yields reasonable estimates of genetic drift that occurred to each population, which translate into relative effective sizes (N(e)) or absolute average N(e)'s if the times when the relevant events (such as population split, admixture, and sampling) occurred are known. The proposed likelihood method also has features such as relatively low computational requirement compared with previous ones, flexibility for admixture models, and marker types. In particular, it allows for missing data from a contributing parental population. The method is applied to a human data set and a wolflike canids data set, and the results obtained are discussed in comparison with those from other estimators and from previous studies. PMID:12807794

  13. Ancient Admixture in Human History

    PubMed Central

    Patterson, Nick; Moorjani, Priya; Luo, Yontao; Mallick, Swapan; Rohland, Nadin; Zhan, Yiping; Genschoreck, Teri; Webster, Teresa; Reich, David

    2012-01-01

    Population mixture is an important process in biology. We present a suite of methods for learning about population mixtures, implemented in a software package called ADMIXTOOLS, that support formal tests for whether mixture occurred and make it possible to infer proportions and dates of mixture. We also describe the development of a new single nucleotide polymorphism (SNP) array consisting of 629,433 sites with clearly documented ascertainment that was specifically designed for population genetic analyses and that we genotyped in 934 individuals from 53 diverse populations. To illustrate the methods, we give a number of examples that provide new insights about the history of human admixture. The most striking finding is a clear signal of admixture into northern Europe, with one ancestral population related to present-day Basques and Sardinians and the other related to present-day populations of northeast Asia and the Americas. This likely reflects a history of admixture between Neolithic migrants and the indigenous Mesolithic population of Europe, consistent with recent analyses of ancient bones from Sweden and the sequencing of the genome of the Tyrolean “Iceman.” PMID:22960212

  14. Ancient admixture in human history.

    PubMed

    Patterson, Nick; Moorjani, Priya; Luo, Yontao; Mallick, Swapan; Rohland, Nadin; Zhan, Yiping; Genschoreck, Teri; Webster, Teresa; Reich, David

    2012-11-01

    Population mixture is an important process in biology. We present a suite of methods for learning about population mixtures, implemented in a software package called ADMIXTOOLS, that support formal tests for whether mixture occurred and make it possible to infer proportions and dates of mixture. We also describe the development of a new single nucleotide polymorphism (SNP) array consisting of 629,433 sites with clearly documented ascertainment that was specifically designed for population genetic analyses and that we genotyped in 934 individuals from 53 diverse populations. To illustrate the methods, we give a number of examples that provide new insights about the history of human admixture. The most striking finding is a clear signal of admixture into northern Europe, with one ancestral population related to present-day Basques and Sardinians and the other related to present-day populations of northeast Asia and the Americas. This likely reflects a history of admixture between Neolithic migrants and the indigenous Mesolithic population of Europe, consistent with recent analyses of ancient bones from Sweden and the sequencing of the genome of the Tyrolean "Iceman."

  15. Numerical and experimental study of the dynamics of a μs helium plasma gun discharge with various amounts of N2 admixture

    NASA Astrophysics Data System (ADS)

    Bourdon, Anne; Darny, Thibault; Pechereau, François; Pouvesle, Jean-Michel; Viegas, Pedro; Iséni, Sylvain; Robert, Eric

    2016-06-01

    This paper presents a combined 2D numerical and experimental study of the influence of {{\\text{N}}2} admixture on the dynamics of a He-{{\\text{N}}2} discharge in the 10 cm long dielectric tube of a plasma gun set-up. First, the comparison between experiments and simulations is carried out on the ionization front propagation velocity in the tube. The importance of taking into account a detailed kinetic scheme for the He-{{\\text{N}}2} mixture in the simulations to obtain a good agreement with the experiments is put forward. For the μs driven plasma gun, the two- and three-body Penning reactions occurring in the plasma column behind the ionization front, are shown to play a key role on the discharge dynamics. In the experiments and simulations, the significant influence of the amplitude of the applied voltage on the ionization front propagation velocity is observed. As the amount of {{\\text{N}}2} varies, simulation results show that the ionization front velocity, depends on a complex coupling between the kinetics of the discharge, the photoionization and the 2D structure of the discharge in the tube. Finally, the time evolution of axial and radial components of the electric field measured by an electro-optic probe set outside the tube are compared with simulation results. A good agreement is obtained on both components of the electric field. In the tube, simulations show that the magnitude of the axial electric field on the discharge axis depends weakly on the amount of {{\\text{N}}2} conversely to the magnitude of the off-axis peak electric field. Both, simulations and first measurements in the tube or within the plasma plume show peak electric fields of the order of 45 kV·cm-1.

  16. Strong selection at MHC in Mexicans since admixture

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Mexicans are a recent admixture of Amerindians, Europeans, and Africans. We performed local ancestry analysis of Mexican samples from two genome-wide association studies obtained from dbGaP, and discovered that at the major histocompatibility complex (MHC) region Mexicans have excessive African ance...

  17. Infrared studies of molecular shocks in the supernova remnant HB 21: II. Thermal admixture of shocked H2 gas in the south

    NASA Astrophysics Data System (ADS)

    Shinn, Jong-Ho; Koo, Bon-Chul; Burton, Michael; Lee, Ho-Gyu; Moon, Dae-Sik

    2010-02-01

    We present near- and mid-infrared observations on the shock-cloud interaction region in the southern part of the supernova remnant HB 21, performed with the InfraRed Camera (IRC) aboard AKARI satellite and the Wide InfraRed Camera (WIRC) at the Palomar 5 m telescope. The IRC 4 μm (N4), 7 μm (S7), and 11 μm (S11) band images and the WIRC Hυ=1→0S(1) 2.12 μm image show similar diffuse features, around a shocked CO cloud. We analyzed the emission through comparison with the H2 line emission of several shock models. The IRC colors are well explained by the thermal admixture model of H2 gas - whose infinitesimal H2 column density has a power-law relation with the temperature T, dN˜T-dT - with n(H)˜3.9×104cm-3,b˜4.2, and N(H;T>100K)˜2.8×1021cm-2. We interpreted these parameters with several different pictures of the shock-cloud interactions - multiple planar C-shocks, bow shocks, and shocked clumps - and discussed their weaknesses and strengths. The observed Hυ=1→0S(1) intensity is four times greater than the prediction from the power-law admixture model, the same tendency as found in the northern part of HB 21 (Paper I). We also explored the limitation of the thermal admixture model with respect to the derived model parameters.

  18. Worldwide patterns of genomic variation and admixture in gray wolves.

    PubMed

    Fan, Zhenxin; Silva, Pedro; Gronau, Ilan; Wang, Shuoguo; Armero, Aitor Serres; Schweizer, Rena M; Ramirez, Oscar; Pollinger, John; Galaverni, Marco; Ortega Del-Vecchyo, Diego; Du, Lianming; Zhang, Wenping; Zhang, Zhihe; Xing, Jinchuan; Vilà, Carles; Marques-Bonet, Tomas; Godinho, Raquel; Yue, Bisong; Wayne, Robert K

    2016-02-01

    The gray wolf (Canis lupus) is a widely distributed top predator and ancestor of the domestic dog. To address questions about wolf relationships to each other and dogs, we assembled and analyzed a data set of 34 canine genomes. The divergence between New and Old World wolves is the earliest branching event and is followed by the divergence of Old World wolves and dogs, confirming that the dog was domesticated in the Old World. However, no single wolf population is more closely related to dogs, supporting the hypothesis that dogs were derived from an extinct wolf population. All extant wolves have a surprisingly recent common ancestry and experienced a dramatic population decline beginning at least ∼30 thousand years ago (kya). We suggest this crisis was related to the colonization of Eurasia by modern human hunter-gatherers, who competed with wolves for limited prey but also domesticated them, leading to a compensatory population expansion of dogs. We found extensive admixture between dogs and wolves, with up to 25% of Eurasian wolf genomes showing signs of dog ancestry. Dogs have influenced the recent history of wolves through admixture and vice versa, potentially enhancing adaptation. Simple scenarios of dog domestication are confounded by admixture, and studies that do not take admixture into account with specific demographic models are problematic. PMID:26680994

  19. Worldwide patterns of genomic variation and admixture in gray wolves

    PubMed Central

    Fan, Zhenxin; Silva, Pedro; Gronau, Ilan; Wang, Shuoguo; Armero, Aitor Serres; Schweizer, Rena M.; Ramirez, Oscar; Pollinger, John; Galaverni, Marco; Ortega Del-Vecchyo, Diego; Du, Lianming; Zhang, Wenping; Zhang, Zhihe; Xing, Jinchuan; Vilà, Carles; Marques-Bonet, Tomas; Godinho, Raquel; Yue, Bisong; Wayne, Robert K.

    2016-01-01

    The gray wolf (Canis lupus) is a widely distributed top predator and ancestor of the domestic dog. To address questions about wolf relationships to each other and dogs, we assembled and analyzed a data set of 34 canine genomes. The divergence between New and Old World wolves is the earliest branching event and is followed by the divergence of Old World wolves and dogs, confirming that the dog was domesticated in the Old World. However, no single wolf population is more closely related to dogs, supporting the hypothesis that dogs were derived from an extinct wolf population. All extant wolves have a surprisingly recent common ancestry and experienced a dramatic population decline beginning at least ∼30 thousand years ago (kya). We suggest this crisis was related to the colonization of Eurasia by modern human hunter–gatherers, who competed with wolves for limited prey but also domesticated them, leading to a compensatory population expansion of dogs. We found extensive admixture between dogs and wolves, with up to 25% of Eurasian wolf genomes showing signs of dog ancestry. Dogs have influenced the recent history of wolves through admixture and vice versa, potentially enhancing adaptation. Simple scenarios of dog domestication are confounded by admixture, and studies that do not take admixture into account with specific demographic models are problematic. PMID:26680994

  20. The relationship between European genetic admixture and body composition among Hispanics and Native Americans.

    PubMed

    Klimentidis, Y C; Miller, G F; Shriver, M D

    2009-01-01

    Previous studies have shown a relationship between health-related phenotypes and the degree of African, European, or Native American genetic admixture, indicating that there may be a genetic component to these phenotypes. However, these relationships may be driven to a large extent by the environmental differences that co-vary with admixture differences between and within groups. In this study, we examine the relationship between genetic admixture and two phenotypic measurements that are potentially related to health: body mass index (BMI) and percent body fat (PBF). In addition to admixture proportions, we attempt to assess the influence of some environmental covariates by examining how the phenotypes vary with self-reported household income, education of parents, and physical activity level. Genetic, anthropometric, and environmental data were collected from 170 self-reported Hispanic and Native American university students in Albuquerque, NM. We examine the relationships between genetic admixture, phenotype, and environment in both the full sample, as well as in Hispanics and Native Americans separately. Among Hispanics, we find no significant relationship between genetic admixture and body composition. Among Native Americans, despite a small sample size, we find a statistically significant, negative relationship between European genetic admixture and PBF and BMI, after adjusting for other predictor variables. We compare our findings to previous research, and discuss their implications for understanding health disparities within and between ethnic groups.

  1. Genetic admixture studies on four in situ evolved, two migrant and twenty-one ethnic populations of Tamil Nadu, south India.

    PubMed

    Suhasini, G; Sonaa, E; Shila, S; Srikumari, C R; Jayaraman, G; Ramesh, A

    2011-08-01

    We analysed the genetic structure of ≈ 1000 samples representing 27 ethnic groups settled in Tamil Nadu, south India, derived from two linguistic families (Dravidians and Indo-Europeans) representing four religious groups (Hinduism, Islam, Christianity and Jainism) using 11 mtDNA markers. Out of 27 ethnic groups, four are in situ populations (Anglo-Indian, Labbai Muslim, Nadar Christian and south Indian Jain) and two are migrants (Gypsy and north Indian Jain) from north India to Tamil Nadu, and 21 are native ethnic groups. Six of the markers we used were monomorphic (HaeIII663, HpaI3592, AluI5176, AluI7025, AluI13262, 9-bp deletion) and five markers were polymorphic (DdeI10394, AluI10397, HinfI12308, HincII13259 and HaeIII16517). Haplogroup frequencies, genetic affinities and admixture analysis are based on the genotype data of polymorphic markers observed in these populations. Haplogroup frequencies indicate that various ethnic groups entered Tamil Nadu during different time periods. Genetic affinities and admixture estimates revealed that the ethnic groups possessing advanced knowledge of farming cluster in a branch (C), and could be the late arrived settlers as agriculture, was introduced to this region at about 5 to 3 thousand years ago. In situ ethnic groups appear to have arisen at various times as a result of the prevailing dominant socio-cultural forces. Hierarchical Hindu caste system created many ethnic groups in the history of its existence; some of them became isolated for considerable period of time. Over all, among Tamil ethnic groups, in spite of caste systems' rigidity, built in flexibility in the system in the form of hypergamy and hypogamy had allowed maternal gene flow between them. PMID:21869467

  2. Interethnic admixture and the evolution of Latin American populations.

    PubMed

    Salzano, Francisco Mauro; Sans, Mónica

    2014-03-01

    A general introduction to the origins and history of Latin American populations is followed by a systematic review of the data from molecular autosomal assessments of the ethnic/continental (European, African, Amerindian) ancestries for 24 Latin American countries or territories. The data surveyed are of varying quality but provide a general picture of the present constitution of these populations. A brief discussion about the applications of these results (admixture mapping) is also provided. Latin American populations can be viewed as natural experiments for the investigation of unique anthropological and epidemiological issues. PMID:24764751

  3. Interethnic admixture and the evolution of Latin American populations

    PubMed Central

    Salzano, Francisco Mauro; Sans, Mónica

    2014-01-01

    A general introduction to the origins and history of Latin American populations is followed by a systematic review of the data from molecular autosomal assessments of the ethnic/continental (European, African, Amerindian) ancestries for 24 Latin American countries or territories. The data surveyed are of varying quality but provide a general picture of the present constitution of these populations. A brief discussion about the applications of these results (admixture mapping) is also provided. Latin American populations can be viewed as natural experiments for the investigation of unique anthropological and epidemiological issues. PMID:24764751

  4. Admixture enhanced controlled low-strength material for direct underwater injection with minimal cross-contamination

    SciTech Connect

    Hepworth, H.K.; Davidson, J.S.; Hooyman, J.L.

    1997-03-01

    Commercially available admixtures have been developed for placing traditional concrete products under water. This paper evaluates adapting anti-washout admixture (AWA) and high range water reducing admixture (HRWRA) products to enhance controlled low-strength materials (CLSMs) for underwater placement. A simple experimental scale model (based on dynamic and geometric similitude) of typical grout pump emplacement equipment has been developed to determine the percentage of cementing material washed out. The objective of this study was to identify proportions of admixtures and underwater CLSM emplacement procedures which would minimize the cross-contamination of the displaced water while maintaining the advantages of CLSM. Since the displaced water from radioactively contaminated systems must be subsequently treated prior to release to the environment, the amount of cross-contamination is important for cases in which cementing material could form hard sludges in a water treatment facility and contaminate the in-place CLSM stabilization medium.

  5. Adsorption of superplasticizer admixtures on alkali-activated slag pastes

    SciTech Connect

    Palacios, M. Houst, Y.F.; Bowen, P.; Puertas, F.

    2009-08-15

    Alkali-activated slag (AAS) binders are obtained by a manufacturing process less energy-intensive than ordinary Portland cement (OPC) and involves lower greenhouse gasses emission. These alkaline cements allow the production of high mechanical strength and durable concretes. In the present work, the adsorption of different superplasticizer admixtures (naphthalene-based, melamine-based and a vinyl copolymer) on the slag particles in AAS pastes using alkaline solutions with different pH values have been studied in detail. The effect of the superplasticizers on the yield stress and plastic viscosity of the AAS and OPC pastes have been also evaluated. The results obtained allowed us to conclude that the adsorption of the superplasticizers on AAS pastes is independent of the pH of the alkaline solutions used and lower than on OPC pastes. However, the effect of the admixtures on the rheological parameters depends directly on the type and dosage of the superplasticizer as well as of the binder used and, in the case of the AAS, on the pH of the alkaline activator solution. In 11.7-pH NaOH-AAS pastes the dosages of the superplasticizers required to attain similar reduction in the yield stress are ten-fold lower than for Portland cement. In this case the superplasticizers studied show a fluidizing effect considerably higher in 11.7-pH NaOH-AAS pastes than in OPC pastes. In 13.6-pH NaOH-AAS pastes, the only admixture observed to affect the rheological parameters is the naphthalene-based admixture due to its higher chemical stability in such extremely alkaline media.

  6. Population admixture: detection by Hardy-Weinberg test and its quantitative effects on linkage-disequilibrium methods for localizing genes underlying complex traits.

    PubMed Central

    Deng, H W; Chen, W M; Recker, R R

    2001-01-01

    In association studies searching for genes underlying complex traits, the results are often inconsistent, and population admixture has been recognized qualitatively as one major potential cause. Hardy-Weinberg equilibrium (HWE) is often employed to test for population admixture; however, its power is generally unknown. Through analytical and simulation approaches, we quantify the power of the HWE test for population admixture and the effects of population admixture on increasing the type I error rate of association studies under various scenarios of population differentiation and admixture. We found that (1) the power of the HWE test for detecting population admixture is usually small; (2) population admixture seriously elevates type I error rate for detecting genes underlying complex traits, the extent of which depends on the degrees of population differentiation and admixture; (3) HWE testing for population admixture should be performed with random samples or only with controls at the candidate genes, or the test can be performed for combined samples of cases and controls at marker loci that are not linked to the disease; (4) testing HWE for population admixture generally reduces false positive association findings of genes underlying complex traits but the effect is small; and (5) with population admixture, a linkage disequilibrium method that employs cases only is more robust and yields many fewer false positive findings than conventional case-control analyses. Therefore, unless random samples are carefully selected from one homogeneous population, admixture is always a legitimate concern for positive findings in association studies except for the analyses that deliberately control population admixture. PMID:11157005

  7. Population divergence with or without admixture: selecting models using an ABC approach

    PubMed Central

    Sousa, V C; Beaumont, M A; Fernandes, P; Coelho, M M; Chikhi, L

    2012-01-01

    Genetic data have been widely used to reconstruct the demographic history of populations, including the estimation of migration rates, divergence times and relative admixture contribution from different populations. Recently, increasing interest has been given to the ability of genetic data to distinguish alternative models. One of the issues that has plagued this kind of inference is that ancestral shared polymorphism is often difficult to separate from admixture or gene flow. Here, we applied an approximate Bayesian computation (ABC) approach to select the model that best fits microsatellite data among alternative splitting and admixture models. We performed a simulation study and showed that with reasonably large data sets (20 loci) it is possible to identify with a high level of accuracy the model that generated the data. This suggests that it is possible to distinguish genetic patterns due to past admixture events from those due to shared polymorphism (population split without admixture). We then apply this approach to microsatellite data from an endangered and endemic Iberian freshwater fish species, in which a clustering analysis suggested that one of the populations could be admixed. In contrast, our results suggest that the observed genetic patterns are better explained by a population split model without admixture. PMID:22146980

  8. A Novel Admixture-Based Pharmacogenetic Approach to Refine Warfarin Dosing in Caribbean Hispanics

    PubMed Central

    Claudio-Campos, Karla; Rivera-Miranda, Giselle; Bermúdez-Bosch, Luis; Renta, Jessicca Y.; Cadilla, Carmen L.; Cruz, Iadelisse; Feliu, Juan F.; Vergara, Cunegundo; Ruaño, Gualberto

    2016-01-01

    Aim This study is aimed at developing a novel admixture-adjusted pharmacogenomic approach to individually refine warfarin dosing in Caribbean Hispanic patients. Patients & Methods A multiple linear regression analysis of effective warfarin doses versus relevant genotypes, admixture, clinical and demographic factors was performed in 255 patients and further validated externally in another cohort of 55 individuals. Results The admixture-adjusted, genotype-guided warfarin dosing refinement algorithm developed in Caribbean Hispanics showed better predictability (R2 = 0.70, MAE = 0.72mg/day) than a clinical algorithm that excluded genotypes and admixture (R2 = 0.60, MAE = 0.99mg/day), and outperformed two prior pharmacogenetic algorithms in predicting effective dose in this population. For patients at the highest risk of adverse events, 45.5% of the dose predictions using the developed pharmacogenetic model resulted in ideal dose as compared with only 29% when using the clinical non-genetic algorithm (p<0.001). The admixture-driven pharmacogenetic algorithm predicted 58% of warfarin dose variance when externally validated in 55 individuals from an independent validation cohort (MAE = 0.89 mg/day, 24% mean bias). Conclusions Results supported our rationale to incorporate individual’s genotypes and unique admixture metrics into pharmacogenetic refinement models in order to increase predictability when expanding them to admixed populations like Caribbean Hispanics. Trial Registration ClinicalTrials.gov NCT01318057 PMID:26745506

  9. Beyond 2/3 and 1/3: The Complex Signatures of Sex-Biased Admixture on the X Chromosome.

    PubMed

    Goldberg, Amy; Rosenberg, Noah A

    2015-09-01

    Sex-biased demography, in which parameters governing migration and population size differ between females and males, has been studied through comparisons of X chromosomes, which are inherited sex-specifically, and autosomes, which are not. A common form of sex bias in humans is sex-biased admixture, in which at least one of the source populations differs in its proportions of females and males contributing to an admixed population. Studies of sex-biased admixture often examine the mean ancestry for markers on the X chromosome in relation to the autosomes. A simple framework noting that in a population with equally many females and males, two-thirds of X chromosomes appear in females, suggests that the mean X-chromosomal admixture fraction is a linear combination of female and male admixture parameters, with coefficients 2/3 and 1/3, respectively. Extending a mechanistic admixture model to accommodate the X chromosome, we demonstrate that this prediction is not generally true in admixture models, although it holds in the limit for an admixture process occurring as a single event. For a model with constant ongoing admixture, we determine the mean X-chromosomal admixture, comparing admixture on female and male X chromosomes to corresponding autosomal values. Surprisingly, in reanalyzing African-American genetic data to estimate sex-specific contributions from African and European sources, we find that the range of contributions compatible with the excess African ancestry on the X chromosome compared to autosomes has a wide spread, permitting scenarios either without male-biased contributions from Europe or without female-biased contributions from Africa.

  10. Beyond 2/3 and 1/3: The Complex Signatures of Sex-Biased Admixture on the X Chromosome

    PubMed Central

    Goldberg, Amy; Rosenberg, Noah A.

    2015-01-01

    Sex-biased demography, in which parameters governing migration and population size differ between females and males, has been studied through comparisons of X chromosomes, which are inherited sex-specifically, and autosomes, which are not. A common form of sex bias in humans is sex-biased admixture, in which at least one of the source populations differs in its proportions of females and males contributing to an admixed population. Studies of sex-biased admixture often examine the mean ancestry for markers on the X chromosome in relation to the autosomes. A simple framework noting that in a population with equally many females and males, two-thirds of X chromosomes appear in females, suggests that the mean X-chromosomal admixture fraction is a linear combination of female and male admixture parameters, with coefficients 2/3 and 1/3, respectively. Extending a mechanistic admixture model to accommodate the X chromosome, we demonstrate that this prediction is not generally true in admixture models, although it holds in the limit for an admixture process occurring as a single event. For a model with constant ongoing admixture, we determine the mean X-chromosomal admixture, comparing admixture on female and male X chromosomes to corresponding autosomal values. Surprisingly, in reanalyzing African-American genetic data to estimate sex-specific contributions from African and European sources, we find that the range of contributions compatible with the excess African ancestry on the X chromosome compared to autosomes has a wide spread, permitting scenarios either without male-biased contributions from Europe or without female-biased contributions from Africa. PMID:26209245

  11. Genome-wide analysis in Brazilian Xavante Indians reveals low degree of admixture.

    PubMed

    Kuhn, Patricia C; Horimoto, Andréa R V Russo; Sanches, José Maurício; Vieira Filho, João Paulo B; Franco, Luciana; Fabbro, Amaury Dal; Franco, Laercio Joel; Pereira, Alexandre C; Moises, Regina S

    2012-01-01

    Characterization of population genetic variation and structure can be used as tools for research in human genetics and population isolates are of great interest. The aim of the present study was to characterize the genetic structure of Xavante Indians and compare it with other populations. The Xavante, an indigenous population living in Brazilian Central Plateau, is one of the largest native groups in Brazil. A subset of 53 unrelated subjects was selected from the initial sample of 300 Xavante Indians. Using 86,197 markers, Xavante were compared with all populations of HapMap Phase III and HGDP-CEPH projects and with a Southeast Brazilian population sample to establish its population structure. Principal Components Analysis showed that the Xavante Indians are concentrated in the Amerindian axis near other populations of known Amerindian ancestry such as Karitiana, Pima, Surui and Maya and a low degree of genetic admixture was observed. This is consistent with the historical records of bottlenecks experience and cultural isolation. By calculating pair-wise F(st) statistics we characterized the genetic differentiation between Xavante Indians and representative populations of the HapMap and from HGDP-CEPH project. We found that the genetic differentiation between Xavante Indians and populations of Ameridian, Asian, European, and African ancestry increased progressively. Our results indicate that the Xavante is a population that remained genetically isolated over the past decades and can offer advantages for genome-wide mapping studies of inherited disorders. PMID:22900041

  12. Genome-Wide Analysis in Brazilian Xavante Indians Reveals Low Degree of Admixture

    PubMed Central

    Kuhn, Patricia C.; Horimoto, Andréa R. V. Russo.; Sanches, José Maurício; Vieira Filho, João Paulo B.; Franco, Luciana; Fabbro, Amaury Dal; Franco, Laercio Joel; Pereira, Alexandre C.; Moises, Regina S

    2012-01-01

    Characterization of population genetic variation and structure can be used as tools for research in human genetics and population isolates are of great interest. The aim of the present study was to characterize the genetic structure of Xavante Indians and compare it with other populations. The Xavante, an indigenous population living in Brazilian Central Plateau, is one of the largest native groups in Brazil. A subset of 53 unrelated subjects was selected from the initial sample of 300 Xavante Indians. Using 86,197 markers, Xavante were compared with all populations of HapMap Phase III and HGDP-CEPH projects and with a Southeast Brazilian population sample to establish its population structure. Principal Components Analysis showed that the Xavante Indians are concentrated in the Amerindian axis near other populations of known Amerindian ancestry such as Karitiana, Pima, Surui and Maya and a low degree of genetic admixture was observed. This is consistent with the historical records of bottlenecks experience and cultural isolation. By calculating pair-wise Fst statistics we characterized the genetic differentiation between Xavante Indians and representative populations of the HapMap and from HGDP-CEPH project. We found that the genetic differentiation between Xavante Indians and populations of Ameridian, Asian, European, and African ancestry increased progressively. Our results indicate that the Xavante is a population that remained genetically isolated over the past decades and can offer advantages for genome-wide mapping studies of inherited disorders. PMID:22900041

  13. Genome-wide analysis in Brazilian Xavante Indians reveals low degree of admixture.

    PubMed

    Kuhn, Patricia C; Horimoto, Andréa R V Russo; Sanches, José Maurício; Vieira Filho, João Paulo B; Franco, Luciana; Fabbro, Amaury Dal; Franco, Laercio Joel; Pereira, Alexandre C; Moises, Regina S

    2012-01-01

    Characterization of population genetic variation and structure can be used as tools for research in human genetics and population isolates are of great interest. The aim of the present study was to characterize the genetic structure of Xavante Indians and compare it with other populations. The Xavante, an indigenous population living in Brazilian Central Plateau, is one of the largest native groups in Brazil. A subset of 53 unrelated subjects was selected from the initial sample of 300 Xavante Indians. Using 86,197 markers, Xavante were compared with all populations of HapMap Phase III and HGDP-CEPH projects and with a Southeast Brazilian population sample to establish its population structure. Principal Components Analysis showed that the Xavante Indians are concentrated in the Amerindian axis near other populations of known Amerindian ancestry such as Karitiana, Pima, Surui and Maya and a low degree of genetic admixture was observed. This is consistent with the historical records of bottlenecks experience and cultural isolation. By calculating pair-wise F(st) statistics we characterized the genetic differentiation between Xavante Indians and representative populations of the HapMap and from HGDP-CEPH project. We found that the genetic differentiation between Xavante Indians and populations of Ameridian, Asian, European, and African ancestry increased progressively. Our results indicate that the Xavante is a population that remained genetically isolated over the past decades and can offer advantages for genome-wide mapping studies of inherited disorders.

  14. Robust fuzzy mappings for QSAR studies.

    PubMed

    Kumar, Mohit; Thurow, Kerstin; Stoll, Norbert; Stoll, Regina

    2007-05-01

    This study presents a new robust method of developing quantitative structure-activity relationship (QSAR) models based on fuzzy mappings. An important issue in QSAR modelling is of robustness, i.e., model should not undergo overtraining and model performance should be least sensitive to the modelling errors associated with the chosen descriptors and structure of the model. We establish robust input-output mappings for QSAR studies based on fuzzy "if-then" rules. The identification of these mappings (i.e. the construction of fuzzy rules) is based on a robust criterion that the maximum possible value of energy-gain from modelling errors to the identification errors is minimum. The robustness of proposed approach has been illustrated with simulation studies and QSAR modelling examples. The method of robust fuzzy mappings has been compared with Bayesian regularized neural networks through the QSAR modelling examples of (1) carboquinones' data set, (2) benzodiazepine data set, and (3) predicting the rate constant for hydroxyl radical tropospheric degradation of 460 heterogeneous organic compounds.

  15. Exploring Population Admixture Dynamics via Empirical and Simulated Genome-wide Distribution of Ancestral Chromosomal Segments

    PubMed Central

    Jin, Wenfei; Wang, Sijia; Wang, Haifeng; Jin, Li; Xu, Shuhua

    2012-01-01

    The processes of genetic admixture determine the haplotype structure and linkage disequilibrium patterns of the admixed population, which is important for medical and evolutionary studies. However, most previous studies do not consider the inherent complexity of admixture processes. Here we proposed two approaches to explore population admixture dynamics, and we demonstrated, by analyzing genome-wide empirical and simulated data, that the approach based on the distribution of chromosomal segments of distinct ancestry (CSDAs) was more powerful than that based on the distribution of individual ancestry proportions. Analysis of 1,890 African Americans showed that a continuous gene flow model, in which the African American population continuously received gene flow from European populations over about 14 generations, best explained the admixture dynamics of African Americans among several putative models. Interestingly, we observed that some African Americans had much more European ancestry than the simulated samples, indicating substructures of local ancestries in African Americans that could have been caused by individuals from some particular lineages having repeatedly admixed with people of European ancestry. In contrast, the admixture dynamics of Mexicans could be explained by a gradual admixture model in which the Mexican population continuously received gene flow from both European and Amerindian populations over about 24 generations. Our results also indicated that recent gene flows from Sub-Saharan Africans have contributed to the gene pool of Middle Eastern populations such as Mozabite, Bedouin, and Palestinian. In summary, this study not only provides approaches to explore population admixture dynamics, but also advances our understanding on population history of African Americans, Mexicans, and Middle Eastern populations. PMID:23103229

  16. Admixture as a tool for finding linked genes and detecting that difference from allelic association between loci.

    PubMed

    Chakraborty, R; Weiss, K M

    1988-12-01

    Admixture between genetically different populations may produce gametic association between gene loci as a function of the genetic difference between parental populations and the admixture rate. This association decays as a function of time since admixture and the recombination rate between the loci. Admixture between genetically long-separated human populations has been frequent in the centuries since the age of exploration and colonization, resulting in numerous hybrid descendant populations today, as in the Americas. This represents a natural experiment for genetic epidemiology and anthropology, in which to use polymorphic marker loci (e.g., restriction fragment length polymorphisms) and disequilibrium to infer a genetic basis for traits of interest. In this paper we show that substantial disequilibrium remains today under widely applicable situations, which can be detected without requiring inordinately close linkage between trait and marker loci. Very disparate parental allele frequencies produce large disequilibrium, but the sample size needed to detect such levels of disequilibrium can be large due to the skewed haplotype frequency distribution in the admixed population. Such situations, however, provide power to differentiate between disequilibrium due just to population mixing from that due to physical linkage of loci--i.e., to help map the genetic locus of the trait. A gradient of admixture levels between the same parental populations may be used to test genetic models by relating admixture to disequilibrium levels.

  17. The relationship between European genetic admixture and body composition among Hispanics and Native Americans.

    PubMed

    Klimentidis, Y C; Miller, G F; Shriver, M D

    2009-01-01

    Previous studies have shown a relationship between health-related phenotypes and the degree of African, European, or Native American genetic admixture, indicating that there may be a genetic component to these phenotypes. However, these relationships may be driven to a large extent by the environmental differences that co-vary with admixture differences between and within groups. In this study, we examine the relationship between genetic admixture and two phenotypic measurements that are potentially related to health: body mass index (BMI) and percent body fat (PBF). In addition to admixture proportions, we attempt to assess the influence of some environmental covariates by examining how the phenotypes vary with self-reported household income, education of parents, and physical activity level. Genetic, anthropometric, and environmental data were collected from 170 self-reported Hispanic and Native American university students in Albuquerque, NM. We examine the relationships between genetic admixture, phenotype, and environment in both the full sample, as well as in Hispanics and Native Americans separately. Among Hispanics, we find no significant relationship between genetic admixture and body composition. Among Native Americans, despite a small sample size, we find a statistically significant, negative relationship between European genetic admixture and PBF and BMI, after adjusting for other predictor variables. We compare our findings to previous research, and discuss their implications for understanding health disparities within and between ethnic groups. PMID:19214998

  18. Physicochemical compatibility of nebulizable drug admixtures containing budesonide and colistimethate or hypertonic saline.

    PubMed

    Klemmer, Anja; Krämer, Irene; Kamin, Wolfgang

    2013-01-01

    Knowledge of the physicochemical compatibility of admixtures of nebulizable drugs is an important issue. In this article, the results of our recent study dealing with the compatibility of drug admixtures containing budesonide and colistin methanesulfonate (brand name Colistin CF) or budesonide and 5.85% sodium chloride solution are presented, as well as the up-to-date version of our compatibility table. Admixtures were prepared by mixing 2.0 mL Pulmicort either with 3.0 mL Colistin CF or 4.0 mL 5.85% sodium chloride solution. Test solutions were stored for 24 hours at room temperature under ambient light conditions. Physical compatibility was determined by measuring pH and osmolality. Concentrations of budesonide were measured by a high-performance liquid chromatography assay. The antibiotic activity of colistin methanesulfonate was determined in comparison to standard solutions using a microbiological assay. No loss in drug concentration of budesonide and no change in antibiotic activity of colistin methanesulfonate were detected over a test period of 24 hours. Osmolality remained unchanged in both types of admixtures. In admixtures of budesonide with colistin methanesulfonate, pH increased during the first 4 hours of storage, while in admixtures of budesonide and hypertonic saline pH remained unchanged. No visible changes could be detected. Due to these results admixtures of budesonide and colistin methanesulfonate or 5.85% sodium chloride solution are designated to be compatible, but it is recommended that mixing should take place immediately before administration. Further investigations are needed to determine whether or not drug delivery is affected by mixing the drugs and to ensure simultaneous nebulization is recommendable. PMID:24046941

  19. Effect of high doses of chemical admixtures on the strength development and freeze-thaw durability of portland cement mortar

    NASA Astrophysics Data System (ADS)

    Korhonen, Charles J.

    This thesis examines the low-temperature strength development of portland cement concrete made with high doses of chemical admixtures dissolved in the mixing water and the possible beneficial effect of these admixtures on that concrete's long-term freeze-thaw durability. The literature shows that high doses of chemical admixtures can protect fresh concrete against freezing and that, under certain conditions, these admixtures can enhance the freeze-thaw durability of concrete. The challenge is that there are no acceptance standards in the U.S. that allow chemicals to be used to protect concrete against freezing. Also, the perception is that chemicals might somehow harm the concrete. This perception seems to be based on the fact that deicing salts, when applied to concrete pavement, cause roadways to scale away. This study investigated the effect of high doses of commercially available admixtures on fresh concrete while it gained strength at low temperature and on hardened concrete exposed to repeated cycles of freezing and thawing in a moist environment. The reason for studying off-the-shelf admixtures was that these materials are approved for use in concrete; they were already governed by their own set of standards. Four mortars were examined, each with a different cement and water content, when dosed with five commercial admixtures. This allowed the fresh mortar to gain appreciable strength when it was kept at nearly -10C. The admixtures also enhanced the freeze-thaw durability of the mortar, even when it was not air-entrained. Clearly, as the dosage of admixture increased beyond approximately 22% by weight of water, the mortar appeared to be unaffected by up to 700 cycles of freezing and thawing.

  20. Assessment of coyote-wolf-dog admixture using ancestry-informative diagnostic SNPs.

    PubMed

    Monzón, J; Kays, R; Dykhuizen, D E

    2014-01-01

    The evolutionary importance of hybridization as a source of new adaptive genetic variation is rapidly gaining recognition. Hybridization between coyotes and wolves may have introduced adaptive alleles into the coyote gene pool that facilitated an expansion in their geographic range and dietary niche. Furthermore, hybridization between coyotes and domestic dogs may facilitate adaptation to human-dominated environments. We genotyped 63 ancestry-informative single-nucleotide polymorphisms in 427 canids to examine the prevalence, spatial distribution and the ecology of admixture in eastern coyotes. Using multivariate methods and Bayesian clustering analyses, we estimated the relative contributions of western coyotes, western and eastern wolves, and domestic dogs to the admixed ancestry of Ohio and eastern coyotes. We found that eastern coyotes form an extensive hybrid swarm, with all our samples having varying levels of admixture. Ohio coyotes, previously thought to be free of admixture, are also highly admixed with wolves and dogs. Coyotes in areas of high deer density are genetically more wolf-like, suggesting that natural selection for wolf-like traits may result in local adaptation at a fine geographic scale. Our results, in light of other previously published studies of admixture in Canis, revealed a pattern of sex-biased hybridization, presumably generated by male wolves and dogs mating with female coyotes. This study is the most comprehensive genetic survey of admixture in eastern coyotes and demonstrates that the frequency and scope of hybridization can be quantified with relatively few ancestry-informative markers. PMID:24148003

  1. Assessment of coyote-wolf-dog admixture using ancestry-informative diagnostic SNPs

    PubMed Central

    Monzón, J.; Kays, R.; Dykhuizen, D. E.

    2014-01-01

    The evolutionary importance of hybridization as a source of new adaptive genetic variation is rapidly gaining recognition. Hybridization between coyotes and wolves may have introduced adaptive alleles into the coyote gene pool that facilitated an expansion in their geographic range and dietary niche. Furthermore, hybridization between coyotes and domestic dogs may facilitate adaptation to human-dominated environments. We genotyped 63 ancestry-informative single nucleotide polymorphisms in 427 canids in order to examine the prevalence, spatial distribution, and ecology of admixture in eastern coyotes. Using multivariate methods and Bayesian clustering analyses, we estimated the relative contributions of western coyotes, western and eastern wolves, and domestic dogs to the admixed ancestry of Ohio and eastern coyotes. We found that eastern coyotes form an extensive hybrid swarm, with all our samples having varying levels of admixture. Ohio coyotes, previously thought to be free of admixture, are also highly admixed with wolves and dogs. Coyotes in areas of high deer density are genetically more wolf-like, suggesting that natural selection for wolf-like traits may result in local adaptation at a fine geographic scale. Our results, in light of other previously published studies of admixture in Canis, reveal a pattern of sex-biased hybridization, presumably generated by male wolves and dogs mating with female coyotes. This study is the most comprehensive genetic survey of admixture in eastern coyotes and demonstrates that the frequency and scope of hybridization can be quantified with relatively few ancestry-informative markers. PMID:24148003

  2. Assessment of coyote-wolf-dog admixture using ancestry-informative diagnostic SNPs.

    PubMed

    Monzón, J; Kays, R; Dykhuizen, D E

    2014-01-01

    The evolutionary importance of hybridization as a source of new adaptive genetic variation is rapidly gaining recognition. Hybridization between coyotes and wolves may have introduced adaptive alleles into the coyote gene pool that facilitated an expansion in their geographic range and dietary niche. Furthermore, hybridization between coyotes and domestic dogs may facilitate adaptation to human-dominated environments. We genotyped 63 ancestry-informative single-nucleotide polymorphisms in 427 canids to examine the prevalence, spatial distribution and the ecology of admixture in eastern coyotes. Using multivariate methods and Bayesian clustering analyses, we estimated the relative contributions of western coyotes, western and eastern wolves, and domestic dogs to the admixed ancestry of Ohio and eastern coyotes. We found that eastern coyotes form an extensive hybrid swarm, with all our samples having varying levels of admixture. Ohio coyotes, previously thought to be free of admixture, are also highly admixed with wolves and dogs. Coyotes in areas of high deer density are genetically more wolf-like, suggesting that natural selection for wolf-like traits may result in local adaptation at a fine geographic scale. Our results, in light of other previously published studies of admixture in Canis, revealed a pattern of sex-biased hybridization, presumably generated by male wolves and dogs mating with female coyotes. This study is the most comprehensive genetic survey of admixture in eastern coyotes and demonstrates that the frequency and scope of hybridization can be quantified with relatively few ancestry-informative markers.

  3. A genetic atlas of human admixture history

    PubMed Central

    Hellenthal, Garrett; Busby, George B.J.; Band, Gavin; Wilson, James F.; Capelli, Cristian

    2014-01-01

    Modern genetic data combined with appropriate statistical methods have the potential to contribute substantially to our understanding of human history. We have developed an approach that exploits the genomic structure of admixed populations to date and characterize historical mixture events at fine scales. We used this to produce an atlas of worldwide human admixture history, constructed using genetic data alone and encompassing over 100 events occurring over the past 4,000 years. We identify events whose dates and participants suggest they describe genetic impacts of the Mongol Empire, Arab slave trade, Bantu expansion, first millennium CE migrations in eastern Europe, and European colonialism, as well as unrecorded events, revealing admixture to be an almost universal force shaping human populations. PMID:24531965

  4. A deterministic model of admixture and genetic introgression: the case of Neanderthal and Cro-Magnon.

    PubMed

    Forhan, Gerald; Martiel, Jean-Louis; Blum, Michael G B

    2008-11-01

    There is an ongoing debate in the field of human evolution about the possible contribution of Neanderthals to the modern human gene pool. To study how the Neanderthal private alleles may have spread over the genes of Homo sapiens, we propose a deterministic model based on recursive equations and ordinary differential equations. If the Neanderthal population was large compared to the Homo sapiens population at the beginning of the contact period, we show that genetic introgression should have been fast and complete meaning that most of the Neanderthal private alleles should be found in the modern human gene pool in case of ancient admixture. In order to test/reject ancient admixture from genome-wide data, we incorporate the model of genetic introgression into a statistical hypothesis-testing framework. We show that the power to reject ancient admixture increases as the ratio, at the time of putative admixture, of the population size of Homo sapiens over that of Neanderthal decreases. We find that the power to reject ancient admixture might be particularly low if the population size of Homo sapiens was comparable to the Neanderthal population size.

  5. A deterministic model of admixture and genetic introgression: the case of Neanderthal and Cro-Magnon.

    PubMed

    Forhan, Gerald; Martiel, Jean-Louis; Blum, Michael G B

    2008-11-01

    There is an ongoing debate in the field of human evolution about the possible contribution of Neanderthals to the modern human gene pool. To study how the Neanderthal private alleles may have spread over the genes of Homo sapiens, we propose a deterministic model based on recursive equations and ordinary differential equations. If the Neanderthal population was large compared to the Homo sapiens population at the beginning of the contact period, we show that genetic introgression should have been fast and complete meaning that most of the Neanderthal private alleles should be found in the modern human gene pool in case of ancient admixture. In order to test/reject ancient admixture from genome-wide data, we incorporate the model of genetic introgression into a statistical hypothesis-testing framework. We show that the power to reject ancient admixture increases as the ratio, at the time of putative admixture, of the population size of Homo sapiens over that of Neanderthal decreases. We find that the power to reject ancient admixture might be particularly low if the population size of Homo sapiens was comparable to the Neanderthal population size. PMID:18768141

  6. Mapping Regional Drought Vulnerability: a Case Study

    NASA Astrophysics Data System (ADS)

    Karamouz, M.; Zeynolabedin, A.; Olyaei, M. A.

    2015-12-01

    Drought is among the natural disaster that causes damages and affects many people's life in many part of the world including in Iran. Recently, some factors such as climate variability and the impact of climate change have influenced drought frequency and intensity in many parts of the world. Drought can be divided into four categories of meteorological, hydrological, agricultural and social-economic. In meteorological the important feature is lack of rainfall. In hydrological drought river flows and dam storage are considered. Lack of soil moisture is the key factor in agricultural droughts while in social-economic type of drought the relation between supply and demand and social-economic damages due to water deficiency is studied. While the first three types relates to the lack of some hydrological characteristics, social-economic type of drought is actually the consequence of other types expressed in monetary values. Many indices are used in assessing drought; each has its own advantages and disadvantages and can be used for specific types of drought. Therefore knowing the types of drought can provide a better understanding of shortages and their characteristics. Drought vulnerability is a concept which shows the likelihood of damages from hazard in a particular place by focusing on the system status prior to the disaster. Drought vulnerability has been viewed as a potential for losses in the region due to water deficiency at the time of drought. In this study the application of vulnerability concept in drought management in East Azarbaijan province in Iran is investigated by providing vulnerability maps which demonstrates spatial characteristics of drought vulnerability. In the first step, certain governing parameters in drought analysis such as precipitation, temperature, land use, topography, solar radiation and ground water elevation have been investigated in the region. They are described in details and calculated in suitable time series. Vulnerabilities

  7. Preferred reporting items for studies mapping onto preference-based outcome measures: The MAPS statement.

    PubMed

    Petrou, Stavros; Rivero-Arias, Oliver; Dakin, Helen; Longworth, Louise; Oppe, Mark; Froud, Robert; Gray, Alastair

    2015-08-01

    'Mapping' onto generic preference-based outcome measures is increasingly being used as a means of generating health utilities for use within health economic evaluations. Despite publication of technical guides for the conduct of mapping research, guidance for the reporting of mapping studies is currently lacking. The MAPS (MApping onto Preference-based measures reporting Standards) statement is a new checklist, which aims to promote complete and transparent reporting of mapping studies. The primary audiences for the MAPS statement are researchers reporting mapping studies, the funders of the research, and peer reviewers and editors involved in assessing mapping studies for publication.A de novo list of 29 candidate reporting items and accompanying explanations was created by a working group comprised of six health economists and one Delphi methodologist. Following a two-round, modified Delphi survey with representatives from academia, consultancy, health technology assessment agencies and the biomedical journal editorial community, a final set of 23 items deemed essential for transparent reporting, and accompanying explanations, was developed. The items are contained in a user friendly 23 item checklist. They are presented numerically and categorised within six sections, namely: (i) title and abstract; (ii) introduction; (iii) methods; (iv) results; (v) discussion; and (vi) other. The MAPS statement is best applied in conjunction with the accompanying MAPS explanation and elaboration document.It is anticipated that the MAPS statement will improve the clarity, transparency and completeness of reporting of mapping studies. To facilitate dissemination and uptake, the MAPS statement is being co-published by eight health economics and quality of life journals, and broader endorsement is encouraged. The MAPS working group plans to assess the need for an update of the reporting checklist in five years' time.This statement was published jointly in Applied Health Economics

  8. Seismicity map tools for earthquake studies

    NASA Astrophysics Data System (ADS)

    Boucouvalas, Anthony; Kaskebes, Athanasios; Tselikas, Nikos

    2014-05-01

    We report on the development of new and online set of tools for use within Google Maps, for earthquake research. We demonstrate this server based and online platform (developped with PHP, Javascript, MySQL) with the new tools using a database system with earthquake data. The platform allows us to carry out statistical and deterministic analysis on earthquake data use of Google Maps and plot various seismicity graphs. The tool box has been extended to draw on the map line segments, multiple straight lines horizontally and vertically as well as multiple circles, including geodesic lines. The application is demonstrated using localized seismic data from the geographic region of Greece as well as other global earthquake data. The application also offers regional segmentation (NxN) which allows the studying earthquake clustering, and earthquake cluster shift within the segments in space. The platform offers many filters such for plotting selected magnitude ranges or time periods. The plotting facility allows statistically based plots such as cumulative earthquake magnitude plots and earthquake magnitude histograms, calculation of 'b' etc. What is novel for the platform is the additional deterministic tools. Using the newly developed horizontal and vertical line and circle tools we have studied the spatial distribution trends of many earthquakes and we here show for the first time the link between Fibonacci Numbers and spatiotemporal location of some earthquakes. The new tools are valuable for examining visualizing trends in earthquake research as it allows calculation of statistics as well as deterministic precursors. We plan to show many new results based on our newly developed platform.

  9. Mapping

    ERIC Educational Resources Information Center

    Kinney, Douglas M.; McIntosh, Willard L.

    1978-01-01

    Geologic mapping in the United States increased by about one-quarter in the past year. Examinations of mapping trends were in the following categories: (1) Mapping at scales of 1:100, 000; (2) Metric-scale base maps; (3) International mapping, and (4) Planetary mapping. (MA)

  10. Physicochemical compatibility of nebulizable drug admixtures containing colistimethate and tobramycin.

    PubMed

    Wollstadt, A; Krämer, I; Kamin, W

    2013-09-01

    Inhalation therapy with nebulizable antibiotic drugs is a mainstay in treating Pseudomonas aeruginosa infections in cystic fibrosis patients. The combination of tobramycin and colistin was found to be superior to monotherapy in killing P. aeruginosa in biofilms. The simultaneous inhalation of tobramycin and colistin might be an option to increase the compliance of patients. The objective of this in-vitro study was to determine whether admixtures of inhalation solutions containing colistin methanesulfonate (CMS) and tobramycin are physicochemically compatible. Physical compatibility was determined by measuring pH and osmolality. Chemical compatibility was determined by testing the antibiotic activity of the mixtures by the pharmacopoeial microbiological assay and comparing the results to those of standard solutions. Samples were analyzed immediately after mixing and after 24 h. Values of pH and osmolality remained unchanged and in physiologically acceptable ranges. Neither for colistin methanesulfonate (CMS) nor for tobramycin losses of antibiotic potency were registered at any time. Admixtures of nebulizer solutions containing CMS and tobramycin were shown to be physicochemically compatible. Further investigations are needed to determine whether drug delivery is affected by mixing the nebulizer solutions to ensure that simultaneous inhalation is recommendable. PMID:24147342

  11. Management increases genetic diversity of honey bees via admixture.

    PubMed

    Harpur, Brock A; Minaei, Shermineh; Kent, Clement F; Zayed, Amro

    2012-09-01

    The process of domestication often brings about profound changes in levels of genetic variation in animals and plants. The honey bee, Apis mellifera, has been managed by humans for centuries for both honey and wax production and crop pollination. Human management and selective breeding are believed to have caused reductions in genetic diversity in honey bee populations, thereby contributing to the global declines threatening this ecologically and economically important insect. However, previous studies supporting this claim mostly relied on population genetic comparisons of European and African (or Africanized) honey bee races; such conclusions require reassessment given recent evidence demonstrating that the honey bee originated in Africa and colonized Europe via two independent expansions. We sampled honey bee workers from two managed populations in North America and Europe as well as several old-world progenitor populations in Africa, East and West Europe. Managed bees had highly introgressed genomes representing admixture between East and West European progenitor populations. We found that managed honey bees actually have higher levels of genetic diversity compared with their progenitors in East and West Europe, providing an unusual example whereby human management increases genetic diversity by promoting admixture. The relationship between genetic diversity and honey bee declines is tenuous given that managed bees have more genetic diversity than their progenitors and many viable domesticated animals.

  12. New advanced shotcrete admixtures: Internal curing

    SciTech Connect

    Melbye, T.A.

    1995-12-31

    Tunnels and other underground construction projects have one of the worst curing conditions due to the ventilation that blows continuously dry (cold or hot) air into the tunnel. It can be compared with concrete exposed to a windy area. One would think that tunnels have ideal curing conditions with high humidity (water leakage), no wind and no sun exposure. However, this is not the case. MBT has developed a new system for more efficient and secure curing of wet shotcrete, repair mortars as well as concrete. Internal curing means that a special admixture is added to the concrete/mortar during batching as a normal admixture. This admixture produces an internal barrier in the shotcrete/concrete which secures safer hydration and better chemical resistance than the application of conventional curing agents. The benefits resulting from the new technology are impressive: The time consuming application and, in the case of various shotcrete layers, removal of curing agents are no longer necessary; curing is guaranteed from the very beginning of hydration; and there is no negative influence on bonding between layers. As a consequence of th is optimum curing effect, all other shotcrete characteristics are improved: density, final strengths, freeze/thaw and chemical resistances, watertightness, less cracking and shrinkage. In addition, MEYCO TCC 735 also improves pumpability and workability of shotcrete, even with low-grade aggregates. It particularly improves the pumpability of steel fiber reinforced shotcrete mixes. In combination with the MEYCO TCC system it contrives to even increase the beneficial effects of the slump killing system by further improving fiber orientation, reducing fiber rebound and thus raising toughness values.

  13. Strategy Maps in University Management: A Comparative Study

    ERIC Educational Resources Information Center

    Han, Shuangmiao; Zhong, Zhou

    2015-01-01

    In this study, the conceptual use of the strategy map approach and the strategy map which it produces have been adapted from the business sector and introduced as tools for achieving more effective strategic planning and management in higher education institutions (HEIs). This study discusses the development of strategy maps as transformational…

  14. Genetic affinity and admixture of northern Thai people along their migration route in northern Thailand: evidence from autosomal STR loci.

    PubMed

    Kutanan, Wibhu; Kampuansai, Jatupol; Colonna, Vincenza; Nakbunlung, Supaporn; Lertvicha, Pornpilai; Seielstad, Mark; Bertorelle, Giorgio; Kangwanpong, Daoroong

    2011-02-01

    The Khon Mueang (KM) are the largest group of northern Thai people. Our previous mtDNA studies have suggested an admixture process among the KM with the earlier Mon-Khmer-speaking inhabitants of this region. In this study, we evaluate genetic affinities and admixture among 10 KM populations in northern Thailand lying along the historical Yuan migration route, and 10 neighboring populations belonging to 7 additional ethnic groups: Lawa, Mon (Mon-Khmer-speaking groups), Shan, Yuan, Lue, Khuen and Yong (Tai-speaking groups) by analyzing 15 hypervariable autosomal short tandem repeat loci. The KM exhibited close relationships with neighboring populations, especially the Tai-speaking groups, reflecting an admixed origin of the KM. Admixture proportions were observed in all KM populations, which had a higher contribution from the parental Tai than the Mon-Khmer groups. Different admixture patterns of the KM along the migration route might indicate high heterogeneity among the KM. These patterns were not directly associated with geographical proximity, suggesting other factors, like variation in the timing of admixture with the existing populations may have had an important role. More genetic data from different marker systems solely transmitted through the male or female lineages are needed to complete the description of genetic admixture and population history of the KM.

  15. Copy number variations and genetic admixtures in three Xinjiang ethnic minority groups

    PubMed Central

    Lou, Haiyi; Li, Shilin; Jin, Wenfei; Fu, Ruiqing; Lu, Dongsheng; Pan, Xinwei; Zhou, Huaigu; Ping, Yuan; Jin, Li; Xu, Shuhua

    2015-01-01

    Xinjiang is geographically located in central Asia, and it has played an important historical role in connecting eastern Eurasian (EEA) and western Eurasian (WEA) people. However, human population genomic studies in this region have been largely underrepresented, especially with respect to studies of copy number variations (CNVs). Here we constructed the first CNV map of the three major ethnic minority groups, the Uyghur, Kazakh and Kirgiz, using Affymetrix Genome-Wide Human SNP Array 6.0. We systematically compared the properties of CNVs we identified in the three groups with the data from representatives of EEA and WEA. The analyses indicated a typical genetic admixture pattern in all three groups with ancestries from both EEA and WEA. We also identified several CNV regions showing significant deviation of allele frequency from the expected genome-wide distribution, which might be associated with population-specific phenotypes. Our study provides the first genome-wide perspective on the CNVs of three major Xinjiang ethnic minority groups and has implications for both evolutionary and medical studies. PMID:25026903

  16. A single-tube 27-plex SNP assay for estimating individual ancestry and admixture from three continents.

    PubMed

    Wei, Yi-Liang; Wei, Li; Zhao, Lei; Sun, Qi-Fan; Jiang, Li; Zhang, Tao; Liu, Hai-Bo; Chen, Jian-Gang; Ye, Jian; Hu, Lan; Li, Cai-Xia

    2016-01-01

    A single-tube multiplex assay of a small set of ancestry-informative markers (AIMs) for effectively estimating individual ancestry and admixture is an ideal forensic tool to trace the population origin of an unknown DNA sample. We present a newly developed 27-plex single nucleotide polymorphism (SNP) panel with highly robust and balanced differential power to perfectly assign individuals to African, European, and East Asian ancestries. Evaluating 968 previously described intercontinental AIMs from three HapMap population genotyping datasets (Yoruban in Ibadan, Nigeria (YRI); Utah residents with Northern and Western European ancestry from the Centre de'Etude du Polymorphism Humain (CEPH) collection (CEU); and Han Chinese in Beijing, China (CHB)), the best set of markers was selected on the basis of Hardy-Weinberg equilibrium (p > 0.00001), population-specific allele frequency (two of three δ values >0.5), according to linkage disequilibrium (r (2) < 0.2), and capable of being multiplexed in one tube and detected by capillary electrophoresis. The 27-SNP panel was first validated by assigning the ancestry of the 11 populations in the HapMap project. Then, we tested the 27-plex SNP assay with 1164 individuals from 17 additional populations. The results demonstrated that the SNP panel was successful for ancestry inference of individuals with African, European, and East Asian ancestry. Furthermore, the system performed well when inferring the admixture of Eurasians (EUR/EAS) after analyzing admixed populations from Xinjiang (Central Asian) as follows: Tajik (68:27), Uyghur (49:46), Kirgiz (40:57), and Kazak (36:60). For individual analyses, we interpreted each sample with a three-ancestry component percentage and a population match probability sequence. This multiplex assay is a convenient and cost-effective tool to assist in criminal investigations, as well as to correct for the effects of population stratification for case-control studies.

  17. Case studies: Soil mapping using multiple methods

    NASA Astrophysics Data System (ADS)

    Petersen, Hauke; Wunderlich, Tina; Hagrey, Said A. Al; Rabbel, Wolfgang; Stümpel, Harald

    2010-05-01

    Soil is a non-renewable resource with fundamental functions like filtering (e.g. water), storing (e.g. carbon), transforming (e.g. nutrients) and buffering (e.g. contamination). Degradation of soils is meanwhile not only to scientists a well known fact, also decision makers in politics have accepted this as a serious problem for several environmental aspects. National and international authorities have already worked out preservation and restoration strategies for soil degradation, though it is still work of active research how to put these strategies into real practice. But common to all strategies the description of soil state and dynamics is required as a base step. This includes collecting information from soils with methods ranging from direct soil sampling to remote applications. In an intermediate scale mobile geophysical methods are applied with the advantage of fast working progress but disadvantage of site specific calibration and interpretation issues. In the framework of the iSOIL project we present here some case studies for soil mapping performed using multiple geophysical methods. We will present examples of combined field measurements with EMI-, GPR-, magnetic and gammaspectrometric techniques carried out with the mobile multi-sensor-system of Kiel University (GER). Depending on soil type and actual environmental conditions, different methods show a different quality of information. With application of diverse methods we want to figure out, which methods or combination of methods will give the most reliable information concerning soil state and properties. To investigate the influence of varying material we performed mapping campaigns on field sites with sandy, loamy and loessy soils. Classification of measured or derived attributes show not only the lateral variability but also gives hints to a variation in the vertical distribution of soil material. For all soils of course soil water content can be a critical factor concerning a succesful

  18. Admixture, Population Structure, and F-Statistics.

    PubMed

    Peter, Benjamin M

    2016-04-01

    Many questions about human genetic history can be addressed by examining the patterns of shared genetic variation between sets of populations. A useful methodological framework for this purpose isF-statistics that measure shared genetic drift between sets of two, three, and four populations and can be used to test simple and complex hypotheses about admixture between populations. This article provides context from phylogenetic and population genetic theory. I review how F-statistics can be interpreted as branch lengths or paths and derive new interpretations, using coalescent theory. I further show that the admixture tests can be interpreted as testing general properties of phylogenies, allowing extension of some ideas applications to arbitrary phylogenetic trees. The new results are used to investigate the behavior of the statistics under different models of population structure and show how population substructure complicates inference. The results lead to simplified estimators in many cases, and I recommend to replace F3 with the average number of pairwise differences for estimating population divergence.

  19. Overfill of common piggyback admixture solutions.

    PubMed

    Kleinberg, M L; Chang, P

    1984-10-01

    The average final volume of 23 commonly used piggyback solutions was determined. Polyvinyl chloride (PVC) containers filled with 0.9% sodium chloride injection or 5% dextrose injection in 50 ml and 100 ml sizes were used for 20 of the piggybacks. A total of ten samples of each drug and dose were measured by draining the entire contents into a graduated cylinder and measuring the volume. The mean volumes, standard deviations, and ranges for each drug and dose were calculated. The volume found in each sample exceeded the volume in the original PVC container by at least 20% in the 50 ml size and 11% in the 100 ml size. The greatest percentage volume difference was 62% in the 50 ml size and 28% in the 100 ml size. The FasPak and the two Viaflex Plus Ready-To-Use containers, which did not require the use of the 50 and 100 ml PVC containers, had a percentage volume difference of 2.6%, 2.2%, and 3.4%, respectively. This information demonstrates the fact that the final volumes of some piggyback admixtures are significantly greater than that which may be presumed from the admixture label. PMID:10268316

  20. Self-Mapping in Treating Suicide Ideation: A Case Study

    ERIC Educational Resources Information Center

    Robertson, Lloyd Hawkeye

    2011-01-01

    This case study traces the development and use of a self-mapping exercise in the treatment of a youth who had been at risk for re-attempting suicide. A life skills exercise was modified to identify units of culture called "memes" from which a map of the youth's self was prepared. A successful treatment plan followed the mapping exercise. The…

  1. Learning from Concept Mapping and Hypertext: An Eye Tracking Study

    ERIC Educational Resources Information Center

    Amadieu, Franck; Salmerón, Ladislao; Cegarra, Julien; Paubel, Pierre-Vincent; Lemarié, Julie; Chevalier, Aline

    2015-01-01

    This study examined the effects of prior domain knowledge and learning sequences on learning with concept mapping and hypertext. Participants either made a concept map in a first step and then read the hypertext's contents combined with concept mapping (high activating condition), or they read the hypertext's contents first and then made a concept…

  2. HLA polymorphism in a Guarani-Indian population from Paraguay and its usefulness for the Hispano-Indian admixture study in Paraguay.

    PubMed

    Benitez, O; Busson, M; Charron, D; Loiseau, P

    2011-02-01

    In this study we investigated the human leucocyte antigen-A (HLA-A), -B and DRB1 polymorphism of Native American population of Paraguay, the Guarani Indians. We found that the HLA variability consisted of 5 HLA-A, 7 HLA-B and 6 HLA-DRB1 groups of alleles and of several specific alleles (B*1504, B*3505, B*3912, B*4004, B*5104, DRB1*0411, DRB1*1413) common in other Native American populations. The comparison of the HLA polymorphism of the Guaranis from Paraguay with the «Mestizos» of Paraguay and the Spaniards showed that the «Mestizos» of Paraguay are genetically very distant from the Guarani Indians of Paraguay but much more close to the Spaniards. This can be explained, at least in part, by the history of the country. Our results are of importance in transplantation, in particular in the search for an unrelated donor for a Paraguayan patient requiring hematopoietic stem cell transplantation.

  3. Recycling of tailings from Korea Molybdenum Corporation as admixture for high-fluidity concrete.

    PubMed

    Jung, Moon Young; Choi, Yun Wang; Jeong, Jae Gwon

    2011-01-01

    The main objective of this study is to develop an eco-friendly and a large recycling technique of flotation Tailings from korea (TK) from metal mines as construction materials such as admixtures for high-fluidity concrete (HFC). TK used in this study was obtained from the Korea Molybdenum Corporation in operation. TK was used as the alternative material to adjust flowability and viscosity of HFC in the form of powder agent which enables adjustment of concrete compressive strength. In this study, we have performed concrete rheological tests and concrete flowability tests to obtain the quality characteristics of TK for using as the admixture in producing HFC. The results indicated that the adequate mix ratio of cement to TK should be 8:2 (vol%). It is more effective to use the TK as admixture to control flowability, viscosity and strength of HFC than the normal concrete. It was found that TK could be recycled construction materials in bulk such as admixture for HFC, in terms of the economic and eco-friendly aspects. PMID:21113645

  4. Deciphering the fine-structure of tribal admixture in the Bedouin population using genomic data.

    PubMed

    Markus, B; Alshafee, I; Birk, O S

    2014-02-01

    The Bedouin Israeli population is highly inbred and structured with a very high prevalence of recessive diseases. Many studies in the past two decades focused on linkage analysis in large, multiple consanguineous pedigrees of this population. The advent of high-throughput technologies motivated researchers to search for rare variants shared between smaller pedigrees, integrating data from clinically similar yet seemingly non-related sporadic cases. However, such analyses are challenging because, without pedigree data, there is no prior knowledge regarding possible relatedness between the sporadic cases. Here, we describe models and techniques for the study of relationships between pedigrees and use them for the inference of tribal co-ancestry, delineating the complex social interactions between different tribes in the Negev Bedouins of southern Israel. Through our analysis, we differentiate between tribes that share many yet small genomic segments because of co-ancestry versus tribes that share larger segments because of recent admixture. The emergent pattern is well correlated with the prevalence of rare mutations in the different tribes. Tribes that do not intermarry, mostly because of social restrictions, hold private mutations, whereas tribes that do intermarry demonstrate a genetic flow of mutations between them. Thus, social structure within an inbred community can be delineated through genomic data, with implications to genetic counseling and genetic mapping.

  5. Deciphering the fine-structure of tribal admixture in the Bedouin population using genomic data

    PubMed Central

    Markus, B; Alshafee, I; Birk, O S

    2014-01-01

    The Bedouin Israeli population is highly inbred and structured with a very high prevalence of recessive diseases. Many studies in the past two decades focused on linkage analysis in large, multiple consanguineous pedigrees of this population. The advent of high-throughput technologies motivated researchers to search for rare variants shared between smaller pedigrees, integrating data from clinically similar yet seemingly non-related sporadic cases. However, such analyses are challenging because, without pedigree data, there is no prior knowledge regarding possible relatedness between the sporadic cases. Here, we describe models and techniques for the study of relationships between pedigrees and use them for the inference of tribal co-ancestry, delineating the complex social interactions between different tribes in the Negev Bedouins of southern Israel. Through our analysis, we differentiate between tribes that share many yet small genomic segments because of co-ancestry versus tribes that share larger segments because of recent admixture. The emergent pattern is well correlated with the prevalence of rare mutations in the different tribes. Tribes that do not intermarry, mostly because of social restrictions, hold private mutations, whereas tribes that do intermarry demonstrate a genetic flow of mutations between them. Thus, social structure within an inbred community can be delineated through genomic data, with implications to genetic counseling and genetic mapping. PMID:24084643

  6. Semantic Mapping: A Study Skills Strategy.

    ERIC Educational Resources Information Center

    Schewel, Rosel

    1989-01-01

    A discussion of semantic mapping, a strategy to enhance comprehension and memory based on schema theory, describes the origins of the technique, research in the past decade, and procedures used to teach it. (MSE)

  7. Testing Central and Inner Asian admixture among contemporary Hungarians.

    PubMed

    Bíró, András; Fehér, Tibor; Bárány, Gusztáv; Pamjav, Horolma

    2015-03-01

    Historically, the Carpathian Basin was the final destination for many nomadic peoples who migrated westward from Inner and Central Asia towards Europe. Proto-Hungarians (Steppe Magyars) were among those who came from the East, the Eurasian Steppe in the early middle ages. In order to detect the paternal genetic contribution from nomadic Steppe tribes, we tested 966 samples from Central Asian (Uzbekistan, Kazakhstan), Inner Asian (Mongolians and Buryats in Mongolia) and Hungarian-speaking European (Hungarian, Sekler and Csango) populations. We constructed median-joining networks of certain haplogroups in Hungarian-speaking European, and Altaic-speaking Central and Inner Asian populations. We estimated that the possible paternal genetic contribution from the above described populations among contemporary Hungarian speaking populations ranged between 5% and 7.4%. It is lowest among Hungarians from Hungary (5.1%), while higher among Hungarian-speaking groups in Romania, notably Sekler (7.4%) and Csango (6.3%). However, these results represent only an upper limit. Actual Central/Inner Asian admixture might be somewhat lower as some of the related lineages may have come from a common third source. The main haplogroups responsible for the Central/Inner Asian admixture among Hungarians are J2*-M172 (xM47, M67, M12), J2-L24, R1a-Z93; Q-M242 and E-M78. Earlier studies showed very limited Uralic genetic influence among Hungarians, and based on the present study, Altaic/Turkic genetic contribution is also not significant, although significantly higher than the Uralic one. The conclusion of this study is that present-day Hungarian speakers are genetically very similar to neighbouring populations, isolated Hungarian speaking groups having relatively higher presence of Central and Inner Asian genetic elements. At the same time, the reliable historical and genetic conclusions require an extension of the study to a significantly larger database with deep haplogroup resolution

  8. Testing Central and Inner Asian admixture among contemporary Hungarians.

    PubMed

    Bíró, András; Fehér, Tibor; Bárány, Gusztáv; Pamjav, Horolma

    2015-03-01

    Historically, the Carpathian Basin was the final destination for many nomadic peoples who migrated westward from Inner and Central Asia towards Europe. Proto-Hungarians (Steppe Magyars) were among those who came from the East, the Eurasian Steppe in the early middle ages. In order to detect the paternal genetic contribution from nomadic Steppe tribes, we tested 966 samples from Central Asian (Uzbekistan, Kazakhstan), Inner Asian (Mongolians and Buryats in Mongolia) and Hungarian-speaking European (Hungarian, Sekler and Csango) populations. We constructed median-joining networks of certain haplogroups in Hungarian-speaking European, and Altaic-speaking Central and Inner Asian populations. We estimated that the possible paternal genetic contribution from the above described populations among contemporary Hungarian speaking populations ranged between 5% and 7.4%. It is lowest among Hungarians from Hungary (5.1%), while higher among Hungarian-speaking groups in Romania, notably Sekler (7.4%) and Csango (6.3%). However, these results represent only an upper limit. Actual Central/Inner Asian admixture might be somewhat lower as some of the related lineages may have come from a common third source. The main haplogroups responsible for the Central/Inner Asian admixture among Hungarians are J2*-M172 (xM47, M67, M12), J2-L24, R1a-Z93; Q-M242 and E-M78. Earlier studies showed very limited Uralic genetic influence among Hungarians, and based on the present study, Altaic/Turkic genetic contribution is also not significant, although significantly higher than the Uralic one. The conclusion of this study is that present-day Hungarian speakers are genetically very similar to neighbouring populations, isolated Hungarian speaking groups having relatively higher presence of Central and Inner Asian genetic elements. At the same time, the reliable historical and genetic conclusions require an extension of the study to a significantly larger database with deep haplogroup resolution

  9. Efficient moment-based inference of admixture parameters and sources of gene flow.

    PubMed

    Lipson, Mark; Loh, Po-Ru; Levin, Alex; Reich, David; Patterson, Nick; Berger, Bonnie

    2013-08-01

    The recent explosion in available genetic data has led to significant advances in understanding the demographic histories of and relationships among human populations. It is still a challenge, however, to infer reliable parameter values for complicated models involving many populations. Here, we present MixMapper, an efficient, interactive method for constructing phylogenetic trees including admixture events using single nucleotide polymorphism (SNP) genotype data. MixMapper implements a novel two-phase approach to admixture inference using moment statistics, first building an unadmixed scaffold tree and then adding admixed populations by solving systems of equations that express allele frequency divergences in terms of mixture parameters. Importantly, all features of the model, including topology, sources of gene flow, branch lengths, and mixture proportions, are optimized automatically from the data and include estimates of statistical uncertainty. MixMapper also uses a new method to express branch lengths in easily interpretable drift units. We apply MixMapper to recently published data for Human Genome Diversity Cell Line Panel individuals genotyped on a SNP array designed especially for use in population genetics studies, obtaining confident results for 30 populations, 20 of them admixed. Notably, we confirm a signal of ancient admixture in European populations-including previously undetected admixture in Sardinians and Basques-involving a proportion of 20-40% ancient northern Eurasian ancestry. PMID:23709261

  10. EFFECT OF STORAGE TEMPERATURE ON THE STABILITY OF TOTAL PARENTERAL NUTRITION ADMIXTURES PREPARED FOR INFANTS.

    PubMed

    Turmezei, Judit; Jávorszky, Eszter; Szabó, Eszter; Dredán, Judit; Kállai-Szabó, Barnabás; Zelkó, Romána

    2015-01-01

    Physical, chemical and microbiological stability of total parenteral nutrient (TPN) admixtures was studied as a function of storage time and temperature. Particle size analysis and zeta potential measurements were carried out to evaluate the possible changes in the kinetic stability of the emulsions as a function of storage time and temperature. The concentration changes of the applied additives, those of the ascorbic acid and L-alanyl-L-glutamine, were also determined under different storage conditions. Our results indicate that there were no significant differences in the particle size and zeta potential values of admixtures stored at the three examined temperatures. The best results were obtained in the case of admixtures stored at 30°C temperature. Rapid decomposition of vitamin C was found while the glutamine showed adequate stability as a function of storage time and temperature. According to the results of the physicochemical examinations 10-day storage period of this type of TPN admixtures can be accepted at room temperature. Their storage does not require refrigeration (2-8°C) thus they can be administered without special preheating ensuring better physiological tolerance. Ascorbic acid can be added to the system preceding the administration to the patient because of its rapid decomposition.

  11. Efficient moment-based inference of admixture parameters and sources of gene flow.

    PubMed

    Lipson, Mark; Loh, Po-Ru; Levin, Alex; Reich, David; Patterson, Nick; Berger, Bonnie

    2013-08-01

    The recent explosion in available genetic data has led to significant advances in understanding the demographic histories of and relationships among human populations. It is still a challenge, however, to infer reliable parameter values for complicated models involving many populations. Here, we present MixMapper, an efficient, interactive method for constructing phylogenetic trees including admixture events using single nucleotide polymorphism (SNP) genotype data. MixMapper implements a novel two-phase approach to admixture inference using moment statistics, first building an unadmixed scaffold tree and then adding admixed populations by solving systems of equations that express allele frequency divergences in terms of mixture parameters. Importantly, all features of the model, including topology, sources of gene flow, branch lengths, and mixture proportions, are optimized automatically from the data and include estimates of statistical uncertainty. MixMapper also uses a new method to express branch lengths in easily interpretable drift units. We apply MixMapper to recently published data for Human Genome Diversity Cell Line Panel individuals genotyped on a SNP array designed especially for use in population genetics studies, obtaining confident results for 30 populations, 20 of them admixed. Notably, we confirm a signal of ancient admixture in European populations-including previously undetected admixture in Sardinians and Basques-involving a proportion of 20-40% ancient northern Eurasian ancestry.

  12. The scale and nature of Viking settlement in Ireland from Y-chromosome admixture analysis.

    PubMed

    McEvoy, Brian; Brady, Claire; Moore, Laoise T; Bradley, Daniel G

    2006-12-01

    The Vikings (or Norse) played a prominent role in Irish history but, despite this, their genetic legacy in Ireland, which may provide insights into the nature and scale of their immigration, is largely unexplored. Irish surnames, some of which are thought to have Norse roots, are paternally inherited in a similar manner to Y-chromosomes. The correspondence of Scandinavian patrilineal ancestry in a cohort of Irish men bearing surnames of putative Norse origin was examined using both slow mutating unique event polymorphisms and relatively rapidly changing short tandem repeat Y-chromosome markers. Irish and Scandinavian admixture proportions were explored for both systems using six different admixture estimators, allowing a parallel investigation of the impact of method and marker type in Y-chromosome admixture analysis. Admixture proportion estimates in the putative Norse surname group were highly consistent and detected little trace of Scandinavian ancestry. In addition, there is scant evidence of Scandinavian Y-chromosome introgression in a general Irish population sample. Although conclusions are largely dependent on the accurate identification of Norse surnames, the findings are consistent with a relatively small number of Norse settlers (and descendents) migrating to Ireland during the Viking period (ca. AD 800-1200) suggesting that Norse colonial settlements might have been largely composed of indigenous Irish. This observation adds to previous genetic studies that point to a flexible Viking settlement approach across North Atlantic Europe.

  13. Genetic Adaptation and Neandertal Admixture Shaped the Immune System of Human Populations.

    PubMed

    Quach, Hélène; Rotival, Maxime; Pothlichet, Julien; Loh, Yong-Hwee Eddie; Dannemann, Michael; Zidane, Nora; Laval, Guillaume; Patin, Etienne; Harmant, Christine; Lopez, Marie; Deschamps, Matthieu; Naffakh, Nadia; Duffy, Darragh; Coen, Anja; Leroux-Roels, Geert; Clément, Frederic; Boland, Anne; Deleuze, Jean-François; Kelso, Janet; Albert, Matthew L; Quintana-Murci, Lluis

    2016-10-20

    Humans differ in the outcome that follows exposure to life-threatening pathogens, yet the extent of population differences in immune responses and their genetic and evolutionary determinants remain undefined. Here, we characterized, using RNA sequencing, the transcriptional response of primary monocytes from Africans and Europeans to bacterial and viral stimuli-ligands activating Toll-like receptor pathways (TLR1/2, TLR4, and TLR7/8) and influenza virus-and mapped expression quantitative trait loci (eQTLs). We identify numerous cis-eQTLs that contribute to the marked differences in immune responses detected within and between populations and a strong trans-eQTL hotspot at TLR1 that decreases expression of pro-inflammatory genes in Europeans only. We find that immune-responsive regulatory variants are enriched in population-specific signals of natural selection and show that admixture with Neandertals introduced regulatory variants into European genomes, affecting preferentially responses to viral challenges. Together, our study uncovers evolutionarily important determinants of differences in host immune responsiveness between human populations.

  14. Ancestry, admixture and fitness in Colombian genomes

    PubMed Central

    Rishishwar, Lavanya; Conley, Andrew B.; Wigington, Charles H.; Wang, Lu; Valderrama-Aguirre, Augusto; King Jordan, I.

    2015-01-01

    The human dimension of the Columbian Exchange entailed substantial genetic admixture between ancestral source populations from Africa, the Americas and Europe, which had evolved separately for many thousands of years. We sought to address the implications of the creation of admixed American genomes, containing novel allelic combinations, for human health and fitness via analysis of an admixed Colombian population from Medellin. Colombian genomes from Medellin show a wide range of three-way admixture contributions from ancestral source populations. The primary ancestry component for the population is European (average = 74.6%, range = 45.0%–96.7%), followed by Native American (average = 18.1%, range = 2.1%–33.3%) and African (average = 7.3%, range = 0.2%–38.6%). Locus-specific patterns of ancestry were evaluated to search for genomic regions that are enriched across the population for particular ancestry contributions. Adaptive and innate immune system related genes and pathways are particularly over-represented among ancestry-enriched segments, including genes (HLA-B and MAPK10) that are involved in defense against endemic pathogens such as malaria. Genes that encode functions related to skin pigmentation (SCL4A5) and cutaneous glands (EDAR) are also found in regions with anomalous ancestry patterns. These results suggest the possibility that ancestry-specific loci were differentially retained in the modern admixed Colombian population based on their utility in the New World environment. PMID:26197429

  15. Interethnic variability and admixture in Latin America--social implications.

    PubMed

    Salzano, Francisco M

    2004-09-01

    Past and present attempts to classify and characterize the human biological variability are examined, considering the race concept, ethnic identification problems, assortative mating based on ethnicity, and historical genetics. In relation to the latter, a review is made of the methods presently available for admixture quantification and of previous studies aimed at the characterization of the parental continental contributions to Latin American populations, with emphasis in global evaluations of the Costa Rican and Brazilian gene pools. Finally, the question of racism and discrimination is considered, including the relation between human rights and affirmative actions. The right to equal opportunity should be strictly respected. Biological inequality has nothing to do with the ethical principle that someone's position in a given society should be an accurate reflection of her/his individual ability.

  16. Interethnic variability and admixture in Latin America--social implications.

    PubMed

    Salzano, Francisco M

    2004-09-01

    Past and present attempts to classify and characterize the human biological variability are examined, considering the race concept, ethnic identification problems, assortative mating based on ethnicity, and historical genetics. In relation to the latter, a review is made of the methods presently available for admixture quantification and of previous studies aimed at the characterization of the parental continental contributions to Latin American populations, with emphasis in global evaluations of the Costa Rican and Brazilian gene pools. Finally, the question of racism and discrimination is considered, including the relation between human rights and affirmative actions. The right to equal opportunity should be strictly respected. Biological inequality has nothing to do with the ethical principle that someone's position in a given society should be an accurate reflection of her/his individual ability. PMID:17361535

  17. Used cooking oil as a green chemical admixture in concrete

    NASA Astrophysics Data System (ADS)

    Salmia, B.; Che Muda, Zakaria; Ashraful Alam, Md; Sidek, L. M.; Hidayah, B.

    2013-06-01

    According to National Statistics Approximately 1.35 billion gallons of used oil are generated yearly. With the increasing of the concrete usage, a more cost effective and economic new type of admixtures may give positive impacts on the Malaysian construction building as well as worldwide concrete usage. To objective of this is study is to investigate the effect of used cooking oil in terms of slump test, compressive strength test and rebound hammer. By adding the used cooking oil to the concrete, it increases the slump value from 4% to 72%. And the compressive strength have an increment from 1% to 16.8%. The used cooking oil obtains the optimum contribution to the concrete mix proportion of containing used cooking oil of 1.50% from the cement content. The result of used cooking oil from experimental program of slump value and compressive strength proved that used cooking oil have positive effects on replacement of commercially available superplasticizer.

  18. Further characterization of theobroma oil-beeswax admixtures as lipid matrices for improved drug delivery systems.

    PubMed

    Attama, A A; Schicke, B C; Müller-Goymann, C C

    2006-11-01

    There is an increasing interest in lipid based drug delivery systems due to factors such as better characterization of lipidic excipients and formulation versatility and the choice of different drug delivery systems. It is important to know the thermal characteristics, crystal habit, texture, and appearance of a new lipid matrix when determining its suitability for use in certain pharmaceutical application. It is line with this that this research was embarked upon to characterize mixtures of beeswax and theobroma oil with a view to applying their admixtures in drug delivery systems such as solid lipid nanoparticles and nanostructured lipid carriers. Admixtures of theobroma oil and beeswax were prepared to contain 25% w/w, 50% w/w, and 75% w/w of theobroma oil. The admixtures were analyzed by differential scanning calorimetry (DSC), small angle X-ray diffraction (SAXD), wide angle X-ray diffraction (WAXD), and isothermal heat conduction microcalorimetry (IMC). The melting behavior and microstructures of the lipid admixtures were monitored by polarized light microscopy (PLM). Transmission electron microscopy (TEM) was used to study the internal structures of the lipid bases. DSC traces indicated that the higher melting peaks were roughly constant for the different admixtures, but lower melting peaks significantly increased (p < 0.05). The admixture containing 25% w/w of theobroma oil possessed highest crystallinity index of 95.6%. WAXD studies indicated different reflections for the different lipid matrices. However, new interferences were detected for all the lipid matrix admixtures between 2theta = 22.0 degrees and 2theta = 25.0 degrees. The lipid matrices containing 50% w/w and 25% w/w of theobroma oil showed absence of the weak reflection characteristic of pure theobroma oil, while there was disappearance of the strong intensity reflection of beeswax in all the lipid matrix admixtures at all stages of the study. PLM micrographs revealed differences with regard to

  19. African ancestry and its correlation to type 2 diabetes in African Americans: a genetic admixture analysis in three U.S. population cohorts.

    PubMed

    Cheng, Ching-Yu; Reich, David; Haiman, Christopher A; Tandon, Arti; Patterson, Nick; Selvin, Elizabeth; Elizabeth, Selvin; Akylbekova, Ermeg L; Brancati, Frederick L; Coresh, Josef; Boerwinkle, Eric; Altshuler, David; Taylor, Herman A; Henderson, Brian E; Wilson, James G; Kao, W H Linda

    2012-01-01

    The risk of type 2 diabetes is approximately 2-fold higher in African Americans than in European Americans even after adjusting for known environmental risk factors, including socioeconomic status (SES), suggesting that genetic factors may explain some of this population difference in disease risk. However, relatively few genetic studies have examined this hypothesis in a large sample of African Americans with and without diabetes. Therefore, we performed an admixture analysis using 2,189 ancestry-informative markers in 7,021 African Americans (2,373 with type 2 diabetes and 4,648 without) from the Atherosclerosis Risk in Communities Study, the Jackson Heart Study, and the Multiethnic Cohort to 1) determine the association of type 2 diabetes and its related quantitative traits with African ancestry controlling for measures of SES and 2) identify genetic loci for type 2 diabetes through a genome-wide admixture mapping scan. The median percentage of African ancestry of diabetic participants was slightly greater than that of non-diabetic participants (study-adjusted difference = 1.6%, P<0.001). The odds ratio for diabetes comparing participants in the highest vs. lowest tertile of African ancestry was 1.33 (95% confidence interval 1.13-1.55), after adjustment for age, sex, study, body mass index (BMI), and SES. Admixture scans identified two potential loci for diabetes at 12p13.31 (LOD = 4.0) and 13q14.3 (Z score = 4.5, P = 6.6 × 10(-6)). In conclusion, genetic ancestry has a significant association with type 2 diabetes above and beyond its association with non-genetic risk factors for type 2 diabetes in African Americans, but no single gene with a major effect is sufficient to explain a large portion of the observed population difference in risk of diabetes. There undoubtedly is a complex interplay among specific genetic loci and non-genetic factors, which may both be associated with overall admixture, leading to the observed ethnic differences in diabetes risk.

  20. The Role of Recent Admixture in Forming the Contemporary West Eurasian Genomic Landscape.

    PubMed

    Busby, George B J; Hellenthal, Garrett; Montinaro, Francesco; Tofanelli, Sergio; Bulayeva, Kazima; Rudan, Igor; Zemunik, Tatijana; Hayward, Caroline; Toncheva, Draga; Karachanak-Yankova, Sena; Nesheva, Desislava; Anagnostou, Paolo; Cali, Francesco; Brisighelli, Francesca; Romano, Valentino; Lefranc, Gerard; Buresi, Catherine; Ben Chibani, Jemni; Haj-Khelil, Amel; Denden, Sabri; Ploski, Rafal; Krajewski, Pawel; Hervig, Tor; Moen, Torolf; Herrera, Rene J; Wilson, James F; Myers, Simon; Capelli, Cristian

    2015-10-01

    Over the past few years, studies of DNA isolated from human fossils and archaeological remains have generated considerable novel insight into the history of our species. Several landmark papers have described the genomes of ancient humans across West Eurasia, demonstrating the presence of large-scale, dynamic population movements over the last 10,000 years, such that ancestry across present-day populations is likely to be a mixture of several ancient groups [1-7]. While these efforts are bringing the details of West Eurasian prehistory into increasing focus, studies aimed at understanding the processes behind the generation of the current West Eurasian genetic landscape have been limited by the number of populations sampled or have been either too regional or global in their outlook [8-11]. Here, using recently described haplotype-based techniques [11], we present the results of a systematic survey of recent admixture history across Western Eurasia and show that admixture is a universal property across almost all groups. Admixture in all regions except North Western Europe involved the influx of genetic material from outside of West Eurasia, which we date to specific time periods. Within Northern, Western, and Central Europe, admixture tended to occur between local groups during the period 300 to 1200 CE. Comparisons of the genetic profiles of West Eurasians before and after admixture show that population movements within the last 1,500 years are likely to have maintained differentiation among groups. Our analysis provides a timeline of the gene flow events that have generated the contemporary genetic landscape of West Eurasia.

  1. The Role of Recent Admixture in Forming the Contemporary West Eurasian Genomic Landscape

    PubMed Central

    Busby, George B.J.; Hellenthal, Garrett; Montinaro, Francesco; Tofanelli, Sergio; Bulayeva, Kazima; Rudan, Igor; Zemunik, Tatijana; Hayward, Caroline; Toncheva, Draga; Karachanak-Yankova, Sena; Nesheva, Desislava; Anagnostou, Paolo; Cali, Francesco; Brisighelli, Francesca; Romano, Valentino; Lefranc, Gerard; Buresi, Catherine; Ben Chibani, Jemni; Haj-Khelil, Amel; Denden, Sabri; Ploski, Rafal; Krajewski, Pawel; Hervig, Tor; Moen, Torolf; Herrera, Rene J.; Wilson, James F.; Myers, Simon; Capelli, Cristian

    2015-01-01

    Summary Over the past few years, studies of DNA isolated from human fossils and archaeological remains have generated considerable novel insight into the history of our species. Several landmark papers have described the genomes of ancient humans across West Eurasia, demonstrating the presence of large-scale, dynamic population movements over the last 10,000 years, such that ancestry across present-day populations is likely to be a mixture of several ancient groups [1, 2, 3, 4, 5, 6, 7]. While these efforts are bringing the details of West Eurasian prehistory into increasing focus, studies aimed at understanding the processes behind the generation of the current West Eurasian genetic landscape have been limited by the number of populations sampled or have been either too regional or global in their outlook [8, 9, 10, 11]. Here, using recently described haplotype-based techniques [11], we present the results of a systematic survey of recent admixture history across Western Eurasia and show that admixture is a universal property across almost all groups. Admixture in all regions except North Western Europe involved the influx of genetic material from outside of West Eurasia, which we date to specific time periods. Within Northern, Western, and Central Europe, admixture tended to occur between local groups during the period 300 to 1200 CE. Comparisons of the genetic profiles of West Eurasians before and after admixture show that population movements within the last 1,500 years are likely to have maintained differentiation among groups. Our analysis provides a timeline of the gene flow events that have generated the contemporary genetic landscape of West Eurasia. PMID:26387712

  2. Identifying environmental sounds: a multimodal mapping study

    PubMed Central

    Tomasino, Barbara; Canderan, Cinzia; Marin, Dario; Maieron, Marta; Gremese, Michele; D'Agostini, Serena; Fabbro, Franco; Skrap, Miran

    2015-01-01

    Our environment is full of auditory events such as warnings or hazards, and their correct recognition is essential. We explored environmental sounds (ES) recognition in a series of studies. In study 1 we performed an Activation Likelihood Estimation (ALE) meta-analysis of neuroimaging experiments addressing ES processing to delineate the network of areas consistently involved in ES processing. Areas consistently activated in the ALE meta-analysis were the STG/MTG, insula/rolandic operculum, parahippocampal gyrus and inferior frontal gyrus bilaterally. Some of these areas truly reflect ES processing, whereas others are related to design choices, e.g., type of task, type of control condition, type of stimulus. In study 2 we report on 7 neurosurgical patients with lesions involving the areas which were found to be activated by the ALE meta-analysis. We tested their ES recognition abilities and found an impairment of ES recognition. These results indicate that deficits of ES recognition do not exclusively reflect lesions to the right or to the left hemisphere but both hemispheres are involved. The most frequently lesioned area is the hippocampus/insula/STG. We made sure that any impairment in ES recognition would not be related to language problems, but reflect impaired ES processing. In study 3 we carried out an fMRI study on patients (vs. healthy controls) to investigate how the areas involved in ES might be functionally deregulated because of a lesion. The fMRI evidenced that controls activated the right IFG, the STG bilaterally and the left insula. We applied a multimodal mapping approach and found that, although the meta-analysis showed that part of the left and right STG/MTG activation during ES processing might in part be related to design choices, this area was one of the most frequently lesioned areas in our patients, thus highlighting its causal role in ES processing. We found that the ROIs we drew on the two clusters of activation found in the left and in

  3. Multiway admixture deconvolution using phased or unphased ancestral panels.

    PubMed

    Churchhouse, Claire; Marchini, Jonathan

    2013-01-01

    We describe a novel method for inferring the local ancestry of admixed individuals from dense genome-wide single nucleotide polymorphism data. The method, called MULTIMIX, allows multiple source populations, models population linkage disequilibrium between markers and is applicable to datasets in which the sample and source populations are either phased or unphased. The model is based upon a hidden Markov model of switches in ancestry between consecutive windows of loci. We model the observed haplotypes within each window using a multivariate normal distribution with parameters estimated from the ancestral panels. We present three methods to fit the model-Markov chain Monte Carlo sampling, the Expectation Maximization algorithm, and a Classification Expectation Maximization algorithm. The performance of our method on individuals simulated to be admixed with European and West African ancestry shows it to be comparable to HAPMIX, the ancestry calls of the two methods agreeing at 99.26% of loci across the three parameter groups. In addition to it being faster than HAPMIX, it is also found to perform well over a range of extent of admixture in a simulation involving three ancestral populations. In an analysis of real data, we estimate the contribution of European, West African and Native American ancestry to each locus in the Mexican samples of HapMap, giving estimates of ancestral proportions that are consistent with those previously reported. PMID:23136122

  4. Mapping.

    ERIC Educational Resources Information Center

    Kinney, Douglas M.; McIntosh, Willard L.

    1979-01-01

    The area of geological mapping in the United States in 1978 increased greatly over that reported in 1977; state geological maps were added for California, Idaho, Nevada, and Alaska last year. (Author/BB)

  5. A new world natural vegetation map for global change studies.

    PubMed

    Lapola, David M; Oyama, Marcos D; Nobre, Carlos A; Sampaio, Gilvan

    2008-06-01

    We developed a new world natural vegetation map at 1 degree horizontal resolution for use in global climate models. We used the Dorman and Sellers vegetation classification with inclusion of a new biome: tropical seasonal forest, which refers to both deciduous and semi-deciduous tropical forests. SSiB biogeophysical parameters values for this new biome type are presented. Under this new vegetation classification we obtained a consensus map between two global natural vegetation maps widely used in climate studies. We found that these two maps assign different biomes in ca. 1/3 of the continental grid points. To obtain a new global natural vegetation map, non-consensus areas were filled according to regional consensus based on more than 100 regional maps available on the internet. To minimize the risk of using poor quality information, the regional maps were obtained from reliable internet sources, and the filling procedure was based on the consensus among several regional maps obtained from independent sources. The new map was designed to reproduce accurately both the large-scale distribution of the main vegetation types (as it builds on two reliable global natural vegetation maps) and the regional details (as it is based on the consensus of regional maps).

  6. Mapping Mars: A Perfect High School Student Independent Study Project

    NASA Astrophysics Data System (ADS)

    Albin, E. F. M.

    2004-11-01

    In this investigation, the author reports on the efforts of nine highly motivated high school juniors / seniors, who were involved in a semester long independent study planetary mapping project. Each student was required to select an area of Mars (e.g., an impact basin) for study from the "Mars Global Digital Image Mosaic" data base (http://astrogeology.usgs.gov/Projects/MDIM21/). Participants then created a detailed geologic map of the region using "Map Maker" software (download at http://www.mapmaker.com/). The software is relatively simple to use and allows students to create professional quality maps with an unlimited number of layers. A 3-D topographic study of the student's map area was also modeled using "Gridview" software (download at http://core2.gsfc.nasa.gov/gridview/) in conjunction with available MOLA data sets. High resolution Global Surveyor imagery (acquired from http://ida.wr.usgs.gov/graphical.htm) of individual map units was gathered in order to assist in map unit description / origin and delineating the geologic history of the study region. Map units were placed in a relative age sequence from statistical data collected by counting the number and size of craters over a given area. A report was then written for submission with the finished map. Key elements of the manuscript included the following: an overview of the map area, a description of each map unit, an interpretation of map unit origin, crater statistics / relative age dating, and a summary of the geologic history of the map region. Finally, a poster of each participant's findings was created, which were displayed in the exhibit hall of the science center during the last week of class.

  7. Phenotypic evolution of human craniofacial morphology after admixture: a geometric morphometrics approach.

    PubMed

    Martínez-Abadías, Neus; González-José, Rolando; González-Martín, Antonio; Van der Molen, Silvina; Talavera, Arturo; Hernández, Patricia; Hernández, Miquel

    2006-03-01

    An evolutionary, diachronic approach to the phenotypic craniofacial pattern arisen in a human population after high levels of admixture and gene flow was achieved by means of geometric morphometrics. Admixture has long been studied after molecular data. Nevertheless, few efforts have been made to explain the morphological outcome in human craniofacial samples. The Spanish-Amerindian contact can be considered a good scenario for such an analysis. Here we present a comparative analysis of craniofacial shape changes observed between two putative ancestor groups, Spanish and precontact Aztecs, and two diachronic admixed groups, corresponding to early and late colonial periods from the Mexico's Central Valley. Quantitative shape comparisons of Amerindian, Spanish, and admixed groups were used to test the expectations of quantitative genetics for admixture events. In its simplest form, this prediction states that an admixed group will present phenotypic values falling between those of both parental groups. Results show that, in general terms, although the human skull is a complex, integrated structure, the craniofacial morphology observed fits the theoretical expectations of quantitative genetics. Thus, it is predictive of population structure and history. In fact, results obtained after the craniofacial analysis are in accordance with previous molecular and historical interpretations, providing evidence that admixture is a main microevolutionary agent influencing modern Mexican gene pool. However, expectations are not straightforward when moderate shape changes are considered. Deviations detected at localized structures, such as the upper and lower face, highlight the evolution of a craniofacial pattern exclusively inherent to the admixed groups, indicating that quantitative characters might respond to admixture in a complicated, nondirectional way. PMID:16323202

  8. Expert Concept Mapping Study on Mobile Learning

    ERIC Educational Resources Information Center

    Borner, Dirk; Glahn, Christian; Stoyanov, Slavi; Kalz, Marco; Specht, Marcus

    2010-01-01

    Purpose: The present paper introduces concept mapping as a structured participative conceptualization approach to identify clusters of ideas and opinions generated by experts within the domain of mobile learning. Utilizing this approach, the paper aims to contribute to a definition of key domain characteristics by identifying the main educational…

  9. Genome-wide scan of 29,141 African Americans finds no evidence of directional selection since admixture.

    PubMed

    Bhatia, Gaurav; Tandon, Arti; Patterson, Nick; Aldrich, Melinda C; Ambrosone, Christine B; Amos, Christopher; Bandera, Elisa V; Berndt, Sonja I; Bernstein, Leslie; Blot, William J; Bock, Cathryn H; Caporaso, Neil; Casey, Graham; Deming, Sandra L; Diver, W Ryan; Gapstur, Susan M; Gillanders, Elizabeth M; Harris, Curtis C; Henderson, Brian E; Ingles, Sue A; Isaacs, William; De Jager, Phillip L; John, Esther M; Kittles, Rick A; Larkin, Emma; McNeill, Lorna H; Millikan, Robert C; Murphy, Adam; Neslund-Dudas, Christine; Nyante, Sarah; Press, Michael F; Rodriguez-Gil, Jorge L; Rybicki, Benjamin A; Schwartz, Ann G; Signorello, Lisa B; Spitz, Margaret; Strom, Sara S; Tucker, Margaret A; Wiencke, John K; Witte, John S; Wu, Xifeng; Yamamura, Yuko; Zanetti, Krista A; Zheng, Wei; Ziegler, Regina G; Chanock, Stephen J; Haiman, Christopher A; Reich, David; Price, Alkes L

    2014-10-01

    The extent of recent selection in admixed populations is currently an unresolved question. We scanned the genomes of 29,141 African Americans and failed to find any genome-wide-significant deviations in local ancestry, indicating no evidence of selection influencing ancestry after admixture. A recent analysis of data from 1,890 African Americans reported that there was evidence of selection in African Americans after their ancestors left Africa, both before and after admixture. Selection after admixture was reported on the basis of deviations in local ancestry, and selection before admixture was reported on the basis of allele-frequency differences between African Americans and African populations. The local-ancestry deviations reported by the previous study did not replicate in our very large sample, and we show that such deviations were expected purely by chance, given the number of hypotheses tested. We further show that the previous study's conclusion of selection in African Americans before admixture is also subject to doubt. This is because the FST statistics they used were inflated and because true signals of unusual allele-frequency differences between African Americans and African populations would be best explained by selection that occurred in Africa prior to migration to the Americas.

  10. [The development of a dispensing cabinet of total nutrient admixture].

    PubMed

    Wu, Xiao-an

    2002-03-01

    A dispensing cabinet of total nutrient admixture is introduced in this paper. Which can be used for nutrient solution dispensing. The clinical application shows that it can provide a practical, simple, safe and satisfactory sterile environment. PMID:16104182

  11. StructMap: Elastic Distance Analysis of Electron Microscopy Maps for Studying Conformational Changes.

    PubMed

    Sanchez Sorzano, Carlos Oscar; Alvarez-Cabrera, Ana Lucia; Kazemi, Mohsen; Carazo, Jose María; Jonić, Slavica

    2016-04-26

    Single-particle electron microscopy (EM) has been shown to be very powerful for studying structures and associated conformational changes of macromolecular complexes. In the context of analyzing conformational changes of complexes, distinct EM density maps obtained by image analysis and three-dimensional (3D) reconstruction are usually analyzed in 3D for interpretation of structural differences. However, graphic visualization of these differences based on a quantitative analysis of elastic transformations (deformations) among density maps has not been done yet due to a lack of appropriate methods. Here, we present an approach that allows such visualization. This approach is based on statistical analysis of distances among elastically aligned pairs of EM maps (one map is deformed to fit the other map), and results in visualizing EM maps as points in a lower-dimensional distance space. The distances among points in the new space can be analyzed in terms of clusters or trajectories of points related to potential conformational changes. The results of the method are shown with synthetic and experimental EM maps at different resolutions. PMID:27119636

  12. Genome-wide Scan of 29,141 African Americans Finds No Evidence of Directional Selection since Admixture

    PubMed Central

    Bhatia, Gaurav; Tandon, Arti; Patterson, Nick; Aldrich, Melinda C.; Ambrosone, Christine B.; Amos, Christopher; Bandera, Elisa V.; Berndt, Sonja I.; Bernstein, Leslie; Blot, William J.; Bock, Cathryn H.; Caporaso, Neil; Casey, Graham; Deming, Sandra L.; Diver, W. Ryan; Gapstur, Susan M.; Gillanders, Elizabeth M.; Harris, Curtis C.; Henderson, Brian E.; Ingles, Sue A.; Isaacs, William; De Jager, Phillip L.; John, Esther M.; Kittles, Rick A.; Larkin, Emma; McNeill, Lorna H.; Millikan, Robert C.; Murphy, Adam; Neslund-Dudas, Christine; Nyante, Sarah; Press, Michael F.; Rodriguez-Gil, Jorge L.; Rybicki, Benjamin A.; Schwartz, Ann G.; Signorello, Lisa B.; Spitz, Margaret; Strom, Sara S.; Tucker, Margaret A.; Wiencke, John K.; Witte, John S.; Wu, Xifeng; Yamamura, Yuko; Zanetti, Krista A.; Zheng, Wei; Ziegler, Regina G.; Chanock, Stephen J.; Haiman, Christopher A.; Reich, David; Price, Alkes L.

    2014-01-01

    The extent of recent selection in admixed populations is currently an unresolved question. We scanned the genomes of 29,141 African Americans and failed to find any genome-wide-significant deviations in local ancestry, indicating no evidence of selection influencing ancestry after admixture. A recent analysis of data from 1,890 African Americans reported that there was evidence of selection in African Americans after their ancestors left Africa, both before and after admixture. Selection after admixture was reported on the basis of deviations in local ancestry, and selection before admixture was reported on the basis of allele-frequency differences between African Americans and African populations. The local-ancestry deviations reported by the previous study did not replicate in our very large sample, and we show that such deviations were expected purely by chance, given the number of hypotheses tested. We further show that the previous study’s conclusion of selection in African Americans before admixture is also subject to doubt. This is because the FST statistics they used were inflated and because true signals of unusual allele-frequency differences between African Americans and African populations would be best explained by selection that occurred in Africa prior to migration to the Americas. PMID:25242497

  13. Admixture patterns and genetic differentiation in negrito groups from West Malaysia estimated from genome-wide SNP data.

    PubMed

    Jinam, Timothy A; Phipps, Maude E; Saitou, Naruya

    2013-01-01

    Southeast Asia houses various culturally and linguistically diverse ethnic groups. In Malaysia, where the Malay, Chinese, and Indian ethnic groups form the majority, there exist minority groups such as the "negritos" who are believed to be descendants of the earliest settlers of Southeast Asia. Here we report patterns of genetic substructure and admixture in two Malaysian negrito populations (Jehai and Kensiu), using ~50,000 genome-wide single-nucleotide polymorphism (SNP) data. We found traces of recent admixture in both the negrito populations, particularly in the Jehai, with the Malay through principal component analysis and STRUCTURE analysis software, which suggested that the admixture was as recent as one generation ago. We also identified significantly differentiated nonsynonymous SNPs and haplotype blocks related to intracellular transport, metabolic processes, and detection of stimulus. These results highlight the different levels of admixture experienced by the two Malaysian negritos. Delineating admixture and differentiated genomic regions should be of importance in designing and interpretation of molecular anthropology and disease association studies. PMID:24297225

  14. Connecticut Curriculum Trace Maps: History/Social Studies.

    ERIC Educational Resources Information Center

    Connecticut State Board of Education, Hartford.

    These Connecticut Curriculum Trace Maps are designed to help curriculum developers and teachers translate Connecticut's K-12 history and social studies performance standards into objectives and classroom practice. The Trace Maps provide detailed descriptions of what students should know and be able to do at smaller grade level clusters, K-2, 3-4,…

  15. Mapping Climate Change: Six U.S. Case Studies

    ERIC Educational Resources Information Center

    Holmberg, Marjorie O.

    2010-01-01

    This research focuses on the current role of mapping practices in communicating climate change in the United States. This includes maps used in monitoring climate change, projecting its potential impacts, and identifying potential adaptation strategies at particular scales. Since few, if any, studies have been done specifically on mapping…

  16. Data management for genomic mapping applications: A case study

    SciTech Connect

    Markowitz, V.M.; Lewis, S.; McCarthy, J.; Olken, F.; Zorn, M.

    1992-05-01

    In this paper we describe a new approach to the construction of data management systems for genomic mapping applications in molecular biology, genetics, and plant breeding. We discuss the architecture of such systems and propose an incremental approach to the development of such systems. We illustrate the proposed approach and architecture with a case study of a prototype data management system for genomic maps.

  17. Mapping asthma-associated variants in admixed populations

    PubMed Central

    Mersha, Tesfaye B.

    2015-01-01

    Admixed populations arise when two or more previously isolated populations interbreed. Mapping asthma susceptibility loci in an admixed population using admixture mapping (AM) involves screening the genome of individuals of mixed ancestry for chromosomal regions that have a higher frequency of alleles from a parental population with higher asthma risk as compared with parental population with lower asthma risk. AM takes advantage of the admixture created in populations of mixed ancestry to identify genomic regions where an association exists between genetic ancestry and asthma (in contrast to between the genotype of the marker and asthma). The theory behind AM is that chromosomal segments of affected individuals contain a significantly higher-than-average proportion of alleles from the high-risk parental population and thus are more likely to harbor disease–associated loci. Criteria to evaluate the applicability of AM as a gene mapping approach include: (1) the prevalence of the disease differences in ancestral populations from which the admixed population was formed; (2) a measurable difference in disease-causing alleles between the parental populations; (3) reduced linkage disequilibrium (LD) between unlinked loci across chromosomes and strong LD between neighboring loci; (4) a set of markers with noticeable allele-frequency differences between parental populations that contributes to the admixed population (single nucleotide polymorphisms (SNPs) are the markers of choice because they are abundant, stable, relatively cheap to genotype, and informative with regard to the LD structure of chromosomal segments); and (5) there is an understanding of the extent of segmental chromosomal admixtures and their interactions with environmental factors. Although genome-wide association studies have contributed greatly to our understanding of the genetic components of asthma, the large and increasing degree of admixture in populations across the world create many challenges

  18. Performance Mapping Studies in Redox Flow Cells

    NASA Technical Reports Server (NTRS)

    Hoberecht, M. A.; Thaller, L. H.

    1981-01-01

    Pumping power requirements in any flow battery system constitute a direct parasitic energy loss. It is therefore useful to determine the practical lower limit for reactant flow rates. Through the use of a theoretical framework based on electrochemical first principles, two different experimental flow mapping techniques were developed to evaluate and compare electrodes as a function of flow rate. For the carbon felt electrodes presently used in NASA-Lewis Redox cells, a flow rate 1.5 times greater than the stoichiometric rate seems to be the required minimum.

  19. The origin of early age expansions induced in cementitious materials containing shrinkage reducing admixtures

    SciTech Connect

    Sant, Gaurav; Lothenbach, Barbara; Juilland, Patrick; Le Saout, Gwenn; Weiss, Jason; Scrivener, Karen

    2011-03-15

    Studies on the early-age shrinkage behavior of cement pastes, mortars, and concretes containing shrinkage reducing admixtures (SRAs) have indicated these mixtures frequently exhibit an expansion shortly after setting. While the magnitude of the expansion has been noted to be a function of the chemistry of the cement and the admixture dosage; the cause of the expansion is not clearly understood. This investigation uses measurements of autogenous deformation, X-ray diffraction, pore solution analysis, thermogravimetry, and scanning electron microscopy to study the early-age properties and describe the mechanism of the expansion in OPC pastes made with and without SRA. The composition of the pore solution indicates that the presence of the SRA increases the portlandite oversaturation level in solution which can result in higher crystallization stresses which could lead to an expansion. This observation is supported by deformation calculations for the systems examined.

  20. Worldwide Patterns of Ancestry, Divergence, and Admixture in Domesticated Cattle

    PubMed Central

    Decker, Jared E.; McKay, Stephanie D.; Rolf, Megan M.; Kim, JaeWoo; Molina Alcalá, Antonio; Sonstegard, Tad S.; Hanotte, Olivier; Götherström, Anders; Seabury, Christopher M.; Praharani, Lisa; Babar, Masroor Ellahi; Correia de Almeida Regitano, Luciana; Yildiz, Mehmet Ali; Heaton, Michael P.; Liu, Wan-Sheng; Lei, Chu-Zhao; Reecy, James M.; Saif-Ur-Rehman, Muhammad; Schnabel, Robert D.; Taylor, Jeremy F.

    2014-01-01

    The domestication and development of cattle has considerably impacted human societies, but the histories of cattle breeds and populations have been poorly understood especially for African, Asian, and American breeds. Using genotypes from 43,043 autosomal single nucleotide polymorphism markers scored in 1,543 animals, we evaluate the population structure of 134 domesticated bovid breeds. Regardless of the analytical method or sample subset, the three major groups of Asian indicine, Eurasian taurine, and African taurine were consistently observed. Patterns of geographic dispersal resulting from co-migration with humans and exportation are recognizable in phylogenetic networks. All analytical methods reveal patterns of hybridization which occurred after divergence. Using 19 breeds, we map the cline of indicine introgression into Africa. We infer that African taurine possess a large portion of wild African auroch ancestry, causing their divergence from Eurasian taurine. We detect exportation patterns in Asia and identify a cline of Eurasian taurine/indicine hybridization in Asia. We also identify the influence of species other than Bos taurus taurus and B. t. indicus in the formation of Asian breeds. We detect the pronounced influence of Shorthorn cattle in the formation of European breeds. Iberian and Italian cattle possess introgression from African taurine. American Criollo cattle originate from Iberia, and not directly from Africa with African ancestry inherited via Iberian ancestors. Indicine introgression into American cattle occurred in the Americas, and not Europe. We argue that cattle migration, movement and trading followed by admixture have been important forces in shaping modern bovine genomic variation. PMID:24675901

  1. Human-aided admixture may fuel ecosystem transformation during biological invasions: theoretical and experimental evidence.

    PubMed

    Molofsky, Jane; Keller, Stephen R; Lavergne, Sébastien; Kaproth, Matthew A; Eppinga, Maarten B

    2014-04-01

    Biological invasions can transform our understanding of how the interplay of historical isolation and contemporary (human-aided) dispersal affects the structure of intraspecific diversity in functional traits, and in turn, how changes in functional traits affect other scales of biological organization such as communities and ecosystems. Because biological invasions frequently involve the admixture of previously isolated lineages as a result of human-aided dispersal, studies of invasive populations can reveal how admixture results in novel genotypes and shifts in functional trait variation within populations. Further, because invasive species can be ecosystem engineers within invaded ecosystems, admixture-induced shifts in the functional traits of invaders can affect the composition of native biodiversity and alter the flow of resources through the system. Thus, invasions represent promising yet under-investigated examples of how the effects of short-term evolutionary changes can cascade across biological scales of diversity. Here, we propose a conceptual framework that admixture between divergent source populations during biological invasions can reorganize the genetic variation underlying key functional traits, leading to shifts in the mean and variance of functional traits within invasive populations. Changes in the mean or variance of key traits can initiate new ecological feedback mechanisms that result in a critical transition from a native ecosystem to a novel invasive ecosystem. We illustrate the application of this framework with reference to a well-studied plant model system in invasion biology and show how a combination of quantitative genetic experiments, functional trait studies, whole ecosystem field studies and modeling can be used to explore the dynamics predicted to trigger these critical transitions.

  2. Human-aided admixture may fuel ecosystem transformation during biological invasions: theoretical and experimental evidence

    PubMed Central

    Molofsky, Jane; Keller, Stephen R; Lavergne, Sébastien; Kaproth, Matthew A; Eppinga, Maarten B

    2014-01-01

    Biological invasions can transform our understanding of how the interplay of historical isolation and contemporary (human-aided) dispersal affects the structure of intraspecific diversity in functional traits, and in turn, how changes in functional traits affect other scales of biological organization such as communities and ecosystems. Because biological invasions frequently involve the admixture of previously isolated lineages as a result of human-aided dispersal, studies of invasive populations can reveal how admixture results in novel genotypes and shifts in functional trait variation within populations. Further, because invasive species can be ecosystem engineers within invaded ecosystems, admixture-induced shifts in the functional traits of invaders can affect the composition of native biodiversity and alter the flow of resources through the system. Thus, invasions represent promising yet under-investigated examples of how the effects of short-term evolutionary changes can cascade across biological scales of diversity. Here, we propose a conceptual framework that admixture between divergent source populations during biological invasions can reorganize the genetic variation underlying key functional traits, leading to shifts in the mean and variance of functional traits within invasive populations. Changes in the mean or variance of key traits can initiate new ecological feedback mechanisms that result in a critical transition from a native ecosystem to a novel invasive ecosystem. We illustrate the application of this framework with reference to a well-studied plant model system in invasion biology and show how a combination of quantitative genetic experiments, functional trait studies, whole ecosystem field studies and modeling can be used to explore the dynamics predicted to trigger these critical transitions. PMID:24772269

  3. Influence of the calcium concentration in the presence of organic phosphorus on the physicochemical compatibility and stability of all-in-one admixtures for neonatal use

    PubMed Central

    Ribeiro, Daniela de Oliveira; Lobo, Bianca Waruar; Volpato, Nádia Maria; da Veiga, Venício Féo; Cabral, Lúcio Mendes; de Sousa, Valeria Pereira

    2009-01-01

    Background Preterm infants need high amounts of calcium and phosphorus for bone mineralization, which is difficult to obtain with parenteral feeding due to the low solubility of these salts. The objective of this study was to evaluate the physicochemical compatibility of high concentrations of calcium associated with organic phosphate and its influence on the stability of AIO admixtures for neonatal use. Methods Three TPN admixture formulas were prepared in multilayered bags. The calcium content of the admixtures was adjusted to 0, 46.5 or 93 mg/100 ml in the presence of a fixed organic phosphate concentration as well as lipids, amino acids, inorganic salts, glucose, vitamins and oligoelements at pH 5.5. Each admixture was stored at 4°C, 25°C or 37°C and evaluated over a period of 7 days. The physicochemical stability parameters evaluated were visual aspect, pH, sterility, osmolality, peroxide formation, precipitation, and the size of lipid globules. Results Color alterations occurred from the first day on, and reversible lipid film formation from the third day of study for the admixtures stored at 25°C and 37°C. According to the parameters evaluated, the admixtures were stable at 4°C; and none of them presented precipitated particles due to calcium/phosphate incompatibility or lipid globules larger than 5 μm, which is the main parameter currently used to evaluate lipid emulsion stability. The admixtures maintained low peroxide levels and osmolarity was appropriate for parenteral administration. Conclusion The total calcium and calcium/phosphorus ratios studied appeared not to influence the physicochemical compatibility and stability of AIO admixtures. PMID:19857269

  4. What causes birth order-intelligence patterns? The admixture hypothesis, revived.

    PubMed

    Rodgers, J L

    2001-01-01

    Recent evidence shows that the relation between birth order and intelligence is not the same in cross-sectional and within-family data. This simple empirical observation invalidates the conclusions from hundreds of previous birth order studies that relied on cross-sectional data. Simultaneously, the empirical foundation disappears from underneath theories like dilution and the confluence model that use explanatory processes occurring within the family. A theory proposed almost 25 years ago--the admixture hypothesis--effectively accounts for these empirical patterns. In this article, the author describes why birth order is of such intense interest to both parents and researchers (the birth order trap), discusses past birth order-intelligence patterns, shows that the admixture hypothesis accounts for those patterns, and reframes the original argument to support future productive research efforts.

  5. Dissecting the genetic structure and admixture of four geographical Malay populations

    PubMed Central

    Deng, Lian; Hoh, Boon-Peng; Lu, Dongsheng; Saw, Woei-Yuh; Twee-Hee Ong, Rick; Kasturiratne, Anuradhani; Janaka de Silva, H.; Zilfalil, Bin Alwi; Kato, Norihiro; Wickremasinghe, Ananda R.; Teo, Yik-Ying; Xu, Shuhua

    2015-01-01

    The Malay people are an important ethnic composition in Southeast Asia, but their genetic make-up and population structure remain poorly studied. Here we conducted a genome-wide study of four geographical Malay populations: Peninsular Malaysian Malay (PMM), Singaporean Malay (SGM), Indonesian Malay (IDM) and Sri Lankan Malay (SLM). All the four Malay populations showed substantial admixture with multiple ancestries. We identified four major ancestral components in Malay populations: Austronesian (17%–62%), Proto-Malay (15%–31%), East Asian (4%–16%) and South Asian (3%–34%). Approximately 34% of the genetic makeup of SLM is of South Asian ancestry, resulting in its distinct genetic pattern compared with the other three Malay populations. Besides, substantial differentiation was observed between the Malay populations from the north and the south, and between those from the west and the east. In summary, this study revealed that the genetic identity of the Malays comprises a mixed entity of multiple ancestries represented by Austronesian, Proto-Malay, East Asian and South Asian, with most of the admixture events estimated to have occurred 175 to 1,500 years ago, which in turn suggests that geographical isolation and independent admixture have significantly shaped the genetic architectures and the diversity of the Malay populations. PMID:26395220

  6. Dissecting the genetic structure and admixture of four geographical Malay populations.

    PubMed

    Deng, Lian; Hoh, Boon-Peng; Lu, Dongsheng; Saw, Woei-Yuh; Twee-Hee Ong, Rick; Kasturiratne, Anuradhani; de Silva, H Janaka; Zilfalil, Bin Alwi; Kato, Norihiro; Wickremasinghe, Ananda R; Teo, Yik-Ying; Xu, Shuhua

    2015-01-01

    The Malay people are an important ethnic composition in Southeast Asia, but their genetic make-up and population structure remain poorly studied. Here we conducted a genome-wide study of four geographical Malay populations: Peninsular Malaysian Malay (PMM), Singaporean Malay (SGM), Indonesian Malay (IDM) and Sri Lankan Malay (SLM). All the four Malay populations showed substantial admixture with multiple ancestries. We identified four major ancestral components in Malay populations: Austronesian (17%-62%), Proto-Malay (15%-31%), East Asian (4%-16%) and South Asian (3%-34%). Approximately 34% of the genetic makeup of SLM is of South Asian ancestry, resulting in its distinct genetic pattern compared with the other three Malay populations. Besides, substantial differentiation was observed between the Malay populations from the north and the south, and between those from the west and the east. In summary, this study revealed that the genetic identity of the Malays comprises a mixed entity of multiple ancestries represented by Austronesian, Proto-Malay, East Asian and South Asian, with most of the admixture events estimated to have occurred 175 to 1,500 years ago, which in turn suggests that geographical isolation and independent admixture have significantly shaped the genetic architectures and the diversity of the Malay populations. PMID:26395220

  7. Testing for Ancient Admixture between Closely Related Populations

    PubMed Central

    Durand, Eric Y.; Patterson, Nick; Reich, David; Slatkin, Montgomery

    2011-01-01

    One enduring question in evolutionary biology is the extent of archaic admixture in the genomes of present-day populations. In this paper, we present a test for ancient admixture that exploits the asymmetry in the frequencies of the two nonconcordant gene trees in a three-population tree. This test was first applied to detect interbreeding between Neandertals and modern humans. We derive the analytic expectation of a test statistic, called the D statistic, which is sensitive to asymmetry under alternative demographic scenarios. We show that the D statistic is insensitive to some demographic assumptions such as ancestral population sizes and requires only the assumption that the ancestral populations were randomly mating. An important aspect of D statistics is that they can be used to detect archaic admixture even when no archaic sample is available. We explore the effect of sequencing error on the false-positive rate of the test for admixture, and we show how to estimate the proportion of archaic ancestry in the genomes of present-day populations. We also investigate a model of subdivision in ancestral populations that can result in D statistics that indicate recent admixture. PMID:21325092

  8. PFAT5 and the Evolution of Lipid Admixture Stability.

    PubMed

    Klang, Mark G

    2015-09-01

    PFAT5 is defined by United States Pharmacopeia Chapter 729 as follows: the "percentage of fat residing in globules larger than 5 µm (PFAT5) for a given lipid injectable emulsion [is] not to exceed 0.05%." The unstable aggregates are trapped in lungs, liver, and the reticuloendothelial system. Large particles will accumulate in pulmonary capillaries, which are between 4 and 9 µm in diameter. Over the years, there has been an evolution of methods to characterize and define intravenous fat emulsion (IVFE) stability when combined as a total nutrient admixture (TNA). Many studies have claimed IVFE stability measuring mean particle size, zeta potential, and visual checks. Interestingly, none of the studies that claimed the TNA as stable identified an unstable one through testing. This report reviews those parameters and shows they were not a valid measure of lipid stability. The PFAT5 parameter has emerged as the only validated measure of lipid stability. There are clinical consequences of using lipids that exceed the PFAT5 limit. This parameter is applicable to both manufactured and compounded lipid preparations. The clinician should be aware of the limitations of much of the literature concerning the lipid stability assessment. More stability studies are needed using PFAT5 to identify the actual limits of TNA compounding.

  9. Uncontrolled admixture and loss of genetic diversity in a local Vietnamese pig breed

    PubMed Central

    Berthouly-Salazar, Cécile; Thévenon, Sophie; Van, Thu Nhu; Nguyen, Binh Trong; Pham, Lan Doan; Chi, Cuong Vu; Maillard, Jean-Charles

    2012-01-01

    The expansion of intensive livestock production systems in developing countries has increased the introduction of highly productive exotic breeds facilitating indiscriminate crossbreeding with local breeds. In this study, we set out to investigate the genetic status of the Vietnamese Black H’mong pig breed by evaluating (1) genetic diversity and (2) introgression from exotic breeds. Two exotic breeds, namely Landrace and Yorkshire used for crossbreeding, and the H’mong pig population from Ha Giang (HG) province were investigated using microsatellite markers. Within the province, three phenotypes were observed: a White, a Spotted and a Black phenotype. Genetic differentiation between phenotypes was low (0.5–6.1%). The White phenotypes showed intermediate admixture values between exotic breeds and the Black HG population (0.53), indicating a crossbreed status. Management practices were used to predict the rate of private diversity loss due to exotic gene introgressions. After 60 generations, 100% of Black private alleles will be lost. This loss is accelerated if the admixture rate is increased but can be slowed down if the mortality rate (e.g., recruitment rate) is decreased. Our study showed that a large number of markers are needed for accurately identifying hybrid classes for closely related populations. While our estimate of admixture still seems underestimated, genetic erosion can occur very fast even through indiscriminate crossbreeding. PMID:22837841

  10. Strong Selection at MHC in Mexicans since Admixture

    PubMed Central

    Zhou, Quan; Zhao, Liang; Guan, Yongtao

    2016-01-01

    Mexicans are a recent admixture of Amerindians, Europeans, and Africans. We performed local ancestry analysis of Mexican samples from two genome-wide association studies obtained from dbGaP, and discovered that at the MHC region Mexicans have excessive African ancestral alleles compared to the rest of the genome, which is the hallmark of recent selection for admixed samples. The estimated selection coefficients are 0.05 and 0.07 for two datasets, which put our finding among the strongest known selections observed in humans, namely, lactase selection in northern Europeans and sickle-cell trait in Africans. Using inaccurate Amerindian training samples was a major concern for the credibility of previously reported selection signals in Latinos. Taking advantage of the flexibility of our statistical model, we devised a model fitting technique that can learn Amerindian ancestral haplotype from the admixed samples, which allows us to infer local ancestries for Mexicans using only European and African training samples. The strong selection signal at the MHC remains without Amerindian training samples. Finally, we note that medical history studies suggest such a strong selection at MHC is plausible in Mexicans. PMID:26863142

  11. Activity of octreotide acetate in a total nutrient admixture.

    PubMed

    Ritchie, D J; Holstad, S G; Westrich, T J; Hirsch, J D; O'Dorisio, T M

    1991-10-01

    The activity of octreotide acetate in a total nutrient admixture (TNA) and the effect of the drug on the stability of lipid emulsion in the TNA were studied. Octreotide acetate injection was added to a standard solution containing 3% lipids, amino acids, dextrose, electrolytes, vitamins, and trace elements to achieve a theoretical concentration of 45 micrograms/dL. Samples were stored at room temperature for 48 hours. Octreotide concentrations were determined in triplicate by radioimmunoassay; physical stability of the solutions was assessed by lipid particle-size determination, pH measurement, and visual observation of emulsion integrity at 0, 12, 24, and 48 hours. The activity of octreotide in two samples of each solution (with and without lipid) was analyzed immediately after preparation and after seven days under refrigeration. There was no evidence of emulsion breakdown or pH change in any solution over the study period. In addition, particle-size distributions at 48 hours and 7 days were comparable to those at time zero, suggesting physical stability. Octreotide acetate activity was not consistently greater than 90% (mean +/- S.D.) after storage for 48 hours. Octreotide acetate at a theoretical concentration of 45 micrograms/dL in a TNA solution containing 3% lipids appeared to be physically compatible for 48 hours at room temperature and for 7 days under refrigeration. However, the chemical activity of octreotide in TNA was not consistent after storage for 48 hours.

  12. Strong Selection at MHC in Mexicans since Admixture.

    PubMed

    Zhou, Quan; Zhao, Liang; Guan, Yongtao

    2016-02-01

    Mexicans are a recent admixture of Amerindians, Europeans, and Africans. We performed local ancestry analysis of Mexican samples from two genome-wide association studies obtained from dbGaP, and discovered that at the MHC region Mexicans have excessive African ancestral alleles compared to the rest of the genome, which is the hallmark of recent selection for admixed samples. The estimated selection coefficients are 0.05 and 0.07 for two datasets, which put our finding among the strongest known selections observed in humans, namely, lactase selection in northern Europeans and sickle-cell trait in Africans. Using inaccurate Amerindian training samples was a major concern for the credibility of previously reported selection signals in Latinos. Taking advantage of the flexibility of our statistical model, we devised a model fitting technique that can learn Amerindian ancestral haplotype from the admixed samples, which allows us to infer local ancestries for Mexicans using only European and African training samples. The strong selection signal at the MHC remains without Amerindian training samples. Finally, we note that medical history studies suggest such a strong selection at MHC is plausible in Mexicans. PMID:26863142

  13. Intraspecific Genetic Admixture and the Morphological Diversification of an Estuarine Fish Population Complex

    PubMed Central

    Legault, Michel

    2015-01-01

    The North-east American Rainbow smelt (Osmerus mordax) is composed of two glacial races first identified through the spatial distribution of two distinct mtDNA lineages. Contemporary breeding populations of smelt in the St. Lawrence estuary comprise contrasting mixtures of both lineages, suggesting that the two races came into secondary contact in this estuary. The overall objective of this study was to assess the role of intraspecific genetic admixture in the morphological diversification of the estuarine rainbow smelt population complex. The morphology of mixed-ancestry populations varied as a function of the relative contribution of the two races to estuarine populations, supporting the hypothesis of genetic admixture. Populations comprising both ancestral mtDNA races did not exhibit intermediate morphologies relative to pure populations but rather exhibited many traits that exceeded the parental trait values, consistent with the hypothesis of transgressive segregation. Evidence for genetic admixture at the level of the nuclear gene pool, however, provided only partial support for this hypothesis. Variation at nuclear AFLP markers revealed clear evidence of the two corresponding mtDNA glacial races. The admixture of the two races at the nuclear level is only pronounced in mixed-ancestry populations dominated by one of the mtDNA lineages, the same populations showing the greatest degree of morphological diversification and population structure. In contrast, mixed-ancestry populations dominated by the alternate mtDNA lineage showed little evidence of introgression of the nuclear genome, little morphological diversification and little contemporary population genetic structure. These results only partially support the hypothesis of transgressive segregation and may be the result of the differential effects of natural selection acting on admixed genomes from different sources. PMID:25856193

  14. Effect of chemical admixtures on properties of high-calcium fly ash geopolymer

    NASA Astrophysics Data System (ADS)

    Rattanasak, Ubolluk; Pankhet, Kanokwan; Chindaprasirt, Prinya

    2011-06-01

    Owing to the high viscosity of sodium silicate solution, fly ash geopolymer has the problems of low workability and rapid setting time. Therefore, the effect of chemical admixtures on the properties of fly ash geopolymer was studied to overcome the rapid set of the geopolymer in this paper. High-calcium fly ash and alkaline solution were used as starting materials to synthesize the geopolymer. Calcium chloride, calcium sulfate, sodium sulfate, and sucrose at dosages of 1wt% and 2wt% of fly ash were selected as admixtures based on concrete knowledge to improve the properties of the geopolymer. The setting time, compressive strength, and degree of reaction were recorded, and the microstructure was examined. The results show that calcium chloride significantly shortens both the initial and final setting times of the geopolymer paste. In addition, sucrose also delays the final setting time significantly. The degrees of reaction of fly ash in the geopolymer paste with the admixtures are all higher than those of the control paste. This contributes to the obvious increases in compressive strength.

  15. Analysis of admixture and genetic structure of two Native American groups of Southern Argentinean Patagonia.

    PubMed

    Sala, Andrea; Corach, Daniel

    2014-03-01

    Argentinean Patagonia is inhabited by people that live principally in urban areas and by small isolated groups of individuals that belong to indigenous aboriginal groups; this territory exhibits the lowest population density of the country. Mapuche and Tehuelche (Mapudungun linguistic branch), are the only extant Native American groups that inhabit the Argentinean Patagonian provinces of Río Negro and Chubut. Fifteen autosomal STRs, 17 Y-STRs, mtDNA full length control region sequence and two sets of Y and mtDNA-coding region SNPs were analyzed in a set of 434 unrelated individuals. The sample set included two aboriginal groups, a group of individuals whose family name included Native American linguistic root and urban samples from Chubut, Río Negro and Buenos Aires provinces of Argentina. Specific Y Amerindian haplogroup Q1 was found in 87.5% in Mapuche and 58.82% in Tehuelche, while the Amerindian mtDNA haplogroups were present in all the aboriginal sample contributors investigated. Admixture analysis performed by means of autosomal and Y-STRs showed the highest degree of admixture in individuals carrying Mapuche surnames, followed by urban populations, and finally by isolated Native American populations as less degree of admixture. The study provided novel genetic information about the Mapuche and Tehuelche people and allowed us to establish a genetic correlation among individuals with Mapudungun surnames that demonstrates not only a linguistic but also a genetic relationship to the isolated aboriginal communities, representing a suitable proxy indicator for assessing genealogical background.

  16. Environment-dependent admixture dynamics in a tiger salamander hybrid zone.

    PubMed

    Fitzpatrick, Benjamin M; Shaffer, H Bradley

    2004-06-01

    After an estimated five million years of independent evolution, the barred tiger salamander (Ambystoma tigrinum mavortium) was introduced by bait dealers into the native range of the California tiger salamander (A. californiense). Hybridization and backcrossing have been occurring in central California for 50-60 years, or an estimated 15-30 generations. We studied genetic and ecological factors influencing admixture of these two divergent gene pools by analyzing frequencies of hybrid genotypes in three kinds of breeding habitats: natural vernal pools, ephemeral man-made cattle ponds, and perennial man-made ponds. Perennial ponds tended to have higher frequencies of nonnative alleles than either type of seasonal pond, even in cases where perennial and seasonal ponds are within a few hundred meters. Thus, the hybrid zone has a mosaic structure that depends on pond hydrology or ecology. The presence of some broadly acting constraints on admixture is suggested by linkage disequilibria between physically unlinked molecular markers within ponds. In addition, we found several marker-specific deviations from Hardy-Weinberg equilibrium. One marker showed a consistent deficit of heterozygotes across pond types. Another showed heterozygote deficits only in vernal pools. A third was more likely to have heterozygote excess in ephemeral cattle ponds. These patterns indicate that admixture is influenced by complex genotype-by-environment interactions. PMID:15266977

  17. Testing models of speciation from genome sequences: divergence and asymmetric admixture in Island South-East Asian Sus species during the Plio-Pleistocene climatic fluctuations

    PubMed Central

    Frantz, Laurent A F; Madsen, Ole; Megens, Hendrik-Jan; Groenen, Martien A M; Lohse, Konrad

    2014-01-01

    In many temperate regions, ice ages promoted range contractions into refugia resulting in divergence (and potentially speciation), while warmer periods led to range expansions and hybridization. However, the impact these climatic oscillations had in many parts of the tropics remains elusive. Here, we investigate this issue using genome sequences of three pig (Sus) species, two of which are found on islands of the Sunda-shelf shallow seas in Island South-East Asia (ISEA). A previous study revealed signatures of interspecific admixture between these Sus species (Genome biology,14, 2013, R107). However, the timing, directionality and extent of this admixture remain unknown. Here, we use a likelihood-based model comparison to more finely resolve this admixture history and test whether it was mediated by humans or occurred naturally. Our analyses suggest that interspecific admixture between Sunda-shelf species was most likely asymmetric and occurred long before the arrival of humans in the region. More precisely, we show that these species diverged during the late Pliocene but around 23% of their genomes have been affected by admixture during the later Pleistocene climatic transition. In addition, we show that our method provides a significant improvement over D-statistics which are uninformative about the direction of admixture. PMID:25294645

  18. Gamification in Education: A Systematic Mapping Study

    ERIC Educational Resources Information Center

    Dicheva, Darina; Dichev, Christo; Agre, Gennady; Angelova, Galia

    2015-01-01

    While gamification is gaining ground in business, marketing, corporate management, and wellness initiatives, its application in education is still an emerging trend. This article presents a study of the published empirical research on the application of gamification to education. The study is limited to papers that discuss explicitly the effects…

  19. Admixture into and within sub-Saharan Africa

    PubMed Central

    Busby, George BJ; Band, Gavin; Si Le, Quang; Jallow, Muminatou; Bougama, Edith; Mangano, Valentina D; Amenga-Etego, Lucas N; Enimil, Anthony; Apinjoh, Tobias; Ndila, Carolyne M; Manjurano, Alphaxard; Nyirongo, Vysaul; Doumba, Ogobara; Rockett, Kirk A; Kwiatkowski, Dominic P; Spencer, Chris CA

    2016-01-01

    Similarity between two individuals in the combination of genetic markers along their chromosomes indicates shared ancestry and can be used to identify historical connections between different population groups due to admixture. We use a genome-wide, haplotype-based, analysis to characterise the structure of genetic diversity and gene-flow in a collection of 48 sub-Saharan African groups. We show that coastal populations experienced an influx of Eurasian haplotypes over the last 7000 years, and that Eastern and Southern Niger-Congo speaking groups share ancestry with Central West Africans as a result of recent population expansions. In fact, most sub-Saharan populations share ancestry with groups from outside of their current geographic region as a result of gene-flow within the last 4000 years. Our in-depth analysis provides insight into haplotype sharing across different ethno-linguistic groups and the recent movement of alleles into new environments, both of which are relevant to studies of genetic epidemiology. DOI: http://dx.doi.org/10.7554/eLife.15266.001 PMID:27324836

  20. Admixture into and within sub-Saharan Africa.

    PubMed

    Busby, George Bj; Band, Gavin; Si Le, Quang; Jallow, Muminatou; Bougama, Edith; Mangano, Valentina D; Amenga-Etego, Lucas N; Enimil, Anthony; Apinjoh, Tobias; Ndila, Carolyne M; Manjurano, Alphaxard; Nyirongo, Vysaul; Doumba, Ogobara; Rockett, Kirk A; Kwiatkowski, Dominic P; Spencer, Chris Ca

    2016-01-01

    Similarity between two individuals in the combination of genetic markers along their chromosomes indicates shared ancestry and can be used to identify historical connections between different population groups due to admixture. We use a genome-wide, haplotype-based, analysis to characterise the structure of genetic diversity and gene-flow in a collection of 48 sub-Saharan African groups. We show that coastal populations experienced an influx of Eurasian haplotypes over the last 7000 years, and that Eastern and Southern Niger-Congo speaking groups share ancestry with Central West Africans as a result of recent population expansions. In fact, most sub-Saharan populations share ancestry with groups from outside of their current geographic region as a result of gene-flow within the last 4000 years. Our in-depth analysis provides insight into haplotype sharing across different ethno-linguistic groups and the recent movement of alleles into new environments, both of which are relevant to studies of genetic epidemiology. PMID:27324836

  1. Optical Properties of TGS Crystal with L-Valine Admixture

    SciTech Connect

    Stadnyk, V. Yo. Romanyuk, N. A.; Kiryk, Yu. I.

    2010-11-15

    The thermal expansion and temperature and the spectral dependences of the refractive indices and birefringence of triglycine sulphate (TGS) crystals with a 5% L-valine admixture have been investigated. It is established that the introduction of L-valine weakens the temperature dependence of the refractive indices and the birefringence and thermal expansion of TGS crystals. The parameters of the Sellmeier formula, refractions, and electronic polarizabilities are calculated. The changes observed may be related to the increase in hardness of admixture-containing crystals, the decrease in the spontaneous polarization, the replacement of the refraction components of the valine bond, or the spontaneous electro-optic effect.

  2. Study of the OCS6 Lattice Using Frequency Maps

    SciTech Connect

    Reichel, Ina

    2007-01-02

    Frequency maps are employed to study the baseline dampingring lattice. The study is aimed at understanding the reduced dynamicaperture in the lattice with four short straight sections compared to theone with eight short straight sections. Measures to increase the dynamicaperture based on results of this study are suggested.

  3. Coordinated Optimization of Visual Cortical Maps (II) Numerical Studies

    PubMed Central

    Reichl, Lars; Heide, Dominik; Löwel, Siegrid; Crowley, Justin C.; Kaschube, Matthias; Wolf, Fred

    2012-01-01

    In the juvenile brain, the synaptic architecture of the visual cortex remains in a state of flux for months after the natural onset of vision and the initial emergence of feature selectivity in visual cortical neurons. It is an attractive hypothesis that visual cortical architecture is shaped during this extended period of juvenile plasticity by the coordinated optimization of multiple visual cortical maps such as orientation preference (OP), ocular dominance (OD), spatial frequency, or direction preference. In part (I) of this study we introduced a class of analytically tractable coordinated optimization models and solved representative examples, in which a spatially complex organization of the OP map is induced by interactions between the maps. We found that these solutions near symmetry breaking threshold predict a highly ordered map layout. Here we examine the time course of the convergence towards attractor states and optima of these models. In particular, we determine the timescales on which map optimization takes place and how these timescales can be compared to those of visual cortical development and plasticity. We also assess whether our models exhibit biologically more realistic, spatially irregular solutions at a finite distance from threshold, when the spatial periodicities of the two maps are detuned and when considering more than 2 feature dimensions. We show that, although maps typically undergo substantial rearrangement, no other solutions than pinwheel crystals and stripes dominate in the emerging layouts. Pinwheel crystallization takes place on a rather short timescale and can also occur for detuned wavelengths of different maps. Our numerical results thus support the view that neither minimal energy states nor intermediate transient states of our coordinated optimization models successfully explain the architecture of the visual cortex. We discuss several alternative scenarios that may improve the agreement between model solutions and biological

  4. Ancestral proportions and admixture dynamics in geographically defined African Americans living in South Carolina.

    PubMed

    Parra, E J; Kittles, R A; Argyropoulos, G; Pfaff, C L; Hiester, K; Bonilla, C; Sylvester, N; Parrish-Gause, D; Garvey, W T; Jin, L; McKeigue, P M; Kamboh, M I; Ferrell, R E; Pollitzer, W S; Shriver, M D

    2001-01-01

    We analyzed admixture in samples of six different African-American populations from South Carolina: Gullah-speaking Sea Islanders in coastal South Carolina, residents of four counties in the "Low Country" (Berkeley, Charleston, Colleton, and Dorchester), and persons living in the city of Columbia, located in central South Carolina. We used a battery of highly informative autosomal, mtDNA, and Y-chromosome markers. Two of the autosomal markers (FY and AT3) are linked and lie 22 cM apart on chromosome 1. The results of this study indicate, in accordance with previous historical, cultural, and anthropological evidence, a very low level of European admixture in the Gullah Sea Islanders (m = 3.5 +/- 0.9%). The proportion of European admixture is higher in the Low Country (m ranging between 9. 9 +/- 1.8% and 14.0 +/- 1.9%), and is highest in Columbia (m = 17.7 +/- 3.1%). A sex-biased European gene flow and a small Native American contribution to the African-American gene pool are also evident in these data. We studied the pattern of pairwise allelic associations between the FY locus and the nine other autosomal markers in our samples. In the combined sample from the Low Country (N = 548), a high level of linkage disequilibrium was observed between the linked markers, FY and AT3. Additionally, significant associations were also detected between FY and 4 of the 8 unlinked markers, suggesting the existence of significant genetic structure in this population. A continuous gene flow model of admixture could explain the observed pattern of genetic structure. A test conditioning on the overall admixture of each individual showed association of ancestry between the two linked markers (FY and AT3), but not between any of the unlinked markers, as theory predicts. Thus, even in the presence of genetic structure due to continuous gene flow or some other factor, it is possible to differentiate associations due to linkage from spurious associations due to genetic structure.

  5. Implications of the admixture process in skin color molecular assessment.

    PubMed

    Cerqueira, Caio Cesar Silva de; Hünemeier, Tábita; Gomez-Valdés, Jorge; Ramallo, Virgínia; Volasko-Krause, Carla Daiana; Barbosa, Ana Angélica Leal; Vargas-Pinilla, Pedro; Dornelles, Rodrigo Ciconet; Longo, Danaê; Rothhammer, Francisco; Bedoya, Gabriel; Canizales-Quinteros, Samuel; Acuña-Alonzo, Victor; Gallo, Carla; Poletti, Giovanni; González-José, Rolando; Salzano, Francisco Mauro; Callegari-Jacques, Sídia Maria; Schuler-Faccini, Lavínia; Ruiz-Linares, Andrés; Cátira Bortolini, Maria

    2014-01-01

    The understanding of the complex genotype-phenotype architecture of human pigmentation has clear implications for the evolutionary history of humans, as well as for medical and forensic practices. Although dozens of genes have previously been associated with human skin color, knowledge about this trait remains incomplete. In particular, studies focusing on populations outside the European-North American axis are rare, and, until now, admixed populations have seldom been considered. The present study was designed to help fill this gap. Our objective was to evaluate possible associations of 18 single nucleotide polymorphisms (SNPs), located within nine genes, and one pseudogene with the Melanin Index (MI) in two admixed Brazilian populations (Gaucho, N = 352; Baiano, N = 148) with different histories of geographic and ethnic colonization. Of the total sample, four markers were found to be significantly associated with skin color, but only two (SLC24A5 rs1426654, and SLC45A2 rs16891982) were consistently associated with MI in both samples (Gaucho and Baiano). Therefore, only these 2 SNPs should be preliminarily considered to have forensic significance because they consistently showed the association independently of the admixture level of the populations studied. We do not discard that the other two markers (HERC2 rs1129038 and TYR rs1126809) might be also relevant to admixed samples, but additional studies are necessary to confirm the real importance of these markers for skin pigmentation. Finally, our study shows associations of some SNPs with MI in a modern Brazilian admixed sample, with possible applications in forensic genetics. Some classical genetic markers in Euro-North American populations are not associated with MI in our sample. Our results point out the relevance of considering population differences in selecting an appropriate set of SNPs as phenotype predictors in forensic practice. PMID:24809478

  6. Implications of the admixture process in skin color molecular assessment.

    PubMed

    Cerqueira, Caio Cesar Silva de; Hünemeier, Tábita; Gomez-Valdés, Jorge; Ramallo, Virgínia; Volasko-Krause, Carla Daiana; Barbosa, Ana Angélica Leal; Vargas-Pinilla, Pedro; Dornelles, Rodrigo Ciconet; Longo, Danaê; Rothhammer, Francisco; Bedoya, Gabriel; Canizales-Quinteros, Samuel; Acuña-Alonzo, Victor; Gallo, Carla; Poletti, Giovanni; González-José, Rolando; Salzano, Francisco Mauro; Callegari-Jacques, Sídia Maria; Schuler-Faccini, Lavínia; Ruiz-Linares, Andrés; Cátira Bortolini, Maria

    2014-01-01

    The understanding of the complex genotype-phenotype architecture of human pigmentation has clear implications for the evolutionary history of humans, as well as for medical and forensic practices. Although dozens of genes have previously been associated with human skin color, knowledge about this trait remains incomplete. In particular, studies focusing on populations outside the European-North American axis are rare, and, until now, admixed populations have seldom been considered. The present study was designed to help fill this gap. Our objective was to evaluate possible associations of 18 single nucleotide polymorphisms (SNPs), located within nine genes, and one pseudogene with the Melanin Index (MI) in two admixed Brazilian populations (Gaucho, N = 352; Baiano, N = 148) with different histories of geographic and ethnic colonization. Of the total sample, four markers were found to be significantly associated with skin color, but only two (SLC24A5 rs1426654, and SLC45A2 rs16891982) were consistently associated with MI in both samples (Gaucho and Baiano). Therefore, only these 2 SNPs should be preliminarily considered to have forensic significance because they consistently showed the association independently of the admixture level of the populations studied. We do not discard that the other two markers (HERC2 rs1129038 and TYR rs1126809) might be also relevant to admixed samples, but additional studies are necessary to confirm the real importance of these markers for skin pigmentation. Finally, our study shows associations of some SNPs with MI in a modern Brazilian admixed sample, with possible applications in forensic genetics. Some classical genetic markers in Euro-North American populations are not associated with MI in our sample. Our results point out the relevance of considering population differences in selecting an appropriate set of SNPs as phenotype predictors in forensic practice.

  7. Implications of the Admixture Process in Skin Color Molecular Assessment

    PubMed Central

    de Cerqueira, Caio Cesar Silva; Hünemeier, Tábita; Gomez-Valdés, Jorge; Ramallo, Virgínia; Volasko-Krause, Carla Daiana; Barbosa, Ana Angélica Leal; Vargas-Pinilla, Pedro; Dornelles, Rodrigo Ciconet; Longo, Danaê; Rothhammer, Francisco; Bedoya, Gabriel; Canizales-Quinteros, Samuel; Acuña-Alonzo, Victor; Gallo, Carla; Poletti, Giovanni; González-José, Rolando; Salzano, Francisco Mauro; Callegari-Jacques, Sídia Maria; Schuler-Faccini, Lavínia; Ruiz-Linares, Andrés; Cátira Bortolini, Maria

    2014-01-01

    The understanding of the complex genotype-phenotype architecture of human pigmentation has clear implications for the evolutionary history of humans, as well as for medical and forensic practices. Although dozens of genes have previously been associated with human skin color, knowledge about this trait remains incomplete. In particular, studies focusing on populations outside the European-North American axis are rare, and, until now, admixed populations have seldom been considered. The present study was designed to help fill this gap. Our objective was to evaluate possible associations of 18 single nucleotide polymorphisms (SNPs), located within nine genes, and one pseudogene with the Melanin Index (MI) in two admixed Brazilian populations (Gaucho, N = 352; Baiano, N = 148) with different histories of geographic and ethnic colonization. Of the total sample, four markers were found to be significantly associated with skin color, but only two (SLC24A5 rs1426654, and SLC45A2 rs16891982) were consistently associated with MI in both samples (Gaucho and Baiano). Therefore, only these 2 SNPs should be preliminarily considered to have forensic significance because they consistently showed the association independently of the admixture level of the populations studied. We do not discard that the other two markers (HERC2 rs1129038 and TYR rs1126809) might be also relevant to admixed samples, but additional studies are necessary to confirm the real importance of these markers for skin pigmentation. Finally, our study shows associations of some SNPs with MI in a modern Brazilian admixed sample, with possible applications in forensic genetics. Some classical genetic markers in Euro-North American populations are not associated with MI in our sample. Our results point out the relevance of considering population differences in selecting an appropriate set of SNPs as phenotype predictors in forensic practice. PMID:24809478

  8. Population admixture and high larval viability among urban toads

    PubMed Central

    Hase, Kazuko; Nikoh, Naruo; Shimada, Masakazu

    2013-01-01

    In terms of evolutionary biology, a population admixture of more than two distinct lineages may lead to strengthened genetic variation through hybridization. However, a population admixture arising from artificial secondary contact poses significant problems in conservation biology. In urban Tokyo, a population admixture has emerged from two lineages of Japanese common toad: native Bufo japonicus formosus and nonnative B. japonicus japonicus, of which the latter was introduced in the early 20th century. To evaluate the degree of genetic disturbance in the admixed population of these two subspecies, we analyzed genotypes of toads distributed within and outside Tokyo by assessing mtDNA and seven microsatellite loci. We found that the introduced B. japonicus japonicus genotype dominates six local populations in the Tokyo admixture zone and was clearly derived from past introgressive hybridization between the two subspecies. These observations were supported by morphological assessments. Furthermore, the average larval survival rate in Tokyo was significantly higher than that outside Tokyo, suggesting that the temporary contribution of introduced toads occurred through introgression. The fitness of toads in urban Tokyo may thus be increasing with the assistance of nonnative individuals. PMID:23789077

  9. The transmission/disequilibrium test: History, subdivision, and admixture

    SciTech Connect

    Ewens, W.J.; Spielman, R.S.

    1995-08-01

    Disease association with a genetic marker is often taken as a preliminary indication of linkage with disease susceptibility. However, population subdivision and admixture may lead to diease association even in the absence of linkage. In a previous paper, we described a test for linkage (and linkage disequilibrium) between a genetic marker and disease susceptibility; linkage is detected by this test only if association is also present. This transmission/disequilibrium test (TDT) is carried out with data on transmission of marker alleles from parents heterozygous for the marker alleles to affected offspring. The TDT is a valid test for linkage and association, even when the association is caused by population subdivision and admixture. In the previous paper, we did not explicitly consider the effect of recent history on population structure. Here we extend the previous results by examining in detail the effects of subdivision and admixture, viewed as processes in population history. We describe two models for these processes. For both models, we analyze the properties of (a) the TDT as a test for linkage (and association) between marker and disease and (b) the conventional contingency statistic used with family data to test for population association. We show that the contingency test statistic does not have a {chi}{sup 2} distribution if subdivision or admixture is present. In contrast, the TDT remains a valid {chi}{sub 2} statistic for the linkage hypothesis, regardless of population history. 20 refs., 2 figs., 5 tabs.

  10. Admixture and genetic diversity distribution patterns of non-recombining lineages of Native American ancestry in Colombian populations.

    PubMed

    Xavier, Catarina; Builes, Juan José; Gomes, Verónica; Ospino, Jose Miguel; Aquino, Juliana; Parson, Walther; Amorim, António; Gusmão, Leonor; Goios, Ana

    2015-01-01

    Genetic diversity of present American populations results from very complex demographic events involving different types and degrees of admixture. Through the analysis of lineage markers such as mtDNA and Y chromosome it is possible to recover the original Native American haplotypes, which remained identical since the admixture events due to the absence of recombination. However, the decrease in the effective population sizes and the consequent genetic drift effects suffered by these populations during the European colonization resulted in the loss or under-representation of a substantial fraction of the Native American lineages. In this study, we aim to clarify how the diversity and distribution of uniparental lineages vary with the different demographic characteristics (size, degree of isolation) and the different levels of admixture of extant Native groups in Colombia. We present new data resulting from the analyses of mtDNA whole control region, Y chromosome SNP haplogroups and STR haplotypes, and autosomal ancestry informative insertion-deletion polymorphisms in Colombian individuals from different ethnic and linguistic groups. The results demonstrate that populations presenting a high proportion of non-Native American ancestry have preserved nevertheless a substantial diversity of Native American lineages, for both mtDNA and Y chromosome. We suggest that, by maintaining the effective population sizes high, admixture allowed for a decrease in the effects of genetic drift due to Native population size reduction and thus resulting in an effective preservation of the Native American non-recombining lineages.

  11. A STUDY OF THE EFFECTS OF POST-COMBUSTION AMMONIA INJECTION ON FLY ASH QUALITY: CHARACTERIZATION OF AMMONIA RELEASE FROM CONCRETE AND MORTARS CONTAINING FLY ASH AS A POZZOLANIC ADMIXTURE

    SciTech Connect

    Robert F. Rathbone; Thomas L. Robl

    2001-04-11

    Work completed in this reporting period focused on finalization of the Work and Management Plan, sample acquisition and analysis, evaluation of ammonia measurement methods, and measurement of ammonia loss from mortar. All fly ash samples have been acquired and analyzed for chemical composition and particle fineness. Three non-ammoniated fly ash samples were obtained from power plants that do not inject ammonia for NOx or particulate control, while three ammoniated fly ashes originate from plants that inject ammonia into the flue gas. The fly ash sources were selected based on their marketability as concrete admixtures and ammonia content. Coarse and fine aggregates for mortar and concrete testing have also been secured and have been thoroughly characterized using ASTM methods. Methodologies for the measurement of ammonia in the gaseous and aqueous phase have been carefully considered in the context of their suitability for use in this project. These include ammonia detection tubes, carbon impregnated with sulfuric acid (CISA) tubes, titration, and electrochemical methods. It was concluded that each of these methods is potentially useful for different aspects of the project, depending on the phase and concentration of ammonia to be measured. Preparation of fly ash-containing mortars both with and without ammonia indicated that the ammonia has no significant influence on compressive strength. Finally, measurement of ammonia loss from mortar has begun and the results of several of these experiments are included herein. It has been found that, under the laboratory curing conditions devised, ammonia release from mortar occurs at a relatively rapid rate in the first 24 hours, proceeded by a much slower, essentially linear rate. Furthermore, at the end of the three-week experiments, it was calculated that greater than 80% of the initial ammonia concentration remained within the mortar.

  12. A STUDY OF THE EFFECTS OF POST-COMBUSTION AMMONIA INJECTION ON FLY ASH QUALITY: CHARACTERIZATION OF AMMONIA RELEASE FROM CONCRETE AND MORTARS CONTAINING FLY ASH AS A POZZOLANIC ADMIXTURE

    SciTech Connect

    Robert F. Rathbone; Thomas L. Robl

    2001-10-11

    Work completed in this reporting period focused on the measurement of the rate of ammonia loss from mortar and concrete, and the measurement of ammonia gas in the air above the materials immediately after placement. The majority of mortar experiments have been completed, and testing has begun on concrete. The mortar experiments indicate that the rate of ammonia loss is greater in mortars prepared using a higher water content and water:cement (W:C) ratio, although the higher rate is primarily observed within the first 2 days, after which the loss rates are nearly the same. The source of low-calcium (Class F) fly ash exerted a negligible influence on the loss rate. However, mortar prepared using a higher-calcium fly ash evolved ammonia at a slightly slower rate than the Class F ash mortars. The data also indicate that an increase in ventilation increases the ammonia loss rate from mortar, and suggest that a well-ventilated space could substantially increase the loss of ammonia from mortar and, by inference, a concrete slab. Analysis of ammonia concentrations in the air above freshly-placed mortars in an enclosed space indicate that the fly ash ammonia concentration should not exceed 100 mg N/kg ash in confined space applications. For most other applications with some ventilation the maximum acceptable concentration would be approximately 200 mg/kg. Early results from experiments on concrete suggest that, under similar conditions, ammonia diffusion from concrete occurs at a higher rate than in mortar. In addition, increasing the slump of concrete through the use of chemical admixtures has only a minor effect on the ammonia loss rate.

  13. Multilocus Bayesian Estimates of Intra-Oceanic Genetic Differentiation, Connectivity, and Admixture in Atlantic Swordfish (Xiphias gladius L.)

    PubMed Central

    Smith, Brad L.; Lu, Ching-Ping; García-Cortés, Blanca; Viñas, Jordi; Yeh, Shean-Ya; Alvarado Bremer, Jaime R.

    2015-01-01

    Previous genetic studies of Atlantic swordfish (Xiphias gladius L.) revealed significant differentiation among Mediterranean, North Atlantic and South Atlantic populations using both mitochondrial and nuclear DNA data. However, limitations in geographic sampling coverage, and the use of single loci, precluded an accurate placement of boundaries and of estimates of admixture. In this study, we present multilocus analyses of 26 single nucleotide polymorphisms (SNPs) within 10 nuclear genes to estimate population differentiation and admixture based on the characterization of 774 individuals representing North Atlantic, South Atlantic, and Mediterranean swordfish populations. Pairwise FST values, AMOVA, PCoA, and Bayesian individual assignments support the differentiation of swordfish inhabiting these three basins, but not the current placement of the boundaries that separate them. Specifically, the range of the South Atlantic population extends beyond 5°N management boundary to 20°N-25°N from 45°W. Likewise the Mediterranean population extends beyond the current management boundary at the Strait of Gibraltar to approximately 10°W. Further, admixture zones, characterized by asymmetric contributions of adjacent populations within samples, are confined to the Northeast Atlantic. While South Atlantic and Mediterranean migrants were identified within these Northeast Atlantic admixture zones no North Atlantic migrants were identified respectively in these two neighboring basins. Owing to both, the characterization of larger number of loci and a more ample spatial sampling coverage, it was possible to provide a finer resolution of the boundaries separating Atlantic swordfish populations than previous studies. Finally, the patterns of population structure and admixture are discussed in the light of the reproductive biology, the known patterns of dispersal, and oceanographic features that may act as barriers to gene flow to Atlantic swordfish. PMID:26057382

  14. Multilocus Bayesian Estimates of Intra-Oceanic Genetic Differentiation, Connectivity, and Admixture in Atlantic Swordfish (Xiphias gladius L.).

    PubMed

    Smith, Brad L; Lu, Ching-Ping; García-Cortés, Blanca; Viñas, Jordi; Yeh, Shean-Ya; Alvarado Bremer, Jaime R

    2015-01-01

    Previous genetic studies of Atlantic swordfish (Xiphias gladius L.) revealed significant differentiation among Mediterranean, North Atlantic and South Atlantic populations using both mitochondrial and nuclear DNA data. However, limitations in geographic sampling coverage, and the use of single loci, precluded an accurate placement of boundaries and of estimates of admixture. In this study, we present multilocus analyses of 26 single nucleotide polymorphisms (SNPs) within 10 nuclear genes to estimate population differentiation and admixture based on the characterization of 774 individuals representing North Atlantic, South Atlantic, and Mediterranean swordfish populations. Pairwise FST values, AMOVA, PCoA, and Bayesian individual assignments support the differentiation of swordfish inhabiting these three basins, but not the current placement of the boundaries that separate them. Specifically, the range of the South Atlantic population extends beyond 5°N management boundary to 20°N-25°N from 45°W. Likewise the Mediterranean population extends beyond the current management boundary at the Strait of Gibraltar to approximately 10°W. Further, admixture zones, characterized by asymmetric contributions of adjacent populations within samples, are confined to the Northeast Atlantic. While South Atlantic and Mediterranean migrants were identified within these Northeast Atlantic admixture zones no North Atlantic migrants were identified respectively in these two neighboring basins. Owing to both, the characterization of larger number of loci and a more ample spatial sampling coverage, it was possible to provide a finer resolution of the boundaries separating Atlantic swordfish populations than previous studies. Finally, the patterns of population structure and admixture are discussed in the light of the reproductive biology, the known patterns of dispersal, and oceanographic features that may act as barriers to gene flow to Atlantic swordfish.

  15. A study of mapping exogenous knowledge representations into CONFIG

    NASA Technical Reports Server (NTRS)

    Mayfield, Blayne E.

    1992-01-01

    Qualitative reasoning is reasoning with a small set of qualitative values that is an abstraction of a larger and perhaps infinite set of quantitative values. The use of qualitative and quantitative reasoning together holds great promise for performance improvement in applications that suffer from large and/or imprecise knowledge domains. Included among these applications are the modeling, simulation, analysis, and fault diagnosis of physical systems. Several research groups continue to discover and experiment with new qualitative representations and reasoning techniques. However, due to the diversity of these techniques, it is difficult for the programs produced to exchange system models easily. The availability of mappings to transform knowledge from the form used by one of these programs to that used by another would open the doors for comparative analysis of these programs in areas such as completeness, correctness, and performance. A group at the Johnson Space Center (JSC) is working to develop CONFIG, a prototype qualitative modeling, simulation, and analysis tool for fault diagnosis applications in the U.S. space program. The availability of knowledge mappings from the programs produced by other research groups to CONFIG may provide savings in CONFIG's development costs and time, and may improve CONFIG's performance. The study of such mappings is the purpose of the research described in this paper. Two other research groups that have worked with the JSC group in the past are the Northwest University Group and the University of Texas at Austin Group. The former has produced a qualitative reasoning tool named SIMGEN, and the latter has produced one named QSIM. Another program produced by the Austin group is CC, a preprocessor that permits users to develop input for eventual use by QSIM, but in a more natural format. CONFIG and CC are both based on a component-connection ontology, so a mapping from CC's knowledge representation to CONFIG's knowledge

  16. A Study on the Use of Computerized Concept Mapping to Assist ESL Learners' Writing

    ERIC Educational Resources Information Center

    Liu, Pei-Lin

    2011-01-01

    This study aims to examine the effect of using computerized concept maps during the pre-writing phase on learners' writing performance. The research questions were: (1) What are the impacts of different computerized concept mapping treatments (no-mapping, individual-mapping, and cooperative-mapping) on writing performance for learners of different…

  17. Use of Technology-Assisted Techniques of Mind Mapping and Concept Mapping in Science Education: A Constructivist Study

    ERIC Educational Resources Information Center

    Balim, Ali Günay

    2013-01-01

    The study aims to investigate the effects of using mind maps and concept maps on students' learning of concepts in science courses. A total of 51 students participated in this study which used a quasi-experimental research design with pre-test/post-test control groups. The constructivist-inspired study was carried out in the sixth-grade…

  18. Extensive Admixture and Selective Pressure Across the Sahel Belt.

    PubMed

    Triska, Petr; Soares, Pedro; Patin, Etienne; Fernandes, Veronica; Cerny, Viktor; Pereira, Luisa

    2015-11-26

    Genome-wide studies of African populations have the potential to reveal powerful insights into the evolution of our species, as these diverse populations have been exposed to intense selective pressures imposed by infectious diseases, diet, and environmental factors. Within Africa, the Sahel Belt extensively overlaps the geographical center of several endemic infections such as malaria, trypanosomiasis, meningitis, and hemorrhagic fevers. We screened 2.5 million single nucleotide polymorphisms in 161 individuals from 13 Sahelian populations, which together with published data cover Western, Central, and Eastern Sahel, and include both nomadic and sedentary groups. We confirmed the role of this Belt as a main corridor for human migrations across the continent. Strong admixture was observed in both Central and Eastern Sahelian populations, with North Africans and Near Eastern/Arabians, respectively, but it was inexistent in Western Sahelian populations. Genome-wide local ancestry inference in admixed Sahelian populations revealed several candidate regions that were significantly enriched for non-autochthonous haplotypes, and many showed to be under positive selection. The DARC gene region in Arabs and Nubians was enriched for African ancestry, whereas the RAB3GAP1/LCT/MCM6 region in Oromo, the TAS2R gene family in Fulani, and the ALMS1/NAT8 in Turkana and Samburu were enriched for non-African ancestry. Signals of positive selection varied in terms of geographic amplitude. Some genomic regions were selected across the Belt, the most striking example being the malaria-related DARC gene. Others were Western-specific (oxytocin, calcium, and heart pathways), Eastern-specific (lipid pathways), or even population-restricted (TAS2R genes in Fulani, which may reflect sexual selection).

  19. Extensive Admixture and Selective Pressure Across the Sahel Belt

    PubMed Central

    Triska, Petr; Soares, Pedro; Patin, Etienne; Fernandes, Veronica; Cerny, Viktor; Pereira, Luisa

    2015-01-01

    Genome-wide studies of African populations have the potential to reveal powerful insights into the evolution of our species, as these diverse populations have been exposed to intense selective pressures imposed by infectious diseases, diet, and environmental factors. Within Africa, the Sahel Belt extensively overlaps the geographical center of several endemic infections such as malaria, trypanosomiasis, meningitis, and hemorrhagic fevers. We screened 2.5 million single nucleotide polymorphisms in 161 individuals from 13 Sahelian populations, which together with published data cover Western, Central, and Eastern Sahel, and include both nomadic and sedentary groups. We confirmed the role of this Belt as a main corridor for human migrations across the continent. Strong admixture was observed in both Central and Eastern Sahelian populations, with North Africans and Near Eastern/Arabians, respectively, but it was inexistent in Western Sahelian populations. Genome-wide local ancestry inference in admixed Sahelian populations revealed several candidate regions that were significantly enriched for non-autochthonous haplotypes, and many showed to be under positive selection. The DARC gene region in Arabs and Nubians was enriched for African ancestry, whereas the RAB3GAP1/LCT/MCM6 region in Oromo, the TAS2R gene family in Fulani, and the ALMS1/NAT8 in Turkana and Samburu were enriched for non-African ancestry. Signals of positive selection varied in terms of geographic amplitude. Some genomic regions were selected across the Belt, the most striking example being the malaria-related DARC gene. Others were Western-specific (oxytocin, calcium, and heart pathways), Eastern-specific (lipid pathways), or even population-restricted (TAS2R genes in Fulani, which may reflect sexual selection). PMID:26614524

  20. GIS-study and new Geomorphologic Mapping of Phobos

    NASA Astrophysics Data System (ADS)

    Kokhanov, Alexander; Lorenz, Cyrill; Karachevtseva, Irina

    2016-04-01

    Using raw images and processed orthoimages, obtained from "Mars Express", we have created a new GIS-catalog of grooves. During analysis, new grooves, not identified in earlier mapping attempts, were detected. For craters study the previously created catalog of craters with D >200 m [1] was used. The spatial orientation of individual grooves was estimated, which allows us to group them into several sets. All grooves in the catalog were divided into three morphological types: gutters (simple line depressions), chains of contiguous funnels, chains of noncontigual funnels. Studying craters we paid attention to its inner and outer morphology. The shape of some craters is different from the isometric. Among them were identified elliptical and polygonal craters. The study of inner morphology showed, that there prevails simple bowl-shaped craters. Also we identified a small population of craters with complex internal morphology [2], which, by analogy with similar lunar craters [3], divided into flat-bottomed, with a central mound and concentric craters. Moreover, based on elevation data, obtained from global digital elevation model [4] and calculation of relative depth, craters with D >2 km by the stage of degradation were classified. Focusing on a combination of grooves and craters, we have identified 15 morphological regions. A morphological unit was defined as a region with a certain type of relief, which differs from surrounding areas by the presence, orientation and spatial relations of groove systems and large craters (over 200 m). Each region may have its own geological history and consequently, specific history of regolith exposure. Finally, two geomorphologic maps of Phobos were created. One map represents the spatial distributions of grooves including their classifications by morphological types. The identified morphological regions are shown, and relief characteristics of these regions are briefly described. Geomorphologic map of craters shows the spatial

  1. Ancestry inference in complex admixtures via variable-length Markov chain linkage models.

    PubMed

    Rodriguez, Jesse M; Bercovici, Sivan; Elmore, Megan; Batzoglou, Serafim

    2013-03-01

    Inferring the ancestral origin of chromosomal segments in admixed individuals is key for genetic applications, ranging from analyzing population demographics and history, to mapping disease genes. Previous methods addressed ancestry inference by using either weak models of linkage disequilibrium, or large models that make explicit use of ancestral haplotypes. In this paper we introduce ALLOY, an efficient method that incorporates generalized, but highly expressive, linkage disequilibrium models. ALLOY applies a factorial hidden Markov model to capture the parallel process producing the maternal and paternal admixed haplotypes, and models the background linkage disequilibrium in the ancestral populations via an inhomogeneous variable-length Markov chain. We test ALLOY in a broad range of scenarios ranging from recent to ancient admixtures with up to four ancestral populations. We show that ALLOY outperforms the previous state of the art, and is robust to uncertainties in model parameters. PMID:23421795

  2. a Study of Sasin-Animal Sky Map on Chonmunryucho

    NASA Astrophysics Data System (ADS)

    Yang, Hong-Jin; Park, Myeong-Gu

    2003-03-01

    Chon-Mun-Ryu-Cho, written (edited) by Lee Sun-Ji during the period of King Se-Jong, is a representative astronomy book of Cho-Sun (A.D. 1392 -1910) Dynasty. We find and study in the first page of the book; the description of 28 oriental constellations as a Sasin (four mythical oriental animals)-animal sky map which is not widely known yet. The map consists of four groups of constellations, each of which represents the Sasin: Chang-Ryong (dragon), Baek-Ho (tigers with Ki-Rin [Oriental giraffe]), Ju-Jak (Chinese phoenix), Hyun-Mu (a tortoise interwined with a snake). Each group (animals) spans 2˜7 of 28 oriental constellations As we know from the illustration of the Chon-Sang-Yol-Cha-Bun-Ya-Ji-Do a representative sky map of Cho-Sun Dynasty, astronomy in Cho-Sun Dynasty is closely related to that in Go-Gu-Ryer (B.C. 37 -A.D. 668) Dynasty. Since these Sasin-animals appear in most mural paintings of Go-Gu-Ryer tombs, visualization of sky with these animal constellations could have been established as early as in Go-Gu-Ryer Dynasty. We also reconstruct this ''A Sasin-animal Korean sky map'' based on the shapes of the Sasin and Ki-Rin from Go-Gu-Ryer paintings and 28 oriental constellations in Chon-Sang-Yol-Cha-Bun-Ya-Ji-Do.

  3. Fracture mapping for radionuclide migration studies in the Climax granite

    SciTech Connect

    Thorpe, R.; Springer, J.

    1981-05-01

    As part of LLNL's program on radionuclide migration through fractured rock, major geologic discontinuities have been mapped and characterized at the 420 m level in the Climax Stock, adjacent to LLNL's Spent Fuel Test. Persistence or continuity of features was the principal sampling criterion, and ninety major fractures and faults were mapped in the main access and tail drifts. Although the purpose and nature of this study was different from previous fracture surveys in the Climax Stock, the results are generally consistent in that three predominant fracture sets are identified: NW strike/vertical, NE strike/vertical, NW strike/subhorizontal. The frequency of major features in the main access drift is somewhat higher than in the tail drift. Those mapped in the main access drift are generally braided, stepped, or en echelon, while those in the tail drift appear to be more distinct and planar. Several of the fractures in the tail drift lie in the NE/vertical set, while most form an entirely different set oriented N5E/55NW. Subhorizontal fractures were common to both drifts. An area of seepage associated with some of these low-angle features was mapped in the main access drift.

  4. The phenotypic legacy of admixture between modern humans and Neanderthals

    PubMed Central

    Simonti, Corinne N.; Vernot, Benjamin; Bastarache, Lisa; Bottinger, Erwin; Carrell, David S.; Chisholm, Rex L.; Crosslin, David R.; Hebbring, Scott J.; Jarvik, Gail P.; Kullo, Iftikhar J.; Li, Rongling; Pathak, Jyotishman; Ritchie, Marylyn D.; Roden, Dan M.; Verma, Shefali S.; Tromp, Gerard; Prato, Jeffrey D.; Bush, William S.; Akey, Joshua M.; Denny, Joshua C.; Capra, John A.

    2016-01-01

    Many modern human genomes retain DNA inherited from interbreeding with archaic hominins, such as Neanderthals, yet the influence of this admixture on human traits is largely unknown. We analyzed the contribution of common Neanderthal variants to over 1,000 electronic health record (EHR)-derived phenotypes in ~28,000 adults of European ancestry. We discovered and replicated associations of Neanderthal alleles with neurological, psychiatric, immunological, and dermatological phenotypes. Neanderthal alleles together explain a significant fraction of the variation in risk for depression and skin lesions resulting from sun exposure (actinic keratosis), and individual Neanderthal alleles are significantly associated with specific human phenotypes, including hypercoagulation and tobacco use. Our results establish that archaic admixture influences disease risk in modern humans, provide hypotheses about the effects of hundreds of Neanderthal haplotypes and demonstrate the utility of EHR data in evolutionary analyses. PMID:26912863

  5. The phenotypic legacy of admixture between modern humans and Neandertals.

    PubMed

    Simonti, Corinne N; Vernot, Benjamin; Bastarache, Lisa; Bottinger, Erwin; Carrell, David S; Chisholm, Rex L; Crosslin, David R; Hebbring, Scott J; Jarvik, Gail P; Kullo, Iftikhar J; Li, Rongling; Pathak, Jyotishman; Ritchie, Marylyn D; Roden, Dan M; Verma, Shefali S; Tromp, Gerard; Prato, Jeffrey D; Bush, William S; Akey, Joshua M; Denny, Joshua C; Capra, John A

    2016-02-12

    Many modern human genomes retain DNA inherited from interbreeding with archaic hominins, such as Neandertals, yet the influence of this admixture on human traits is largely unknown. We analyzed the contribution of common Neandertal variants to over 1000 electronic health record (EHR)-derived phenotypes in ~28,000 adults of European ancestry. We discovered and replicated associations of Neandertal alleles with neurological, psychiatric, immunological, and dermatological phenotypes. Neandertal alleles together explained a significant fraction of the variation in risk for depression and skin lesions resulting from sun exposure (actinic keratosis), and individual Neandertal alleles were significantly associated with specific human phenotypes, including hypercoagulation and tobacco use. Our results establish that archaic admixture influences disease risk in modern humans, provide hypotheses about the effects of hundreds of Neandertal haplotypes, and demonstrate the utility of EHR data in evolutionary analyses. PMID:26912863

  6. Characterizing human retinotopic mapping with conformal geometry: a preliminary study

    NASA Astrophysics Data System (ADS)

    Ta, Duyan; Shi, Jie; Barton, Brian; Brewer, Alyssa; Lu, Zhong-Lin; Wang, Yalin

    2014-03-01

    Functional magnetic resonance imaging (fMRI) has been widely used to measure the retinotopic organization of early visual cortex in the human brain. Previous studies have identified multiple visual field maps (VFMs) based on statistical analysis of fMRI signals, but the resulting geometry has not been fully characterized with mathematical models. Here we test whether VFMs V1 and V2 obey the least restrictive of all geometric mappings; that is, whether they are anglepreserving and therefore maintain conformal mapping. We measured retinotopic organization in individual subjects using standard traveling-wave fMRI methods. Visual stimuli consisted of black and white, drifting checkerboards comprising rotating wedges and expanding rings to measure the cortical representations of polar angle and eccentricity, respectively. These representations were then projected onto a 3D cortical mesh of each hemisphere. By generating a mapped unit disk that is conformal of the VFMs using spherical stereographic projection and computing the parameterized coordinates of the eccentricity and polar angle gradients, we computed Beltrami coefficients to check whether the mapping from the visual field to the V1 and V2 cortical representations is conformal. We find that V1 and V2 exhibit local conformality. Our analysis of the Beltrami coefficient shows that selected regions of V1 and V2 that contain reasonably smooth eccentricity and polar angle gradients do show significant local conformality, warranting further investigation of this approach for analysis of early and higher visual cortex. These results suggest that such a mathematical model can be used to characterize the early VFMs in human visual cortex.

  7. Mapping tissue chromophore changes in cerebral ischemia: a pilot study

    NASA Astrophysics Data System (ADS)

    Abookasis, David; Mathews, Marlon S.; Lay, Christopher; Cuccia, David J.; Frostig, Ron D.; Linskey, Mark E.; Tromberg, Bruce J.

    2007-02-01

    We describe the projection of spatially modulated light for quantitatively mapping changes in oxyhemoglobin, deoxyhemoglobin, and oxygen saturation in two pilot studies in the rat barrel cortex during both permanent and temporary cerebral ischemia. The approach is based on the projection of spatial modulation of white light onto the brain. The reflected light is captured on a CCD camera, which is then processed to obtain the concentration and distribution of chromophores over a wide field. Preliminary results confirm a measurable and quantifiable increase in tissue molecular concentration of deoxy-hemoglobin and decrease in hemoglobin oxygen concentration in both experimental settings. Our preliminary data from our pilot studies demonstrate that spatial modulation of light can provide quantitative chromophore mapping of the brain and has a potential role in monitoring the course and severity of cerebral ischemia in cerebrovascular disease patients.

  8. Complex history of admixture between modern humans and Neandertals.

    PubMed

    Vernot, Benjamin; Akey, Joshua M

    2015-03-01

    Recent analyses have found that a substantial amount of the Neandertal genome persists in the genomes of contemporary non-African individuals. East Asians have, on average, higher levels of Neandertal ancestry than do Europeans, which might be due to differences in the efficiency of purifying selection, an additional pulse of introgression into East Asians, or other unexplored scenarios. To better define the scope of plausible models of archaic admixture between Neandertals and anatomically modern humans, we analyzed patterns of introgressed sequence in whole-genome data of 379 Europeans and 286 East Asians. We found that inferences of demographic history restricted to neutrally evolving genomic regions allowed a simple one-pulse model to be robustly rejected, suggesting that differences in selection cannot explain the differences in Neandertal ancestry. We show that two additional demographic models, involving either a second pulse of Neandertal gene flow into the ancestors of East Asians or a dilution of Neandertal lineages in Europeans by admixture with an unknown ancestral population, are consistent with the data. Thus, the history of admixture between modern humans and Neandertals is most likely more complex than previously thought.

  9. Genetic admixture and obesity: recent perspectives and future applications

    PubMed Central

    Fernández, José R.; Pearson, Keith E.; Kell, Kenneth P.; Brown, Michelle M. Bohan

    2013-01-01

    The process of the colonization of the New World that occurred centuries ago served as a natural experiment, creating unique combinations of genetic material in newly formed admixed populations. The identification and genotyping of ancestry informative markers (AIMs) have allowed for the estimation of proportions of ancestral parental populations among individuals in a sample through the genetic admixture approach. These admixture estimates have been used in different ways to understand the genetic contributions to individual variation in obesity and body composition parameters, particularly among diverse admixed groups known to differ in obesity prevalence within the United States. Although progress has been made through the use of genetic admixture approaches, future investigations are needed in order to explore the interaction of environmental factors with the degree of genetic ancestry in individuals. A challenge to confront at this time would be to further stratify and define environments in progressively more granular terms, including nutrients, muscle biology, stress responses at the cellular level, and the social and built environments. PMID:24081225

  10. Complex history of admixture between modern humans and Neandertals.

    PubMed

    Vernot, Benjamin; Akey, Joshua M

    2015-03-01

    Recent analyses have found that a substantial amount of the Neandertal genome persists in the genomes of contemporary non-African individuals. East Asians have, on average, higher levels of Neandertal ancestry than do Europeans, which might be due to differences in the efficiency of purifying selection, an additional pulse of introgression into East Asians, or other unexplored scenarios. To better define the scope of plausible models of archaic admixture between Neandertals and anatomically modern humans, we analyzed patterns of introgressed sequence in whole-genome data of 379 Europeans and 286 East Asians. We found that inferences of demographic history restricted to neutrally evolving genomic regions allowed a simple one-pulse model to be robustly rejected, suggesting that differences in selection cannot explain the differences in Neandertal ancestry. We show that two additional demographic models, involving either a second pulse of Neandertal gene flow into the ancestors of East Asians or a dilution of Neandertal lineages in Europeans by admixture with an unknown ancestral population, are consistent with the data. Thus, the history of admixture between modern humans and Neandertals is most likely more complex than previously thought. PMID:25683119

  11. Genome-wide detection of natural selection in African Americans pre- and post-admixture

    PubMed Central

    Jin, Wenfei; Xu, Shuhua; Wang, Haifeng; Yu, Yongguo; Shen, Yiping; Wu, Bailin; Jin, Li

    2012-01-01

    It is particularly meaningful to investigate natural selection in African Americans (AfA) due to the high mortality their African ancestry has experienced in history. In this study, we examined 491,526 autosomal single nucleotide polymorphisms (SNPs) genotyped in 5210 individuals and conducted a genome-wide search for selection signals in 1890 AfA. Several genomic regions showing an excess of African or European ancestry, which were considered the footprints of selection since population admixture, were detected based on a commonly used approach. However, we also developed a new strategy to detect natural selection both pre- and post-admixture by reconstructing an ancestral African population (AAF) from inferred African components of ancestry in AfA and comparing it with indigenous African populations (IAF). Interestingly, many selection-candidate genes identified by the new approach were associated with AfA-specific high-risk diseases such as prostate cancer and hypertension, suggesting an important role these disease-related genes might have played in adapting to a new environment. CD36 and HBB, whose mutations confer a degree of protection against malaria, were also located in the highly differentiated regions between AAF and IAF. Further analysis showed that the frequencies of alleles protecting against malaria in AAF were lower than those in IAF, which is consistent with the relaxed selection pressure of malaria in the New World. There is no overlap between the top candidate genes detected by the two approaches, indicating the different environmental pressures AfA experienced pre- and post-population admixture. We suggest that the new approach is reasonably powerful and can also be applied to other admixed populations such as Latinos and Uyghurs. PMID:22128132

  12. Genome-wide detection of natural selection in African Americans pre- and post-admixture.

    PubMed

    Jin, Wenfei; Xu, Shuhua; Wang, Haifeng; Yu, Yongguo; Shen, Yiping; Wu, Bailin; Jin, Li

    2012-03-01

    It is particularly meaningful to investigate natural selection in African Americans (AfA) due to the high mortality their African ancestry has experienced in history. In this study, we examined 491,526 autosomal single nucleotide polymorphisms (SNPs) genotyped in 5210 individuals and conducted a genome-wide search for selection signals in 1890 AfA. Several genomic regions showing an excess of African or European ancestry, which were considered the footprints of selection since population admixture, were detected based on a commonly used approach. However, we also developed a new strategy to detect natural selection both pre- and post-admixture by reconstructing an ancestral African population (AAF) from inferred African components of ancestry in AfA and comparing it with indigenous African populations (IAF). Interestingly, many selection-candidate genes identified by the new approach were associated with AfA-specific high-risk diseases such as prostate cancer and hypertension, suggesting an important role these disease-related genes might have played in adapting to a new environment. CD36 and HBB, whose mutations confer a degree of protection against malaria, were also located in the highly differentiated regions between AAF and IAF. Further analysis showed that the frequencies of alleles protecting against malaria in AAF were lower than those in IAF, which is consistent with the relaxed selection pressure of malaria in the New World. There is no overlap between the top candidate genes detected by the two approaches, indicating the different environmental pressures AfA experienced pre- and post-population admixture. We suggest that the new approach is reasonably powerful and can also be applied to other admixed populations such as Latinos and Uyghurs.

  13. Study of smartphone suitability for mapping of skin chromophores

    NASA Astrophysics Data System (ADS)

    Kuzmina, Ilona; Lacis, Matiss; Spigulis, Janis; Berzina, Anna; Valeine, Lauma

    2015-09-01

    RGB (red-green-blue) technique for mapping skin chromophores by smartphones is proposed and studied. Three smartphones of different manufacturers were tested on skin phantoms and in vivo on benign skin lesions using a specially designed light source for illumination. Hemoglobin and melanin indices obtained by these smartphones showed differences in both tests. In vitro tests showed an increment of hemoglobin and melanin indices with the concentration of chromophores in phantoms. In vivo tests indicated higher hemoglobin index in hemangiomas than in nevi and healthy skin, and nevi showed higher melanin index compared to the healthy skin. Smartphones that allow switching off the automatic camera settings provided useful data, while those with "embedded" automatic settings appear to be useless for distant skin chromophore mapping.

  14. Mapping the informal science education landscape: An exploratory study.

    PubMed

    Falk, John H; Randol, Scott; Dierking, Lynn D

    2012-10-01

    This study investigated the informal science education (ISE) field to determine whether it currently functions as an effective community of practice. Research questions included: How do professionals describe and self-identify their practice, including what missions, goals and motivating factors influence their professional work? What challenges do they face and how are these resolved? Is participation in ISE activities perceived as core or peripheral to their work? Open-ended interviews were conducted with high-level representatives of 17 different ISE sub-communities; results were analyzed qualitatively. Findings showed this broad assortment of ISE sub-communities as not currently functioning as a cohesive community of practice. Although examples of shared practice and ways of talking were found, evidence of widespread, active relationship-building over time and coalescence around issues of common concern were absent. A current "map" of the ISE community is proposed and thoughts about how this map could alter in the future are suggested.

  15. Isolation with differentiation followed by expansion with admixture in the tunicate Pyura chilensis

    PubMed Central

    2013-01-01

    Background Pyura chilensis, a tunicate commercially exploited as food resource in Chile, is subject to management strategies, including restocking. The goal of this study was to examine the genetic structure of P. chilensis using information from a mitochondrial gene (Cytochrome Oxidase I, COI) and a nuclear gene (Elongation 1 alpha, EF1a), to characterize the geographic distribution of genetic diversity and differentiation, and to identify the main processes that have shaped it. We analyzed 268 and 208 sequences of COI and EF1a, respectively, from samples of eight local populations covering ca. 1800 km. Results For Pyura chilensis, partial sequences of the gene COI revealed three highly supported haplogroups that diverged 260000 to 470000 years ago. Two haplogroups currently are widely distributed and sympatric, while one is dominant only in Los Molinos (LM, 39°50′S). The two widespread COI haplogroups underwent a geographic expansion during an interglacial period of the Late Pleistocene ca. 100000 years ago. The nuclear gene was less divergent and did not resolve the COI haplogroups. Bayesian clustering of the nuclear gene’s SNPs revealed that individuals from the two widespread COI haplogroups were mostly assigned to two of the three detected clusters and had a marked degree of admixture. The third cluster predominated in LM and showed low admixture. Haplotypic diversity of both genes was very high, there was no isolation by distance, and most localities were genetically undifferentiated; only LM was consistently differentiated with both genes analyzed. Conclusions Pyura chilensis has less genetic structure than expected given its life history, which could be a consequence of dispersal on ship hulls. The only differentiated local population analyzed was LM. Coincidentally, it is the one furthest away from main maritime routes along the coast of Chile. The use of mitochondrial and nuclear markers allowed detection of divergent mitochondrial haplogroups in

  16. Open source projects in software engineering education: a mapping study

    NASA Astrophysics Data System (ADS)

    Nascimento, Debora M. C.; Almeida Bittencourt, Roberto; Chavez, Christina

    2015-01-01

    Context: It is common practice in academia to have students work with "toy" projects in software engineering (SE) courses. One way to make such courses more realistic and reduce the gap between academic courses and industry needs is getting students involved in open source projects (OSP) with faculty supervision. Objective: This study aims to summarize the literature on how OSP have been used to facilitate students' learning of SE. Method: A systematic mapping study was undertaken by identifying, filtering and classifying primary studies using a predefined strategy. Results: 72 papers were selected and classified. The main results were: (a) most studies focused on comprehensive SE courses, although some dealt with specific areas; (b) the most prevalent approach was the traditional project method; (c) studies' general goals were: learning SE concepts and principles by using OSP, learning open source software or both; (d) most studies tried out ideas in regular courses within the curriculum; (e) in general, students had to work with predefined projects; (f) there was a balance between approaches where instructors had either inside control or no control on the activities performed by students; (g) when learning was assessed, software artefacts, reports and presentations were the main instruments used by teachers, while surveys were widely used for students' self-assessment; (h) most studies were published in the last seven years. Conclusions: The resulting map gives an overview of the existing initiatives in this context and shows gaps where further research can be pursued.

  17. Genetic admixture and lineage separation in a southern Andean plant.

    PubMed

    Morello, Santiago; Sede, Silvana M

    2016-01-01

    Mountain uplifts have generated new ecologic opportunities for plants, and triggered evolutionary processes, favouring an increase on the speciation rate in all continents. Moreover, mountain ranges may act as corridors or barriers for plant lineages and populations. In South America a high rate of diversification has been linked to Andean orogeny during Pliocene/Miocene. More recently, Pleistocene glacial cycles have also shaped species distribution and demography. The endemic genus Escallonia is known to have diversified in the Andes. Species with similar morphology obscure species delimitation and plants with intermediate characters occur naturally. The aim of this study is to characterize genetic variation and structure of two widespread species of Escallonia: E. alpina and E. rubra We analyzed the genetic variation of populations of the entire distribution range of the species and we also included those with intermediate morphological characters; a total of 94 accessions from 14 populations were used for the Amplified Fragment Length Polymorphism (AFLP) analysis. Plastid DNA sequences (trnS-trnG, 3'trnV-ndhC intergenic spacers and the ndhF gene) from sixteen accessions of Escallonia species were used to construct a Statistical Parsimony network. Additionally, we performed a geometric morphometrics analysis on 88 leaves from 35 individuals of the two E. alpina varieties to further study their differences. Wright's Fst and analysis of molecular variance tests performed on AFLP data showed a significant level of genetic structure at the species and population levels. Intermediate morphology populations showed a mixed genetic contribution from E. alpina var. alpina and E. rubra both in the Principal Coordinates Analysis (PCoA) and STRUCTURE. On the other hand, E. rubra and the two varieties of E. alpina are well differentiated and assigned to different genetic clusters. Moreover, the Statistical Parsimony network showed a high degree of divergence between the

  18. Genetic admixture and lineage separation in a southern Andean plant

    PubMed Central

    Morello, Santiago; Sede, Silvana M.

    2016-01-01

    Mountain uplifts have generated new ecologic opportunities for plants, and triggered evolutionary processes, favouring an increase on the speciation rate in all continents. Moreover, mountain ranges may act as corridors or barriers for plant lineages and populations. In South America a high rate of diversification has been linked to Andean orogeny during Pliocene/Miocene. More recently, Pleistocene glacial cycles have also shaped species distribution and demography. The endemic genus Escallonia is known to have diversified in the Andes. Species with similar morphology obscure species delimitation and plants with intermediate characters occur naturally. The aim of this study is to characterize genetic variation and structure of two widespread species of Escallonia: E. alpina and E. rubra. We analyzed the genetic variation of populations of the entire distribution range of the species and we also included those with intermediate morphological characters; a total of 94 accessions from 14 populations were used for the Amplified Fragment Length Polymorphism (AFLP) analysis. Plastid DNA sequences (trnS-trnG, 3′trnV-ndhC intergenic spacers and the ndhF gene) from sixteen accessions of Escallonia species were used to construct a Statistical Parsimony network. Additionally, we performed a geometric morphometrics analysis on 88 leaves from 35 individuals of the two E. alpina varieties to further study their differences. Wright’s Fst and analysis of molecular variance tests performed on AFLP data showed a significant level of genetic structure at the species and population levels. Intermediate morphology populations showed a mixed genetic contribution from E. alpina var. alpina and E. rubra both in the Principal Coordinates Analysis (PCoA) and STRUCTURE. On the other hand, E. rubra and the two varieties of E. alpina are well differentiated and assigned to different genetic clusters. Moreover, the Statistical Parsimony network showed a high degree of divergence between the

  19. Genetic admixture and lineage separation in a southern Andean plant.

    PubMed

    Morello, Santiago; Sede, Silvana M

    2016-01-01

    Mountain uplifts have generated new ecologic opportunities for plants, and triggered evolutionary processes, favouring an increase on the speciation rate in all continents. Moreover, mountain ranges may act as corridors or barriers for plant lineages and populations. In South America a high rate of diversification has been linked to Andean orogeny during Pliocene/Miocene. More recently, Pleistocene glacial cycles have also shaped species distribution and demography. The endemic genus Escallonia is known to have diversified in the Andes. Species with similar morphology obscure species delimitation and plants with intermediate characters occur naturally. The aim of this study is to characterize genetic variation and structure of two widespread species of Escallonia: E. alpina and E. rubra We analyzed the genetic variation of populations of the entire distribution range of the species and we also included those with intermediate morphological characters; a total of 94 accessions from 14 populations were used for the Amplified Fragment Length Polymorphism (AFLP) analysis. Plastid DNA sequences (trnS-trnG, 3'trnV-ndhC intergenic spacers and the ndhF gene) from sixteen accessions of Escallonia species were used to construct a Statistical Parsimony network. Additionally, we performed a geometric morphometrics analysis on 88 leaves from 35 individuals of the two E. alpina varieties to further study their differences. Wright's Fst and analysis of molecular variance tests performed on AFLP data showed a significant level of genetic structure at the species and population levels. Intermediate morphology populations showed a mixed genetic contribution from E. alpina var. alpina and E. rubra both in the Principal Coordinates Analysis (PCoA) and STRUCTURE. On the other hand, E. rubra and the two varieties of E. alpina are well differentiated and assigned to different genetic clusters. Moreover, the Statistical Parsimony network showed a high degree of divergence between the

  20. 3D Regression Heat Map Analysis of Population Study Data.

    PubMed

    Klemm, Paul; Lawonn, Kai; Glaßer, Sylvia; Niemann, Uli; Hegenscheid, Katrin; Völzke, Henry; Preim, Bernhard

    2016-01-01

    Epidemiological studies comprise heterogeneous data about a subject group to define disease-specific risk factors. These data contain information (features) about a subject's lifestyle, medical status as well as medical image data. Statistical regression analysis is used to evaluate these features and to identify feature combinations indicating a disease (the target feature). We propose an analysis approach of epidemiological data sets by incorporating all features in an exhaustive regression-based analysis. This approach combines all independent features w.r.t. a target feature. It provides a visualization that reveals insights into the data by highlighting relationships. The 3D Regression Heat Map, a novel 3D visual encoding, acts as an overview of the whole data set. It shows all combinations of two to three independent features with a specific target disease. Slicing through the 3D Regression Heat Map allows for the detailed analysis of the underlying relationships. Expert knowledge about disease-specific hypotheses can be included into the analysis by adjusting the regression model formulas. Furthermore, the influences of features can be assessed using a difference view comparing different calculation results. We applied our 3D Regression Heat Map method to a hepatic steatosis data set to reproduce results from a data mining-driven analysis. A qualitative analysis was conducted on a breast density data set. We were able to derive new hypotheses about relations between breast density and breast lesions with breast cancer. With the 3D Regression Heat Map, we present a visual overview of epidemiological data that allows for the first time an interactive regression-based analysis of large feature sets with respect to a disease. PMID:26529689

  1. 3D Regression Heat Map Analysis of Population Study Data.

    PubMed

    Klemm, Paul; Lawonn, Kai; Glaßer, Sylvia; Niemann, Uli; Hegenscheid, Katrin; Völzke, Henry; Preim, Bernhard

    2016-01-01

    Epidemiological studies comprise heterogeneous data about a subject group to define disease-specific risk factors. These data contain information (features) about a subject's lifestyle, medical status as well as medical image data. Statistical regression analysis is used to evaluate these features and to identify feature combinations indicating a disease (the target feature). We propose an analysis approach of epidemiological data sets by incorporating all features in an exhaustive regression-based analysis. This approach combines all independent features w.r.t. a target feature. It provides a visualization that reveals insights into the data by highlighting relationships. The 3D Regression Heat Map, a novel 3D visual encoding, acts as an overview of the whole data set. It shows all combinations of two to three independent features with a specific target disease. Slicing through the 3D Regression Heat Map allows for the detailed analysis of the underlying relationships. Expert knowledge about disease-specific hypotheses can be included into the analysis by adjusting the regression model formulas. Furthermore, the influences of features can be assessed using a difference view comparing different calculation results. We applied our 3D Regression Heat Map method to a hepatic steatosis data set to reproduce results from a data mining-driven analysis. A qualitative analysis was conducted on a breast density data set. We were able to derive new hypotheses about relations between breast density and breast lesions with breast cancer. With the 3D Regression Heat Map, we present a visual overview of epidemiological data that allows for the first time an interactive regression-based analysis of large feature sets with respect to a disease.

  2. Chemical and structural properties of Jordanian zeolitic tuffs and their admixtures with urea and thiourea: Potential scavengers for phenolics in aqueous medium

    SciTech Connect

    Yousef, R.I.; Tutunji, M.F.; Derwish, G.A.W.; Musleh, S.M.

    1999-08-15

    Native Jordanian zeolitic tuffs, rich in phillipsite, were treated with urea and thiourea. The chemical and structural properties of the tuffs and their urea and thiourea admixtures were studied using SEM, XRF, XRD, and FTIR techniques, and their adsorption capacities were estimated by the methylene blue method. The urea and thiourea treatment has not affected the mineral constitution of the tuffs. The results revealed that urea and thiourea were linked by hydrogen bonding through the NH{sub 2} moiety to the zeolite substrate, with urea showing the strongest effect. Experiments were carried out to investigate the possible use of the prepared materials for the removal of phenol and chlorinated phenols from aqueous solutions. Although thiourea caused a reduction in the relative surface area, both urea and thiourea admixtures were more effective than the free zeolitic tuff in the removal of phenol and chlorinated phenols from water, with urea admixture displaying the largest removal capacity.

  3. Experimental evidence for the phenotypic impact of admixture between wild and biocontrol Asian ladybird (Harmonia axyridis) involved in the European invasion.

    PubMed

    Turgeon, J; Tayeh, A; Facon, B; Lombaert, E; De Clercq, P; Berkvens, N; Lundgren, J G; Estoup, A

    2011-05-01

    Hybridization can fuel evolutionary processes during biological invasions. The harlequin ladybird Harmonia axyridis has long been used as a biocontrol agent before the species became invasive worldwide. Previous analysis based on microsatellite data has shown that European invasive populations bear traces of admixture between an eastern North American source, which is at the origin of the worldwide invasion, and biocontrol strains used in Europe. In this study, we tested the hypothesis that this early admixture event may have fostered the European invasion by impacting on the phenotypes of wild European populations. Mean life history traits of experimental F(1) hybrids are compared with pure parental sources and wild European crosses. Our results reveal a biased impact whereby North American beetles benefitted from being admixed with European biocontrol strains. Resemblance between experimental hybrids and wild European invasive crosses further suggests a long-lasting effect of admixture that may still be at work and fostering invasiveness.

  4. Gene diversity and estimation of genetic admixture among Mexican-Americans of Starr County, Texas.

    PubMed

    Cerda-Flores, R M; Kshatriya, G K; Bertin, T K; Hewett-Emmett, D; Hanis, C L; Chakraborty, R

    1992-01-01

    The Mexican-Americans of Starr County, Texas, classified by sex and birthplace, were studied to determine the extent of genetic variation and contributions from ancestral populations such as Spanish, Amerindian and West African. Using 21 genetic marker systems, genetic distance and diversity analyses indicate that subpopulations of Mexican-Americans in Starr County are similar, and that more than 99% of the total gene diversity (HT) can be attributed to individual variation within the population. Genetic admixture analysis shows the predominant influence comes from the Spanish, a lesser contribution from Amerindians and a slight one from the West Africans. The contribution of the ancestral population to various subpopulations of the Mexican-Americans of Starr County is similar. The Mexican-Americans of Starr County are similar to the Mexican population from northeastern Mexico. The history of admixture is apparently old enough to have brought the entire Mexican-American gene pool to Hardy-Weinberg equilibrium. There is no non-random association of alleles among the genetic marker systems considered in the present study, in spite of the fact that this population is of admixed origin. These results, in aggregate, suggest genetic homogeneity of the Mexican-Americans of Starr County, Texas, and point towards the utility of this population for genetic and epidemiological studies. PMID:1616290

  5. History Shaped the Geographic Distribution of Genomic Admixture on the Island of Puerto Rico

    PubMed Central

    Via, Marc; Gignoux, Christopher R.; Roth, Lindsey A.; Fejerman, Laura; Galanter, Joshua; Choudhry, Shweta; Toro-Labrador, Gladys; Viera-Vera, Jorge; Oleksyk, Taras K.; Beckman, Kenneth; Ziv, Elad; Risch, Neil

    2011-01-01

    Contemporary genetic variation among Latin Americans human groups reflects population migrations shaped by complex historical, social and economic factors. Consequently, admixture patterns may vary by geographic regions ranging from countries to neighborhoods. We examined the geographic variation of admixture across the island of Puerto Rico and the degree to which it could be explained by historic and social events. We analyzed a census-based sample of 642 Puerto Rican individuals that were genotyped for 93 ancestry informative markers (AIMs) to estimate African, European and Native American ancestry. Socioeconomic status (SES) data and geographic location were obtained for each individual. There was significant geographic variation of ancestry across the island. In particular, African ancestry demonstrated a decreasing East to West gradient that was partially explained by historical factors linked to the colonial sugar plantation system. SES also demonstrated a parallel decreasing cline from East to West. However, at a local level, SES and African ancestry were negatively correlated. European ancestry was strongly negatively correlated with African ancestry and therefore showed patterns complementary to African ancestry. By contrast, Native American ancestry showed little variation across the island and across individuals and appears to have played little social role historically. The observed geographic distributions of SES and genetic variation relate to historical social events and mating patterns, and have substantial implications for the design of studies in the recently admixed Puerto Rican population. More generally, our results demonstrate the importance of incorporating social and geographic data with genetics when studying contemporary admixed populations. PMID:21304981

  6. Practical handling of AIO admixtures – Guidelines on Parenteral Nutrition, Chapter 10

    PubMed Central

    Mühlebach, S.; Franken, C.; Stanga, Z.

    2009-01-01

    All-in-one admixtures (AIO-admixtures) provide safe, effective and low-risk PN (parenteral nutrition) for practically all indications and applications. Water, energy (carbohydrates and lipids), amino acids, vitamins and trace elements are infused together with PN either as industrially-manufactured AIO admixtures provided as two- or three-chamber bags (shelf life usually more than 12 months) completed with electrolytes and micronutrients where appropriate or as individually compounded ready-to-use AIO admixtures (compounding, usually prepared by a pharmacy on either a daily or weekly basis and stored at 2–8°C). Physico-chemical and microbial stability of an AIO admixture is essential for the safety and effectiveness of patient-specific PN, and its assurance requires specialist pharmaceutical knowledge. The stability should be documented for an application period of 24 (–48) hours. It is advisable to offer a limited selection of different PN regimes in each hospital. For reasons of drug and medication safety, PN admixtures prepared for individual patients must be correctly labelled and specifications for storage conditions must also be followed during transport. Monitoring is required where applicable. Micronutrients are usually administered separately to AIO admixtures. In case compatibility and stability have been well documented trace elements and/or combination preparations including water-soluble or water-soluble/fat soluble vitamin supplements can be added to PN admixtures under strict aseptic conditions. AIO admixtures are usually not used as vehicles for drugs (incompatibilities). PMID:20049073

  7. Differential Evolution approach to detect recent admixture

    PubMed Central

    2015-01-01

    The genetic structure of human populations is extraordinarily complex and of fundamental importance to studies of anthropology, evolution, and medicine. As increasingly many individuals are of mixed origin, there is an unmet need for tools that can infer multiple origins. Misclassification of such individuals can lead to incorrect and costly misinterpretations of genomic data, primarily in disease studies and drug trials. We present an advanced tool to infer ancestry that can identify the biogeographic origins of highly mixed individuals. reAdmix can incorporate individual's knowledge of ancestors (e.g. having some ancestors from Turkey or a Scottish grandmother). reAdmix is an online tool available at http://chcb.saban-chla.usc.edu/reAdmix/. PMID:26111206

  8. Electricity Consumption Risk Map - The use of Urban Climate Mapping for smarter analysis: Case study for Birmingham, UK.

    NASA Astrophysics Data System (ADS)

    Antunes Azevedo, Juliana; Burghardt, René; Chapman, Lee; Katzchner, Lutz; Muller, Catherine L.

    2015-04-01

    Climate is a key driving factor in energy consumption. However, income, vegetation, building mass structure, topography also impact on the amount of energy consumption. In a changing climate, increased temperatures are likely to lead to increased electricity consumption, affecting demand, distribution and generation. Furthermore, as the world population becomes more urbanized, increasing numbers of people will need to deal with not only increased temperatures from climate change, but also from the unintentional modification of the urban climate in the form of urban heat islands. Hence, climate and climate change needs to be taken into account for future urban planning aspects to increase the climate and energy resilience of the community and decrease the future social and economic costs. Geographical Information Systems provide a means to create urban climate maps as part of the urban planning process. Geostatistical analyses linking these maps with demographic and social data, enables a geo-statistical analysis to identify linkages to high-risk groups of the community and vulnerable areas of town and cities. Presently, the climatope classification is oriented towards thermal aspects and the ventilation quality (roughness) of the urban areas but can also be adapted to take into account other structural "environmental factors". This study aims to use the climatope approach to predict areas of potential high electricity consumption in Birmingham, UK. Several datasets were used to produce an average surface temperature map, vegetation map, land use map, topography map, building height map, built-up area roughness calculations, an average air temperature map and a domestic electricity consumption map. From the correlations obtained between the layers it is possible to average the importance of each factor and create a map for domestic electricity consumption to understand the influence of environmental aspects on spatial energy consumption. Based on these results city

  9. Admixture in Latin America: geographic structure, phenotypic diversity and self-perception of ancestry based on 7,342 individuals.

    PubMed

    Ruiz-Linares, Andrés; Adhikari, Kaustubh; Acuña-Alonzo, Victor; Quinto-Sanchez, Mirsha; Jaramillo, Claudia; Arias, William; Fuentes, Macarena; Pizarro, María; Everardo, Paola; de Avila, Francisco; Gómez-Valdés, Jorge; León-Mimila, Paola; Hunemeier, Tábita; Ramallo, Virginia; Silva de Cerqueira, Caio C; Burley, Mari-Wyn; Konca, Esra; de Oliveira, Marcelo Zagonel; Veronez, Mauricio Roberto; Rubio-Codina, Marta; Attanasio, Orazio; Gibbon, Sahra; Ray, Nicolas; Gallo, Carla; Poletti, Giovanni; Rosique, Javier; Schuler-Faccini, Lavinia; Salzano, Francisco M; Bortolini, Maria-Cátira; Canizales-Quinteros, Samuel; Rothhammer, Francisco; Bedoya, Gabriel; Balding, David; Gonzalez-José, Rolando

    2014-09-01

    The current genetic makeup of Latin America has been shaped by a history of extensive admixture between Africans, Europeans and Native Americans, a process taking place within the context of extensive geographic and social stratification. We estimated individual ancestry proportions in a sample of 7,342 subjects ascertained in five countries (Brazil, Chile, Colombia, México and Perú). These individuals were also characterized for a range of physical appearance traits and for self-perception of ancestry. The geographic distribution of admixture proportions in this sample reveals extensive population structure, illustrating the continuing impact of demographic history on the genetic diversity of Latin America. Significant ancestry effects were detected for most phenotypes studied. However, ancestry generally explains only a modest proportion of total phenotypic variation. Genetically estimated and self-perceived ancestry correlate significantly, but certain physical attributes have a strong impact on self-perception and bias self-perception of ancestry relative to genetically estimated ancestry.

  10. The radiation stability of ground granulated blast furnace slag/ordinary Portland cement grouts containing organic admixtures

    SciTech Connect

    Palmer, J.D.; Fairhall, G.A.

    1993-12-31

    At the British Nuclear Fuels (BNFL) Sellafield reprocessing plant in the United Kingdom, cement grouts based on ground granulated blast-furnace slag (BFS) and ordinary Portland cement (OPC) are used extensively for immobilizing radioactive wastes. These grouts have excluded organic admixtures in order to reduce process complexity and uncertainties, regarding the performance of organic admixtures with BFS/OPC grouts, particularly under irradiation. This study has investigated the effects of sulfonated melamine formaldehyde and naphthalene condensates on grout properties. The results show grout settlement and strengths increase on addition of additives, with the additives remaining largely in the pore solution. Under irradiation the additives breakdown liberating hydrogen and carbon dioxide. Strength and product dimensions are unaffected by irradiation.

  11. Evaluation of Group Genetic Ancestry of Populations from Philadelphia and Dakar in the Context of Sex-Biased Admixture in the Americas

    PubMed Central

    Stefflova, Klara; Dulik, Matthew C.; Pai, Athma A.; Walker, Amy H.; Zeigler-Johnson, Charnita M.; Gueye, Serigne M.; Schurr, Theodore G.; Rebbeck, Timothy R.

    2009-01-01

    Background Population history can be reflected in group genetic ancestry, where genomic variation captured by the mitochondrial DNA (mtDNA) and non-recombining portion of the Y chromosome (NRY) can separate female- and male-specific admixture processes. Genetic ancestry may influence genetic association studies due to differences in individual admixture within recently admixed populations like African Americans. Principal Findings We evaluated the genetic ancestry of Senegalese as well as European Americans and African Americans from Philadelphia. Senegalese mtDNA consisted of ∼12% U haplotypes (U6 and U5b1b haplotypes, common in North Africa) while the NRY haplotypes belonged solely to haplogroup E. In Philadelphia, we observed varying degrees of admixture. While African Americans have 9–10% mtDNAs and ∼31% NRYs of European origin, these results are not mirrored in the mtDNA/NRY pools of European Americans: they have less than 7% mtDNAs and less than 2% NRYs from non-European sources. Additionally, there is <2% Native American contribution to Philadelphian African American ancestry and the admixture from combined mtDNA/NRY estimates is consistent with the admixture derived from autosomal genetic data. To further dissect these estimates, we have analyzed our samples in the context of different demographic groups in the Americas. Conclusions We found that sex-biased admixture in African-derived populations is present throughout the Americas, with continual influence of European males, while Native American females contribute mainly to populations of the Caribbean and South America. The high non-European female contribution to the pool of European-derived populations is consistently characteristic of Iberian colonization. These data suggest that genomic data correlate well with historical records of colonization in the Americas. PMID:19946364

  12. A minimum set of ancestry informative markers for determining admixture proportions in a mixed American population: the Brazilian set.

    PubMed

    Santos, Hadassa C; Horimoto, Andréa V R; Tarazona-Santos, Eduardo; Rodrigues-Soares, Fernanda; Barreto, Mauricio L; Horta, Bernardo L; Lima-Costa, Maria F; Gouveia, Mateus H; Machado, Moara; Silva, Thiago M; Sanches, José M; Esteban, Nubia; Magalhaes, Wagner C S; Rodrigues, Maíra R; Kehdy, Fernanda S G; Pereira, Alexandre C

    2016-05-01

    The Brazilian population is considered to be highly admixed. The main contributing ancestral populations were European and African, with Amerindians contributing to a lesser extent. The aims of this study were to provide a resource for determining and quantifying individual continental ancestry using the smallest number of SNPs possible, thus allowing for a cost- and time-efficient strategy for genomic ancestry determination. We identified and validated a minimum set of 192 ancestry informative markers (AIMs) for the genetic ancestry determination of Brazilian populations. These markers were selected on the basis of their distribution throughout the human genome, and their capacity of being genotyped on widely available commercial platforms. We analyzed genotyping data from 6487 individuals belonging to three Brazilian cohorts. Estimates of individual admixture using this 192 AIM panels were highly correlated with estimates using ~370 000 genome-wide SNPs: 91%, 92%, and 74% of, respectively, African, European, and Native American ancestry components. Besides that, 192 AIMs are well distributed among populations from these ancestral continents, allowing greater freedom in future studies with this panel regarding the choice of reference populations. We also observed that genetic ancestry inferred by AIMs provides similar association results to the one obtained using ancestry inferred by genomic data (370 K SNPs) in a simple regression model with rs1426654, related to skin pigmentation, genotypes as dependent variable. In conclusion, these markers can be used to identify and accurately quantify ancestry of Latin Americans or US Hispanics/Latino individuals, in particular in the context of fine-mapping strategies that require the quantification of continental ancestry in thousands of individuals. PMID:26395555

  13. A minimum set of ancestry informative markers for determining admixture proportions in a mixed American population: the Brazilian set.

    PubMed

    Santos, Hadassa C; Horimoto, Andréa V R; Tarazona-Santos, Eduardo; Rodrigues-Soares, Fernanda; Barreto, Mauricio L; Horta, Bernardo L; Lima-Costa, Maria F; Gouveia, Mateus H; Machado, Moara; Silva, Thiago M; Sanches, José M; Esteban, Nubia; Magalhaes, Wagner C S; Rodrigues, Maíra R; Kehdy, Fernanda S G; Pereira, Alexandre C

    2016-05-01

    The Brazilian population is considered to be highly admixed. The main contributing ancestral populations were European and African, with Amerindians contributing to a lesser extent. The aims of this study were to provide a resource for determining and quantifying individual continental ancestry using the smallest number of SNPs possible, thus allowing for a cost- and time-efficient strategy for genomic ancestry determination. We identified and validated a minimum set of 192 ancestry informative markers (AIMs) for the genetic ancestry determination of Brazilian populations. These markers were selected on the basis of their distribution throughout the human genome, and their capacity of being genotyped on widely available commercial platforms. We analyzed genotyping data from 6487 individuals belonging to three Brazilian cohorts. Estimates of individual admixture using this 192 AIM panels were highly correlated with estimates using ~370 000 genome-wide SNPs: 91%, 92%, and 74% of, respectively, African, European, and Native American ancestry components. Besides that, 192 AIMs are well distributed among populations from these ancestral continents, allowing greater freedom in future studies with this panel regarding the choice of reference populations. We also observed that genetic ancestry inferred by AIMs provides similar association results to the one obtained using ancestry inferred by genomic data (370 K SNPs) in a simple regression model with rs1426654, related to skin pigmentation, genotypes as dependent variable. In conclusion, these markers can be used to identify and accurately quantify ancestry of Latin Americans or US Hispanics/Latino individuals, in particular in the context of fine-mapping strategies that require the quantification of continental ancestry in thousands of individuals.

  14. Complex Patterns of Genomic Admixture within Southern Africa

    PubMed Central

    Petersen, Desiree C.; Libiger, Ondrej; Tindall, Elizabeth A.; Hardie, Rae-Anne; Hannick, Linda I.; Glashoff, Richard H.; Mukerji, Mitali; Fernandez, Pedro; Haacke, Wilfrid; Schork, Nicholas J.; Hayes, Vanessa M.

    2013-01-01

    Within-population genetic diversity is greatest within Africa, while between-population genetic diversity is directly proportional to geographic distance. The most divergent contemporary human populations include the click-speaking forager peoples of southern Africa, broadly defined as Khoesan. Both intra- (Bantu expansion) and inter-continental migration (European-driven colonization) have resulted in complex patterns of admixture between ancient geographically isolated Khoesan and more recently diverged populations. Using gender-specific analysis and almost 1 million autosomal markers, we determine the significance of estimated ancestral contributions that have shaped five contemporary southern African populations in a cohort of 103 individuals. Limited by lack of available data for homogenous Khoesan representation, we identify the Ju/'hoan (n = 19) as a distinct early diverging human lineage with little to no significant non-Khoesan contribution. In contrast to the Ju/'hoan, we identify ancient signatures of Khoesan and Bantu unions resulting in significant Khoesan- and Bantu-derived contributions to the Southern Bantu amaXhosa (n = 15) and Khoesan !Xun (n = 14), respectively. Our data further suggests that contemporary !Xun represent distinct Khoesan prehistories. Khoesan assimilation with European settlement at the most southern tip of Africa resulted in significant ancestral Khoesan contributions to the Coloured (n = 25) and Baster (n = 30) populations. The latter populations were further impacted by 170 years of East Indian slave trade and intra-continental migrations resulting in a complex pattern of genetic variation (admixture). The populations of southern Africa provide a unique opportunity to investigate the genomic variability from some of the oldest human lineages to the implications of complex admixture patterns including ancient and recently diverged human lineages. PMID:23516368

  15. Nuclear species-diagnostic SNP markers mined from 454 amplicon sequencing reveal admixture genomic structure of modern citrus varieties.

    PubMed

    Curk, Franck; Ancillo, Gema; Ollitrault, Frédérique; Perrier, Xavier; Jacquemoud-Collet, Jean-Pierre; Garcia-Lor, Andres; Navarro, Luis; Ollitrault, Patrick

    2015-01-01

    Most cultivated Citrus species originated from interspecific hybridisation between four ancestral taxa (C. reticulata, C. maxima, C. medica, and C. micrantha) with limited further interspecific recombination due to vegetative propagation. This evolution resulted in admixture genomes with frequent interspecific heterozygosity. Moreover, a major part of the phenotypic diversity of edible citrus results from the initial differentiation between these taxa. Deciphering the phylogenomic structure of citrus germplasm is therefore essential for an efficient utilization of citrus biodiversity in breeding schemes. The objective of this work was to develop a set of species-diagnostic single nucleotide polymorphism (SNP) markers for the four Citrus ancestral taxa covering the nine chromosomes, and to use these markers to infer the phylogenomic structure of secondary species and modern cultivars. Species-diagnostic SNPs were mined from 454 amplicon sequencing of 57 gene fragments from 26 genotypes of the four basic taxa. Of the 1,053 SNPs mined from 28,507 kb sequence, 273 were found to be highly diagnostic for a single basic taxon. Species-diagnostic SNP markers (105) were used to analyse the admixture structure of varieties and rootstocks. This revealed C. maxima introgressions in most of the old and in all recent selections of mandarins, and suggested that C. reticulata × C. maxima reticulation and introgression processes were important in edible mandarin domestication. The large range of phylogenomic constitutions between C. reticulata and C. maxima revealed in mandarins, tangelos, tangors, sweet oranges, sour oranges, grapefruits, and orangelos is favourable for genetic association studies based on phylogenomic structures of the germplasm. Inferred admixture structures were in agreement with previous hypotheses regarding the origin of several secondary species and also revealed the probable origin of several acid citrus varieties. The developed species-diagnostic SNP

  16. Nuclear Species-Diagnostic SNP Markers Mined from 454 Amplicon Sequencing Reveal Admixture Genomic Structure of Modern Citrus Varieties

    PubMed Central

    Curk, Franck; Ancillo, Gema; Ollitrault, Frédérique; Perrier, Xavier; Jacquemoud-Collet, Jean-Pierre; Garcia-Lor, Andres; Navarro, Luis; Ollitrault, Patrick

    2015-01-01

    Most cultivated Citrus species originated from interspecific hybridisation between four ancestral taxa (C. reticulata, C. maxima, C. medica, and C. micrantha) with limited further interspecific recombination due to vegetative propagation. This evolution resulted in admixture genomes with frequent interspecific heterozygosity. Moreover, a major part of the phenotypic diversity of edible citrus results from the initial differentiation between these taxa. Deciphering the phylogenomic structure of citrus germplasm is therefore essential for an efficient utilization of citrus biodiversity in breeding schemes. The objective of this work was to develop a set of species-diagnostic single nucleotide polymorphism (SNP) markers for the four Citrus ancestral taxa covering the nine chromosomes, and to use these markers to infer the phylogenomic structure of secondary species and modern cultivars. Species-diagnostic SNPs were mined from 454 amplicon sequencing of 57 gene fragments from 26 genotypes of the four basic taxa. Of the 1,053 SNPs mined from 28,507 kb sequence, 273 were found to be highly diagnostic for a single basic taxon. Species-diagnostic SNP markers (105) were used to analyse the admixture structure of varieties and rootstocks. This revealed C. maxima introgressions in most of the old and in all recent selections of mandarins, and suggested that C. reticulata × C. maxima reticulation and introgression processes were important in edible mandarin domestication. The large range of phylogenomic constitutions between C. reticulata and C. maxima revealed in mandarins, tangelos, tangors, sweet oranges, sour oranges, grapefruits, and orangelos is favourable for genetic association studies based on phylogenomic structures of the germplasm. Inferred admixture structures were in agreement with previous hypotheses regarding the origin of several secondary species and also revealed the probable origin of several acid citrus varieties. The developed species-diagnostic SNP

  17. Nuclear species-diagnostic SNP markers mined from 454 amplicon sequencing reveal admixture genomic structure of modern citrus varieties.

    PubMed

    Curk, Franck; Ancillo, Gema; Ollitrault, Frédérique; Perrier, Xavier; Jacquemoud-Collet, Jean-Pierre; Garcia-Lor, Andres; Navarro, Luis; Ollitrault, Patrick

    2015-01-01

    Most cultivated Citrus species originated from interspecific hybridisation between four ancestral taxa (C. reticulata, C. maxima, C. medica, and C. micrantha) with limited further interspecific recombination due to vegetative propagation. This evolution resulted in admixture genomes with frequent interspecific heterozygosity. Moreover, a major part of the phenotypic diversity of edible citrus results from the initial differentiation between these taxa. Deciphering the phylogenomic structure of citrus germplasm is therefore essential for an efficient utilization of citrus biodiversity in breeding schemes. The objective of this work was to develop a set of species-diagnostic single nucleotide polymorphism (SNP) markers for the four Citrus ancestral taxa covering the nine chromosomes, and to use these markers to infer the phylogenomic structure of secondary species and modern cultivars. Species-diagnostic SNPs were mined from 454 amplicon sequencing of 57 gene fragments from 26 genotypes of the four basic taxa. Of the 1,053 SNPs mined from 28,507 kb sequence, 273 were found to be highly diagnostic for a single basic taxon. Species-diagnostic SNP markers (105) were used to analyse the admixture structure of varieties and rootstocks. This revealed C. maxima introgressions in most of the old and in all recent selections of mandarins, and suggested that C. reticulata × C. maxima reticulation and introgression processes were important in edible mandarin domestication. The large range of phylogenomic constitutions between C. reticulata and C. maxima revealed in mandarins, tangelos, tangors, sweet oranges, sour oranges, grapefruits, and orangelos is favourable for genetic association studies based on phylogenomic structures of the germplasm. Inferred admixture structures were in agreement with previous hypotheses regarding the origin of several secondary species and also revealed the probable origin of several acid citrus varieties. The developed species-diagnostic SNP

  18. Whistler Solitons in Plasma with Anisotropic Hot Electron Admixture

    NASA Technical Reports Server (NTRS)

    Khazanov, G. V.; Krivorutsky, E. N.; Gallagher, D. L.

    1999-01-01

    The longitudinal and transverse modulation instability of whistler waves in plasma, with a small admixture of hot anisotropic electrons, is discussed. If the hot particles temperature anisotropy is positive, it is found that, in such plasma, longitudinal perturbations can lead to soliton formation for frequencies forbidden in cold plasma. The soliton is enriched by hot particles. The frequency region unstable to transverse modulation in cold plasma in the presence of hot electrons is divided by stable domains. For both cases the role of hot electrons is more significant for whistlers with smaller frequencies.

  19. Activation analysis of admixtures in certain semiconductive materials

    NASA Technical Reports Server (NTRS)

    Artyukhin, P. I.; Gilbert, E. P.; Pronin, V. A.

    1978-01-01

    The use of extractions and chromatographic operations to separate macrobases, and to divide elements into groups convenient for gamma-spectrometric analysis is discussed. Methods are described for the activation detection of some impurities in silicon, arsenic, thallium, and trichloromethylsilane, on the basis of the extraction properties of bis(2-chlorethyl ether) and dimethylbenzylalkylammonium chloride. A schematic diagram of the extraction separation of elements-admixture is presented showing the aqueous and organic phases. The content percentage of the various elements are given in tables.

  20. Human Leukocyte Antigen Profiles of Latin American Populations: Differential Admixture and Its Potential Impact on Hematopoietic Stem Cell Transplantation

    PubMed Central

    Arrieta-Bolaños, Esteban; Madrigal, J. Alejandro; Shaw, Bronwen E.

    2012-01-01

    The outcome of hematopoietic stem cell transplantation (HSCT) is shaped by both clinical and genetic factors that determine its success. Genetic factors including human leukocyte antigen (HLA) and non-HLA genetic variants are believed to influence the risk of potentially fatal complications after the transplant. Moreover, ethnicity has been proposed as a factor modifying the risk of graft-versus-host disease. The populations of Latin America are a complex array of different admixture processes with varying degrees of ancestral population proportions that came in different migration waves. This complexity makes the study of genetic risks in this region complicated unless the extent of this variation is thoroughly characterized. In this study we compared the HLA-A and HLA-B allele group profiles for 31 Latin American populations and 61 ancestral populations from Iberia, Italy, Sub-Saharan Africa, and America. Results from population genetics comparisons show a wide variation in the HLA profiles from the Latin American populations that correlate with different admixture proportions. Populations in Latin America seem to be organized in at least three groups with (1) strong Amerindian admixture, (2) strong Caucasian component, and (3) a Caucasian-African gradient. These results imply that genetic risk assessment for HSCT in Latin America has to be adapted for different population subgroups rather than as a pan-Hispanic/Latino analysis. PMID:23213535

  1. Genetic structure and admixture between Bayash Roma from northwestern Croatia and general Croatian population: evidence from Bayesian clustering analysis.

    PubMed

    Novokmet, Natalija; Galov, Ana; Marjanović, Damir; Škaro, Vedrana; Projić, Petar; Lauc, Gordan; Primorac, Dragan; Rudan, Pavao

    2015-01-01

    The European Roma represent a transnational mosaic of minority population groups with different migration histories and contrasting experiences in their interactions with majority populations across the European continent. Although historical genetic contributions of European lineages to the Roma pool were investigated before, the extent of contemporary genetic admixture between Bayash Roma and non-Romani majority population remains elusive. The aim of this study was to assess the genetic structure of the Bayash Roma population from northwestern Croatia and the general Croatian population and to investigate the extent of admixture between them. A set of genetic data from two original studies (100 Bayash Roma from northwestern Croatia and 195 individuals from the general Croatian population) was analyzed by Bayesian clustering implemented in STRUCTURE software. By re-analyzing published data we intended to focus for the first time on genetic differentiation and structure and in doing so we clearly pointed to the importance of considering social phenomena in understanding genetic structuring. Our results demonstrated that two population clusters best explain the genetic structure, which is consistent with social exclusion of Roma and the demographic history of Bayash Roma who have settled in NW Croatia only about 150 years ago and mostly applied rules of endogamy. The presence of admixture was revealed, while the percentage of non-Croatian individuals in general Croatian population was approximately twofold higher than the percentage of non-Romani individuals in Roma population corroborating the presence of ethnomimicry in Roma.

  2. Initial results of the Global Thermospheric Mapping Study (GTMS)

    NASA Technical Reports Server (NTRS)

    Oliver, W. L.; Salah, J. E.; Musgrove, R. G.; Holt, J. M.; Wickwar, V. B.; Hernandez, G. J.; Roble, R. G.

    1986-01-01

    The Global Thermospheric Mapping Study (GTMS) is a multi-technique experimental study of the thermosphere designed to map simultaneously its spatial and temporal morphology with a thoroughness and diversity of measurement techniques heretofore unachieved. The GTMS is designed around the Incoherent Scatter Radar Chain in the western hemisphere. The European incoherent scatter radars and the worldwide communities of Fabry-Perot interferometers, meteor wind radars, partial reflection drifts radars, MST radars, and satellite probes are included to extend the spatial coverage and types of measurements available. Theoretical and modeling support in the areas of thermospheric and ionospheric structure, tides, and electric fields are included to aid in program planning and data interpretation. Solar activity was low on the three observation days (F10.7 = 97, 98, 96) and magnetic conditions were unsettled to active (A = 10, 12, 20). All six incoherent scatter radar facilities collected data. Each collected F region data day and night while Saint Santin and Millstone Hill additionally collected E region data during daylight hours. Initial results from Sondrestrom and Millstone Hill are presented. Good quality Fabry Perot data were collected at Fritz Peak and San Jose dos Campos. Weather conditions produced poor results at Arequipa and Arecibo. Initial results from Fritz Peak are presented. Mesosphere/lower-thermosphere observations were conducted under the ATMAP organization. The magnetometer chains also were operational during this campaign. Initial thermospheric general circulation model predictions were made for assumed solar-geophysical conditions, and selected results are presented.

  3. Human genetic mapping studies using single sperm typing

    SciTech Connect

    Hubert, R.S.

    1993-01-01

    Sperm typing is a powerful technique that uses the polymerase chain reaction (PCR) to analyze DNA sequences within single sperm cells in order to construct genetic maps. This methodology was used to estimate the recombination fraction between D3S2 and D3S2 which was found to be 0.28 (95% CI = 0.20-0.36). Pedigree analysis was unable to determine genetic distance between these two markers due to their low informativeness. We also showed that dinucleotide and tetranucleotide repeat polymorphisms can be analyzed in single cells without using radioactivity or denaturing gels. This provides a rich new source of DANA polymorphisms for genetic mapping by sperm typing. In addition, an approach that uses the sperm typing methodology is described that can define the physical boundaries of meiotic recombination hotspots. The hotspot at 4p16.3 near the Huntington disease gene was localized to an interval between D4S10 and D4S126. These studies demonstrated the usefulness of sperm typing as a tool for the study of human genetic.

  4. Autosomal Admixture Levels Are Informative About Sex Bias in Admixed Populations

    PubMed Central

    Goldberg, Amy; Verdu, Paul; Rosenberg, Noah A.

    2014-01-01

    Sex-biased admixture has been observed in a wide variety of admixed populations. Genetic variation in sex chromosomes and functions of quantities computed from sex chromosomes and autosomes have often been examined to infer patterns of sex-biased admixture, typically using statistical approaches that do not mechanistically model the complexity of a sex-specific history of admixture. Here, expanding on a model of Verdu and Rosenberg (2011) that did not include sex specificity, we develop a model that mechanistically examines sex-specific admixture histories. Under the model, multiple source populations contribute to an admixed population, potentially with their male and female contributions varying over time. In an admixed population descended from two source groups, we derive the moments of the distribution of the autosomal admixture fraction from a specific source population as a function of sex-specific introgression parameters and time. Considering admixture processes that are constant in time, we demonstrate that surprisingly, although the mean autosomal admixture fraction from a specific source population does not reveal a sex bias in the admixture history, the variance of autosomal admixture is informative about sex bias. Specifically, the long-term variance decreases as the sex bias from a contributing source population increases. This result can be viewed as analogous to the reduction in effective population size for populations with an unequal number of breeding males and females. Our approach suggests that it may be possible to use the effect of sex-biased admixture on autosomal DNA to assist with methods for inference of the history of complex sex-biased admixture processes. PMID:25194159

  5. Cuba: Exploring the History of Admixture and the Genetic Basis of Pigmentation Using Autosomal and Uniparental Markers

    PubMed Central

    Fuentes-Smith, Evelyn; Salas, Antonio; Buttenschøn, Henriette N.; Demontis, Ditte; Torres-Español, María; Marín-Padrón, Lilia C.; Gómez-Cabezas, Enrique J.; Álvarez-Iglesias, Vanesa; Mosquera-Miguel, Ana; Martínez-Fuentes, Antonio; Carracedo, Ángel; Børglum, Anders D.; Mors, Ole

    2014-01-01

    We carried out an admixture analysis of a sample comprising 1,019 individuals from all the provinces of Cuba. We used a panel of 128 autosomal Ancestry Informative Markers (AIMs) to estimate the admixture proportions. We also characterized a number of haplogroup diagnostic markers in the mtDNA and Y-chromosome in order to evaluate admixture using uniparental markers. Finally, we analyzed the association of 16 single nucleotide polymorphisms (SNPs) with quantitative estimates of skin pigmentation. In the total sample, the average European, African and Native American contributions as estimated from autosomal AIMs were 72%, 20% and 8%, respectively. The Eastern provinces of Cuba showed relatively higher African and Native American contributions than the Western provinces. In particular, the highest proportion of African ancestry was observed in the provinces of Guantánamo (40%) and Santiago de Cuba (39%), and the highest proportion of Native American ancestry in Granma (15%), Holguín (12%) and Las Tunas (12%). We found evidence of substantial population stratification in the current Cuban population, emphasizing the need to control for the effects of population stratification in association studies including individuals from Cuba. The results of the analyses of uniparental markers were concordant with those observed in the autosomes. These geographic patterns in admixture proportions are fully consistent with historical and archaeological information. Additionally, we identified a sex-biased pattern in the process of gene flow, with a substantially higher European contribution from the paternal side, and higher Native American and African contributions from the maternal side. This sex-biased contribution was particularly evident for Native American ancestry. Finally, we observed that SNPs located in the genes SLC24A5 and SLC45A2 are strongly associated with melanin levels in the sample. PMID:25058410

  6. Genomewide ancestry and divergence patterns from low-coverage sequencing data reveal a complex history of admixture in wild baboons.

    PubMed

    Wall, Jeffrey D; Schlebusch, Stephen A; Alberts, Susan C; Cox, Laura A; Snyder-Mackler, Noah; Nevonen, Kimberly A; Carbone, Lucia; Tung, Jenny

    2016-07-01

    Naturally occurring admixture has now been documented in every major primate lineage, suggesting its key role in primate evolutionary history. Active primate hybrid zones can provide valuable insight into this process. Here, we investigate the history of admixture in one of the best-studied natural primate hybrid zones, between yellow baboons (Papio cynocephalus) and anubis baboons (Papio anubis) in the Amboseli ecosystem of Kenya. We generated a new genome assembly for yellow baboon and low-coverage genomewide resequencing data from yellow baboons, anubis baboons and known hybrids (n = 44). Using a novel composite likelihood method for estimating local ancestry from low-coverage data, we found high levels of genetic diversity and genetic differentiation between the parent taxa, and excellent agreement between genome-scale ancestry estimates and a priori pedigree, life history and morphology-based estimates (r(2)  = 0.899). However, even putatively unadmixed Amboseli yellow individuals carried a substantial proportion of anubis ancestry, presumably due to historical admixture. Further, the distribution of shared vs. fixed differences between a putatively unadmixed Amboseli yellow baboon and an unadmixed anubis baboon, both sequenced at high coverage, is inconsistent with simple isolation-migration or equilibrium migration models. Our findings suggest a complex process of intermittent contact that has occurred multiple times in baboon evolutionary history, despite no obvious fitness costs to hybrids or major geographic or behavioural barriers. In combination with the extensive phenotypic data available for baboon hybrids, our results provide valuable context for understanding the history of admixture in primates, including in our own lineage.

  7. Genomewide ancestry and divergence patterns from low-coverage sequencing data reveal a complex history of admixture in wild baboons.

    PubMed

    Wall, Jeffrey D; Schlebusch, Stephen A; Alberts, Susan C; Cox, Laura A; Snyder-Mackler, Noah; Nevonen, Kimberly A; Carbone, Lucia; Tung, Jenny

    2016-07-01

    Naturally occurring admixture has now been documented in every major primate lineage, suggesting its key role in primate evolutionary history. Active primate hybrid zones can provide valuable insight into this process. Here, we investigate the history of admixture in one of the best-studied natural primate hybrid zones, between yellow baboons (Papio cynocephalus) and anubis baboons (Papio anubis) in the Amboseli ecosystem of Kenya. We generated a new genome assembly for yellow baboon and low-coverage genomewide resequencing data from yellow baboons, anubis baboons and known hybrids (n = 44). Using a novel composite likelihood method for estimating local ancestry from low-coverage data, we found high levels of genetic diversity and genetic differentiation between the parent taxa, and excellent agreement between genome-scale ancestry estimates and a priori pedigree, life history and morphology-based estimates (r(2)  = 0.899). However, even putatively unadmixed Amboseli yellow individuals carried a substantial proportion of anubis ancestry, presumably due to historical admixture. Further, the distribution of shared vs. fixed differences between a putatively unadmixed Amboseli yellow baboon and an unadmixed anubis baboon, both sequenced at high coverage, is inconsistent with simple isolation-migration or equilibrium migration models. Our findings suggest a complex process of intermittent contact that has occurred multiple times in baboon evolutionary history, despite no obvious fitness costs to hybrids or major geographic or behavioural barriers. In combination with the extensive phenotypic data available for baboon hybrids, our results provide valuable context for understanding the history of admixture in primates, including in our own lineage. PMID:27145036

  8. Cuba: exploring the history of admixture and the genetic basis of pigmentation using autosomal and uniparental markers.

    PubMed

    Marcheco-Teruel, Beatriz; Parra, Esteban J; Fuentes-Smith, Evelyn; Salas, Antonio; Buttenschøn, Henriette N; Demontis, Ditte; Torres-Español, María; Marín-Padrón, Lilia C; Gómez-Cabezas, Enrique J; Alvarez-Iglesias, Vanesa; Mosquera-Miguel, Ana; Martínez-Fuentes, Antonio; Carracedo, Angel; Børglum, Anders D; Mors, Ole

    2014-07-01

    We carried out an admixture analysis of a sample comprising 1,019 individuals from all the provinces of Cuba. We used a panel of 128 autosomal Ancestry Informative Markers (AIMs) to estimate the admixture proportions. We also characterized a number of haplogroup diagnostic markers in the mtDNA and Y-chromosome in order to evaluate admixture using uniparental markers. Finally, we analyzed the association of 16 single nucleotide polymorphisms (SNPs) with quantitative estimates of skin pigmentation. In the total sample, the average European, African and Native American contributions as estimated from autosomal AIMs were 72%, 20% and 8%, respectively. The Eastern provinces of Cuba showed relatively higher African and Native American contributions than the Western provinces. In particular, the highest proportion of African ancestry was observed in the provinces of Guantánamo (40%) and Santiago de Cuba (39%), and the highest proportion of Native American ancestry in Granma (15%), Holguín (12%) and Las Tunas (12%). We found evidence of substantial population stratification in the current Cuban population, emphasizing the need to control for the effects of population stratification in association studies including individuals from Cuba. The results of the analyses of uniparental markers were concordant with those observed in the autosomes. These geographic patterns in admixture proportions are fully consistent with historical and archaeological information. Additionally, we identified a sex-biased pattern in the process of gene flow, with a substantially higher European contribution from the paternal side, and higher Native American and African contributions from the maternal side. This sex-biased contribution was particularly evident for Native American ancestry. Finally, we observed that SNPs located in the genes SLC24A5 and SLC45A2 are strongly associated with melanin levels in the sample.

  9. A high density physical map of chromosome 1BL supports evolutionary studies, map-based cloning and sequencing in wheat

    PubMed Central

    2013-01-01

    Background As for other major crops, achieving a complete wheat genome sequence is essential for the application of genomics to breeding new and improved varieties. To overcome the complexities of the large, highly repetitive and hexaploid wheat genome, the International Wheat Genome Sequencing Consortium established a chromosome-based strategy that was validated by the construction of the physical map of chromosome 3B. Here, we present improved strategies for the construction of highly integrated and ordered wheat physical maps, using chromosome 1BL as a template, and illustrate their potential for evolutionary studies and map-based cloning. Results Using a combination of novel high throughput marker assays and an assembly program, we developed a high quality physical map representing 93% of wheat chromosome 1BL, anchored and ordered with 5,489 markers including 1,161 genes. Analysis of the gene space organization and evolution revealed that gene distribution and conservation along the chromosome results from the superimposition of the ancestral grass and recent wheat evolutionary patterns, leading to a peak of synteny in the central part of the chromosome arm and an increased density of non-collinear genes towards the telomere. With a density of about 11 markers per Mb, the 1BL physical map provides 916 markers, including 193 genes, for fine mapping the 40 QTLs mapped on this chromosome. Conclusions Here, we demonstrate that high marker density physical maps can be developed in complex genomes such as wheat to accelerate map-based cloning, gain new insights into genome evolution, and provide a foundation for reference sequencing. PMID:23800011

  10. Safety of compounded calcium chloride admixtures for peripheral intravenous administration in the setting of a calcium gluconate shortage.

    PubMed

    Anger, Kevin E; Belisle, Caryn; Colwell, Megan B; Dannemiller, Robert; Alawadhi, Burhan; Wilkocki, Alex; Szumita, Paul M

    2014-10-01

    Calcium gluconate is preferred over calcium chloride for intravenous (IV) repletion of calcium deficiencies in the inpatient setting. In the setting of a national shortage of IV calcium gluconate, our institution implemented a compounded calcium chloride admixture for IV administration. The objective of this analysis is to evaluate the peripheral infusion site safety of compounded IV calcium chloride admixtures in adult inpatients. A total of 222 patients, encompassing 224 inpatient admissions, from April to June 2011 were retrospectively reviewed. Sterile preparations of calcium chloride in 5% dextrose (600 mg/250 mL and 300 mg/100 mL) were used during the study time period. Adverse infusion site reactions were assessed using an institutional infiltration and phlebitis grading system. A total of 333 doses were administered peripherally. In all, 4 (1.8%) patients experienced a moderate to severe infusion site reaction, with 3 due to phlebitis and 1 due to infiltration. Naranjo Nomogram for Adverse Drug Reaction Assessment classified all 4 reactions to have a possible link to calcium chloride administration. Peripheral administration of compounded calcium chloride admixtures in 5% dextrose is associated with a low incidence of IV infusion site reactions and can be considered as an alternative in the event of a calcium gluconate shortage.

  11. The Radiation Yield in Different Spectral Ranges from Low Density Structured Laser Plasma with Different High Z-Admixture

    NASA Astrophysics Data System (ADS)

    Rozanov, V.; Vergunova, G.

    2010-04-01

    The problem is to find particular schemes for different tasks. The competing processes under the laser plasma heating are the plasma thermal radiation and the plasma expansion, i.e. the conversion of the laser pulse energy into the plasma kinetic energy. The efficiency of the two mentioned processes depends on the density and size of plasma, and may be effectively controlled by the two parameters, that is, a decrease in density and an increase in the target size, which enhance the efficiency of radiation. The radiation spectrum depends on the plasma composition and a concentration of heavy-ion admixtures in the plasma. During the last two years, the laser fusion scientists were engaged in studying the processes of energy transformation and transfer (including the radiation) in low-density structured foam-like media with an admixture of heavy elements. It was experimentally found that under laser irradiation of a foam-line target with a heavy ion admixture it is possible to produce the radiation with the efficiency close to 50%. The present report concerns a theoretical basis and the experimental results related to the problem.

  12. Effects of Different Mineral Admixtures on the Properties of Fresh Concrete

    PubMed Central

    Nuruddin, Muhammad Fadhil; Shafiq, Nasir

    2014-01-01

    This paper presents a review of the properties of fresh concrete including workability, heat of hydration, setting time, bleeding, and reactivity by using mineral admixtures fly ash (FA), silica fume (SF), ground granulated blast furnace slag (GGBS), metakaolin (MK), and rice husk ash (RHA). Comparison of normal and high-strength concrete in which cement has been partially supplemented by mineral admixture has been considered. It has been concluded that mineral admixtures may be categorized into two groups: chemically active mineral admixtures and microfiller mineral admixtures. Chemically active mineral admixtures decrease workability and setting time of concrete but increase the heat of hydration and reactivity. On the other hand, microfiller mineral admixtures increase workability and setting time of concrete but decrease the heat of hydration and reactivity. In general, small particle size and higher specific surface area of mineral admixture are favourable to produce highly dense and impermeable concrete; however, they cause low workability and demand more water which may be offset by adding effective superplasticizer. PMID:24701196

  13. How important is intraspecific genetic admixture to the success of colonising populations?

    EPA Science Inventory

    Genetic admixture of divergent lineages is increasingly suspected to play an important role in the success of colonizing populations. This has become a particularly prominent theme in the literature on biological invasions, where admixture is now commonly proposed as an important...

  14. Corrosion inhibitive admixtures for concrete (A review of the current state of the art)

    SciTech Connect

    Incorvia, M.J.

    1996-12-01

    Corrosion inhibitive admixtures, chemicals added to the concrete mixture to decrease the corrosion activity of the steel reinforcement, are an easy, cost-effective method for corrosion protection. This paper will review some of the issues related to the corrosion process and to the use of corrosion inhibitive admixtures to extend the service life of steel reinforced structures. The principle cause of corrosion damage to steel reinforced concrete, even high quality concrete, is chloride ion attack. To perform properly an inhibitive admixture must provide protection against chloride induced corrosion. Corrosion inhibitive admixtures provide protection by two mechanisms: (1) a chloride screening mechanism which prolongs the time it takes for chloride to reach the surface of the metal, and (2) an interfacial process where protection is provided by decreasing the corrosion activity at the reinforcing steel surface. The classes of admixtures which prolong the time it takes for chlorides to reach the surface of the reinforcing bars are: hydrophobic materials, pozzolanic materials (e.g. silica fume, fly ash, etc.), and superplasticizers. Interfacial corrosion inhibitive admixtures provide protection by decreasing the corrosion activity by a thermodynamic or a kinetic process or both. The science and technology of corrosion inhibitive admixtures is a developing area, and as such, universally accepted testing procedures have not been established. For the more recently developed admixtures, long duration field exposure test data are not yet available.

  15. Recombination of haplotypes leads to biased estimates of admixture proportions in human populations

    SciTech Connect

    Chakraborty, R.; Smouse, P.E.

    1988-05-01

    A population formed by genetic admixture of two or more source populations may exhibit considerable linkage disequilibrium between genetic loci. In the presence of recombination, this linkage disequilibrium declines with time, a fact that is often ignored when considering haplotypes of closely linked systems (e.g., Gm serum group (gamma globulins), HLA and, more recently, restriction fragment length polymorphisms). Recombination alters haplotype frequencies over time, and the haplotype-derived measures of admixture proportions from haplotype frequencies in generations following the admixture event become progressively more biased. The direction and extent of this bias can be predicted only when the history of admixture is known. Numerical illustration suggests that this bias is problematic whenever rt > 0.05, where r is the recombination rate between linked loci and t is the time (in generations) that has elapsed since the admixture extent. In general, even the haplotype frequencies defined by multiple restriction fragment length polymorphisms should be used with caution for admixture analysis. When recombination rates or the time since admixture are not precisely known, it is advantageous to consider each restriction fragment length polymorphism site separately for admixture analysis.

  16. Effects of different mineral admixtures on the properties of fresh concrete.

    PubMed

    Khan, Sadaqat Ullah; Nuruddin, Muhammad Fadhil; Ayub, Tehmina; Shafiq, Nasir

    2014-01-01

    This paper presents a review of the properties of fresh concrete including workability, heat of hydration, setting time, bleeding, and reactivity by using mineral admixtures fly ash (FA), silica fume (SF), ground granulated blast furnace slag (GGBS), metakaolin (MK), and rice husk ash (RHA). Comparison of normal and high-strength concrete in which cement has been partially supplemented by mineral admixture has been considered. It has been concluded that mineral admixtures may be categorized into two groups: chemically active mineral admixtures and microfiller mineral admixtures. Chemically active mineral admixtures decrease workability and setting time of concrete but increase the heat of hydration and reactivity. On the other hand, microfiller mineral admixtures increase workability and setting time of concrete but decrease the heat of hydration and reactivity. In general, small particle size and higher specific surface area of mineral admixture are favourable to produce highly dense and impermeable concrete; however, they cause low workability and demand more water which may be offset by adding effective superplasticizer.

  17. Effects of different mineral admixtures on the properties of fresh concrete.

    PubMed

    Khan, Sadaqat Ullah; Nuruddin, Muhammad Fadhil; Ayub, Tehmina; Shafiq, Nasir

    2014-01-01

    This paper presents a review of the properties of fresh concrete including workability, heat of hydration, setting time, bleeding, and reactivity by using mineral admixtures fly ash (FA), silica fume (SF), ground granulated blast furnace slag (GGBS), metakaolin (MK), and rice husk ash (RHA). Comparison of normal and high-strength concrete in which cement has been partially supplemented by mineral admixture has been considered. It has been concluded that mineral admixtures may be categorized into two groups: chemically active mineral admixtures and microfiller mineral admixtures. Chemically active mineral admixtures decrease workability and setting time of concrete but increase the heat of hydration and reactivity. On the other hand, microfiller mineral admixtures increase workability and setting time of concrete but decrease the heat of hydration and reactivity. In general, small particle size and higher specific surface area of mineral admixture are favourable to produce highly dense and impermeable concrete; however, they cause low workability and demand more water which may be offset by adding effective superplasticizer. PMID:24701196

  18. The JERS-1 Amazon Multi-Season Mapping Study (JAMMS)

    NASA Technical Reports Server (NTRS)

    Freeman, A.; Chapman, B.; Alves, M.

    1996-01-01

    Regional mapping of the Amazon basin using imaging radar is described. Two 60-day periods of radar mapping will be conducted, one in 1995, and one in 1996. One period will view the low-water season, and the other will view during the high-flood season. The main objective of the JAMMS project is to generate a regional map showing inundation throughout the Amazon Basin by comparing the two data sets.

  19. Velocity-map imaging study of the photodissociation of acetaldehyde

    SciTech Connect

    Cruse, H.A.; Softley, T.P.

    2005-03-22

    Velocity-map imaging studies are reported for the photodissociation of acetaldehyde over a range of photolysis wavelengths (317.5-282.5 nm). Images are obtained for both the HCO and CH{sub 3} fragments. The mean rotational energy of both fragments increases with photodissociation energy, with a lesser degree of excitation in the CH{sub 3} fragment. The CH{sub 3} images demonstrate that the CH{sub 3} fragments are rotationally aligned with respect to the recoil direction and this is interpreted, and well modeled, on the basis of a propensity for forming CH{sub 3} fragments with M{approx}K, where M is the projection of the rotational angular momentum along the recoil direction. The origin of the CH{sub 3} rotation is conserved motion from the torsional and methyl-rocking modes of the parent molecule. Nonstatistical vibrational distributions for the CH{sub 3} fragment are obtained at higher energies.

  20. Photoinduced surface voltage mapping study for large perovskite single crystals

    NASA Astrophysics Data System (ADS)

    Liu, Xiaojing; Liu, Yucheng; Gao, Fei; Yang, Zhou; Liu, Shengzhong Frank

    2016-05-01

    Using a series of illumination sources, including white light (tungsten-halogen lamp), 445-nm, 532-nm, 635-nm, and 730-nm lasers, the surface photovoltage (SPV) images were mapped for centimeter-sized CH3NH3PbX3 (X = Cl, Br, I) perovskite single crystals using Kelvin probe force microscopy. The significant SPV signals were observed to be wavelength-dependent. We attribute the appreciable SPV to the built-in electric field in the space charge region. This study shines light into the understanding of photoinduced charge generation and separation processes at nanoscale to help advance the development of perovskite solar cells, optoelectronics, laser, photodetector, and light-emitting diode (LED).

  1. Velocity-map imaging study of the photodissociation of acetaldehyde

    NASA Astrophysics Data System (ADS)

    Cruse, H. A.; Softley, T. P.

    2005-03-01

    Velocity-map imaging studies are reported for the photodissociation of acetaldehyde over a range of photolysis wavelengths (317.5-282.5 nm). Images are obtained for both the HCO and CH3 fragments. The mean rotational energy of both fragments increases with photodissociation energy, with a lesser degree of excitation in the CH3 fragment. The CH3 images demonstrate that the CH3 fragments are rotationally aligned with respect to the recoil direction and this is interpreted, and well modeled, on the basis of a propensity for forming CH3 fragments with M ˜K, where M is the projection of the rotational angular momentum along the recoil direction. The origin of the CH3 rotation is conserved motion from the torsional and methyl-rocking modes of the parent molecule. Nonstatistical vibrational distributions for the CH3 fragment are obtained at higher energies.

  2. Velocity Map Imaging Studies of Non-Conventional Methanethiol Photochemistry

    NASA Astrophysics Data System (ADS)

    Toulson, Benjamin W.; Alaniz, Jonathan; Murray, Craig

    2014-06-01

    Velocity map imaging (VMI) in combination with state-selective resonance enhanced multiphoton ionization (REMPI) has been used to study the photodissociation dynamics of methanethiol following excitation to the first and second singlet electronically excited states. Formation of sulfur atoms, in both the singlet and triplet manifolds, is observed and can be attributed to primary dissociation of the parent molecule. We will report the nascent photofragment velocity distributions, and hence the internal energy of the methane co-fragment. Sulfur atom quantum yields are benchmarked against a known standard to evaluate the significance of this pathway. The role of non-conventional photochemical mechanisms such as roaming-mediated intersystem crossing, previously observed in methylamine photochemistry, will be discussed. James O. Thomas, Katherine E. Lower, and Craig Murray, The Journal of Physical Chemistry Letters, 2012, 3 (10), 1341-1345.

  3. Doppler ultrasound study and venous mapping in chronic venous insufficiency.

    PubMed

    García Carriazo, M; Gómez de las Heras, C; Mármol Vázquez, P; Ramos Solís, M F

    2016-01-01

    Chronic venous insufficiency of the lower limbs is very prevalent. In recent decades, Doppler ultrasound has become the method of choice to study this condition, and it is considered essential when surgery is indicated. This article aims to establish a method for the examination, including venous mapping and preoperative marking. To this end, we review the venous anatomy of the lower limbs and the pathophysiology of chronic venous insufficiency and explain the basic hemodynamic concepts and the terminology required to elaborate a radiological report that will enable appropriate treatment planning and communication with other specialists. We briefly explain the CHIVA (the acronym for the French term "cure conservatrice et hémodynamique de l'insuffisance veineuse en ambulatoire"=conservative hemodynamic treatment for chronic venous insufficiency) strategy, a minimally invasive surgical strategy that aims to restore correct venous hemodynamics without resecting the saphenous vein.

  4. Land use mapping in Erie County, Pennsylvania: A pilot study

    NASA Technical Reports Server (NTRS)

    Mcmurtry, G. J.; Petersen, G. W. (Principal Investigator); May, G. A.

    1974-01-01

    The author has identified the following significant results. A pilot study was conducted to determine the feasibility of mapping land use in the Great Lakes Basin area utilizing ERTS-1 data. Small streams were clearly defined by the presence of trees along their length in predominantly agricultural country. Field patterns were easily differentiated from forested areas; dairy and beef farms were differentiated from other farmlands, but no attempt was made to identify crops. Large railroad lines and major highway systems were identified. The city of Erie and several smaller towns were identified, as well as residential areas between these towns, and docks along the shoreline in Erie. Marshes, forests, and beaches within Presque Isle State Park were correctly identified, using the DCLUS program. Bay water was differentiated from lake water, with a small amount of misclassification.

  5. The Emerging Role of Admixture in the Pharmacogenetics of Puerto Rican Hispanics

    PubMed Central

    Duconge, Jorge; Ruaño, Gualberto

    2011-01-01

    Admixture is of great relevance to the clinical application of pharmacogenetics and personalized medicine. Preliminary findings in Puerto Ricans further substantiate the argument for admixture as a critical covariate in a customized DNA-guided warfarin dosing algorithm. To this purpose, a genome-wide approach that incorporates admixture as an independent predictor of dose variability in DNA-guided algorithms has been postulated. Admixture is expected to be able to reveal some relevant associations in the genetic epidemiology of Hispanics and will be indispensable to assure that pharmacogenomic research can be pursued in such mixed populations. Consequently, the clinical utility of knowing an individual’s genotype before initiating drug treatment in Puerto Ricans, and Hispanics in general, will finally be untangled by developing a “Genetic Prescription Model” that takes admixture into consideration. This approach will help lead physicians and patients to their desired treatment goal, resulting in more effective healthcare in admixed people. PMID:23227441

  6. Empowering line intensity mapping to study early galaxies

    NASA Astrophysics Data System (ADS)

    Comaschi, P.; Ferrara, A.

    2016-09-01

    Line intensity mapping is a superb tool to study the collective radiation from early galaxies. However, the method is hampered by the presence of strong foregrounds, mostly produced by low-redshift interloping lines. We present here a general method to overcome this problem which is robust against foreground residual noise and based on the cross-correlation function ψαL(r) between diffuse line emission and Lyα emitters (LAE). We compute the diffuse line (Lyα is used as an example) emission from galaxies in a (800Mpc)3 box at z = 5.7 and 6.6. We divide the box in slices and populate them with 14000(5500) LAEs at z = 5.7(6.6), considering duty cycles from 10-3 to 1. Both the LAE number density and slice volume are consistent with the expected outcome of the Subaru HSC survey. We add gaussian random noise with variance σN up to 100 times the variance of the Lyα emission, σα, to simulate residual foregrounds and compute ψαL(r). We find that the signal-to-noise of the observed ψαL(r) does not change significantly if σN ≤ 10σα and show that in these conditions the mean line intensity, ILyα, can be precisely recovered independently of the LAE duty cycle. Even if σN = 100σα, Iα can be constrained within a factor 2. The method works equally well for any other line (e.g. [CII], HeII) used for the intensity mapping experiment.

  7. The JERS Amazon Multi-Season Mapping Study (JAMMS): Observation Strategies and Data Characteristics

    NASA Technical Reports Server (NTRS)

    Chapman, B.; Freeman, A.; Siqueira, P.

    2000-01-01

    The JERS-1 Amazon Multi-season Mapping Study (JAMMS), part of the Global Rain Forest Mapping (GRFM) project led by the National Space Development Agency of Japan (NASDA), had an ambitious agenda to completely map the Amazon River floodpain (and surrounding areas) twice at high resolution.

  8. Concept Mapping as a Study Strategy in Earth Science.

    ERIC Educational Resources Information Center

    Ault, Charles R., Jr.

    1985-01-01

    Concept mapping leads students away from rote learning and toward true understanding of concepts and their relationships. Several sample and student maps on earth science topics are presented and discussed. Applications for science instructors, students, researchers, and teacher educators are also considered. (DH)

  9. A genome-wide Asian genetic map and ethnic comparison: The GENDISCAN study

    PubMed Central

    Ju, Young Seok; Park, Hansoo; Lee, Mi Kyeong; Kim, Jong-Il; Sung, Joohon; Cho, Sung-Il; Seo, Jeong-Sun

    2008-01-01

    Background Genetic maps provide specific positions of genetic markers, which are required for performing genetic studies. Linkage analyses of Asian families have been performed with Caucasian genetic maps, since appropriate genetic maps of Asians were not available. Different ethnic groups may have different recombination rates as a result of genomic variations, which would generate misspecification of the genetic map and reduce the power of linkage analyses. Results We constructed the genetic map of a Mongolian population in Asia with CRIMAP software. This new map, called the GENDISCAN map, is based on genotype data collected from 1026 individuals of 73 large Mongolian families, and includes 1790 total and 1500 observable meioses. The GENDISCAN map provides sex-averaged and sex-specific genetic positions of 1039 microsatellite markers in Kosambi centimorgans (cM) with physical positions. We also determined 95% confidence intervals of genetic distances of the adjacent marker intervals. Genetic lengths of the whole genome, chromosomes and adjacent marker intervals are compared with those of Rutgers Map v.2, which was constructed based on Caucasian populations (Centre d'Etudes du Polymorphisme Humain (CEPH) and Icelandic families) by mapping methods identical to those of the GENDISCAN map, CRIMAP software and the Kosambi map function. Mongolians showed approximately 1.9 fewer recombinations per meiosis than Caucasians. As a result, genetic lengths of the whole genome and chromosomes of the GENDISCAN map are shorter than those of Rutgers Map v.2. Thirty-eight marker intervals differed significantly between the Mongolian and Caucasian genetic maps. Conclusion The new GENDISCAN map is applicable to the genetic study of Asian populations. Differences in the genetic distances between the GENDISCAN and Caucasian maps could facilitate elucidation of genomic variations between different ethnic groups. PMID:19025666

  10. Cultivar origin and admixture detection in Turkish olive oils by SNP-based CAPS assays.

    PubMed

    Uncu, Ali Tevfik; Frary, Anne; Doganlar, Sami

    2015-03-01

    The aim of this study was to establish a DNA-based identification key to ascertain the cultivar origin of Turkish monovarietal olive oils. To reach this aim, we sequenced short fragments from five olive genes for SNP (single nucleotide polymorphism) identification and developed CAPS (cleaved amplified polymorphic DNA) assays for SNPs that alter restriction enzyme recognition motifs. When applied on the oils of 17 olive cultivars, a maximum of five CAPS assays were necessary to discriminate the varietal origin of the samples. We also tested the efficiency and limit of our approach for detecting olive oil admixtures. As a result of the analysis, we were able to detect admixing down to a limit of 20%. The SNP-based CAPS assays developed in this work can be used for testing and verification of the authenticity of Turkish monovarietal olive oils, for olive tree certification, and in germplasm characterization and preservation studies.

  11. Alkali-silica reactions of mortars produced by using waste glass as fine aggregate and admixtures such as fly ash and Li2CO3.

    PubMed

    Topçu, Ilker Bekir; Boğa, Ahmet Raif; Bilir, Turhan

    2008-01-01

    Use of waste glass or glass cullet (GC) as concrete aggregate is becoming more widespread each day because of the increase in resource efficiency. Recycling of wastes is very important for sustainable development. When glass is used as aggregate in concrete or mortar, expansions and internal stresses occur due to an alkali-silica reaction (ASR). Furthermore, rapid loss in durability is generally observed due to extreme crack formation and an increase in permeability. It is necessary to use some kind of chemical or mineral admixture to reduce crack formation. In this study, mortar bars are produced by using three different colors of glass in four different quantities as fine aggregate by weight, and the effects of these glass aggregates on ASR are investigated, corresponding to ASTM C 1260. Additionally, in order to reduce the expansions of mortars, 10% and 20% fly ash (FA) as mineral admixture and 1% and 2% Li(2)CO(3) as chemical admixture are incorporated by weight in the cement and their effects on expansion are examined. It is observed that among white (WG), green (GG) and brown glass (BG) aggregates, WG aggregate causes the greatest expansion. In addition, expansion increases with an increase in amount of glass. According to the test results, it is seen that over 20% FA and 2% Li(2)CO(3) replacements are required to produce mortars which have expansion values below the 0.2% critical value when exposed to ASR. However, usages of these admixtures reduce expansions occurring because of ASR.

  12. Population differentiation of zander (Sander lucioperca) across native and newly colonized ranges suggests increasing admixture in the course of an invasion

    PubMed Central

    Eschbach, Erik; Nolte, Arne W; Kohlmann, Klaus; Kersten, Petra; Kail, Jochem; Arlinghaus, Robert

    2014-01-01

    In addition to ecological factors, evolutionary processes can determine the invasion success of a species. In particular, genetic admixture has the potential to induce rapid evolutionary change, which can result from natural or human-assisted secondary contact between differentiated populations. We studied the recent range expansion of zander in Germany focusing on the interplay between invasion and genetic admixture. Historically, the rivers Elbe and Danube harboured the most north-western source populations from which a north-westward range expansion occurred. This was initiated by introducing zander outside its native range into rivers and lakes, and was fostered by migration through artificial canals and stocking from various sources. We analysed zander populations of the native and invaded ranges using nuclear and mitochondrial genetic markers. Three genetic lineages were identified, which were traced to ancestral ranges. Increased genetic diversity and admixture in the invaded region highlighted asymmetric gene flow towards this area. We suppose that the adaptive potential of the invading populations was promoted by genetic admixture, whereas competitive exclusion in the native areas provided a buffer against introgression by novel genotypes. These explanations would be in line with evidence that hybridization can drive evolutionary change under conditions when new niches can be exploited. PMID:24944569

  13. Impact of admixtures on the hydration kinetics of Portland cement

    SciTech Connect

    Cheung, J.; Jeknavorian, A.; Roberts, L.; Silva, D.

    2011-12-15

    Most concrete produced today includes either chemical additions to the cement, chemical admixtures in the concrete, or both. These chemicals alter a number of properties of cementitious systems, including hydration behavior, and it has been long understood by practitioners that these systems can differ widely in response to such chemicals. In this paper the impact on hydration of several classes of chemicals is reviewed with an emphasis on the current understanding of interactions with cement chemistry. These include setting retarders, accelerators, and water reducing dispersants. The ability of the chemicals to alter the aluminate-sulfate balance of cementitious systems is discussed with a focus on the impact on silicate hydration. As a key example of this complex interaction, unusual behavior sometimes observed in systems containing high calcium fly ash is highlighted.

  14. Assessing interethnic admixture using an X-linked insertion-deletion multiplex.

    PubMed

    Ribeiro-Rodrigues, Elzemar Martins; dos Santos, Ney Pereira Carneiro; dos Santos, Andrea Kely Campos Ribeiro; Pereira, Rui; Amorim, António; Gusmão, Leonor; Zago, Marco Antonio; dos Santos, Sidney Emanuel Batista

    2009-01-01

    In this study, a PCR multiplex was optimized, allowing the simultaneous analysis of 13 X-chromosome Insertion/deletion polymorphisms (INDELs). Genetic variation observed in Africans, Europeans, and Native Americans reveals high inter-population variability. The estimated proportions of X-chromosomes in an admixed population from the Brazilian Amazon region show a predominant Amerindian contribution (approximately 41%), followed by European (approximately 32%) and African (approximately 27%) contributions. The proportion of Amerindian contribution based on X-linked data is similar to the expected value based on mtDNA and Y-chromosome information. The accuracy for assessing interethnic admixture, and the high differentiation between African, European, and Native American populations, demonstrates the suitability of this INDEL set to measure ancestry proportions in three-hybrid populations, as it is the case of Latin American populations.

  15. No clear effect of admixture between two European invading outbreaks of Diabrotica virgifera virgifera in natura.

    PubMed

    Bermond, Gérald; Cavigliasso, Fanny; Mallez, Sophie; Spencer, Joseph; Guillemaud, Thomas

    2014-01-01

    In this study, we challenged the hypothesis that admixture may have had a positive impact in the context of the European invasion of the western corn rootworm (WCR), Diabrotica virgifera virgifera, LeConte. This beetle was introduced in Europe from the USA several times since the 1980's. The multiple introductions of this major pest of cultivated corn led to the formation of two major outbreaks in North Western (NW) Italy and in Central and South Eastern (CSE) Europe that eventually merged into a secondary contact zone where insects from both outbreaks interbreed. We collected about 600 insects from this contact zone and genotyped them using 13 microsatellite markers. Three types of information were obtained from the collected individuals: (i) their survival under starvation; (ii) their admixed status, determined through a Bayesian method of genetic clustering and (iii) their mating probability, studied via the detection, isolation and genotyping of sperm in female spermathecae. Twenty six % and 12% of the individuals were assigned to the NW Italy or the CSE Europe parental types, respectively, and 23% and 39% to the F1 and backcross hybrid types, respectively. Globally, our results do not reveal any significant impact of the admixed status on the mating probability and on the choice of mating partners. However the admixed status had a sex- and sampling site-dependent effect on survival in adults under starvation. In addition sex had an effect on survival, with mortality hazard about 3 times larger in males than in females. The consequences of these findings for the evolution of the admixture zone of northern Italy are discussed. PMID:25170837

  16. Origin and dynamics of admixture in Brazilians and its effect on the pattern of deleterious mutations

    PubMed Central

    Kehdy, Fernanda S. G.; Gouveia, Mateus H.; Machado, Moara; Magalhães, Wagner C. S.; Horimoto, Andrea R.; Horta, Bernardo L.; Moreira, Rennan G.; Leal, Thiago P.; Scliar, Marilia O.; Soares-Souza, Giordano B.; Rodrigues-Soares, Fernanda; Araújo, Gilderlanio S.; Zamudio, Roxana; Sant Anna, Hanaisa P.; Santos, Hadassa C.; Duarte, Nubia E.; Fiaccone, Rosemeire L.; Figueiredo, Camila A.; Silva, Thiago M.; Costa, Gustavo N. O.; Beleza, Sandra; Berg, Douglas E.; Cabrera, Lilia; Debortoli, Guilherme; Duarte, Denise; Ghirotto, Silvia; Gilman, Robert H.; Gonçalves, Vanessa F.; Marrero, Andrea R.; Muniz, Yara C.; Weissensteiner, Hansi; Yeager, Meredith; Rodrigues, Laura C.; Barreto, Mauricio L.; Lima-Costa, M. Fernanda; Pereira, Alexandre C.; Rodrigues, Maíra R.; Tarazona-Santos, Eduardo

    2015-01-01

    While South Americans are underrepresented in human genomic diversity studies, Brazil has been a classical model for population genetics studies on admixture. We present the results of the EPIGEN Brazil Initiative, the most comprehensive up-to-date genomic analysis of any Latin-American population. A population-based genome-wide analysis of 6,487 individuals was performed in the context of worldwide genomic diversity to elucidate how ancestry, kinship, and inbreeding interact in three populations with different histories from the Northeast (African ancestry: 50%), Southeast, and South (both with European ancestry >70%) of Brazil. We showed that ancestry-positive assortative mating permeated Brazilian history. We traced European ancestry in the Southeast/South to a wider European/Middle Eastern region with respect to the Northeast, where ancestry seems restricted to Iberia. By developing an approximate Bayesian computation framework, we infer more recent European immigration to the Southeast/South than to the Northeast. Also, the observed low Native-American ancestry (6–8%) was mostly introduced in different regions of Brazil soon after the European Conquest. We broadened our understanding of the African diaspora, the major destination of which was Brazil, by revealing that Brazilians display two within-Africa ancestry components: one associated with non-Bantu/western Africans (more evident in the Northeast and African Americans) and one associated with Bantu/eastern Africans (more present in the Southeast/South). Furthermore, the whole-genome analysis of 30 individuals (42-fold deep coverage) shows that continental admixture rather than local post-Columbian history is the main and complex determinant of the individual amount of deleterious genotypes. PMID:26124090

  17. Origin and dynamics of admixture in Brazilians and its effect on the pattern of deleterious mutations.

    PubMed

    Kehdy, Fernanda S G; Gouveia, Mateus H; Machado, Moara; Magalhães, Wagner C S; Horimoto, Andrea R; Horta, Bernardo L; Moreira, Rennan G; Leal, Thiago P; Scliar, Marilia O; Soares-Souza, Giordano B; Rodrigues-Soares, Fernanda; Araújo, Gilderlanio S; Zamudio, Roxana; Sant Anna, Hanaisa P; Santos, Hadassa C; Duarte, Nubia E; Fiaccone, Rosemeire L; Figueiredo, Camila A; Silva, Thiago M; Costa, Gustavo N O; Beleza, Sandra; Berg, Douglas E; Cabrera, Lilia; Debortoli, Guilherme; Duarte, Denise; Ghirotto, Silvia; Gilman, Robert H; Gonçalves, Vanessa F; Marrero, Andrea R; Muniz, Yara C; Weissensteiner, Hansi; Yeager, Meredith; Rodrigues, Laura C; Barreto, Mauricio L; Lima-Costa, M Fernanda; Pereira, Alexandre C; Rodrigues, Maíra R; Tarazona-Santos, Eduardo

    2015-07-14

    While South Americans are underrepresented in human genomic diversity studies, Brazil has been a classical model for population genetics studies on admixture. We present the results of the EPIGEN Brazil Initiative, the most comprehensive up-to-date genomic analysis of any Latin-American population. A population-based genome-wide analysis of 6,487 individuals was performed in the context of worldwide genomic diversity to elucidate how ancestry, kinship, and inbreeding interact in three populations with different histories from the Northeast (African ancestry: 50%), Southeast, and South (both with European ancestry >70%) of Brazil. We showed that ancestry-positive assortative mating permeated Brazilian history. We traced European ancestry in the Southeast/South to a wider European/Middle Eastern region with respect to the Northeast, where ancestry seems restricted to Iberia. By developing an approximate Bayesian computation framework, we infer more recent European immigration to the Southeast/South than to the Northeast. Also, the observed low Native-American ancestry (6-8%) was mostly introduced in different regions of Brazil soon after the European Conquest. We broadened our understanding of the African diaspora, the major destination of which was Brazil, by revealing that Brazilians display two within-Africa ancestry components: one associated with non-Bantu/western Africans (more evident in the Northeast and African Americans) and one associated with Bantu/eastern Africans (more present in the Southeast/South). Furthermore, the whole-genome analysis of 30 individuals (42-fold deep coverage) shows that continental admixture rather than local post-Columbian history is the main and complex determinant of the individual amount of deleterious genotypes.

  18. Origin and dynamics of admixture in Brazilians and its effect on the pattern of deleterious mutations.

    PubMed

    Kehdy, Fernanda S G; Gouveia, Mateus H; Machado, Moara; Magalhães, Wagner C S; Horimoto, Andrea R; Horta, Bernardo L; Moreira, Rennan G; Leal, Thiago P; Scliar, Marilia O; Soares-Souza, Giordano B; Rodrigues-Soares, Fernanda; Araújo, Gilderlanio S; Zamudio, Roxana; Sant Anna, Hanaisa P; Santos, Hadassa C; Duarte, Nubia E; Fiaccone, Rosemeire L; Figueiredo, Camila A; Silva, Thiago M; Costa, Gustavo N O; Beleza, Sandra; Berg, Douglas E; Cabrera, Lilia; Debortoli, Guilherme; Duarte, Denise; Ghirotto, Silvia; Gilman, Robert H; Gonçalves, Vanessa F; Marrero, Andrea R; Muniz, Yara C; Weissensteiner, Hansi; Yeager, Meredith; Rodrigues, Laura C; Barreto, Mauricio L; Lima-Costa, M Fernanda; Pereira, Alexandre C; Rodrigues, Maíra R; Tarazona-Santos, Eduardo

    2015-07-14

    While South Americans are underrepresented in human genomic diversity studies, Brazil has been a classical model for population genetics studies on admixture. We present the results of the EPIGEN Brazil Initiative, the most comprehensive up-to-date genomic analysis of any Latin-American population. A population-based genome-wide analysis of 6,487 individuals was performed in the context of worldwide genomic diversity to elucidate how ancestry, kinship, and inbreeding interact in three populations with different histories from the Northeast (African ancestry: 50%), Southeast, and South (both with European ancestry >70%) of Brazil. We showed that ancestry-positive assortative mating permeated Brazilian history. We traced European ancestry in the Southeast/South to a wider European/Middle Eastern region with respect to the Northeast, where ancestry seems restricted to Iberia. By developing an approximate Bayesian computation framework, we infer more recent European immigration to the Southeast/South than to the Northeast. Also, the observed low Native-American ancestry (6-8%) was mostly introduced in different regions of Brazil soon after the European Conquest. We broadened our understanding of the African diaspora, the major destination of which was Brazil, by revealing that Brazilians display two within-Africa ancestry components: one associated with non-Bantu/western Africans (more evident in the Northeast and African Americans) and one associated with Bantu/eastern Africans (more present in the Southeast/South). Furthermore, the whole-genome analysis of 30 individuals (42-fold deep coverage) shows that continental admixture rather than local post-Columbian history is the main and complex determinant of the individual amount of deleterious genotypes. PMID:26124090

  19. Influence of PSMC and other mineral admixtures on the properties of cement mortar

    NASA Astrophysics Data System (ADS)

    Xu, George Jianzhou

    PSMC is a waste material produced from pyrolysis of Sheet Molding Compound. The material consists of 35% fibreglass, 55% CaCOsb3 and 10% carbon. In this thesis, PSMC and seven other related materials have been investigated for their influences on the overall properties of cement mortar. The materials under investigation in addition to PSMC are the fibreglass part of PSMC (PG), the filler part of PSMC (C+Ca), the ground virgin fibreglass (RG), the virgin CaCOsb3 powder, the pyrolysed automotive fluff (PAF). For comparison, one class-F fly ash (FA), and one condensed silica fume (CSF) were also tested. The mortar properties that were studied include workability, strength, drying shrinkage, alkali-silica reactivity, sulphate resistance, freezing-thawing expansion, salt scaling resistance, and wet-dry expansion. The pore structures were also studied using water absorption and water evaporation techniques. It was found that PSMC increased the compressive strength, mitigated the ASR expansion and improved the sulphate resistance of cement mortar. All these improvements were largely due to the fibreglass content in the PSMC. Ground fibreglass was found to be a very effective material to improve the properties of cement mortar. It increased the compressive strength, reduced long term drying shrinkage, mitigated the ASR expansion, improved sulphate resistance, decreased the freeze-thaw weight loss and greatly enhanced the salt scaling resistance of cement mortar. The influence of fly ash and condensed silica fume on the properties of cement mortar was found to be similar to that of ground fibreglass. It was also found that the pore structure of cement mortars was greatly influenced by the mineral admixtures which possess pozzolanic properties. From a statistical analysis, it was concluded that the influence of mineral admixtures on the properties of cement mortar can be explained by their influence on three pore related factors. These factors are the porosity factor, the

  20. Population admixture, biological invasions and the balance between local adaptation and inbreeding depression.

    PubMed

    Verhoeven, Koen J F; Macel, Mirka; Wolfe, Lorne M; Biere, Arjen

    2011-01-01

    When previously isolated populations meet and mix, the resulting admixed population can benefit from several genetic advantages, including increased genetic variation, the creation of novel genotypes and the masking of deleterious mutations. These admixture benefits are thought to play an important role in biological invasions. In contrast, populations in their native range often remain differentiated and frequently suffer from inbreeding depression owing to isolation. While the advantages of admixture are evident for introduced populations that experienced recent bottlenecks or that face novel selection pressures, it is less obvious why native range populations do not similarly benefit from admixture. Here we argue that a temporary loss of local adaptation in recent invaders fundamentally alters the fitness consequences of admixture. In native populations, selection against dilution of the locally adapted gene pool inhibits unconstrained admixture and reinforces population isolation, with some level of inbreeding depression as an expected consequence. We show that admixture is selected against despite significant inbreeding depression because the benefits of local adaptation are greater than the cost of inbreeding. In contrast, introduced populations that have not yet established a pattern of local adaptation can freely reap the benefits of admixture. There can be strong selection for admixture because it instantly lifts the inbreeding depression that had built up in isolated parental populations. Recent work in Silene suggests that reduced inbreeding depression associated with post-introduction admixture may contribute to enhanced fitness of invasive populations. We hypothesize that in locally adapted populations, the benefits of local adaptation are balanced against an inbreeding cost that could develop in part owing to the isolating effect of local adaptation itself. The inbreeding cost can be revealed in admixing populations during recent invasions.

  1. A STUDY OF THE EFFECTS OF POST-COMBUSTION AMMONIA INJECTION ON FLY ASH QUALITY: CHARACTERIZATION OF AMMONIA RELEASE FROM CONCRETE AND MORTARS CONTAINING FLY ASH AS A POZZOLANIC ADMIXTURE

    SciTech Connect

    Robert F. Rathbone; Thomas L. Robl

    2002-10-30

    The Clean Air Act Amendments of 1990 require large reductions in emissions of NO{sub x} from coal-fired electric utility boilers. This will necessitate the use of ammonia injection, such as in selective catalytic reduction (SCR), in many power plants, resulting in the deposition of ammonia on the fly ash. The presence of ammonia could create a major barrier to fly ash utilization in concrete because of odor concerns. Although there have been limited studies of ammonia emission from concrete, little is known about the quantity of ammonia emitted during mixing and curing, and the kinetics of ammonia release. This is manifested as widely varying opinions within the concrete and ash marketing industry regarding the maximum acceptable levels of ammonia in fly ash. Therefore, practical guidelines for using ammoniated fly ash are needed in advance of the installation of many more SCR systems. The goal of this project was to develop practical guidelines for the handling and utilization of ammoniated fly ash in concrete, in order to prevent a decrease in the use of fly ash for this application. The objective was to determine the amount of ammonia that is released, over the short- and long-term, from concrete that contains ammoniated fly ash. The technical approach in this project was to measure the release of ammonia from mortar and concrete during mixing, placement, and curing. Work initially focused on laboratory mortar experiments to develop fundamental data on ammonia diffusion characteristics. Larger-scale laboratory experiments were then conducted to study the emission of ammonia from concrete containing ammoniated fly ash. The final phase comprised monitoring ammonia emissions from large concrete slabs. The data indicated that, on average, 15% of the initial ammonia was lost from concrete during 40 minutes of mixing, depending on the mix proportions and batch size. Long-term experiments indicated that ammonia diffusion from concrete was relatively slow, with greater

  2. Circulating Endocannabinoids and the Polymorphism 385C>A in Fatty Acid Amide Hydrolase (FAAH) Gene May Identify the Obesity Phenotype Related to Cardiometabolic Risk: A Study Conducted in a Brazilian Population of Complex Interethnic Admixture.

    PubMed

    Martins, Cyro José de Moraes; Genelhu, Virginia; Pimentel, Marcia Mattos Gonçalves; Celoria, Bruno Miguel Jorge; Mangia, Rogerio Fabris; Aveta, Teresa; Silvestri, Cristoforo; Di Marzo, Vincenzo; Francischetti, Emilio Antonio

    2015-01-01

    The dysregulation of the endocannabinoid system is associated with cardiometabolic complications of obesity. Allelic variants in coding genes for this system components may contribute to differences in the susceptibility to obesity and related health hazards. These data have mostly been shown in Caucasian populations and in severely obese individuals. We investigated a multiethnic Brazilian population to study the relationships among the polymorphism 385C>A in an endocannabinoid degrading enzyme gene (FAAH), endocannabinoid levels and markers of cardiometabolic risk. Fasting plasma levels of endocannabinoids and congeners (anandamide, 2-arachidonoylglycerol, N-oleoylethanolamide and N-palmitoylethanolamide) were measured by liquid chromatography-mass spectrometry in 200 apparently healthy individuals of both genders with body mass indices from 22.5 ± 1.8 to 35.9 ± 5.5 kg/m2 (mean ± 1 SD) and ages between 18 and 60 years. All were evaluated for anthropometric parameters, blood pressure, metabolic variables, homeostatic model assessment of insulin resistance (HOMA-IR), adiponectin, leptin, C-reactive protein, and genotyping. The endocannabinoid levels increased as a function of obesity and insulin resistance. The homozygous genotype AA was associated with higher levels of anandamide and lower levels of adiponectin versus wild homozygous CC and heterozygotes combined. The levels of anandamide were independent and positively associated with the genotype AA position 385 of FAAH, C-reactive protein levels and body mass index. Our findings provide evidence for an endocannabinoid-related phenotype that may be identified by the combination of circulating anandamide levels with genotyping of the FAAH 385C>A; this phenotype is not exclusive to mono-ethnoracial populations nor to individuals with severe obesity.

  3. A STUDY OF THE EFFECTS OF POST-COMBUSTION AMMONIA INJECTION ON FLY ASH QUALITY: CHARACTERIZATION OF AMMONIA RELEASE FROM CONCRETE AND MORTARS CONTAINING FLY ASH AS A POZZOLANIC ADMIXTURE

    SciTech Connect

    Robert F. Rathbone; Thomas L. Robl

    2002-04-11

    Work completed in this reporting period focused primarily on continuing measurements of the rate of ammonia loss from concrete, and the measurement of ammonia gas in the air above concrete and flowable fill immediately after placement. Concrete slabs were prepared to monitor the loss of ammonia during mixing, the concentration in the airspace above the slabs soon after placement, and the total quantity of ammonia evolved over a longer time period. Variables tested include temperature, ventilation rate, water:cementitious (W:C) ratio, and fly ash source. Short-term data indicate that for concrete placed in areas with poor air ventilation the fly ash NH{sub 3} concentration should not exceed about 90 to 145 mg/kg ash, depending on the water:cement ratio and the fly ash replacement rate, if a concentration of 10 ppm NH{sub 3} in the air is assumed to be the maximum acceptable level. Longer-term experiments showed that the ammonia loss rate is dependent on ammonia source (that is ammoniated ash vs. non-ammoniated ash with ammonia added to the water), and is also dependent on W:C ratio and temperature. Experiments were also conducted to study the loss of ammonia from fresh concrete during mixing. It was found that a high water:cementitious mix lost a greater percentage of ammonia than a low W:C mix, with a medium W:C mix losing an amount intermediate between these two. However, a larger batch size resulted in a smaller percentage of ammonia lost. The data suggest that a significant quantity of ammonia could be lost from Ready Mix concrete during transit, depending on the transit time, batch size, and mix proportions.

  4. Formal results regarding metric space techniques for the study of astrophysical maps

    NASA Technical Reports Server (NTRS)

    Adams, Fred C.; Wiseman, Jennifer J.

    1994-01-01

    We extend a newly developed formal system for the description of astrophyscial maps. In this formalism, we consider the difference between maps to be the distance between elements of a pseudometric space (the space of all such maps). This Ansatz allows us to measure quantitatively the difference between any two maps and to order the space of all maps. For each physical characteristic of interest, this technique assigns an 'output' function to each map; the difference between the maps is then determined from the difference between their corresponding output functions. In this present study, we show that the results of this procedure are invariant under a class of transformations of the maps and the domains of the maps. In addition, we study the propagation of errors (observational uncertainties) through this formalism. We show that the uncertainties in the output functions can be controlled provided that the signal to noise ratios in the original astrophysical maps are sufficiently high. The results of this paper thus increase the effectiveness of this formal system for the description, classification, and analysis of astrophysical maps.

  5. The Full-sky Astrometric Mapping Explorer Concept Study

    NASA Astrophysics Data System (ADS)

    Horner, S. D.; Germain, M. E.; Greene, T. P.; Harris, F. H.; Johnson, M. S.; Johnston, K. J.; Monet, D. G.; Murison, M. A.; Phillips, J. D.; Reasenberg, R. D.; Seidelmann, P. K.; Talabac, S. J.; Urban, S. E.; van Buren, D.; Vassar, R. H.

    1999-05-01

    NASA has selected the Full-sky Astrometric Mapping Explorer (FAME) to be one of five MIDEX missions to be funded for a concept study. This concept study will be submitted to NASA on 18 June, with final selection, scheduled for September, of two of these missions for flight in 2003 or 2004. FAME is designed to perform an all-sky, astrometric survey with unprecedented accuracy. It will create a rigid astrometric catalog of 40,000,000 stars with visual band magnitudes 5 < V < 15. For bright stars, 5 < V < 9, FAME will determine positions and parallaxes accurate to < 50 microarcseconds, with proper motion errors < 50 microarcseconds/year. For fainter stars, 9 < V < 15, FAME will determine positions and parallaxes accurate to < 300 microarcseconds, with proper motion errors < 300 microarcseconds/year. FAME will also collect photometric data on these 40,000,000 stars in four Sloan DSS colors. During the concept study, the team has worked to optimize the scientific return from FAME while minimizing cost and risk. The optical design was modified for improved accuracy of individual observations and improved mechanical design. The optical, mechanical, and thermal design of the instrument have been improved. Tests using CCDs in TDI mode are being conducted to confirm the accuracy obtainable from individual observations as well as determine the optimal clocking scheme for astrometric devices operated in TDI mode. The use of solar radiation pressure for spacecraft precession has undergone further feasibility study, as have the mechanisms for deploying the solar shield. Numerous other trade studies have been conducted, including orbit/communications, on board processing, and the use of neutral density filters for astrometry of bright stars versus other options. A detailed error budget has been formulated and the mission requirements have been defined. We look forward to selection for launch and a successful FAME mission that will redefine the extragalactic distance scale and

  6. Research Map of Research Priorities in HE Studies in the Kingdom of Saudi Arabia

    ERIC Educational Resources Information Center

    AlSumih, A. M.

    2016-01-01

    This study presents a research map for the key research priorities of higher education (HE) in the Kingdom of Saudi Arabia. The study diagnoses and analyzes the research reality in HE studies in KSA in terms of strength points and improvement opportunities. It also explores the research map fields of current and prospective research priorities in…

  7. Structural mapping: how to study the genetic architecture of a phenotypic trait through its formation mechanism.

    PubMed

    Tong, Chunfa; Shen, Lianying; Lv, Yafei; Wang, Zhong; Wang, Xiaoling; Feng, Sisi; Li, Xin; Sui, Yihan; Pang, Xiaoming; Wu, Rongling

    2014-01-01

    Traditional approaches for genetic mapping are to simply associate the genotypes of a quantitative trait locus (QTL) with the phenotypic variation of a complex trait. A more mechanistic strategy has emerged to dissect the trait phenotype into its structural components and map specific QTLs that control the mechanistic and structural formation of a complex trait. We describe and assess such a strategy, called structural mapping, by integrating the internal structural basis of trait formation into a QTL mapping framework. Electrical impedance spectroscopy (EIS) has been instrumental for describing the structural components of a phenotypic trait and their interactions. By building robust mathematical models on circuit EIS data and embedding these models within a mixture model-based likelihood for QTL mapping, structural mapping implements the EM algorithm to obtain maximum likelihood estimates of QTL genotype-specific EIS parameters. The uniqueness of structural mapping is to make it possible to test a number of hypotheses about the pattern of the genetic control of structural components. We validated structural mapping by analyzing an EIS data collected for QTL mapping of frost hardiness in a controlled cross of jujube trees. The statistical properties of parameter estimates were examined by simulation studies. Structural mapping can be a powerful alternative for genetic mapping of complex traits by taking account into the biological and physical mechanisms underlying their formation.

  8. Snow mapping and land use studies in Switzerland

    NASA Technical Reports Server (NTRS)

    Haefner, H. (Principal Investigator)

    1977-01-01

    The author has identified the following significant results. A system was developed for operational snow and land use mapping, based on a supervised classification method using various classification algorithms and representation of the results in maplike form on color film with a photomation system. Land use mapping, under European conditions, was achieved with a stepwise linear discriminant analysis by using additional ratio variables. On fall images, signatures of built-up areas were often not separable from wetlands. Two different methods were tested to correlate the size of settlements and the population with an accuracy for the densely populated Swiss Plateau between +2 or -12%.

  9. Task switching: a high-density electrical mapping study.

    PubMed

    Wylie, G R; Javitt, D C; Foxe, J J

    2003-12-01

    Flexibly switching between tasks is one of the paradigmatic functions of so-called "executive control" processes. Neuroimaging studies have implicated both prefrontal and parietal cortical regions in the processing necessary to effectively switch task. Beyond their general involvement in this critical function, however, little is known about the dynamics of processing across frontal and parietal regions. For instance, it remains to be determined to what extent these areas play a role in preparing to switch task before arrival of the stimulus to be acted upon and to what extent they play a role in any switching processes that occur after the stimulus is presented. Here, we used the excellent temporal resolution afforded by high-density mapping of brain potentials to explore the time course of the processes underlying (1) the performance of and (2) the preparation for a switch of task. We detail the contributions of both frontal and parietal processes to these two aspects of the task-switching process. Our data revealed a complex pattern of effects. Most striking was a period of sustained activity over bilateral parietal regions preceding the switch trial. Over frontal regions, activity actually decreased during this same period. Strongest sustained frontal activity was in fact seen for trials on which no switch was required. Further, we find that the first differential activity associated with switching task was over posterior parietal areas (220 ms), whereas over frontal scalp, the first differential activity is found more than 200 ms later. These and other effects are interpreted in terms of a "competition" model in which preparing to switch task is understood as the beginning of a competition between the potentially relevant tasks that is resolved during the switch trial. Our findings are difficult to account for with models that posit a strong role for frontal cortical regions in "reconfiguring" the system during switches of task.

  10. A Genome-Wide Search for Greek and Jewish Admixture in the Kashmiri Population.

    PubMed

    Downie, Jonathan M; Tashi, Tsewang; Lorenzo, Felipe Ramos; Feusier, Julie Ellen; Mir, Hyder; Prchal, Josef T; Jorde, Lynn B; Koul, Parvaiz A

    2016-01-01

    The Kashmiri population is an ethno-linguistic group that resides in the Kashmir Valley in northern India. A longstanding hypothesis is that this population derives ancestry from Jewish and/or Greek sources. There is historical and archaeological evidence of ancient Greek presence in India and Kashmir. Further, some historical accounts suggest ancient Hebrew ancestry as well. To date, it has not been determined whether signatures of Greek or Jewish admixture can be detected in the Kashmiri population. Using genome-wide genotyping and admixture detection methods, we determined there are no significant or substantial signs of Greek or Jewish admixture in modern-day Kashmiris. The ancestry of Kashmiri Tibetans was also determined, which showed signs of admixture with populations from northern India and west Eurasia. These results contribute to our understanding of the existing population structure in northern India and its surrounding geographical areas.

  11. A Genome-Wide Search for Greek and Jewish Admixture in the Kashmiri Population

    PubMed Central

    Tashi, Tsewang; Lorenzo, Felipe Ramos; Feusier, Julie Ellen; Mir, Hyder

    2016-01-01

    The Kashmiri population is an ethno-linguistic group that resides in the Kashmir Valley in northern India. A longstanding hypothesis is that this population derives ancestry from Jewish and/or Greek sources. There is historical and archaeological evidence of ancient Greek presence in India and Kashmir. Further, some historical accounts suggest ancient Hebrew ancestry as well. To date, it has not been determined whether signatures of Greek or Jewish admixture can be detected in the Kashmiri population. Using genome-wide genotyping and admixture detection methods, we determined there are no significant or substantial signs of Greek or Jewish admixture in modern-day Kashmiris. The ancestry of Kashmiri Tibetans was also determined, which showed signs of admixture with populations from northern India and west Eurasia. These results contribute to our understanding of the existing population structure in northern India and its surrounding geographical areas. PMID:27490348

  12. Mapping Knowledge Perspectives in Studies of Educational Change.

    ERIC Educational Resources Information Center

    Paulston, Rolland G.

    This document argues for the utility of mapping knowledge perspectives as a kind of cognitive art, or play of figuration to help orient educators to knowledge communities and their cultural codes, and to reinscribe modernist vocabularies into post-modern ways of seeing and representing educational change knowledge. A perspectivist approach is used…

  13. An Improved Approach for Mapping Quantitative Trait loci in a Pseudo-Testcross: Revisiting a Poplar Mapping Study

    SciTech Connect

    Wullschleger, Stan D; Wu, Song; Wu, Rongling; Yang, Jie; Li, Yao; Yin, Tongming; Tuskan, Gerald A

    2010-01-01

    A pseudo-testcross pedigree is widely used for mapping quantitative trait loci (QTL) in outcrossing species, but the model for analyzing pseudo-testcross data borrowed from the inbred backcross design can only detect those QTLs that are heterozygous only in one parent. In this study, an intercross model that incorporates the high heterozygosity and phase uncertainty of outcrossing species was used to reanalyze a published data set on QTL mapping in poplar trees. Several intercross QTLs that are heterozygous in both parents were detected, which are responsible not only for biomass traits, but also for their genetic correlations. This study provides a more complete identification of QTLs responsible for economically important biomass traits in poplars.

  14. An Improved Approach for Mapping Quantitative Trait Loci in a Pseudo-Testcross: Revisiting a Poplar Mapping Study

    SciTech Connect

    Tuskan, Gerald A; Yin, Tongming; Wullschleger, Stan D; Yang, Jie; Huang, Youjun; Li, Yao; Wu, Rongling

    2010-01-01

    A pseudo-testcross pedigree is widely used for mapping quantitative trait loci (QTL) in outcrossing species, but the model for analyzing pseudo-testcross data borrowed from the inbred backcross design can only detect those QTLs that are heterozygous only in one parent. In this study, an intercross model that incorporates the high heterozygosity and phase uncertainty of outcrossing species was used to reanalyze a published data set on QTL mapping in poplar trees. Several intercross QTLs that are heterozygous in both parents were detected, which are responsible not only for biomass traits, but also for their genetic correlations. This study provides a more complete identification of QTLs responsible for economically important biomass traits in poplars.

  15. Low-frequency resonances of the refractive index in weakly ionized plasma with an admixture of dust

    SciTech Connect

    Prudskikh, V. V.

    2013-12-15

    The propagation of low-frequency electromagnetic waves along the magnetic field in weakly ionized plasma with an admixture of dust is studied in the framework of the Hall magnetohydrodynamics. Explicit expressions for the coefficients of magnetic field diffusion in plasma are derived. The resonance of the refractive index is found to occur for either right- or left-hand polarized waves. A quantitative criterion is obtained that allows one to determine the polarization of waves that experience resonance at given plasma parameters. The physical mechanism of the resonance is discussed, and the obtained results are compared with the available literature data.

  16. Age-related weakness of proximal muscle studied with motor cortical mapping: a TMS study.

    PubMed

    Plow, Ela B; Varnerin, Nicole; Cunningham, David A; Janini, Daniel; Bonnett, Corin; Wyant, Alexandria; Hou, Juliet; Siemionow, Vlodek; Wang, Xiao-Feng; Machado, Andre G; Yue, Guang H

    2014-01-01

    Aging-related weakness is due in part to degeneration within the central nervous system. However, it is unknown how changes to the representation of corticospinal output in the primary motor cortex (M1) relate to such weakness. Transcranial magnetic stimulation (TMS) is a noninvasive method of cortical stimulation that can map representation of corticospinal output devoted to a muscle. Using TMS, we examined age-related alterations in maps devoted to biceps brachii muscle to determine whether they predicted its age-induced weakness. Forty-seven right-handed subjects participated: 20 young (22.6 ± 0.90 years) and 27 old (74.96 ± 1.35 years). We measured strength as force of elbow flexion and electromyographic activation of biceps brachii during maximum voluntary contraction. Mapping variables included: 1) center of gravity or weighted mean location of corticospinal output, 2) size of map, 3) volume or excitation of corticospinal output, and 4) response density or corticospinal excitation per unit area. Center of gravity was more anterior in old than in young (p<0.001), though there was no significant difference in strength between the age groups. Map size, volume, and response density showed no significant difference between groups. Regardless of age, center of gravity significantly predicted strength (β = -0.34, p = 0.005), while volume adjacent to the core of map predicted voluntary activation of biceps (β = 0.32, p = 0.008). Overall, the anterior shift of the map in older adults may reflect an adaptive change that allowed for the maintenance of strength. Laterally located center of gravity and higher excitation in the region adjacent to the core in weaker individuals could reflect compensatory recruitment of synergistic muscles. Thus, our study substantiates the role of M1 in adapting to aging-related weakness and subtending strength and muscle activation across age groups. Mapping from M1 may offer foundation for an examination of mechanisms that preserve

  17. Effect of mineral viscosity-enhancing admixtures on the solidification of evaporator concentrates.

    PubMed

    Lin, Chung-Yung; Huang, Wan-Ting

    2015-11-15

    It is known that partial replacement of cement by viscosity-enhancing admixtures, also known as anti-washout admixtures, affects the quality of the waste form or concrete. To reduce the bleeding rate of the paste, the characteristics of various mineral viscosity-enhancing admixtures dispersed in saline solutions were investigated, including sedimentation and viscosity. The admixture candidates included fly ash, silica fume, bentonite, and palygorskite. The effect of these admixtures blended with a cement-based matrix on the bleeding rate of the solidification of evaporator concentrates was also examined in this paper. The experimental results show the palygorskite Type 400 is the best choice to improve the quality of waste form, due to its excellent suspension property in the saline solution. The bleeding rate of paste decreased as the dispersion volume of the admixture suspension increased. For consideration of the quality of waste forms and the concentrate loading, the optimization of the palygorskite/concentrate ratio of 15-17 wt% and solidification agent/concentrate ratio of 1.0-1.2 were adopted. With this recipe, the quality of waste forms resulting from the solidification of simulated and actual evaporator concentrates mainly containing chloride met the regulations' requirements.

  18. Reconstructing Past Admixture Processes from Local Genomic Ancestry Using Wavelet Transformation

    PubMed Central

    Sanderson, Jean; Sudoyo, Herawati; Karafet, Tatiana M.; Hammer, Michael F.; Cox, Murray P.

    2015-01-01

    Admixture between long-separated populations is a defining feature of the genomes of many species. The mosaic block structure of admixed genomes can provide information about past contact events, including the time and extent of admixture. Here, we describe an improved wavelet-based technique that better characterizes ancestry block structure from observed genomic patterns. principal components analysis is first applied to genomic data to identify the primary population structure, followed by wavelet decomposition to develop a new characterization of local ancestry information along the chromosomes. For testing purposes, this method is applied to human genome-wide genotype data from Indonesia, as well as virtual genetic data generated using genome-scale sequential coalescent simulations under a wide range of admixture scenarios. Time of admixture is inferred using an approximate Bayesian computation framework, providing robust estimates of both admixture times and their associated levels of uncertainty. Crucially, we demonstrate that this revised wavelet approach, which we have released as the R package adwave, provides improved statistical power over existing wavelet-based techniques and can be used to address a broad range of admixture questions. PMID:25852078

  19. Generalizing geological maps with the GeoScaler software: The case study approach

    NASA Astrophysics Data System (ADS)

    Smirnoff, Alex; Huot-Vézina, Gabriel; Paradis, Serge J.; Boivin, Ruth

    2012-03-01

    Map generalization is rapidly becoming an important task in surficial and bedrock geology as broader regional and cross-boundary compilations are made from maps originally describing more specific areas. However, the entire process is still not defined in sufficient detail and relatively few automated tools are available. Moreover, the existing tools are primarily designed for generalization of topographic maps and do not address the needs specific to geology. Here we present two case studies describing our approach to the generalization of surficial and bedrock geology maps, respectively. To accomplish the task, we employed the GeoScaler software developed at the Laboratoire de cartographie numérique et de photogrammétrie (LCNP) of the Quebec division of the Geological Survey of Canada (Version 2009). The software is free over the Internet but requires an ArcGIS (ArcInfo) license. Four surficial geology maps at 1:250,000 scale were produced from 14 maps scaled at 1:100,000, while a single compilation of six bedrock maps was generalized from 1:125,000 to 1:500,000 scale. We describe the general considerations required to approach any generalization exercise, applied software, objectives, input data, major generalization steps, and the final results. All generalized maps were favorably evaluated by experts in geological mapping and the surficial maps have been published.

  20. Preservice Teachers Map Compassion: Connecting Social Studies and Literacy through Nonfictional Animal Stories

    ERIC Educational Resources Information Center

    Rule, Audrey C.; Montgomery, Sarah E.; Vander Zanden, Sarah M.

    2014-01-01

    Nonfiction stories of animal compassion were used in this literacy-social studies integrated lesson to address both efferent and aesthetic stances in transmediation of text from picture books to maps. Preservice early childhood and elementary teachers chose places from the nine recent children's stories, symbolizing them on a map while…

  1. Using Concept Maps to Elicit and Study Student Teachers' Perceptions about Inclusive Education: A Tanzanian Experience

    ERIC Educational Resources Information Center

    Wormnaes, Siri; Mkumbo, Kitila; Skaar, Bjørn; Refseth, Yngve

    2015-01-01

    In this study, concept map activities were used to trigger group discussions about inclusive education, with a focus on learners with disabilities. The participants were 226 Tanzanian student teachers. This article reports and discusses how the maps were analysed and what they indicate about the students' thinking about certain aspects of…

  2. iMindMap as an Innovative Tool in Teaching and Learning Accounting: An Exploratory Study

    ERIC Educational Resources Information Center

    Wan Jusoh, Wan Noor Hazlina; Ahmad, Suraya

    2016-01-01

    Purpose: The purpose of this study is to explore the use of iMindMap software as an interactive tool in the teaching and learning method and also to be able to consider iMindMap as an alternative instrument in achieving the ultimate learning outcome. Design/Methodology/Approach: Out of 268 students of the management accounting at the University of…

  3. Investigating Word Learning in Fragile X Syndrome: A Fast-Mapping Study

    ERIC Educational Resources Information Center

    McDuffie, Andrea; Kover, Sara T.; Hagerman, Randi; Abbeduto, Leonard

    2013-01-01

    Fast-mapping paradigms have not been used previously to examine the process of word learning in boys with fragile X syndrome (FXS), who are likely to have intellectual impairment, language delays, and symptoms of autism. In this study, a fast-mapping task was used to investigate associative word learning in 4- to 10-year-old boys with FXS relative…

  4. An Exploratory Study of Elementary Preservice Teachers' Understanding of Ecology Using Concept Maps

    ERIC Educational Resources Information Center

    Zak, Kevin M.; Munson, Bruce H.

    2008-01-01

    Classroom teachers serve a critical role in developing environmentally literate citizens. In this study, the authors assessed K-8 preservice teachers' understanding of basic ecological concepts. Participants (N = 56) constructed concept maps describing the inter-relationships among 16 ecological concepts. The authors analyzed the concept maps to…

  5. Pedagogical Knowledge Representation through Concept Mapping as a Study and Collaboration Tool in Teacher Education

    ERIC Educational Resources Information Center

    Koc, Mustafa

    2012-01-01

    This study explored (a) pre-service teachers' perceptions of using concept mapping (CM) in one of their pedagogical courses, (b) the predictive power of such implementation in course achievement, and (c) the role of prior experience with CM, type of mapping, and gender on their perceptions and performances in CM and achievement. The subjects were…

  6. Mapping Civic Engagement: A Case Study of Service-Learning in Appalachia

    ERIC Educational Resources Information Center

    Mann, Jessica; Casebeer, Daniel

    2016-01-01

    This study uses social cartography to map student perceptions of a co-curricular service-learning project in an impoverished rural community. As a complement to narrative discourse, mapping provides an opportunity to visualize not only the spatial nature of the educational experience but also, in this case, the benefits of civic engagement. The…

  7. An Adult Education Study of Participatory Community Mapping for Indigenous Knowledge Production

    ERIC Educational Resources Information Center

    Campbell, Craig A., Jr.

    2010-01-01

    This dissertation explores the notion of participatory community mapping (PCM) for Indigenous knowledge production. Three major questions were posed in the study. First, how can PCM foster Indigenous knowledge production and documentation? Second, how can PCM be used to include local voice and input in mapping projects, and third, how can adult…

  8. Symbolic, Nonsymbolic and Conceptual: An Across-Notation Study on the Space Mapping of Numerals.

    PubMed

    Zhang, Yu; You, Xuqun; Zhu, Rongjuan

    2016-07-01

    Previous studies suggested that there are interconnections between two numeral modalities of symbolic notation and nonsymbolic notation (array of dots), differences and similarities of the processing, and representation of the two modalities have both been found in previous research. However, whether there are differences between the spatial representation and numeral-space mapping of the two numeral modalities of symbolic notation and nonsymbolic notation is still uninvestigated. The present study aims to examine whether there are differences between the spatial representation and numeral-space mapping of the two numeral modalities of symbolic notation and nonsymbolic notation; especially how zero, as both a symbolic magnitude numeral and a nonsymbolic conceptual numeral, mapping onto space; and if the mapping happens automatically at an early stage of the numeral information processing. Results of the two experiments demonstrate that the low-level processing of symbolic numerals including zero and nonsymbolic numerals except zero can mapping onto space, whereas the low-level processing of nonsymbolic zero as a semantic conceptual numeral cannot mapping onto space, which indicating the specialty of zero in the numeral domain. The present study indicates that the processing of non-semantic numerals can mapping onto space, whereas semantic conceptual numerals cannot mapping onto space.

  9. Mapping geomorphological diversity. A case study in Derborence (Valais, Swiss Alps)

    NASA Astrophysics Data System (ADS)

    Maret, Hélène; Reynard, Emmanuel

    2015-04-01

    "Geodiversity is the natural range (diversity) of geological (rocks, minerals, fossils), geomorphological (landforms, processes) and soils features. It includes their assemblages, relationships, properties, interpretations and systems." (Gray, 2004: 6). Geodiversity has a strong spatial component and cartography is one good tool to characterize it. In this work, we focus on the geomorphological diversity defined as one part of geodiversity. The aim of this study is to assess geomorphological diversity based on a geomorphological map. A method was then developed to transform the latter into a map of geomorphological diversity. In other words, we transformed a qualitative geomorphological map (morphogenetic map) into a quantitative map (including the value of a geomorphological diversity index). The University of Lausanne has recently developed a geomorphological mapping legend on ArcGIS (Lambiel et al., in press). This system classifies the landforms according to various morphogenetical contexts (glacial, periglacial, fluvial, karstic, etc.). Each form is represented as a surface (e.g. alluvial fan), a line (e.g. moraine) or a dot (e.g. spring, sinkhole). As the geomorphological mapping legend was basically developed for graphical purposes, a first step was to transform the geomorphological map into a map only filled with polygons in order to delimitate precisely areas occupied by points and lines elements (for example rivers or holes). After that, a grid was added to compute the geomorphological diversity by counting the number of elements per square. It results in a raster map with a geomorphological diversity index split into five categories (very high, high, medium, low, very low). We also tested which square size was the most accurate for our purpose and checked whether this index produced interesting results. This attempt to define and test a new methodology for assessing geomorphological diversity could afterward be used to transform other maps (geology

  10. Secondary contact between Lycaeides idas and L. melissa in the Rocky Mountains: extensive admixture and a patchy hybrid zone.

    PubMed

    Gompert, Zachariah; Lucas, Lauren K; Fordyce, James A; Forister, Matthew L; Nice, Chris C

    2010-08-01

    Studies of hybridization have increased our understanding of the nature of species boundaries, the process of speciation, and the effects of hybridization on the evolution of populations and species. In the present study we use genetic and morphological data to determine the outcome and consequences of secondary contact and hybridization between the butterfly species Lycaeides idas and L. melissa in the Rocky Mountains. Admixture proportions estimated from structure and geographical cline analysis indicate L. idas and L. melissa have hybridized extensively in the Rocky Mountains and that reproductive isolation was insufficient to prevent introgression for much of the genome. Geographical patterns of admixture suggest that hybridization between L. idas and L. melissa has led to the formation of a hybrid zone. The hybrid zone is relatively wide, given estimates of dispersal for Lycaeides butterflies, and does not show strong evidence of cline concordance among characters. We believe the structure of the Lycaeides hybrid zone might be best explained by the patchy distribution of Lycaeides, local extinction and colonization of habitat patches, environmental variation and weak overall selection against hybrids. We found no evidence that hybridization in the Rocky Mountains has resulted in the formation of independent hybrid species, in contrast to the outcome of hybridization between L. idas and L. melissa in the Sierra Nevada. Finally, our results suggest that differences in male morphology between L. idas and L. melissa might contribute to isolation, or perhaps even that selection has favoured the spread of L. melissa male genitalia alleles. PMID:20618903

  11. NMR Spectroscopy to Study MAP Kinase Binding to MAP Kinase Phosphatases.

    PubMed

    Peti, Wolfgang; Page, Rebecca

    2016-01-01

    NMR spectroscopy and other solution methods are increasingly being used to obtain novel insights into the mechanisms by which MAPK regulatory proteins bind and direct the activity of MAPKs. Here, we describe how interactions between the MAPK p38α and its regulatory proteins are studied using NMR spectroscopy, isothermal titration calorimetry, and small angle X-ray scattering (SAXS). PMID:27514807

  12. International association for the study of lung cancer map, Wang lymph node map and rapid on-site evaluation in transbronchial needle aspiration

    PubMed Central

    Liu, Qing-Hua; Arias, Sixto

    2016-01-01

    The invaluable role of transbronchial needle aspiration (TBNA) in the diagnosis and staging of mediastinal adenopathy and lung cancer has been well established. Different lymph nodes regional nomenclatures and maps had been described over the years. The international association for the study of lung cancer (IASLC) and Wang’s maps complement each other benefiting patients with lung cancer. In this article we briefly reviewed the roles of IALSC, Wang’s maps and ROSE in TBNA. PMID:27747023

  13. Admixture in Latin America: Geographic Structure, Phenotypic Diversity and Self-Perception of Ancestry Based on 7,342 Individuals

    PubMed Central

    Ruiz-Linares, Andrés; Adhikari, Kaustubh; Acuña-Alonzo, Victor; Quinto-Sanchez, Mirsha; Jaramillo, Claudia; Arias, William; Fuentes, Macarena; Pizarro, María; Everardo, Paola; de Avila, Francisco; Gómez-Valdés, Jorge; León-Mimila, Paola; Hunemeier, Tábita; Ramallo, Virginia; Silva de Cerqueira, Caio C.; Burley, Mari-Wyn; Konca, Esra; de Oliveira, Marcelo Zagonel; Veronez, Mauricio Roberto; Rubio-Codina, Marta; Attanasio, Orazio; Gibbon, Sahra; Ray, Nicolas; Gallo, Carla; Poletti, Giovanni; Rosique, Javier; Schuler-Faccini, Lavinia; Salzano, Francisco M.; Bortolini, Maria-Cátira; Canizales-Quinteros, Samuel; Rothhammer, Francisco; Bedoya, Gabriel; Balding, David; Gonzalez-José, Rolando

    2014-01-01

    The current genetic makeup of Latin America has been shaped by a history of extensive admixture between Africans, Europeans and Native Americans, a process taking place within the context of extensive geographic and social stratification. We estimated individual ancestry proportions in a sample of 7,342 subjects ascertained in five countries (Brazil, Chile, Colombia, México and Perú). These individuals were also characterized for a range of physical appearance traits and for self-perception of ancestry. The geographic distribution of admixture proportions in this sample reveals extensive population structure, illustrating the continuing impact of demographic history on the genetic diversity of Latin America. Significant ancestry effects were detected for most phenotypes studied. However, ancestry generally explains only a modest proportion of total phenotypic variation. Genetically estimated and self-perceived ancestry correlate significantly, but certain physical attributes have a strong impact on self-perception and bias self-perception of ancestry relative to genetically estimated ancestry. PMID:25254375

  14. Winning the invasion roulette: escapes from fish farms increase admixture and facilitate establishment of non-native rainbow trout

    PubMed Central

    Consuegra, Sofia; Phillips, Nia; Gajardo, Gonzalo; de Leaniz, Carlos Garcia

    2011-01-01

    Aquaculture is a major source of invasive aquatic species, despite the fact that cultured organisms often have low genetic diversity and tend to be maladapted to survive in the wild. Yet, to what extent aquaculture escapees become established by means of high propagule pressure and multiple origins is not clear. We analysed the genetic diversity of 15 established populations and four farmed stocks of non-native rainbow trout in Chile, a species first introduced for recreational fishing around 1900, but which has in recent decades escaped in large numbers from fish farms and become widespread. Aquaculture propagule pressure was a good predictor of the incidence of farm escapees, which represented 16% of all free-ranging rainbow trout and were present in 80% of the study rivers. Hybrids between farm escapes and established trout were present in all rivers at frequencies ranging between 7 and 69%, and population admixture was positively correlated with genetic diversity. We suggest that non-native salmonids introduced into the Southern Hemisphere could benefit from admixture because local adaptations may not have yet developed, and there may be initially little fitness loss resulting from outbreeding depression. PMID:25568013

  15. Winning the invasion roulette: escapes from fish farms increase admixture and facilitate establishment of non-native rainbow trout.

    PubMed

    Consuegra, Sofia; Phillips, Nia; Gajardo, Gonzalo; de Leaniz, Carlos Garcia

    2011-09-01

    Aquaculture is a major source of invasive aquatic species, despite the fact that cultured organisms often have low genetic diversity and tend to be maladapted to survive in the wild. Yet, to what extent aquaculture escapees become established by means of high propagule pressure and multiple origins is not clear. We analysed the genetic diversity of 15 established populations and four farmed stocks of non-native rainbow trout in Chile, a species first introduced for recreational fishing around 1900, but which has in recent decades escaped in large numbers from fish farms and become widespread. Aquaculture propagule pressure was a good predictor of the incidence of farm escapees, which represented 16% of all free-ranging rainbow trout and were present in 80% of the study rivers. Hybrids between farm escapes and established trout were present in all rivers at frequencies ranging between 7 and 69%, and population admixture was positively correlated with genetic diversity. We suggest that non-native salmonids introduced into the Southern Hemisphere could benefit from admixture because local adaptations may not have yet developed, and there may be initially little fitness loss resulting from outbreeding depression.

  16. Range expansion of house sparrows (Passer domesticus) in Kenya: evidence of genetic admixture and human-mediated dispersal.

    PubMed

    Schrey, Aaron W; Liebl, Andrea L; Richards, Christina L; Martin, Lynn B

    2014-01-01

    Introduced species offer an opportunity to study the ecological process of range expansions. Recently, 3 mechanisms have been identified that may resolve the genetic paradox (the seemingly unlikely success of introduced species given the expected reduction in genetic diversity through bottlenecks or founder effects): multiple introductions, high propagule pressure, and epigenetics. These mechanisms are probably also important in range expansions (either natural or anthropogenic), yet this possibility remains untested in vertebrates. We used microsatellite variation (7 loci) in house sparrows (Passer domesticus), an introduced species that has been spreading across Kenya for ~60 years, to determine if patterns of variation could explain how this human commensal overcame the genetic paradox and expresses such considerable phenotypic differentiation across this new range. We note that in some cases, polygenic traits and epistasis among genes, for example, may not have negative effects on populations. House sparrows arrived in Kenya by a single introduction event (to Mombasa, ~1950) and have lower genetic diversity than native European and introduced North American populations. We used Bayesian clustering of individuals (n = 233) to detect that at least 2 types of range expansion occurred in Kenya: one with genetic admixture and one with little to no admixture. We also found that genetic diversity increased toward a range edge, and the range expansion was consistent with long-distance dispersal. Based on these data, we expect that the Kenyan range expansion was anthropogenically influenced, as the expansions of other introduced human commensals may also be.

  17. Admixture in Latin America: geographic structure, phenotypic diversity and self-perception of ancestry based on 7,342 individuals.

    PubMed

    Ruiz-Linares, Andrés; Adhikari, Kaustubh; Acuña-Alonzo, Victor; Quinto-Sanchez, Mirsha; Jaramillo, Claudia; Arias, William; Fuentes, Macarena; Pizarro, María; Everardo, Paola; de Avila, Francisco; Gómez-Valdés, Jorge; León-Mimila, Paola; Hunemeier, Tábita; Ramallo, Virginia; Silva de Cerqueira, Caio C; Burley, Mari-Wyn; Konca, Esra; de Oliveira, Marcelo Zagonel; Veronez, Mauricio Roberto; Rubio-Codina, Marta; Attanasio, Orazio; Gibbon, Sahra; Ray, Nicolas; Gallo, Carla; Poletti, Giovanni; Rosique, Javier; Schuler-Faccini, Lavinia; Salzano, Francisco M; Bortolini, Maria-Cátira; Canizales-Quinteros, Samuel; Rothhammer, Francisco; Bedoya, Gabriel; Balding, David; Gonzalez-José, Rolando

    2014-09-01

    The current genetic makeup of Latin America has been shaped by a history of extensive admixture between Africans, Europeans and Native Americans, a process taking place within the context of extensive geographic and social stratification. We estimated individual ancestry proportions in a sample of 7,342 subjects ascertained in five countries (Brazil, Chile, Colombia, México and Perú). These individuals were also characterized for a range of physical appearance traits and for self-perception of ancestry. The geographic distribution of admixture proportions in this sample reveals extensive population structure, illustrating the continuing impact of demographic history on the genetic diversity of Latin America. Significant ancestry effects were detected for most phenotypes studied. However, ancestry generally explains only a modest proportion of total phenotypic variation. Genetically estimated and self-perceived ancestry correlate significantly, but certain physical attributes have a strong impact on self-perception and bias self-perception of ancestry relative to genetically estimated ancestry. PMID:25254375

  18. Mechanical Characteristics of Hardened Concrete with Different Mineral Admixtures: A Review

    PubMed Central

    2014-01-01

    The available literature identifies that the addition of mineral admixture as partial replacement of cement improves the microstructure of the concrete (i.e., porosity and pore size distribution) as well as increasing the mechanical characteristics such as drying shrinkage and creep, compressive strength, tensile strength, flexural strength, and modulus of elasticity; however, no single document is available in which review and comparison of the influence of the addition of these mineral admixtures on the mechanical characteristics of the hardened pozzolanic concretes are presented. In this paper, based on the reported results in the literature, mechanical characteristics of hardened concrete partially containing mineral admixtures including fly ash (FA), silica fume (SF), ground granulated blast furnace slag (GGBS), metakaolin (MK), and rice husk ash (RHA) are discussed and it is concluded that the content and particle size of mineral admixture are the parameters which significantly influence the mechanical properties of concrete. All mineral admixtures enhance the mechanical properties of concrete except FA and GGBS which do not show a significant effect on the strength of concrete at 28 days; however, gain in strength at later ages is considerable. Moreover, the comparison of the mechanical characteristics of different pozzolanic concretes suggests that RHA and SF are competitive. PMID:24688443

  19. The Effect of Solid Admixtures on the Velocity of Motion of a Free Dusty Air Jet

    NASA Technical Reports Server (NTRS)

    Chernov, A. P.

    1957-01-01

    In dusty air flows occurring in industrial practice in transport by air pressure of friable materials, in the drying, annealing, and so forth, of a pulverized solid mass in suspension, and in other processes, the concentration of solid particles usually has a magnitude of the order of 1 kg per 1 kg of air. At such a concentration, the ratio of the volume of the particles to the volume of the air is small (less than one-thousandth part). However, regardless of this, the presence of a solid admixture manifests itself in the rules for the velocity distribution of the air in a dusty air flow. As a result, the rules of velocity change are different for clean and for dusty air flows. The estimation of the influence of the admixture on the velocity of the motion of the flow presents a definitive interest. One of the attempts to estimate that influence on the axial velocity of a free axially symmetrical jet with admixtures was made by Abramovich. Abramovich assumed beforehand that the fine particles of the admixture in the jet are subject to the motion of the air (that is, that the velocity of the admixture is approximately equal to the local velocity of the air); he then took as the basis of his considerations, in solving the problem, the condition that the amount of motion of the two-phase jet must be constant.

  20. A STUDY ON REASONS OF ERRORS OF OLD SURVEY MAPS IN CADASTRAL SYSTEM

    NASA Astrophysics Data System (ADS)

    Yanase, Norihiko

    This paper explicates sources on survey map errors which were made in 19th century. The present cadastral system stands on registers and survey maps which were compiled to change the land taxation system in the Meiji era. Many Japanese may recognize the reasons why poor survey technique by farmers, too long measure to avoid heavy tax, careless official check and other deception made such errors of acreage from several to more than ten percent of area in survey maps. The author would like to maintain that such errors, called nawa-nobi, were lawful in accordance with the then survey regulation because of results to analyze old survey regulations, history of making maps and studies of cadastral system. In addition to, a kind of survey maps' errors should be pointed out a reason why the easy subdivision system which could approve without real survey and disposal of state property with inadequate survey.

  1. Selection of a taxonomic level for soil mapping using diversity and map purity indices: A case study from an Iranian arid region

    NASA Astrophysics Data System (ADS)

    Jafari, A.; Ayoubi, S.; Khademi, H.; Finke, P. A.; Toomanian, N.

    2013-11-01

    There is a growing demand for digital soil maps for environmental planning, modeling and management. If mapped soil classes are taken from a hierarchical taxonomic system, a question arises: which taxonomic level is most appropriate to be depicted on the map with a given sample size, available environmental covariates and the strength of predictive relations between covariates and the soil classes? Pedodiversity, the study and measurement of soil diversity, can be considered as a framework to analyze spatial patterns depicted on soil maps. This paper discusses the selection of the taxonomic level for soil mapping in an arid region in southeast Iran on the basis of (1) the purity of a digital soil class map derived from an artificial neural network (ANN) prediction method using environmental covariates and (2) pedodiversity indices of these soil maps. The prediction of soil classes and the calculation of diversity indices were carried out for taxonomic categories of order, suborder, great group, and subgroup. Using the feed forward back-propagation algorithm, three-layer ANNs with input, hidden and output layers were trained for soil class prediction at each category level. In most predictions, the combined use of terrain attributes and geomorphic surfaces provided the best results. When the taxonomic level changed from order to subgroup, the purity decreased, whereas the values of the diversity indices increased. The highest purity and lowest diversity are observed at the order level, indicating a good quality map in terms of its purity, but reflecting only little soil diversity, thus with a low usage potential. On the other hand, soil maps at the level of subgroup illustrate high diversity and low purity, so that the predicted map units are highly uncertain. This map is also inappropriate for users. We introduced an index combining the diversity and purity which indicated that the best taxonomic level for soil mapping in the study area is the great group, with

  2. History and future of the Multidisciplinary Association for Psychedelic Studies (MAPS).

    PubMed

    Emerson, Amy; Ponté, Linnae; Jerome, Lisa; Doblin, Rick

    2014-01-01

    This article describes the teenage vision of the founder of the Multidisciplinary Association for Psychedelic Studies (MAPS) that humanity's future would be aided by the therapeutic and spiritual potential of psychedelic substances. The article traces the trajectory of MAPS from inception in 1986 to its present, noting future goals with respect to research, outreach, and harm reduction. MAPS was created as a non-profit psychedelic pharmaceutical company in response to the 1985 scheduling of 3,4-methylenedioxymethamphetamine (MDMA). Overcoming many hurdles, MAPS developed the first double-blind, placebo-controlled trial of MDMA-assisted psychotherapy for posttraumatic stress disorder (PTSD) and plans for FDA prescription approval in 2021. MAPS' program of research expanded to include a trial of lysergic acid diethylamide (LSD)-assisted psychotherapy for anxiety when facing life-threatening illness, observational studies of ibogaine in the treatment of addiction, and studies of MDMA for social anxiety in people with autism spectrum disorders. MAPS meets the challenges of drug development through a clinical research team led by a former Novartis drug development professional experienced in the conduct, monitoring, and analysis of clinical trials. MAPS' harm-reduction efforts are intended to avoid backlash and build a post-prohibition world by assisting non-medical users to transform difficult psychedelic experiences into opportunities for growth.

  3. History and future of the Multidisciplinary Association for Psychedelic Studies (MAPS).

    PubMed

    Emerson, Amy; Ponté, Linnae; Jerome, Lisa; Doblin, Rick

    2014-01-01

    This article describes the teenage vision of the founder of the Multidisciplinary Association for Psychedelic Studies (MAPS) that humanity's future would be aided by the therapeutic and spiritual potential of psychedelic substances. The article traces the trajectory of MAPS from inception in 1986 to its present, noting future goals with respect to research, outreach, and harm reduction. MAPS was created as a non-profit psychedelic pharmaceutical company in response to the 1985 scheduling of 3,4-methylenedioxymethamphetamine (MDMA). Overcoming many hurdles, MAPS developed the first double-blind, placebo-controlled trial of MDMA-assisted psychotherapy for posttraumatic stress disorder (PTSD) and plans for FDA prescription approval in 2021. MAPS' program of research expanded to include a trial of lysergic acid diethylamide (LSD)-assisted psychotherapy for anxiety when facing life-threatening illness, observational studies of ibogaine in the treatment of addiction, and studies of MDMA for social anxiety in people with autism spectrum disorders. MAPS meets the challenges of drug development through a clinical research team led by a former Novartis drug development professional experienced in the conduct, monitoring, and analysis of clinical trials. MAPS' harm-reduction efforts are intended to avoid backlash and build a post-prohibition world by assisting non-medical users to transform difficult psychedelic experiences into opportunities for growth. PMID:24830183

  4. Thinking Maps: An innovative way to increase sixth-grade student achievement in social studies

    NASA Astrophysics Data System (ADS)

    Reed, Tamita

    The purpose of this quantitative study was to determine the effect of Thinking Maps on the achievement of 6th-grade social studies students in order to determine its effectiveness. The population of this study came from a suburban middle school in the state of Georgia. The quantitative data included a pretest and posttest. The study was designed to find (a) whether there is a significant difference between the mean posttest scores on the benchmark test of 6th-grade students who are taught with either Thinking Maps or traditional social studies methods, (b) whether there is a significant difference between the mean posttest scores on the benchmark test of 6th-grade male versus female social studies students, and (c) whether there is a significant interaction between 6th-grade students' type of social studies class and gender as to differentially affect their mean posttest scores on the benchmark test. To answer these questions, students' pretest and posttest were compared to determine if there was a statistically significant difference after Thinking Maps were implemented with the treatment group for 9 weeks. The results indicate that there was no significant difference in the test scores between the students who were taught with Thinking Maps and the students who were taught without Thinking Maps. However, the students taught with Thinking Maps had the higher adjusted posttest scores.

  5. Long-term development of the Czech landscape studied on the basis of old topographic maps

    NASA Astrophysics Data System (ADS)

    Skokanová, H.; Havlíček, M.

    2009-04-01

    The paper deals with long-term land use changes in the Czech Republic with the help of old topographic maps. Departments of Landscape Ecology and GIS Applications from the Silva Tarouca Research Institute for Landscape and Ornamental Gardening, v.v.i. study these changes mainly in the research project MSM 6293359101 Research into sources and indicators of biodiversity in cultural landscape in the context of its fragmentation dynamics, the subpart Quantitative analysis of the dynamics of the Czech landscape development. In this paper, the authors concentrate mainly on map sources, which were acquired for the purpose of the project and also introduce partial results. Maps, which are the sources for the analyses, are following: maps from 2nd Austrian military survey in the scale 1:28 800 (created for the territory of the Czech Republic in the period 1836-1852), maps from 3rd Austrian military survey in the scale 1:25 000 (created for the Czech Republic in the period 1876-1880), Czechoslovak military topographic maps in the scale 1:25 000 from 1950s and 1990s, and Czech topographic base maps in the scale 1:10 000 from 2002-2006. It is necessary to complete maps of the 2nd and 3rd Austrian military survey thanks to their incompleteness, mainly along state borders. Also maps from 1nd Austrian military survey in the scale 1:28 800 (created for the Czech Republic in the period 1764-1783) are available; however, their usage for the accurate analyses in the GIS environment is restricted by their poor cartographic accuracy. Apart of the above mentioned maps, there has been progress in collecting maps from the interwar and war period (revised maps of the 3rd Austrian military survey maps, maps of the provisional military survey from 1923-1933, maps of definitive military survey from 1934-1938 and maps from survey of Moravian part of the Protectorate of Bohemia and Moravia, so called Messtischblätter from 1939-1945). Maps from five periods are manually vectorised in the GIS

  6. Beta-Thalassemia in Iran: new insight into the role of genetic admixture and migration.

    PubMed

    Rezaee, Ali Reza; Banoei, Mohammad Mehdi; Khalili, Elham; Houshmand, Massoud

    2012-01-01

    Iran with an area of 1.648 million km(2) is located between the Caspian Sea and the Persian Gulf. The Iranian population consists of multiethnic groups that have been influenced by various invasions and migration throughout history. Studies have revealed the presence of more than 47 different β-globin gene mutations responsible for β-Thalassemia in Iran. This paper is an attempt to study the origin of β-Thalassemia mutations in different parts of Iran. Distribution of β-Thalassemia mutations in Iran shows different patterns in different areas. β-Thalassemia mutations have been a reflection of people and area in correlation with migration and origin of ancestors. We compared the frequencies of β-globin mutations in different regions of Iran with those derived from neighboring countries. The analysis provided evidence of complementary information about the genetic admixture and migration of some mutations, as well as the remarkable genetic classification of the Iranian people and ethnic groups.

  7. 78 FR 71707 - MAP-21 Comprehensive Truck Size and Weight Limits Study Public Meeting and Outreach Sessions

    Federal Register 2010, 2011, 2012, 2013, 2014

    2013-11-29

    ... Federal Highway Administration MAP-21 Comprehensive Truck Size and Weight Limits Study Public Meeting and... Century Act (MAP-21) Comprehensive Truck Size and Weight Limits Study. The Transportation Research Board... MAP-21 Comprehensive Truck Size and Weight Limits Study. The DOT will hold a second public...

  8. Viscosity and Electrical Conductivity of the Liquid Sn-3.8Ag-0.7Cu Alloy with Minor Co Admixtures

    NASA Astrophysics Data System (ADS)

    Yakymovych, A.; Sklyarchuk, V.; Plevachuk, Yu.; Sokoliuk, B.

    2016-08-01

    The viscosity and electrical conductivity as structure-sensitive transport properties of the liquid metals and alloys are important for modeling of the melting and solidification processes. The viscosity and electrical conductivity data provide additional information about the influence of impurities on the structure and physicochemical properties of the liquid metal matrix, which is useful for understanding of structural transformations in the liquid state. In the present work, an impact of minor Co admixtures on the viscosity and electrical conductivity of liquid Sn-3.8Ag-0.7Cu alloy was studied. An increase in viscosity with minor Co admixtures is in a satisfactory agreement with model predicted data obtained from thermodynamic approaches and suggests a significant impact of interatomic interactions. Cobalt admixtures significantly affect the electrical conductivity, which gradually decreases with increasing the amount of Co. Additionally, the sample microstructure has been examined using x-ray diffraction and scanning electron microscopy analyses. The formation of Sn-based Co-Sn intermetallic compounds was detected in the alloys with more than 1 wt.% Co.

  9. Viscosity and Electrical Conductivity of the Liquid Sn-3.8Ag-0.7Cu Alloy with Minor Co Admixtures

    NASA Astrophysics Data System (ADS)

    Yakymovych, A.; Sklyarchuk, V.; Plevachuk, Yu.; Sokoliuk, B.

    2016-10-01

    The viscosity and electrical conductivity as structure-sensitive transport properties of the liquid metals and alloys are important for modeling of the melting and solidification processes. The viscosity and electrical conductivity data provide additional information about the influence of impurities on the structure and physicochemical properties of the liquid metal matrix, which is useful for understanding of structural transformations in the liquid state. In the present work, an impact of minor Co admixtures on the viscosity and electrical conductivity of liquid Sn-3.8Ag-0.7Cu alloy was studied. An increase in viscosity with minor Co admixtures is in a satisfactory agreement with model predicted data obtained from thermodynamic approaches and suggests a significant impact of interatomic interactions. Cobalt admixtures significantly affect the electrical conductivity, which gradually decreases with increasing the amount of Co. Additionally, the sample microstructure has been examined using x-ray diffraction and scanning electron microscopy analyses. The formation of Sn-based Co-Sn intermetallic compounds was detected in the alloys with more than 1 wt.% Co.

  10. WWC Quick Review of "Retrieval Practice Produces More Learning than Elaborative Studying with Concept Mapping"

    ERIC Educational Resources Information Center

    What Works Clearinghouse, 2011

    2011-01-01

    The study examined whether using the retrieval-practice studying technique--in which students alternate between reading a passage and writing memorable information from that passage--improved student learning of a science passage more than the study-once, repeated-study, or concept-mapping techniques. The study found that students using the…

  11. Admixture between native and invasive populations may increase invasiveness of Mimulus guttatus.

    PubMed

    van Kleunen, Mark; Röckle, Michael; Stift, Marc

    2015-09-22

    Self-fertilization and admixture of genotypes from different populations can have major fitness consequences in native species. However, few studies have addressed their potential roles in invasive species. Here, we used plants of Mimulus guttatus from seven native North American, three invasive Scottish and four invasive New Zealand populations to address this. We created seeds from self-fertilization, within-population outcrossing, between-population outcrossing within the same range, and outcrossing between the native and invasive ranges. A greenhouse experiment showed that native and invasive plants of M. guttatus suffered to similar degrees from inbreeding depression, in terms of asexual reproduction and biomass production. After outcrossing with plants from other populations, M. guttatus benefited from heterosis, in terms of asexual and sexual reproduction, and biomass production, particularly when plants from native and invasive populations were crossed. This suggests that, when novel genotypes of M. guttatus from the native North American range will be introduced to the invasive ranges, subsequent outcrossing with M. guttatus plants that are already there might further boost invasiveness of this species. PMID:26354937

  12. Analysis of genetic admixture in Uyghur using the 26 Y-STR loci system.

    PubMed

    Bian, Yingnan; Zhang, Suhua; Zhou, Wei; Zhao, Qi; Siqintuya; Zhu, Ruxin; Wang, Zheng; Gao, Yuzhen; Hong, Jie; Lu, Daru; Li, Chengtao

    2016-01-01

    The Uyghur population has experienced extensive interaction with European and Eastern Asian populations historically. A set of high-resolution genetic markers could be useful to infer the genetic relationships between the Uyghur population and European and Asian populations. In this study we typed 100 unrelated Uyghur males living in southern Xinjiang at 26 Y-STR loci. Using the high-resolution 26 Y-STR loci system, we investigated genetic and phylogenetic relationship between the Uyghur population and 23 reference European or Asian populations. We found that the Uyghur population exhibited a genetic admixture of Eastern Asian and European populations, and had a slightly closer relationship with the selected European populations than the Eastern Asian populations. We also demonstrated that the 26 Y-STR loci system was potentially useful in forensic sciences because it has a large power of discrimination and rarely exhibits common haplotypes. However, ancestry inference of Uyghur samples could be challenging due to the admixed nature of the population. PMID:26842947

  13. Analysis of genetic admixture in Uyghur using the 26 Y-STR loci system

    PubMed Central

    Bian, Yingnan; Zhang, Suhua; Zhou, Wei; Zhao, Qi; Siqintuya; Zhu, Ruxin; Wang, Zheng; Gao, Yuzhen; Hong, Jie; Lu, Daru; Li, Chengtao

    2016-01-01

    The Uyghur population has experienced extensive interaction with European and Eastern Asian populations historically. A set of high-resolution genetic markers could be useful to infer the genetic relationships between the Uyghur population and European and Asian populations. In this study we typed 100 unrelated Uyghur males living in southern Xinjiang at 26 Y-STR loci. Using the high-resolution 26 Y-STR loci system, we investigated genetic and phylogenetic relationship between the Uyghur population and 23 reference European or Asian populations. We found that the Uyghur population exhibited a genetic admixture of Eastern Asian and European populations, and had a slightly closer relationship with the selected European populations than the Eastern Asian populations. We also demonstrated that the 26 Y-STR loci system was potentially useful in forensic sciences because it has a large power of discrimination and rarely exhibits common haplotypes. However, ancestry inference of Uyghur samples could be challenging due to the admixed nature of the population. PMID:26842947

  14. Admixture between native and invasive populations may increase invasiveness of Mimulus guttatus

    PubMed Central

    van Kleunen, Mark; Röckle, Michael; Stift, Marc

    2015-01-01

    Self-fertilization and admixture of genotypes from different populations can have major fitness consequences in native species. However, few studies have addressed their potential roles in invasive species. Here, we used plants of Mimulus guttatus from seven native North American, three invasive Scottish and four invasive New Zealand populations to address this. We created seeds from self-fertilization, within-population outcrossing, between-population outcrossing within the same range, and outcrossing between the native and invasive ranges. A greenhouse experiment showed that native and invasive plants of M. guttatus suffered to similar degrees from inbreeding depression, in terms of asexual reproduction and biomass production. After outcrossing with plants from other populations, M. guttatus benefited from heterosis, in terms of asexual and sexual reproduction, and biomass production, particularly when plants from native and invasive populations were crossed. This suggests that, when novel genotypes of M. guttatus from the native North American range will be introduced to the invasive ranges, subsequent outcrossing with M. guttatus plants that are already there might further boost invasiveness of this species. PMID:26354937

  15. Use of ready-mixed concrete plant sludge water in concrete containing an additive or admixture.

    PubMed

    Chatveera, B; Lertwattanaruk, P

    2009-04-01

    In this study, we investigated the feasibility of using sludge water from a ready-mixed concrete plant as mixing water in concrete containing either fly ash as an additive or a superplasticizer admixture based on sulfonated naphthalene-formaldehyde condensates (SNF). The chemical and physical properties of the sludge water and the dry sludge were investigated. Cement pastes were mixed using sludge water containing various levels of total solids content (0.5, 2.5, 5, 7.5, 10, 12.5, and 15%) in order to determine the optimum content in the sludge water. Increasing the total solids content beyond 5-6% tended to reduce the compressive strength and shorten the setting time. Concrete mixes were then prepared using sludge water containing 5-6% total solids content. The concrete samples were evaluated with regard to water required, setting time, slump, compressive strength, permeability, and resistance to acid attack. The use of sludge water in the concrete mix tended to reduce the effect of both fly ash and superplasticizer. Sludge water with a total solids content of less than 6% is suitable for use in the production of concrete with acceptable strength and durability.

  16. Distribution of HLA haplotypes across Japanese Archipelago: similarity, difference and admixture.

    PubMed

    Nakaoka, Hirofumi; Inoue, Ituro

    2015-11-01

    The human leukocyte antigen (HLA) region is the most polymorphic region in the human genome. The polymorphic nature of the HLA region is thought to have been shaped from balancing selection. The complex migration events during the Out-of-Africa expansion have influenced geographic patterns of HLA allele frequencies and diversities across present-day human populations. Differences in the HLA allele frequency may contribute geographic differences in the susceptibility to many diseases, such as infectious, autoimmune and metabolic diseases. Here we briefly reviewed characteristics of frequency distribution of HLA alleles and haplotypes in Japanese population. A large part of HLA alleles and haplotypes that are common in Japanese are shared with neighboring Asian populations. The differentiations in HLA alleles and haplotypes across Japanese regional populations may provide clues to model for peopling of Japanese Archipelago and for design of genetic association studies. Finally, we introduce recent topics that new HLA alleles derived from ancient admixtures with Neanderthals and Denisovans are thought to have played an important role in the adaptation of modern humans to local pathogens during Out-of-Africa expansion. PMID:26202576

  17. Efficiency of the coherent biexciton admixture mechanism for multiple exciton generation in InAs nanocrystals

    NASA Astrophysics Data System (ADS)

    Kowalski, Piotr; Machnikowski, Paweł

    2015-12-01

    We study the coherent mixing between two-particle (single exciton) and four-particle (biexciton) states of a semiconductor nanocrystal resulting from the Coulomb coupling between states with different numbers of electron-hole pairs. Using a simple model of the nanocrystal wave functions and an envelope function approach, we estimate the efficiency of the multiple exciton generation (MEG) process resulting from such coherent admixture mechanism, including all the relevant states in a very broad energy interval. We show that in a typical ensemble of nanocrystals with an average radius of 3nm, the onset of the MEG process appears about 1 eV above the lower edge of the biexciton density of states. This is due to the angular momentum conservation that imposes selection rules and limits the available MEG pathways, thus taking over the role of momentum conservation that hinders this process in bulk. The efficiency of the MEG process reaches 50% for photon energies around 5 eV. The MEG onset shifts to lower energies and therefore the efficiency increases in a certain energy range as the radius grows. The energy dependence of the MEG efficiency differs considerably between ensembles with small and large inhomogeneity of nanocrystal sizes.

  18. Utilization of water-reducing admixtures in cemented paste backfill of sulphide-rich mill tailings.

    PubMed

    Ercikdi, Bayram; Cihangir, Ferdi; Kesimal, Ayhan; Deveci, Haci; Alp, Ibrahim

    2010-07-15

    This study presents the effect of three different water-reducing admixtures (WRAs) on the rheological and mechanical properties of cemented paste backfill (CPB) samples. A 28-day strength of > or = 0.7 MPa and the maintenance of the stability (i.e. > or = 0.7 MPa) over 360 days of curing were desired as the design criteria. Ordinary Portland cement (OPC) and Portland composite cement (PCC) were used as binders at 5 wt.% dose. WRAs were initially tested to determine the dosage of a WRA for a required consistency of 7'' for CPB mixtures. A total of 192 CPB samples were then prepared using WRAs. The utilization of WRAs enhanced the flow characteristics of the CPB mixture and allowed to achieve the same consistency at a lower water-to-cement ratio. For OPC, the addition of WRAs appeared to improve the both short- and long-term performance of CPB samples. However, only polycarboxylate-based superplasticiser produced the desired 28-day strength of > or = 0.7 MPa when PCC was used as the binder. These findings suggest that WRAs can be suitably exploited for CPB of sulphide-rich tailings to improve the strength and stability in short and long terms allowing to reduce binder costs in a CPB plant. PMID:20382473

  19. Admixture between native and invasive populations may increase invasiveness of Mimulus guttatus.

    PubMed

    van Kleunen, Mark; Röckle, Michael; Stift, Marc

    2015-09-22

    Self-fertilization and admixture of genotypes from different populations can have major fitness consequences in native species. However, few studies have addressed their potential roles in invasive species. Here, we used plants of Mimulus guttatus from seven native North American, three invasive Scottish and four invasive New Zealand populations to address this. We created seeds from self-fertilization, within-population outcrossing, between-population outcrossing within the same range, and outcrossing between the native and invasive ranges. A greenhouse experiment showed that native and invasive plants of M. guttatus suffered to similar degrees from inbreeding depression, in terms of asexual reproduction and biomass production. After outcrossing with plants from other populations, M. guttatus benefited from heterosis, in terms of asexual and sexual reproduction, and biomass production, particularly when plants from native and invasive populations were crossed. This suggests that, when novel genotypes of M. guttatus from the native North American range will be introduced to the invasive ranges, subsequent outcrossing with M. guttatus plants that are already there might further boost invasiveness of this species.

  20. Socioeconomic Status and Lung Cancer: Unraveling the Contribution of Genetic Admixture

    PubMed Central

    Selvin, Steve; Wrensch, Margaret R.; Sison, Jennette D.; Hansen, Helen M.; Quesenberry, Charles P.; Seldin, Michael F.; Barcellos, Lisa F.; Buffler, Patricia A.; Wiencke, John K.

    2013-01-01

    Objectives. We examined the relationship between genetic ancestry, socioeconomic status (SES), and lung cancer among African Americans and Latinos. Methods. We evaluated SES and genetic ancestry in a Northern California lung cancer case–control study (1998–2003) of African Americans and Latinos. Lung cancer case and control participants were frequency matched on age, gender, and race/ethnicity. We assessed case–control differences in individual admixture proportions using the 2-sample t test and analysis of covariance. Logistic regression models examined associations among genetic ancestry, socioeconomic characteristics, and lung cancer. Results. Decreased Amerindian ancestry was associated with higher education among Latino control participants and greater African ancestry was associated with decreased education among African lung cancer case participants. Education was associated with lung cancer among both Latinos and African Americans, independent of smoking, ancestry, age, and gender. Genetic ancestry was not associated with lung cancer among African Americans. Conclusions. Findings suggest that socioeconomic factors may have a greater impact than genetic ancestry on lung cancer among African Americans. The genetic heterogeneity and recent dynamic migration and acculturation of Latinos complicate recruitment; thus, epidemiological analyses and findings should be interpreted cautiously. PMID:23948011

  1. Effects of drying conditions, admixtures and specimen size on shrinkage strains

    SciTech Connect

    Al-Saleh, Saleh A. . E-mail: alsaleh@dr.com; Al-Zaid, Rajeh Z.

    2006-10-15

    The paper presents the results of an experimental investigation on the effects of drying conditions, specimen size and presence of plasticizing admixture on the development of shrinkage strains. The measurements are taken in a harsh (50 deg. C and 5% R.H.) and a moderate environment (28 deg. C and 50% R.H.). The results include strain development at various levels of cross sections of concrete prisms. The drying conditions are found to be the dominant parameter affecting the shrinkage strain development particularly in specimens of smaller sizes. The effect of plasticizing admixture on shrinkage strains is negligible.

  2. Characterizing semantic mappings adaptation via biomedical KOS evolution: a case study investigating SNOMED CT and ICD.

    PubMed

    Dos Reis, Julio Cesar; Pruski, Cédric; Da Silveira, Marcos; Reynaud-Delaître, Chantal

    2013-01-01

    Mappings established between Knowledge Organization Systems (KOS) increase semantic interoperability between biomedical information systems. However, biomedical knowledge is highly dynamic and changes affecting KOS entities can potentially invalidate part or the totality of existing mappings. Understanding how mappings evolve and what the impacts of KOS evolution on mappings are is therefore crucial for the definition of an automatic approach to maintain mappings valid and up-to-date over time. In this article, we study variations of a specific KOS complex change (split) for two biomedical KOS (SNOMED CT and ICD-9-CM) through a rigorous method of investigation for identifying and refining complex changes, and for selecting representative cases. We empirically analyze and explain their influence on the evolution of associated mappings. Results point out the importance of considering various dimensions of the information described in KOS, like the semantic structure of concepts, the set of relevant information used to define the mappings and the change operations interfering with this set of information. PMID:24551341

  3. Study Abroad and the City: Mapping Urban Identity

    ERIC Educational Resources Information Center

    Blair, Scott

    2011-01-01

    Study abroad by U.S. students, despite recent growth into non-western and rural destinations, often remains focused on cities, often very large and highly urbanized ones. While the destination cities for study abroad are located across the globe, European cities remain predominant, and thus, this article focuses on study abroad in one city. The…

  4. Research on Integrated Mapping——A Case Study of Integrated Land Use with Swamp Mapping

    NASA Astrophysics Data System (ADS)

    Zhang, S.; Yan, F.; Chang, L.

    2015-12-01

    Unified real estate registration system shows the attention, determination and effort to of CPC Central Committee and State Council on real estate registration in China. However, under current situation, China's real estate registration work made less progress. One of the reasons is that it's hard to express the property right of real estate on one map under the multi-sector management system. Under current multi-sector management system in China, different departments usually just survey and mapping the land type under its jurisdiction. For example, wetland investigation only mapping all kinds of wetland resources but not mapping other resource types. As a result, it cause he problem of coincidence or leak in integration of different results from different departments. As resources of the earth's surface, the total area of forest, grassland, wetland and so on should be equal to the total area of the earth's surface area. However, under the current system, the area of all kinds of resources is not equal to the sum of the earth's surface. Therefore, it is of great importance to express all the resources on one map. On one hand, this is conducive to find out the real area and distribution of resources and avoid the problem of coincidence or leak in integration; On the other hand, it is helpful to study the dynamic change of different resources. Therefore, we first proposed the "integrated mapping" as a solution, and take integrated land use with swamp mapping in Northeast China as an example to investigate the feasibility and difficulty. Study showed that: integrated land use with swamp mapping can be achieved through combining land use survey standards with swamps survey standards and "second mapping" program. Based on the experience of integrated land use with swamp mapping, we point out its reference function on integrated mapping and unified real estate registration system. We concluded that: (1) Comprehending and integrating different survey standard of

  5. Mapping biomass with remote sensing: a comparison of methods for the case study of Uganda

    PubMed Central

    2011-01-01

    Background Assessing biomass is gaining increasing interest mainly for bioenergy, climate change research and mitigation activities, such as reducing emissions from deforestation and forest degradation and the role of conservation, sustainable management of forests and enhancement of forest carbon stocks in developing countries (REDD+). In response to these needs, a number of biomass/carbon maps have been recently produced using different approaches but the lack of comparable reference data limits their proper validation. The objectives of this study are to compare the available maps for Uganda and to understand the sources of variability in the estimation. Uganda was chosen as a case-study because it presents a reliable national biomass reference dataset. Results The comparison of the biomass/carbon maps show strong disagreement between the products, with estimates of total aboveground biomass of Uganda ranging from 343 to 2201 Tg and different spatial distribution patterns. Compared to the reference map based on country-specific field data and a national Land Cover (LC) dataset (estimating 468 Tg), maps based on biome-average biomass values, such as the Intergovernmental Panel on Climate Change (IPCC) default values, and global LC datasets tend to strongly overestimate biomass availability of Uganda (ranging from 578 to 2201 Tg), while maps based on satellite data and regression models provide conservative estimates (ranging from 343 to 443 Tg). The comparison of the maps predictions with field data, upscaled to map resolution using LC data, is in accordance with the above findings. This study also demonstrates that the biomass estimates are primarily driven by the biomass reference data while the type of spatial maps used for their stratification has a smaller, but not negligible, impact. The differences in format, resolution and biomass definition used by the maps, as well as the fact that some datasets are not independent from the reference data to which they

  6. On the feasibility of tracking with differential-algebra maps in long-term stability studies for large hadron colliders

    SciTech Connect

    Kleiss, R.; Schmidt, F.; Yan, Y.

    1992-01-01

    A time-saving alternative to conventional element-by-element tracking in long-term stability studies is the use of truncated Taylor maps. This report discusses how the non-symplecticity of a moderately high-order truncated Taylor map affects its reliability when the map is used for tracking over several thousand turns. Various machines and two different map-constructing programs are compared. It is found that the discrepancies between the Taylor map results and those obtained by direct tracking grow with amplitude. Thus, such maps are not guaranteed to be sufficient for long-term tracking over millions of turns without suitable symplectification.

  7. Sub-pixel mapping of water boundaries using pixel swapping algorithm (case study: Tagliamento River, Italy)

    NASA Astrophysics Data System (ADS)

    Niroumand-Jadidi, Milad; Vitti, Alfonso

    2015-10-01

    Taking the advantages of remotely sensed data for mapping and monitoring of water boundaries is of particular importance in many different management and conservation activities. Imagery data are classified using automatic techniques to produce maps entering the water bodies' analysis chain in several and different points. Very commonly, medium or coarse spatial resolution imagery is used in studies of large water bodies. Data of this kind is affected by the presence of mixed pixels leading to very outstanding problems, in particular when dealing with boundary pixels. A considerable amount of uncertainty inescapably occurs when conventional hard classifiers (e.g., maximum likelihood) are applied on mixed pixels. In this study, Linear Spectral Mixture Model (LSMM) is used to estimate the proportion of water in boundary pixels. Firstly by applying an unsupervised clustering, the water body is identified approximately and a buffer area considered ensuring the selection of entire boundary pixels. Then LSMM is applied on this buffer region to estimate the fractional maps. However, resultant output of LSMM does not provide a sub-pixel map corresponding to water abundances. To tackle with this problem, Pixel Swapping (PS) algorithm is used to allocate sub-pixels within mixed pixels in such a way to maximize the spatial proximity of sub-pixels and pixels in the neighborhood. The water area of two segments of Tagliamento River (Italy) are mapped in sub-pixel resolution (10m) using a 30m Landsat image. To evaluate the proficiency of the proposed approach for sub-pixel boundary mapping, the image is also classified using a conventional hard classifier. A high resolution image of the same area is also classified and used as a reference for accuracy assessment. According to the results, sub-pixel map shows in average about 8 percent higher overall accuracy than hard classification and fits very well in the boundaries with the reference map.

  8. Effects of birthplace and individual genetic admixture on lung volume and exercise phenotypes of Peruvian Quechua.

    PubMed

    Brutsaert, Tom D; Parra, Esteban; Shriver, Mark; Gamboa, Alfredo; Palacios, Jose-Antonio; Rivera, Maria; Rodriguez, Ivette; León-Velarde, Fabiola

    2004-04-01

    Forced vital capacity (FVC) and maximal exercise response were measured in two populations of Peruvian males (age, 18-35 years) at 4,338 m who differed by the environment in which they were born and raised, i.e., high altitude (Cerro de Pasco, Peru, BHA, n = 39) and sea level (Lima, Peru, BSL, n = 32). BSL subjects were transported from sea level to 4,338 m, and were evaluated within 24 hr of exposure to hypobaric hypoxia. Individual admixture level (ADMIX, % Spanish ancestry) was estimated for each subject, using 22 ancestry-informative genetic markers and also by skin reflectance measurement (MEL). Birthplace accounted for the approximately 10% larger FVC (P < 0.001), approximately 15% higher maximal oxygen consumption (VO(2)max, ml.min(-1).kg(-1)) (P < 0.001), and approximately 5% higher arterial oxygen saturation during exercise (SpO(2)) (P < 0.001) of BHA subjects. ADMIX was low in both study groups, averaging 9.5 +/- 2.6% and 2.1 +/- 0.3% in BSL and BHA subjects, respectively. Mean underarm MEL was significantly higher in the BSL group (P < 0.001), despite higher ADMIX. ADMIX was not associated with any study phenotype, but study power was not sufficient to evaluate hypotheses of genetic adaptation via the ADMIX variable. MEL and FVC were positively correlated in the BHA (P = 0.035) but not BSL (P = 0.335) subjects. However, MEL and ADMIX were not correlated across the entire study sample (P = 0.282). In summary, results from this study emphasize the importance of developmental adaptation to high altitude. While the MEL-FVC correlation may reflect genetic adaptation to high altitude, study results suggest that alternate (environmental) explanations be considered.

  9. Admixture of propofol and alfentanil. Use for intravenous sedation and analgesia during transvaginal oocyte retrieval.

    PubMed

    Sherry, E

    1992-06-01

    An admixture of propofol and alfentanil provides adequate sedation and analgesia during transvaginal oocyte retrieval in the absence of a paracervical block. In 100 patients the technique provided haemodynamic stability, sedation which was easily controlled, rapid recovery and universal patient acceptance.

  10. Phenomenological model of sintering of oxide nuclear fuel with doping admixtures

    SciTech Connect

    Baranov, V. G.; Devyatko, Yu. N.; Tenishev, A. V.; Khomyakov, O. V.

    2015-12-15

    It is shown that a change in the linear dimension of compacted UO{sub 2} in the sintering process is associated with its plastic yielding under the action of the forces of residual stress and capillary forces. From the curves of sintering of a fuel with doping admixtures in various gaseous media, its rate of creep is reduced.

  11. Admixture of propofol and alfentanil. Use for intravenous sedation and analgesia during transvaginal oocyte retrieval.

    PubMed

    Sherry, E

    1992-06-01

    An admixture of propofol and alfentanil provides adequate sedation and analgesia during transvaginal oocyte retrieval in the absence of a paracervical block. In 100 patients the technique provided haemodynamic stability, sedation which was easily controlled, rapid recovery and universal patient acceptance. PMID:1616081

  12. IMMUNOCAT-a data management system for epitope mapping studies.

    PubMed

    Chung, Jo L; Sun, Jian; Sidney, John; Sette, Alessandro; Peters, Bjoern

    2010-01-01

    To enable rationale vaccine design, studies of molecular and cellular mechanisms of immune recognition need to be linked with clinical studies in humans. A major challenge in conducting such translational research studies lies in the management and integration of large amounts and various types of data collected from multiple sources. For this purpose, we have established "IMMUNOCAT", an interactive data management system for the epitope discovery research projects conducted by our group. The system provides functions to store, query, and analyze clinical and experimental data, enabling efficient, systematic, and integrative data management. We demonstrate how IMMUNOCAT is utilized in a large-scale research contract that aims to identify epitopes in common allergens recognized by T cells from human donors, in order to facilitate the rational design of allergy vaccines. At clinical sites, demographic information and disease history of each enrolled donor are captured, followed by results of an allergen skin test and blood draw. At the laboratory site, T cells derived from blood samples are tested for reactivity against a panel of peptides derived from common human allergens. IMMUNOCAT stores results from these T cell assays along with MHC:peptide binding data, results from RAST tests for antibody titers in donor serum, and the respective donor HLA typing results. Through this system, we are able to perform queries and integrated analyses of the various types of data. This provides a case study for the use of bioinformatics and information management techniques to track and analyze data produced in a translational research study aimed at epitope identification.

  13. The use of Sentinel-2 imagery for seagrass mapping: Kalloni Gulf (Lesvos Island, Greece) case study

    NASA Astrophysics Data System (ADS)

    Topouzelis, Konstantinos; Charalampis Spondylidis, Spyridon; Papakonstantinou, Apostolos; Soulakellis, Nikolaos

    2016-08-01

    Seagrass meadows play a significant role in ecosystems by stabilizing sediment and improving water clarity, which enhances seagrass growing conditions. It is high on the priority of EU legislation to map and protect them. The traditional use of medium spatial resolution satellite imagery e.g. Landsat-8 (30m) is very useful for mapping seagrass meadows on a regional scale. However, the availability of Sentinel-2 data, the recent ESA's satellite with its payload Multi-Spectral Instrument (MSI) is expected to improve the mapping accuracy. MSI designed to improve coastline studies due to its enhanced spatial and spectral capabilities e.g. optical bands with 10m spatial resolution. The present work examines the quality of Sentinel-2 images for seagrass mapping, the ability of each band in detection and discrimination of different habitats and estimates the accuracy of seagrass mapping. After pre-processing steps, e.g. radiometric calibration and atmospheric correction, image classified into four classes. Classification classes included sub-bottom composition e.g. seagrass, soft bottom, and hard bottom. Concrete vectors describing the areas covered by seagrass extracted from the high-resolution satellite image and used as in situ measurements. The developed methodology applied in the Gulf of Kalloni, (Lesvos Island - Greece). Results showed that Sentinel-2 images can be robustly used for seagrass mapping due to their spatial resolution, band availability and radiometric accuracy.

  14. p38 Mitogen-activated protein kinase inhibitors: a review on pharmacophore mapping and QSAR studies.

    PubMed

    Gangwal, Rahul P; Bhadauriya, Anuseema; Damre, Mangesh V; Dhoke, Gaurao V; Sangamwar, Abhay T

    2013-01-01

    p38 mitogen-activated protein (MAP) kinases are the serine/threonine protein kinases, which play a vital role in cellular responses to external stress signals. p38 MAP kinase inhibitors have shown anti-inflammatory effects in the preclinical disease models, primarily through inhibition of the expression of inflammatory mediators. A number of structurally diverse p38 MAP kinase inhibitors have been developed as potential anti-inflammatory agents. Most of the inhibitors have failed in the clinical trials either due to poor pharmacokinetic profile or selectivity issue, which makes p38 MAP kinase a promising target for molecular modelling studies. Several quantitative structure activity relationships (QSAR) and pharmacophore models have been developed to identify the structural requirements essential for p38 MAP kinase inhibitory activity. In this review, we provide an overview of the presently known p38 MAP kinase inhibitors and how QSAR analyses among series of compounds have led to the development of molecular models and pharmacophores, allowing the design of novel inhibitors.

  15. Engineering Feasibility and Trade Studies for the NASA/VSGC MicroMaps Space Mission

    NASA Technical Reports Server (NTRS)

    Abdelkhalik, Ossama O.; Nairouz, Bassem; Weaver, Timothy; Newman, Brett

    2003-01-01

    Knowledge of airborne CO concentrations is critical for accurate scientific prediction of global scale atmospheric behavior. MicroMaps is an existing NASA owned gas filter radiometer instrument designed for space-based measurement of atmospheric CO vertical profiles. Due to programmatic changes, the instrument does not have access to the space environment and is in storage. MicroMaps hardware has significant potential for filling a critical scientific need, thus motivating concept studies for new and innovative scientific spaceflight missions that would leverage the MicroMaps heritage and investment, and contribute to new CO distribution data. This report describes engineering feasibility and trade studies for the NASA/VSGC MicroMaps Space Mission. Conceptual studies encompass: 1) overall mission analysis and synthesis methodology, 2) major subsystem studies and detailed requirements development for an orbital platform option consisting of a small, single purpose spacecraft, 3) assessment of orbital platform option consisting of the International Space Station, and 4) survey of potential launch opportunities for gaining assess to orbit. Investigations are of a preliminary first-order nature. Results and recommendations from these activities are envisioned to support future MicroMaps Mission design decisions regarding program down select options leading to more advanced and mature phases.

  16. Meeting the Demands of Professional Education: A Study of Mind Mapping in a Professional Doctoral Physical Therapy Education Program

    ERIC Educational Resources Information Center

    Pollard, Elicia L.

    2010-01-01

    The purposes of this study are to investigate whether the quiz scores of physical therapy students who integrated mind mapping in their learning strategies are significantly different than the quiz scores of students who did not use mind mapping to learn in a lecture-based research course and examine the students' perceptions of mind mapping as a…

  17. Spatial memory extinction: a c-Fos protein mapping study.

    PubMed

    Méndez-Couz, M; Conejo, N M; Vallejo, G; Arias, J L

    2014-03-01

    While the neuronal basis of spatial memory consolidation has been thoroughly studied, the substrates mediating the process of extinction remain largely unknown. This study aimed to evaluate the functional contribution of selected brain regions during the extinction of a previously acquired spatial memory task in the Morris water maze. For that purpose, we used adult male Wistar rats trained in a spatial reference memory task. Learning-related changes in c-Fos inmunoreactive cells after training were evaluated in cortical and subcortical regions. Results show that removal of the hidden platform in the water maze induced extinction of the previously reinforced escape behavior after 16 trials, without spontaneous recovery 24h later. Extinction was related with significantly higher numbers of c-Fos positive nuclei in amygdala nuclei and prefrontal cortex. On the other hand, the lateral mammillary bodies showed higher number of c-Fos positive cells than the control group. Therefore, in contrast with the results obtained in studies of classical conditioning, we show the involvement of diencephalic structures mediating this kind of learning. In summary, our findings suggest that medial prefrontal cortex, the amygdala complex and diencephalic structures like the lateral mammillary nuclei are relevant for the extinction of spatial memory. PMID:24315832

  18. A study of an orbital radar mapping mission to Venus. Volume 3: Parametric studies and subsystem comparisons

    NASA Technical Reports Server (NTRS)

    1973-01-01

    Parametric studies and subsystem comparisons for the orbital radar mapping mission to planet Venus are presented. Launch vehicle requirements and primary orbiter propulsion system requirements are evaluated. The systems parametric analysis indicated that orbit size and orientation interrelated with almost all of the principal spacecraft systems and influenced significantly the definition of orbit insertion propulsion requirements, weight in orbit capability, radar system design, and mapping strategy.

  19. The Algebro-geometric Study of Range Maps

    NASA Astrophysics Data System (ADS)

    Compagnoni, Marco; Notari, Roberto; Ruggiu, Andrea Alessandro; Antonacci, Fabio; Sarti, Augusto

    2016-08-01

    Localizing a radiant source is a problem of great interest to many scientific and technological research areas. Localization based on range measurements is at the core of technologies such as radar, sonar and wireless sensor networks. In this manuscript, we offer an in-depth study of the model for source localization based on range measurements obtained from the source signal, from the point of view of algebraic geometry. In the case of three receivers, we find unexpected connections between this problem and the geometry of Kummer's and Cayley's surfaces. Our work also gives new insights into the localization based on range differences.

  20. Effects of concept map teaching on students' critical thinking and approach to learning and studying.

    PubMed

    Chen, Shiah-Lian; Liang, Tienli; Lee, Mei-Li; Liao, I-Chen

    2011-08-01

    The purpose of this study was to explore the effects of concept mapping in developing critical thinking ability and approach to learning and studying. A quasi-experimental study design with a purposive sample was drawn from a group of nursing students enrolled in a medical-surgical nursing course in central Taiwan. Students in the experimental group were taught to use concept mapping in their learning. Students in the control group were taught by means of traditional lectures. After the intervention, the experimental group had better overall critical thinking scores than did the control group, although the difference was not statistically significant. After controlling for the effects of age and the pretest score on critical thinking using analysis of covariance, the experimental group had significantly higher adjusted mean scores on inference and overall critical thinking compared with the control group. Concept mapping is an effective tool for improving students' ability to think critically.

  1. Genetic analysis of ancestry, admixture and selection in Bolivian and Totonac populations of the New World

    PubMed Central

    2012-01-01

    Background Populations of the Americas were founded by early migrants from Asia, and some have experienced recent genetic admixture. To better characterize the native and non-native ancestry components in populations from the Americas, we analyzed 815,377 autosomal SNPs, mitochondrial hypervariable segments I and II, and 36 Y-chromosome STRs from 24 Mesoamerican Totonacs and 23 South American Bolivians. Results and Conclusions We analyzed common genomic regions from native Bolivian and Totonac populations to identify 324 highly predictive Native American ancestry informative markers (AIMs). As few as 40–50 of these AIMs perform nearly as well as large panels of random genome-wide SNPs for predicting and estimating Native American ancestry and admixture levels. These AIMs have greater New World vs. Old World specificity than previous AIMs sets. We identify highly-divergent New World SNPs that coincide with high-frequency haplotypes found at similar frequencies in all populations examined, including the HGDP Pima, Maya, Colombian, Karitiana, and Surui American populations. Some of these regions are potential candidates for positive selection. European admixture in the Bolivian sample is approximately 12%, though individual estimates range from 0–48%. We estimate that the admixture occurred ~360–384 years ago. Little evidence of European or African admixture was found in Totonac individuals. Bolivians with pre-Columbian mtDNA and Y-chromosome haplogroups had 5–30% autosomal European ancestry, demonstrating the limitations of Y-chromosome and mtDNA haplogroups and the need for autosomal ancestry informative markers for assessing ancestry in admixed populations. PMID:22606979

  2. Leveraging Functional-Annotation Data in Trans-ethnic Fine-Mapping Studies.

    PubMed

    Kichaev, Gleb; Pasaniuc, Bogdan

    2015-08-01

    Localization of causal variants underlying known risk loci is one of the main research challenges following genome-wide association studies. Risk loci are typically dissected through fine-mapping experiments in trans-ethnic cohorts for leveraging the variability in the local genetic structure across populations. More recent works have shown that genomic functional annotations (i.e., localization of tissue-specific regulatory marks) can be integrated for increasing fine-mapping performance within single-population studies. Here, we introduce methods that integrate the strength of association between genotype and phenotype, the variability in the genetic backgrounds across populations, and the genomic map of tissue-specific functional elements to increase trans-ethnic fine-mapping accuracy. Through extensive simulations and empirical data, we have demonstrated that our approach increases fine-mapping resolution over existing methods. We analyzed empirical data from a large-scale trans-ethnic rheumatoid arthritis (RA) study and showed that the functional genetic architecture of RA is consistent across European and Asian ancestries. In these data, we used our proposed methods to reduce the average size of the 90% credible set from 29 variants per locus for standard non-integrative approaches to 22 variants.

  3. Applying Value Stream Mapping Technique for Production Improvement in a Manufacturing Company: A Case Study

    NASA Astrophysics Data System (ADS)

    Jeyaraj, K. L.; Muralidharan, C.; Mahalingam, R.; Deshmukh, S. G.

    2013-01-01

    The purpose of this paper is to explain how value stream mapping (VSM) is helpful in lean implementation and to develop the road map to tackle improvement areas to bridge the gap between the existing state and the proposed state of a manufacturing firm. Through this case study, the existing stage of manufacturing is mapped with the help of VSM process symbols and the biggest improvement areas like excessive TAKT time, production, and lead time are identified. Some modifications in current state map are suggested and with these modifications future state map is prepared. Further TAKT time is calculated to set the pace of production processes. This paper compares the current state and future state of a manufacturing firm and witnessed 20 % reduction in TAKT time, 22.5 % reduction in processing time, 4.8 % reduction in lead time, 20 % improvement in production, 9 % improvement in machine utilization, 7 % improvement in man power utilization, objective improvement in workers skill level, and no change in the product and semi finished product inventory level. The findings are limited due to the focused nature of the case study. This case study shows that VSM is a powerful tool for lean implementation and allows the industry to understand and continuously improve towards lean manufacturing.

  4. Multiple Application Propfan Study (MAPS): Advanced tactical transport

    NASA Technical Reports Server (NTRS)

    Newton, F. C.; Liebeck, R. H.; Mitchell, G. H.; Mooiweer, A.; Platte, M. M.; Toogood, T. L.; Wright, R. A.

    1986-01-01

    This study was conducted to ascertain potential benefits of a propfan propulsion system application to a blended wing/body military tactical transport. Based on a design cruise Mach no. of 0.75 for the design mission, the results indicate a significant advantage in various figures of merit for the propfan over those of a comparable technology turbofan. Although the propfan has a 1.6 percent greater takeoff gross weight, its life cycle cost is 5.3 percent smaller, partly because of a 27 percent smaller specific fuel consumption. When employed on alternate missions, the propfan configuration offers significantly improved flexibility and capability: an increase in sea level penetration distance of more than 100 percent, or in time-on-station of 24 percent, or in deployment payload of 38 percent.

  5. Straightforward Inference of Ancestry and Admixture Proportions through Ancestry-Informative Insertion Deletion Multiplexing

    PubMed Central

    Pereira, Rui; Phillips, Christopher; Pinto, Nádia; Santos, Carla; dos Santos, Sidney Emanuel Batista; Amorim, António; Carracedo, Ángel; Gusmão, Leonor

    2012-01-01

    Ancestry-informative markers (AIMs) show high allele frequency divergence between different ancestral or geographically distant populations. These genetic markers are especially useful in inferring the likely ancestral origin of an individual or estimating the apportionment of ancestry components in admixed individuals or populations. The study of AIMs is of great interest in clinical genetics research, particularly to detect and correct for population substructure effects in case-control association studies, but also in population and forensic genetics studies. This work presents a set of 46 ancestry-informative insertion deletion polymorphisms selected to efficiently measure population admixture proportions of four different origins (African, European, East Asian and Native American). All markers are analyzed in short fragments (under 230 basepairs) through a single PCR followed by capillary electrophoresis (CE) allowing a very simple one tube PCR-to-CE approach. HGDP-CEPH diversity panel samples from the four groups, together with Oceanians, were genotyped to evaluate the efficiency of the assay in clustering populations from different continental origins and to establish reference databases. In addition, other populations from diverse geographic origins were tested using the HGDP-CEPH samples as reference data. The results revealed that the AIM-INDEL set developed is highly efficient at inferring the ancestry of individuals and provides good estimates of ancestry proportions at the population level. In conclusion, we have optimized the multiplexed genotyping of 46 AIM-INDELs in a simple and informative assay, enabling a more straightforward alternative to the commonly available AIM-SNP typing methods dependent on complex, multi-step protocols or implementation of large-scale genotyping technologies. PMID:22272242

  6. Mapping the Journey from Home to School: A Study on Children's Representation of Space

    ERIC Educational Resources Information Center

    Thommen, Evelyne; Avelar, Silvania; Sapin, Veronique Zbinden; Perrenoud, Silvia; Malatesta, Dominique

    2010-01-01

    This paper describes a study conducted with 235 children from Brazil and Switzerland. The children, from 5 to 13 years of age, were asked to draw the journey they undertake every day from home to school. The purpose of the study is to understand the relationship between the cognitive development and map-drawing abilities of children in both…

  7. Pre-Service Teacher Beliefs on the Antecedents to Bullying: A Concept Mapping Study

    ERIC Educational Resources Information Center

    Lopata, Joel A.; Nowicki, Elizabeth A.

    2014-01-01

    In this study, researchers gathered Canadian pre-service teachers' beliefs on the antecedents to bullying. Concept mapping (Kane & Trochim, 2007) was used to analyze the data. This study's findings identified pre-service teachers to have accurate beliefs, inaccurate beliefs, and a lack of knowledge about the antecedents to bullying. Concept…

  8. 78 FR 76888 - MAP-21 Comprehensive Truck Size and Weight Limits Study Materials

    Federal Register 2010, 2011, 2012, 2013, 2014

    2013-12-19

    ... legal questions, please contact Michael Harkins, FHWA Office of the Chief Counsel, (202) 366-4928, or by... to deliver this Study to Congress within the required timeframe, the closing date is changed from... for Progress in the 21st Century Act (MAP-21) Comprehensive Truck Size and Weight Limits Study,...

  9. Mapping Depression in Schizophrenia: A Functional Magnetic Resonance Imaging Study.

    PubMed

    Kumari, Veena; Peters, Emmanuelle; Guinn, Ashley; Fannon, Dominic; Russell, Tamara; Sumich, Alexander; Kuipers, Elizabeth; Williams, Steven C R; Ffytche, Dominic H

    2016-05-01

    Depressive symptoms are common in schizophrenia, often left untreated, and associated with a high relapse rate, suicidal ideation, increased mortality, reduced social adjustment and poor quality of life. The neural mechanisms underlying depression in psychosis are poorly understood. Given reports of altered brain response to negative facial affect in depressive disorders, we examined brain response to emotive facial expressions in relation to levels of depression in people with psychosis. Seventy outpatients (final N= 63) and 20 healthy participants underwent functional magnetic resonance imaging during an implicit affect processing task involving presentation of facial expressions of fear, anger, happiness as well as neutral expressions and a (no face) control condition. All patients completed Beck Depression Inventory (BDI-II) and had their symptoms assessed on the Positive and Negative Syndrome Scale (PANSS). In patients, depression (BDI-II) scores associated positively with activation of the left thalamus, extending to the putamen-globus pallidus, insula, inferior-middle frontal and para-post-pre-central gyri during fearful expressions. Furthermore, patients with moderate-to-severe depression had significantly higher activity in these brain regions during fearful expressions relative to patients with no, minimal, or mild depression and healthy participants. The study provides first evidence of enhanced brain response to fearful facial expressions, which signal an uncertain source of threat in the environment, in patients with psychosis and a high level of self-reported depression. PMID:26712855

  10. Mapping Depression in Schizophrenia: A Functional Magnetic Resonance Imaging Study

    PubMed Central

    Kumari, Veena; Peters, Emmanuelle; Guinn, Ashley; Fannon, Dominic; Russell, Tamara; Sumich, Alexander; Kuipers, Elizabeth; Williams, Steven C. R.; ffytche, Dominic H.

    2016-01-01

    Depressive symptoms are common in schizophrenia, often left untreated, and associated with a high relapse rate, suicidal ideation, increased mortality, reduced social adjustment and poor quality of life. The neural mechanisms underlying depression in psychosis are poorly understood. Given reports of altered brain response to negative facial affect in depressive disorders, we examined brain response to emotive facial expressions in relation to levels of depression in people with psychosis. Seventy outpatients (final N = 63) and 20 healthy participants underwent functional magnetic resonance imaging during an implicit affect processing task involving presentation of facial expressions of fear, anger, happiness as well as neutral expressions and a (no face) control condition. All patients completed Beck Depression Inventory (BDI-II) and had their symptoms assessed on the Positive and Negative Syndrome Scale (PANSS). In patients, depression (BDI-II) scores associated positively with activation of the left thalamus, extending to the putamen-globus pallidus, insula, inferior-middle frontal and para-post-pre-central gyri during fearful expressions. Furthermore, patients with moderate-to-severe depression had significantly higher activity in these brain regions during fearful expressions relative to patients with no, minimal, or mild depression and healthy participants. The study provides first evidence of enhanced brain response to fearful facial expressions, which signal an uncertain source of threat in the environment, in patients with psychosis and a high level of self-reported depression. PMID:26712855

  11. Outdoor Noise Pollution Mapping Case Study: A District of Tehran

    NASA Astrophysics Data System (ADS)

    Monazzam, Mohammad Reza; Karimi, Elham; Nassiri, Parvin; Taghavi, Lobat; Karbalaei, Samaneh

    2014-10-01

    The main objective of this study was to investigate the noise levels at different land uses of District 14 in Tehran. For this purpose, a total number of 91 sampling stations were selected. Afterwards, the equivalent sound pressure level in each station was measured at three occasions of morning (7-9 am), noon (12-3 pm), and evening (5-8 pm). Based on the conformability requirement of each land uses, noise levels was divided in three zones wherein the land uses are exposed to different noise levels was estimated. The obtained results indicated that 8.79% of 78 land uses (residential, recreational and medical) in the Zone 1 were exposed to acceptable range of sound pressure level while the rest suffers from unacceptable noise levels. Among 10 land uses of Zone 2 (commercial-residential), 2.19% were within the acceptable range and 8.78% were in unacceptable range. None of the three land uses in Zone 3 were within the acceptable range. Accordingly, the Zone 3 was recognized to be in a critical condition. In other words, about 88.99% of the total and uses in the Zone 3 is exposed to unaccepted able noise level. Comparing with the standard equivalent sound pressure level of 55 dB(A) presented, the residential land use with the equivalent sound pressure level of 19.27 dB(A) accounted for the highest standard deviation. This is due to proximity of most of the residential areas to the crowded highways and streets.

  12. A Study of Concept Mapping as an Instructional Intervention in an Undergraduate General Chemistry Calorimetry Laboratory

    NASA Astrophysics Data System (ADS)

    Stroud, Mary W.

    This investigation, rooted in both chemistry and education, considers outcomes occurring in a small-scale study in which concept mapping was used as an instructional intervention in an undergraduate calorimetry laboratory. A quasi-experimental, multiple-methods approach was employed since the research questions posed in this study warranted the use of both qualitative and quantitative perspectives and evaluations. For the intervention group of students, a convenience sample, post-lab concept maps, written discussions, quiz responses and learning surveys were characterized and evaluated. Archived quiz responses for non-intervention students were also analyzed for comparison. Students uniquely constructed individual concept maps containing incorrect, conceptually correct and "scientifically thin" calorimetry characterizations. Students more greatly emphasized mathematical relationships and equations utilized during the calorimetry experiment; the meaning of calorimetry concepts was demonstrated to a lesser extent.

  13. Computer-assisted photogrammetric mapping systems for geologic studies-A progress report

    USGS Publications Warehouse

    Pillmore, C.L.; Dueholm, K.S.; Jepsen, H.S.; Schuch, C.H.

    1981-01-01

    Photogrammetry has played an important role in geologic mapping for many years; however, only recently have attempts been made to automate mapping functions for geology. Computer-assisted photogrammetric mapping systems for geologic studies have been developed and are currently in use in offices of the Geological Survey of Greenland at Copenhagen, Denmark, and the U.S. Geological Survey at Denver, Colorado. Though differing somewhat, the systems are similar in that they integrate Kern PG-2 photogrammetric plotting instruments and small desk-top computers that are programmed to perform special geologic functions and operate flat-bed plotters by means of specially designed hardware and software. A z-drive capability, in which stepping motors control the z-motions of the PG-2 plotters, is an integral part of both systems. This feature enables the computer to automatically position the floating mark on computer-calculated, previously defined geologic planes, such as contacts or the base of coal beds, throughout the stereoscopic model in order to improve the mapping capabilities of the instrument and to aid in correlation and tracing of geologic units. The common goal is to enhance the capabilities of the PG-2 plotter and provide a means by which geologists can make conventional geologic maps more efficiently and explore ways to apply computer technology to geologic studies. ?? 1981.

  14. Development and Experimental Study of Phantoms for Mapping Skin Chromophores

    NASA Astrophysics Data System (ADS)

    Silapetere, A.; Spigulis, J.; Saknite, I.

    2014-06-01

    Skin chromophore phantoms are widely used for better understanding of the light interaction with tissue and for calibration of skin diagnostic imaging techniques. In this work, different phantoms were examined and compared in order to find biologically equivalent substances that are the most promising for this purpose. For mimicking the skin medium and layered structure, a fibrin matrix with epidermal and dermal cell inclusion was used. Synthesized bilirubin, red blood cells and nigrosin were taken as absorbers. For spectral analysis of the developed phantoms a computer-aided multispectral imaging system Nuance 2.4 (Cambridge Research & Instrumentation, Inc., USA) was used. In this study, skin phantoms were created using such substances as bilirubin, melanin, haemoglobin and nigrosin Mūsdienās multispektrālās attēlošanas iekārtas izmanto ādas parametru un fizioloģisko procesu aprakstīšanai gan pētniecības, gan diagnostikas nolūkiem. Iekārtu darbības uzlabošanai ir nepieciešams labāk saprast gaismas mijiedarbību ar audiem, kā arī veikt šo iekārtu kalibrēšanu ar ādas maketu. Redzamā un tuvā infrasarkanā optiskā diapazona spektroskopijā ir svarīgi ādas maketi, kas simulē audu slāņaino struktūru un ķīmiskās īpašības, kā arī maketi, kas ir bioloģiski līdzvērtīgi. Šajā pētījumā tika izveidots ādas makets no bioloģiskām un ķīmiski sintezētām struktūrām. Ādas maketa izveidei tika izmantota fibrīna matrica ar dermālo un epidermālo šūnu piejaukumu, lai imitētu ādas slāņaino struktūru. Fibrīna matrica tiek veidota no 0,47 ml asins plazmas, 0,4 ml fizioloģiskā šķīduma, 0,8 μl treneksāmskābes un 89,4 μl kalcija glukanāta. Izveidoto matricu ievieto šūnu inkubatorā, lai tā polimerizētos. Nākošais slānis tiek veidots ar dermālo šūnu piejaukumu (180-270 šūnas), un pēdējais fibrīna matriksa slānis tiek veidots ar epidermālo šūnu piejaukumu (270 šūnas) un šūnu aug

  15. Wild Trypanosoma cruzi I genetic diversity in Brazil suggests admixture and disturbance in parasite populations from the Atlantic Forest region

    PubMed Central

    2014-01-01

    Background Trypanosoma cruzi (Kinetoplastida, Trypanosomatidae) infection is an ancient and widespread zoonosis distributed throughout the Americas. Ecologically, Brazil comprises several distinct biomes: Amazonia, Cerrado, Caatinga, Pantanal and the Atlantic Forest. Sylvatic T. cruzi transmission is known to occur throughout these biomes, with multiple hosts and vectors involved. Parasite species-level genetic diversity can be a useful marker for ecosystem health. Our aims were to: investigate sylvatic T. cruzi genetic diversity across different biomes, detect instances of genetic exchange, and explore the possible impact of ecological disturbance on parasite diversity at an intra-species level. Methods We characterised 107 isolates of T. cruzi I (TcI; discrete typing unit, DTU I) from different major Brazilian biomes with twenty-seven nuclear microsatellite loci. A representative subset of biologically cloned isolates was further characterised using ten mitochondrial gene loci. We compared these data generated from Brazilian TcI isolates from around America. Results Genetic diversity was remarkably high, including one divergent cluster that branched outside the known genetic diversity of TcI in the Americas. We detected evidence for mitochondrial introgression and genetic exchange between the eastern Amazon and Caatinga. Finally, we found strong signatures of admixture among isolates from the Atlantic Forest region by comparison to parasites from other study sites. Conclusions Atlantic Forest sylvatic TcI populations are highly fragmented and admixed by comparison to others around Brazil. We speculate on: the possible causes of Atlantic Forest admixture; the role of T. cruzi as a sentinel for ecosystem health, and the impact disrupted sylvatic transmission cycles might have on accurate source attribution in oral outbreaks. PMID:24903849

  16. Genome-wide analysis reveals the ancient and recent admixture history of East African Shorthorn Zebu from Western Kenya

    PubMed Central

    Mbole-Kariuki, M N; Sonstegard, T; Orth, A; Thumbi, S M; Bronsvoort, B M de C; Kiara, H; Toye, P; Conradie, I; Jennings, A; Coetzer, K; Woolhouse, M E J; Hanotte, O; Tapio, M

    2014-01-01

    The Kenyan East African zebu cattle are valuable and widely used genetic resources. Previous studies using microsatellite loci revealed the complex history of these populations with the presence of taurine and zebu genetic backgrounds. Here, we estimate at genome-wide level the genetic composition and population structure of the East African Shorthorn Zebu (EASZ) of western Kenya. A total of 548 EASZ from 20 sub-locations were genotyped using the Illumina BovineSNP50 v. 1 beadchip. STRUCTURE analysis reveals admixture with Asian zebu, African and European taurine cattle. The EASZ were separated into three categories: substantial (⩾12.5%), moderate (1.56%admixture in the EASZ population, subsequently shaped by selection and/or genetic drift, followed by a more recent exotic European cattle introgression. PMID:24736786

  17. Phylogeographic Analyses of American Black Bears (Ursus americanus) Suggest Four Glacial Refugia and Complex Patterns of Postglacial Admixture.

    PubMed

    Puckett, Emily E; Etter, Paul D; Johnson, Eric A; Eggert, Lori S

    2015-09-01

    Studies of species with continental distributions continue to identify intraspecific lineages despite continuous habitat. Lineages may form due to isolation by distance, adaptation, divergence across barriers, or genetic drift following range expansion. We investigated lineage diversification and admixture within American black bears (Ursus americanus) across their range using 22 k single nucleotide polymorphisms and mitochondrial DNA sequences. We identified three subcontinental nuclear clusters which we further divided into nine geographic regions: Alaskan (Alaska-East), eastern (Central Interior Highlands, Great Lakes, Northeast, Southeast), and western (Alaska-West, West, Pacific Coast, Southwest). We estimated that the western cluster diverged 67 ka, before eastern and Alaskan divergence 31 ka; these divergence dates contrasted with those from the mitochondrial genome where clades A and B diverged 1.07 Ma, and clades A-east and A-west diverged 169 ka. We combined estimates of divergence timing with hindcast species distribution models to infer glacial refugia for the species in Beringia, Pacific Northwest, Southwest, and Southeast. Our results show a complex arrangement of admixture due to expansion out of multiple refugia. The delineation of the genomic population clusters was inconsistent with the ranges for 16 previously described subspecies. Ranges for U. a. pugnax and U. a. cinnamomum were concordant with admixed clusters, calling into question how to order taxa below the species level. Additionally, our finding that U. a. floridanus has not diverged from U. a. americanus also suggests that morphology and genetics should be reanalyzed to assess taxonomic designations relevant to the conservation management of the species. PMID:25989983

  18. Phylogeographic Analyses of American Black Bears (Ursus americanus) Suggest Four Glacial Refugia and Complex Patterns of Postglacial Admixture.

    PubMed

    Puckett, Emily E; Etter, Paul D; Johnson, Eric A; Eggert, Lori S

    2015-09-01

    Studies of species with continental distributions continue to identify intraspecific lineages despite continuous habitat. Lineages may form due to isolation by distance, adaptation, divergence across barriers, or genetic drift following range expansion. We investigated lineage diversification and admixture within American black bears (Ursus americanus) across their range using 22 k single nucleotide polymorphisms and mitochondrial DNA sequences. We identified three subcontinental nuclear clusters which we further divided into nine geographic regions: Alaskan (Alaska-East), eastern (Central Interior Highlands, Great Lakes, Northeast, Southeast), and western (Alaska-West, West, Pacific Coast, Southwest). We estimated that the western cluster diverged 67 ka, before eastern and Alaskan divergence 31 ka; these divergence dates contrasted with those from the mitochondrial genome where clades A and B diverged 1.07 Ma, and clades A-east and A-west diverged 169 ka. We combined estimates of divergence timing with hindcast species distribution models to infer glacial refugia for the species in Beringia, Pacific Northwest, Southwest, and Southeast. Our results show a complex arrangement of admixture due to expansion out of multiple refugia. The delineation of the genomic population clusters was inconsistent with the ranges for 16 previously described subspecies. Ranges for U. a. pugnax and U. a. cinnamomum were concordant with admixed clusters, calling into question how to order taxa below the species level. Additionally, our finding that U. a. floridanus has not diverged from U. a. americanus also suggests that morphology and genetics should be reanalyzed to assess taxonomic designations relevant to the conservation management of the species.

  19. Genome-wide analysis reveals the ancient and recent admixture history of East African Shorthorn Zebu from Western Kenya.

    PubMed

    Mbole-Kariuki, M N; Sonstegard, T; Orth, A; Thumbi, S M; Bronsvoort, B M de C; Kiara, H; Toye, P; Conradie, I; Jennings, A; Coetzer, K; Woolhouse, M E J; Hanotte, O; Tapio, M

    2014-10-01

    The Kenyan East African zebu cattle are valuable and widely used genetic resources. Previous studies using microsatellite loci revealed the complex history of these populations with the presence of taurine and zebu genetic backgrounds. Here, we estimate at genome-wide level the genetic composition and population structure of the East African Shorthorn Zebu (EASZ) of western Kenya. A total of 548 EASZ from 20 sub-locations were genotyped using the Illumina BovineSNP50 v. 1 beadchip. STRUCTURE analysis reveals admixture with Asian zebu, African and European taurine cattle. The EASZ were separated into three categories: substantial (⩾12.5%), moderate (1.56%admixture in the EASZ population, subsequently shaped by selection and/or genetic drift, followed by a more recent exotic European cattle introgression. PMID:24736786

  20. Seaside, Oregon, Tsunami Pilot Study-Modernization of FEMA Flood Hazard Maps: GIS Data

    USGS Publications Warehouse

    Wong, Florence L.; Venturato, Angie J.; Geist, Eric L.

    2006-01-01

    Introduction: The Federal Emergency Management Agency (FEMA) Federal Insurance Rate Map (FIRM) guidelines do not currently exist for conducting and incorporating tsunami hazard assessments that reflect the substantial advances in tsunami research achieved in the last two decades; this conclusion is the result of two FEMA-sponsored workshops and the associated Tsunami Focused Study (Chowdhury and others, 2005). Therefore, as part of FEMA's Map Modernization Program, a Tsunami Pilot Study was carried out in the Seaside/Gearhart, Oregon, area to develop an improved Probabilistic Tsunami Hazard Analysis (PTHA) methodology and to provide recommendations for improved tsunami hazard assessment guidelines (Tsunami Pilot Study Working Group, 2006). The Seaside area was chosen because it is typical of many coastal communities in the section of the Pacific Coast from Cape Mendocino to the Strait of Juan de Fuca, and because State agencies and local stakeholders expressed considerable interest in mapping the tsunami threat to this area. The study was an interagency effort by FEMA, U.S. Geological Survey, and the National Oceanic and Atmospheric Administration (NOAA), in collaboration with the University of Southern California, Middle East Technical University, Portland State University, Horning Geoscience, Northwest Hydraulics Consultants, and the Oregon Department of Geological and Mineral Industries. We present the spatial (geographic information system, GIS) data from the pilot study in standard GIS formats and provide files for visualization in Google Earth, a global map viewer.

  1. Coagulated silica - a-SiO2 admixture in cement paste

    NASA Astrophysics Data System (ADS)

    Pokorný, Jaroslav; Pavlíková, Milena; Záleská, Martina; Rovnaníková, Pavla; Pavlík, Zbyšek

    2016-07-01

    Amorphous silica (a-SiO2) in fine-grained form possesses a high pozzolanic activity which makes it a valuable component of blended binders in concrete production. The origin of a-SiO2 applied in cement-based composites is very diverse. SiO2 in amorphous form is present in various amounts in quite a few supplementary cementing materials (SCMs) being used as partial replacement of Portland cement. In this work, the applicability of a commercially produced coagulated silica powder as a partial replacement of Portland cement in cement paste mix design is investigated. Portland cement CEM I 42.5R produced according to the EU standard EN 197-1 is used as a reference binder. Coagulated silica is applied in dosages of 5 and 10 % by mass of cement. The water/binder ratio is kept constant in all the studied pastes. For the applied silica, specific surface area, density, loss on ignition, pozzolanic activity, chemical composition, and SiO2 amorphous phase content are determined. For the developed pastes on the basis of cement-silica blended binder, basic physical properties as bulk density, matrix density, and total open porosity are accessed. Pore size distribution is determined using MIP analysis. Initial and final setting times of fresh mixtures are measured by automatic Vicat apparatus. Effect of silica admixture on mechanical resistivity is evaluated using compressive strength, bending strength, and dynamic Young's modulus measurement. The obtained data gives evidence of a decreased workability of paste mixtures with silica, whereas the setting process is accelerated. On the other hand, reaction activity of silica with Portland cement minerals results in a slight decrease of porosity and improvement of mechanical resistivity of cement pastes containing a-SiO2.

  2. The LWb blood group as a marker of prehistoric Baltic migrations and admixture.

    PubMed

    Sistonen, P; Virtaranta-Knowles, K; Denisova, R; Kucinskas, V; Ambrasiene, D; Beckman, L

    1999-06-01

    Archaeological findings and historical records indicate frequent migrations and exchange of genetic material between populations in the Baltic Sea area. However, there have so far been very few attempts to trace migrations in this area using genetic markers. We have studied the Baltic populations with respect to exceptional variations in the frequencies of the Landsteiner-Wiener (LW) blood group. The frequency of the uncommon LWb gene was high in the Balts, around 6% among Latvians and Lithuanians, very low among the other western Europeans (0-0.1%) and apparently absent in Asiatic and African populations. From the Baltic region of peak frequency there was a regular decline of LWb incidence (a descending cline) in the neighboring populations: 4.0% in the Estonians, 2.9% in the Finns, 2. 2% in the Vologda Russians, and 2.0% in the Poles. Thus the distribution of LWb suggests considerable and extensive Baltic admixture, especially in the north and northeast direction. In Southern Sweden with an LWb frequency of 0.3%, the Baltic influence appeared slight, while in the population of the Swedish island Gotland in the middle of the Baltic Sea there was a significantly increased LWb frequency of 1.0% compared with that of Western European countries. The distinction of codominantly inherited LW antigenic forms, LWa and LWb (previously Nea), is known to be due to a single base substitution. Based on our population data, it is plausible that the expansion of this point mutation occurred only once during human history. Furthermore, our data indicate that the expansion of the LWb mutation occurred in Balts and that LWb can be considered a 'Baltic tribal marker', its presence in other populations being an indicator of the degree of Baltic genetic influence. PMID:10364680

  3. Mapping perception to action in piano practice: a longitudinal DC-EEG study

    PubMed Central

    Bangert, Marc; Altenmüller, Eckart O

    2003-01-01

    Background Performing music requires fast auditory and motor processing. Regarding professional musicians, recent brain imaging studies have demonstrated that auditory stimulation produces a co-activation of motor areas, whereas silent tapping of musical phrases evokes a co-activation in auditory regions. Whether this is obtained via a specific cerebral relay station is unclear. Furthermore, the time course of plasticity has not yet been addressed. Results Changes in cortical activation patterns (DC-EEG potentials) induced by short (20 minute) and long term (5 week) piano learning were investigated during auditory and motoric tasks. Two beginner groups were trained. The 'map' group was allowed to learn the standard piano key-to-pitch map. For the 'no-map' group, random assignment of keys to tones prevented such a map. Auditory-sensorimotor EEG co-activity occurred within only 20 minutes. The effect was enhanced after 5-week training, contributing elements of both perception and action to the mental representation of the instrument. The 'map' group demonstrated significant additional activity of right anterior regions. Conclusion We conclude that musical training triggers instant plasticity in the cortex, and that right-hemispheric anterior areas provide an audio-motor interface for the mental representation of the keyboard. PMID:14575529

  4. The Study of Insurance Premium Rate GIS Mapping Considering the Storm and Flood Hazard Risks

    NASA Astrophysics Data System (ADS)

    Lee, J. S.; Lee, I. S.

    2016-06-01

    Recently, the number of natural disaster occurrence is increasing because of abnormal changes of weather in Korea. In Korea the storm and flood insurance system is in effect to prevent these natural disasters. The national storm and flood insurance Premium rate is very low and the risk of adverse selection resides because of choosing by who lives in high risk area. To solve these problems, the storm and flood insurance rate map are required. In this study, the prototype of storm and flood insurance premium rate map of the Ulsan, Korea was made and the method of GIS analysis for the insurance premium rate calculating and the procedure of the Ulsan storm and flood insurance rate map were researched.

  5. Showing Where To Go by Maps or Pictures: An Empirical Case Study at Subway Exits

    NASA Astrophysics Data System (ADS)

    Ishikawa, Toru; Yamazaki, Tetsuo

    This study empirically examined the effectiveness of different methods of presenting route information on a mobile navigation sysyem, for accurate and effortless orientation at subway exits. Specifically, it compared participants’ spatial orientation performance with pictures and maps, in relation to the levels of their spatial ability. Participants identified the directions toward the goals after coming onto the ground faster when viewing pictures than when viewing maps. Spatial orientation with maps was more difficult than that with pictures at exits where body rotation was necessary, especially for people with low mental-rotation ability. In contrast, pictures were equally effective for people with low and high mental-rotation ability. Reasons for the effectiveness of pictures and possibilities of using other presentation formats are discussed.

  6. A Hundred and One Satellite Map Bargains for Social Studies Teachers.

    ERIC Educational Resources Information Center

    Kirman, Joseph M.

    1981-01-01

    Recommends that social studies classroom teachers use landsat images in geography units to teach students about map interpretation. Information is presented on interpreting landsat images, uses of landsat images in the classroom, cities for which landsat images are available, and ordering information. (DB)

  7. Student and Teacher Perceptions of Mind Mapping: A Middle School Case Study.

    ERIC Educational Resources Information Center

    Goodnough, Karen; Woods, Robin

    The use of mind mapping (MM), a visual tool developed by T. Buzan (1983; 1996) to improve note-taking, foster creativity, organize thinking, and develop ideas and concepts, was studied in a sixth-grade classroom with 16 students as an instructional and learning tool. In MM, a central focus or graphic representation of the problem is placed in the…

  8. The Effect of Using Concept Maps as Study Tools on Achievement in Chemistry

    ERIC Educational Resources Information Center

    BouJaoude, Saouma; Attieh, May

    2008-01-01

    The purposes of this study were to: (1) examine whether or not the construction of concept maps by students improves their achievement and ability to solve higher order questions in chemistry, (2) investigate the differential effect of the treatment by gender and achievement level, and (3) explore the relationships between performance on concept…

  9. Combining Mapping and Citation Analysis for Evaluative Bibliometric Purposes: A Bibliometric Study.

    ERIC Educational Resources Information Center

    Noyons, E. C. M; Moed, H. F.; Luwel, M.

    1999-01-01

    Presents the results of a combined performance/mapping study used to evaluate a Belgian research institute in microelectronics. Results from one bibliometric approach were used to validate results of another. Findings indicated that the method provides a detailed and useful picture of the position of the institute from an international…

  10. Concept Mapping in Science Class: A Case Study of Fifth Grade Students

    ERIC Educational Resources Information Center

    Asan, Askin

    2007-01-01

    The purpose of this research project was to determine the effects of incorporating concept mapping on the achievement of fifth grade students in science class. The study was conducted with twenty-three students at Ata Elementary School, Trabzon, Turkey. The students were tested with teacher-constructed pre- and post tests containing 20…

  11. Computerized Interest Testing and the Major Field of Study Map (MFM)

    ERIC Educational Resources Information Center

    Stahmann, Robert F.

    This paper discussed two innovations in the application of computer technology to vocational counseling in a university: (1) administration and scoring of a vocational interest inventory through the means of a cathode-ray-tube typewriter computer terminal, and (2) the development of the major field of study map (MFM), using local university norms.…

  12. Comment on "Retrieval practice produces more learning than elaborative studying with concept mapping".

    PubMed

    Mintzes, Joel J; Canas, Alberto; Coffey, John; Gorman, James; Gurley, Laine; Hoffman, Robert; McGuire, Saundra Y; Miller, Norma; Moon, Brian; Trifone, James; Wandersee, James H

    2011-10-28

    Karpicke and Blunt (Reports, 11 February 2011, p. 772) reported that retrieval practice produces greater gains in learning than elaborative studying with concept mapping and concluded that this strategy is a powerful way to promote meaningful learning of complex concepts commonly found in science education. We question their findings on methodological and epistemological grounds.

  13. How Do High-School Students Perceive the Concept of "Map": A Case Study from Istanbul

    ERIC Educational Resources Information Center

    Ozder, Adem

    2013-01-01

    The main aim of this study is investigating metaphors developed by the students regarding the concept of "map" at private institutions which provide them with specialized courses (Dershane). About 338 students in one of these private courses in Istanbul city center accepted to participate in the research within 2012 to 2013 academic…

  14. Disease mapping and risk assessment in veterinary parasitology: some case studies.

    PubMed

    Cringoli, G; Rinaldi, L; Veneziano, V; Musella, V

    2005-03-01

    Disease mapping and risk assessment are important tasks in the area of medical and veterinary epidemiology. The development of methods for mapping diseases has progressed considerably in recent years. Geographical Information Systems (GIS), Remote Sensing (RS), and Spatial Analysis represent new tools for the study of epidemiology, and their application to parasitology has become more and more advanced, in particular to study the spatial and temporal patterns of diseases. The present review highlights the usefulness of GIS and RS in veterinary parasitology in order to better know the epidemiology of parasite organisms, causing either snail/arthropod borne diseases or direct transmissible diseases, mostly in small areas with a strong impact by man. It demonstrates the potential of these technologies to serve as effective tools for: data capture, mapping and analysis for the development of descriptive parasitological maps; studying the environmental features that influence the distribution of parasites; predicting parasite occurrence/seasonality based on their environmental requirements and as decision support for disease intervention; and surveillance and monitoring of animal diseases.

  15. International association for the study of lung cancer (IASLC) lymph node map: radiologic review with CT illustration.

    PubMed

    El-Sherief, Ahmed H; Lau, Charles T; Wu, Carol C; Drake, Richard L; Abbott, Gerald F; Rice, Thomas W

    2014-10-01

    Accurate clinical or pretreatment stage classification of lung cancer leads to optimal treatment outcomes and improved prognostication. Such classification requires an accurate assessment of the clinical extent of regional lymph node metastasis. Consistent and reproducible regional lymph node designations facilitate reliable assessment of the clinical extent of regional lymph node metastasis. Regional lymph node maps, such as the Naruke lymph node map and the Mountain-Dresler modification of the American Thoracic Society lymph node map, were proposed for this purpose in the past. The most recent regional lymph node map to be published is the International Association for the Study of Lung Cancer (IASLC) lymph node map. The IASLC lymph node map supersedes all previous maps and should be used in tandem with the current seventh edition of the tumor, node, metastasis stage classification for lung cancer.

  16. Direct-to-Consumer Racial Admixture Tests and Beliefs About Essential Racial Differences

    PubMed Central

    Phelan, Jo C.; Link, Bruce G.; Zelner, Sarah; Yang, Lawrence H.

    2015-01-01

    Although at first relatively disinterested in race, modern genomic research has increasingly turned attention to racial variations. We examine a prominent example of this focus—direct-to-consumer racial admixture tests—and ask how information about the methods and results of these tests in news media may affect beliefs in racial differences. The reification hypothesis proposes that by emphasizing a genetic basis for race, thereby reifying race as a biological reality, the tests increase beliefs that whites and blacks are essentially different. The challenge hypothesis suggests that by describing differences between racial groups as continua rather than sharp demarcations, the results produced by admixture tests break down racial categories and reduce beliefs in racial differences. A nationally representative survey experiment (N = 526) provided clear support for the reification hypothesis. The results suggest that an unintended consequence of the genomic revolution may be to reinvigorate age-old beliefs in essential racial differences. PMID:25870464

  17. Consequences of meta-stable (177m)Lu admixture in (177)Lu for patient dosimetry.

    PubMed

    Konijnenberg, Mark W

    2015-01-01

    Lutetium-177 ((177)Lu) is a rare earth metal in the lanthanides series which decays by beta emission with a half life of 6.647 days to three excited states and the ground state of (177)Hf. When (177)Lu is produced by neutron capture in (176)Lu, inevitably an admixture is formed of the long-lived isomer (177)mLu. As its half-life of 160.4 days is so much longer than that of (177)Lu, concerns are raised on its possible enhancement in radiation dose to the patient treated with (177)Lu-DOTA-octreotate. This report evaluates this possible enhancement of the absorbed dose, based on the published pharmacokinetic profile of (177)Lu-DOTA-octreotate and assuming an admixture of 1 kBq (177)mLu /MBq (177)Lu (0.1%).

  18. Evaluation of phenoxybenzamine in the CFA model of pain following gene expression studies and connectivity mapping

    PubMed Central

    2010-01-01

    Background We have previously used the rat 4 day Complete Freund's Adjuvant (CFA) model to screen compounds with potential to reduce osteoarthritic pain. The aim of this study was to identify genes altered in this model of osteoarthritic pain and use this information to infer analgesic potential of compounds based on their own gene expression profiles using the Connectivity Map approach. Results Using microarrays, we identified differentially expressed genes in L4 and L5 dorsal root ganglia (DRG) from rats that had received intraplantar CFA for 4 days compared to matched, untreated control animals. Analysis of these data indicated that the two groups were distinguishable by differences in genes important in immune responses, nerve growth and regeneration. This list of differentially expressed genes defined a "CFA signature". We used the Connectivity Map approach to identify pharmacologic agents in the Broad Institute Build02 database that had gene expression signatures that were inversely related ('negatively connected') with our CFA signature. To test the predictive nature of the Connectivity Map methodology, we tested phenoxybenzamine (an alpha adrenergic receptor antagonist) - one of the most negatively connected compounds identified in this database - for analgesic activity in the CFA model. Our results indicate that at 10 mg/kg, phenoxybenzamine demonstrated analgesia comparable to that of Naproxen in this model. Conclusion Evaluation of phenoxybenzamine-induced analgesia in the current study lends support to the utility of the Connectivity Map approach for identifying compounds with analgesic properties in the CFA model. PMID:20846436

  19. Using a microcomputer to support an I.V. admixture service.

    PubMed

    Sylvan, L; Lenihan, L

    1983-07-01

    Acquisition of a microcomputer and a high-speed printer enabled the authors' pharmacy to automate the production of I.V. additive labels. This automation freed 0.5 FTEs of pharmacy personnel time for other duties. This low-cost microcomputer and printer has proven to be sufficient equipment for the support of an I.V. admixture program with time-saving and cost-saving applications.

  20. A Genomic Approach for Distinguishing between Recent and Ancient Admixture as Applied to Cattle

    PubMed Central

    Hillis, David M.

    2014-01-01

    Genomic data facilitate opportunities to track complex population histories of divergence and gene flow. We developed a metric, scaled block size (SBS), which uses the nonrecombined block size of introgressed regions of chromosomes to differentiate between recent and ancient types of admixture, and applied it to the reconstruction of admixture in cattle. Cattle are descendants of 2 independently domesticated lineages, taurine and indicine, which diverged more than 200 000 years ago. Several breeds have hybrid ancestry between these divergent lineages. Using 47 506 single-nucleotide polymorphisms, we analyzed the genomic architecture of the ancestry of 1369 individuals. We focused on 4 groups with admixed ancestry, including 2 anciently admixed African breeds (n = 58; n = 43), New World cattle of Spanish origin (n = 51), and known recent hybrids (n = 46). We estimated the ancestry of chromosomal regions for each individual and used the SBS metric to differentiate the timing of admixture among groups and among individuals within groups. By comparing SBS values of test individuals with standards with known recent hybrid ancestry, we were able to differentiate individuals of recent hybrid origin from other admixed cattle. We also estimated ancestry at the chromosomal scale. The X chromosome exhibits reduced indicine ancestry in recent hybrid, New World, and western African cattle, with virtually no evidence of indicine ancestry in New World cattle. PMID:24510946

  1. Retrieval practice produces more learning than elaborative studying with concept mapping.

    PubMed

    Karpicke, Jeffrey D; Blunt, Janell R

    2011-02-11

    Educators rely heavily on learning activities that encourage elaborative studying, whereas activities that require students to practice retrieving and reconstructing knowledge are used less frequently. Here, we show that practicing retrieval produces greater gains in meaningful learning than elaborative studying with concept mapping. The advantage of retrieval practice generalized across texts identical to those commonly found in science education. The advantage of retrieval practice was observed with test questions that assessed comprehension and required students to make inferences. The advantage of retrieval practice occurred even when the criterial test involved creating concept maps. Our findings support the theory that retrieval practice enhances learning by retrieval-specific mechanisms rather than by elaborative study processes. Retrieval practice is an effective tool to promote conceptual learning about science.

  2. Amyotrophic Lateral Sclerosis Genetic Studies: From Genome-wide Association Mapping to Genome Sequencing.

    PubMed

    He, Ji; Mangelsdorf, Marie; Fan, Dongsheng; Bartlett, Perry; Brown, Matthew A

    2015-12-01

    Amyotrophic lateral sclerosis (ALS) is a neurodegenerative disease of obscure etiology. Multiple genetic studies have been conducted to advance our understanding of the disease, employing a variety of techniques such as linkage mapping in families, to genome-wide association studies and sequencing based approaches such as whole exome sequencing and whole genome sequencing and a few epigenetic analyses. While major progress has been made, the majority of the genetic variation involved in ALS is yet to be undefined. The optimal study designs to investigate ALS depend on the genetic model for the disease, and it is likely that different approaches will be required to map genes involved in familial and sporadic disease. The potential approaches and their strengths and weaknesses are discussed.

  3. Investigating Word Learning in Fragile X Syndrome: A Fast-Mapping Study

    PubMed Central

    McDuffie, Andrea; Kover, Sara T.; Hagerman, Randi; Abbeduto, Leonard

    2012-01-01

    Fast-mapping paradigms have not been used previously to examine the process of word learning in boys with fragile X syndrome (FXS), who are likely to have intellectual impairment, language delays, and symptoms of autism. In this study, a fast-mapping task was used to investigate associative word learning in 4- to 10-year-old boys with FXS relative to younger typically developing boys and age-matched boys with autism spectrum disorders (ASD). Task performance exceeded chance levels for all groups; however, boys with FXS outperformed boys with ASD, despite having lower levels of nonverbal cognition. Memory task demands significantly impacted performance only for boys with typical development. For boys with FXS or ASD, fast-mapping uniquely accounted for small but significant variance in concurrent levels of vocabulary comprehension as did chronological age and nonverbal IQ, but not autism severity. Understanding the fast-mapping process has implications for designing interventions to support word learning and language acquisition in these populations. PMID:23179343

  4. Fast IR laser mapping ellipsometry for the study of functional organic thin films.

    PubMed

    Furchner, Andreas; Sun, Guoguang; Ketelsen, Helge; Rappich, Jörg; Hinrichs, Karsten

    2015-03-21

    Fast infrared mapping with sub-millimeter lateral resolution as well as time-resolved infrared studies of kinetic processes of functional organic thin films require a new generation of infrared ellipsometers. We present a novel laboratory-based infrared (IR) laser mapping ellipsometer, in which a laser is coupled to a variable-angle rotating analyzer ellipsometer. Compared to conventional Fourier-transform infrared (FT-IR) ellipsometers, the IR laser ellipsometer provides ten- to hundredfold shorter measurement times down to 80 ms per measured spot, as well as about tenfold increased lateral resolution of 120 μm, thus enabling mapping of small sample areas with thin-film sensitivity. The ellipsometer, equipped with a HeNe laser emitting at about 2949 cm(-1), was applied for the optical characterization of inhomogeneous poly(3-hexylthiophene) [P3HT] and poly(N-isopropylacrylamide) [PNIPAAm] organic thin films used for opto-electronics and bioapplications. With the constant development of tunable IR laser sources, laser-based infrared ellipsometry is a promising technique for fast in-depth mapping characterization of thin films and blends.

  5. Fast IR laser mapping ellipsometry for the study of functional organic thin films.

    PubMed

    Furchner, Andreas; Sun, Guoguang; Ketelsen, Helge; Rappich, Jörg; Hinrichs, Karsten

    2015-03-21

    Fast infrared mapping with sub-millimeter lateral resolution as well as time-resolved infrared studies of kinetic processes of functional organic thin films require a new generation of infrared ellipsometers. We present a novel laboratory-based infrared (IR) laser mapping ellipsometer, in which a laser is coupled to a variable-angle rotating analyzer ellipsometer. Compared to conventional Fourier-transform infrared (FT-IR) ellipsometers, the IR laser ellipsometer provides ten- to hundredfold shorter measurement times down to 80 ms per measured spot, as well as about tenfold increased lateral resolution of 120 μm, thus enabling mapping of small sample areas with thin-film sensitivity. The ellipsometer, equipped with a HeNe laser emitting at about 2949 cm(-1), was applied for the optical characterization of inhomogeneous poly(3-hexylthiophene) [P3HT] and poly(N-isopropylacrylamide) [PNIPAAm] organic thin films used for opto-electronics and bioapplications. With the constant development of tunable IR laser sources, laser-based infrared ellipsometry is a promising technique for fast in-depth mapping characterization of thin films and blends. PMID:25668189

  6. Linkage disequilibrium fine mapping of quantitative trait loci: A simulation study

    PubMed Central

    Abdallah, Jihad M; Goffinet, Bruno; Cierco-Ayrolles, Christine; Pérez-Enciso, Miguel

    2003-01-01

    Recently, the use of linkage disequilibrium (LD) to locate genes which affect quantitative traits (QTL) has received an increasing interest, but the plausibility of fine mapping using linkage disequilibrium techniques for QTL has not been well studied. The main objectives of this work were to (1) measure the extent and pattern of LD between a putative QTL and nearby markers in finite populations and (2) investigate the usefulness of LD in fine mapping QTL in simulated populations using a dense map of multiallelic or biallelic marker loci. The test of association between a marker and QTL and the power of the test were calculated based on single-marker regression analysis. The results show the presence of substantial linkage disequilibrium with closely linked marker loci after 100 to 200 generations of random mating. Although the power to test the association with a frequent QTL of large effect was satisfactory, the power was low for the QTL with a small effect and/or low frequency. More powerful, multi-locus methods may be required to map low frequent QTL with small genetic effects, as well as combining both linkage and linkage disequilibrium information. The results also showed that multiallelic markers are more useful than biallelic markers to detect linkage disequilibrium and association at an equal distance. PMID:12939203

  7. GIS data for the Seaside, Oregon, Tsunami Pilot Study to modernize FEMA flood hazard maps

    USGS Publications Warehouse

    Wong, Florence L.; Venturato, Angie J.; Geist, Eric L.

    2007-01-01

    A Tsunami Pilot Study was conducted for the area surrounding the coastal town of Seaside, Oregon, as part of the Federal Emergency Management's (FEMA) Flood Insurance Rate Map Modernization Program (Tsunami Pilot Study Working Group, 2006). The Cascadia subduction zone extends from Cape Mendocino, California, to Vancouver Island, Canada. The Seaside area was chosen because it is typical of many coastal communities subject to tsunamis generated by far- and near-field (Cascadia) earthquakes. Two goals of the pilot study were to develop probabilistic 100-year and 500-year tsunami inundation maps using Probabilistic Tsunami Hazard Analysis (PTHA) and to provide recommendations for improving tsunami hazard assessment guidelines for FEMA and state and local agencies. The study was an interagency effort by the National Oceanic and Atmospheric Administration, U.S. Geological Survey, and FEMA, in collaboration with the University of Southern California, Middle East Technical University, Portland State University, Horning Geoscience, Northwest Hydraulics Consultants, and the Oregon Department of Geological and Mineral Industries. The pilot study model data and results are published separately as a geographic information systems (GIS) data report (Wong and others, 2006). The flood maps and GIS data are briefly described here.

  8. A S[t]imulating Study of Map Projections: An Exploration Integrating Mathematics and Social Studies.

    ERIC Educational Resources Information Center

    Wilkins, Jesse L. M.; Hicks, David

    2001-01-01

    Presents a map-projection activity that combines mathematics and geography through investigating the proportion of land and water that covers the earth. Focuses on helping students become familiar with characteristics of different projections or representations of the world while estimating and graphing and encouraging them to investigate the…

  9. The Effectiveness of Panoramic Maps Design: a Preliminary Study Based on Mobile Eye-Tracking

    NASA Astrophysics Data System (ADS)

    Balzarini, R.; Murat, M.

    2016-06-01

    This paper presents preliminary results from an ongoing research based on the study of visual attention through mobile eye-tracking techniques. The visual-cognitive approach investigates the reading-comprehension of a particular territorial representation: ski trails maps. The general issue of the study is to provide insights about the effectiveness of panoramic ski maps and more broadly, to suggest innovative efficient representation of the geographic information in mountain. According to some mountain operators, the information provided by paper ski maps no longer meets the needs of a large part of the customers; the question now arises of their adaptation to new digital practices (iPhone, tablets). In a computerized process perspective, this study particularly focuses on the representations, and the inferred information, which are really helpful to the users-skiers to apprehend the territory and make decisions, and which could be effectively replicated into a digital system. The most interesting output relies on the relevance of the panorama view: panorama still fascinates, but contrary to conventional wisdom, the information it provides does not seem to be useful to the skier. From a socio-historical perspective this study shows how empirical evidence-based approach can support the change: our results enhance the discussion on the effectiveness of the message that mountain operators want to convey to the tourist and therefore, on the renewal of (geographical) information in ski resorts.

  10. Structural mapping from MSS-LANDSAT imagery: A proposed methodology for international geological correlation studies

    NASA Technical Reports Server (NTRS)

    Dejesusparada, N. (Principal Investigator); Crepani, E.; Martini, P. R.

    1980-01-01

    A methodology is proposed for international geological correlation studies based on LANDSAT-MSS imagery, Bullard's model of continental fit and compatible structural trends between Northeast Brazil and the West African counterpart. Six extensive lineaments in the Brazilian study area are mapped and discussed according to their regional behavior and in relation to the adjacent continental margin. Among the first conclusions, correlations were found between the Sobral Pedro II Lineament and the megafaults that surround the West African craton; and the Pernambuco Lineament with the Ngaurandere Linemanet in Cameroon. Ongoing research to complete the methodological stages includes the mapping of the West African structural framework, reconstruction of the pre-drift puzzle, and an analysis of the counterpart correlations.

  11. A study of an orbital radar mapping mission to Venus. Volume 1: Summary

    NASA Technical Reports Server (NTRS)

    1973-01-01

    A preliminary design of a Venus radar mapping orbiter mission and spacecraft was developed. The important technological problems were identified and evaluated. The study was primarily concerned with trading off alternate ways of implementing the mission and examining the most attractive concepts in order to assess technology requirements. Compatible groupings of mission and spacecraft parameters were analyzed by examining the interaction of their functioning elements and assessing their overall cost effectiveness in performing the mission.

  12. Seaside, Oregon Tsunami Pilot Study - modernization of FEMA flood hazard maps

    USGS Publications Warehouse

    ,

    2006-01-01

    FEMA Flood Insurance Rate Map (FIRM) guidelines do not currently exist for conducting and incorporating tsunami hazard assessments that reflect the substantial advances in tsunami research achieved in the last two decades; this conclusion is the result of two FEMA-sponsored workshops and the associated Tsunami Focused Study. Therefore, as part of FEMA's Map Modernization Program, a Tsunami Pilot Study was carried out in the Seaside/Gearhart, Oregon, area to develop an improved Probabilistic Tsunami Hazard Assessment (PTHA) methodology and to provide recommendations for improved tsunami hazard assessment guidelines. The Seaside area was chosen because it is typical of many coastal communities in the section of the Pacific Coast from Cape Mendocino to the Strait of Juan de Fuca, and because State Agencies and local stakeholders expressed considerable interest in mapping the tsunami threat to this area. The study was an interagency effort by FEMA, U.S. Geological Survey and the National Oceanic and Atmospheric Administration, in collaboration with the University of Southern California, Middle East Technical University. Portland State University, Horning Geosciences, Northwest Hydraulics Consultants, and the Oregon Department of Geological and Mineral Industries. Draft copies and a briefing on the contents, results and recommendations of this document were provided to FEMA officials before final publication.

  13. BOREAS HYD-9 Hourly and Daily Rainfall Maps for the Southern Study Area

    NASA Technical Reports Server (NTRS)

    Eley, F. Joe; Hall, Forrest G. (Editor); Knapp, David E. (Editor); Krauss, Terry S.; Smith, David E. (Technical Monitor)

    2000-01-01

    The Boreal Ecosystem-Atmosphere Study (BOREAS) Hydrology (HYD)-9 team collected data on precipitation and streamflow over portions of the Northern Study Area (NSA) and Southern Study Area (SSA). This data set contains Cartesian maps of rain accumulation for one-hour and daily periods during the summer of 1994 over the SSA only (not the full view of the radar). A parallel set of one-hour maps for the whole radar view has been prepared and is available upon request from the HYD-09 personnel. An incidental benefit of the areal selection was the elimination of some of the less accurate data, because for various reasons the radar rain estimates degrade considerably outside a range of about 100 km. The data are available in tabular ASCII files. The HYD-09 hourly and daily radar rainfall maps for the SSA are available from the Earth Observing System Data and Information System (EOSDIS) Oak Ridge National Laboratory (ORNL) Distributed Active Archive Center (DAAC). The data files are available on a CD-ROM (see document number 20010000884).

  14. ATR-FTIR microscopy in mapping mode for the study of verdigris and its secondary products

    NASA Astrophysics Data System (ADS)

    Prati, S.; Bonacini, I.; Sciutto, G.; Genty-Vincent, A.; Cotte, M.; Eveno, M.; Menu, M.; Mazzeo, R.

    2016-01-01

    To study degradation processes occurring on painting materials, the use of high-resolution micro-analytical techniques is highly requested since it provides a detailed identification and localisation of both the original and deteriorated ingredients. Among the various pigments recently studied, the characterisation of verdigris has received a major interest. This pigment has not a unique chemical formula, but its composition depends on the recipe employed for its manufacturing. Moreover, verdigris paints are not stable and are subject to a colour change from blue-green to green, which occurs in the first few months after the application. In this paper, we focused our attention on the use of ATR-FTIR mapping as a useful method to identify verdigris secondary products and pathways. Several mock-ups and real samples have been analysed, and the correlation among the detected compounds and their spatial location, obtained by the application of ATR-FTIR microscopy in mapping mode, allowed formulating some hypotheses on the degradation pattern of verdigris, which may feed the discussion on the transformation and stability of this pigment. From an analytical point of view, we showed how FTIR mapping approaches may be extremely useful both for the identification of compounds in complex matrix in which single spectra may limit the exhaustive characterisations due to bands overlapping and for the study of degradation pathways by taking into consideration the relative distribution of degradation products.

  15. [An electric T test topographic map study of the brain in uremia].

    PubMed

    Song, J H; Li, Q S

    1989-10-01

    This paper reports the results of statistical mapping on cerebral electric power abnormal distributions in 35 cases of uremia, using cerebral electrical T test topographical map method. The results indicated that the abnormal wide distribution of cerebro-electric activity of uremia was significant (P less than 0.01). The power density of slow wave markedly increased in the right parietal region. The power density of alpha wave obviously decreased in the right parietal side. This study clearly showed that the brain lesions have both the generality of diffuse damage and the particularity of focal damage. A region was seriously invaded by the lesion. The brain lesions have metabolic and toxic encephalopathic features.

  16. Historic maps and landscape evolution: a case study in the Little Hungarian Plain

    NASA Astrophysics Data System (ADS)

    Zámolyi, A.; Székely, B.; Draganits, E.; Timár, G.

    2009-04-01

    Georeferenced historic maps provide a useful tool to derive geomorphologic landscape elements largely uninfluenced by anthropogenic activity, thus allowing the study of natural changes in the landscape evolution of increasingly densely populated areas. The study area, the Little Hungarian Plain (LHP), is located at the geologically and geomorphologically highly interesting region at the transition between the mountain chains of the Eastern Alps and the Carpathians. The area, as transport route and exchange zone of goods has had its specific importance since the Neolithic times. Consequently, the environment has been subject to human influence, especially since the onset of the industrial age. Geographically the LHP lies in the vicinity of major settlement areas (Vienna, Bratislava, Sopron, Győr) and stretches from the Leithagebirge, a mountainous area in Eastern Austria, to the City of Győr in Western Hungary. The political division of the area into two separate countries occurred after World War I. Thus, historic mapping in the Habsburg Empire and later in the Austro-Hungarian Monarchy that was organized and conducted before World War I allows a comprehensive overview of the study area. Map sheets of the 2nd Military Survey of the whole Monarchy were mapped in the time from 1807 to 1873 in the area of the entire Empire (Kretschmer et al., 2004). The Kingdom of Hungary, as part of the Empire was mapped in a homogenous campaign in the time from 1819 - 1869. Beside the increasing human impact the area is characterized by active surface processes. The geologic evolution of the Little Hungarian Plain is dominated by tectonic processes related to the lateral extrusion of the Eastern Alps and the acceleration of northward movement of the Carpathians. Subsidence is accommodated mainly along high- and low angle normal faults with a high vertical movement component. Strike-slip movements at these faults are very rare. Most of these processes have been active also in the

  17. Synchrotron X-Ray Reciprocal Space Mapping, Topography and Diffraction Resolution Studies of Macromolecular Crystal Quality

    NASA Technical Reports Server (NTRS)

    Boggon, T. J.; Helliwell, J. R.; Judge, Russell A.; Siddons, D. P.; Snell, Edward H.; Stojanoff, V.

    2000-01-01

    A comprehensive study of microgravity and ground grown chicken egg white lysozyme crystals is presented using synchrotron X-ray reciprocal space mapping, topography techniques and diffraction resolution. Microgravity crystals displayed, on average, reduced intrinsic mosaicities but no differences in terms of stress over their earth grown counterparts. Topographic analysis revealed that in the microgravity case the majority of the crystal was contributing to the peak of the reflection at the appropriate Bragg angle. In the earth case at the diffraction peak only a small volume of the crystal contributed to the intensity. The techniques prove to be highly complementary with the reciprocal space mapping providing a quantitative measure of the crystal mosaicity and stress (or variation in lattice spacing) and topography providing a qualitative overall assessment of the crystal in terms of its X-ray diffraction properties. Structural data collection was also carried out both at the synchrotron and in the laboratory.

  18. Mapping Active-Layer Thickness in an Urbanized Environment: The Barrow Urban Heat Island Study

    NASA Astrophysics Data System (ADS)

    Klene, A. E.; Hinkel, K. M.; Nelson, F. E.; Shiklomanov, N. I.

    2003-12-01

    Local and global changes in the Arctic climate may have profound impacts on hydrology, soil stability, and infrastructure, such as roads, buildings, and water, gas, or oil pipelines. These changes will be manifested in large part through permafrost, which can influence virtually all physical, chemical, and biological processes occurring in the soil. The "Barrow Urban Heat Island Study" (BUHIS) is an ongoing project in northern Alaska that examines the effects of urbanization on air and soil temperatures in and around Barrow. At 4600 residents, Barrow is the largest native settlement in the circumarctic region and the northernmost urban area in the United States. Initiated in summer 2001, BUHIS is recording temperature and thaw depth at more than 60 locations throughout the village, the developing suburbs, and surrounding undisturbed tundra. This paper describes one part of study examining the active layer and anthropogenic influences on its thickness. Summer air and soil temperature data, together with digital vegetation and soil maps, are used as input to a modified Stefan solution to map depth of thaw over an area of 100 square kilometers that includes both the village of Barrow and the surrounding tundra. Maps representing end-of-summer conditions for 2001 provide the first spatial/temporal representation of active-layer variability within an urbanized area. Increasing urban development in Arctic regions is causing information about changes accompanying industrial development and urbanization to become more vital, particularly given the possibility of a warming climate.

  19. A Study of the Effects of Cognitive Mapping on Reading Comprehension and Written Protocols. Technical Report No. 7.

    ERIC Educational Resources Information Center

    Ruddell, Robert; Boyle, Owen

    A study explored how cognitive mapping assists college students in gathering information from long prose passages and organizing this information for subsequent writing. Mapping is a prewriting technique in which students develop a cognitive scheme or graphic representation of a text, which reduces memory load and facilitates integration and…

  20. Analyzing Interactions by an IIS-Map-Based Method in Face-to-Face Collaborative Learning: An Empirical Study

    ERIC Educational Resources Information Center

    Zheng, Lanqin; Yang, Kaicheng; Huang, Ronghuai

    2012-01-01

    This study proposes a new method named the IIS-map-based method for analyzing interactions in face-to-face collaborative learning settings. This analysis method is conducted in three steps: firstly, drawing an initial IIS-map according to collaborative tasks; secondly, coding and segmenting information flows into information items of IIS; thirdly,…

  1. A Study to Determine the Contribution Made by Concept Maps to a Computer Architecture and Organization Course

    ERIC Educational Resources Information Center

    Aydogan, Tuncay; Ergun, Serap

    2016-01-01

    Concept mapping is a method of graphical learning that can be beneficial as a study method for concept linking and organization. Concept maps, which provide an elegant, easily understood representation of an expert's domain knowledge, are tools for organizing and representing knowledge. These tools have been used in educational environments to…

  2. Lasting Effects of Instruction Guided by the Conflict Map: Experimental Study of Learning about the Causes of the Seasons

    ERIC Educational Resources Information Center

    Tsai, Chin-Chung; Chang, Chun-Yen

    2005-01-01

    This study was based on the framework of the "conflict map" to facilitate student conceptual learning about causes of the seasons. Instruction guided by the conflict map emphasizes not only the use of discrepant events, but also the resolution of conflict between students' alternative conceptions and scientific conceptions, using critical events…

  3. Coulomb excitation of 29,30Na: Mapping the borders of the island of inversion

    NASA Astrophysics Data System (ADS)

    Seidlitz, M.; Reiter, P.; Altenkirch, R.; Bastin, B.; Bauer, C.; Blazhev, A.; Bree, N.; Bruyneel, B.; Butler, P. A.; Cederkäll, J.; Davinson, T.; De Witte, H.; DiJulio, D. D.; Diriken, J.; Gaffney, L. P.; Geibel, K.; Georgiev, G.; Gernhäuser, R.; Huyse, M.; Kesteloot, N.; Kröll, T.; Krücken, R.; Lutter, R.; Pakarinen, J.; Radeck, F.; Scheck, M.; Schneiders, D.; Siebeck, B.; Sotty, C.; Steinbach, T.; Taprogge, J.; Van Duppen, P.; Van de Walle, J.; Voulot, D.; Warr, N.; Wenander, F.; Wimmer, K.; Woods, P. J.; Wrzosek-Lipska, K.

    2014-02-01

    Nuclear shell evolution in neutron-rich Na nuclei around N =20 was studied by determining reduced transition probabilities, i.e., B (E2) and B (M1) values, in order to map the border of the island of inversion. To this end Coulomb-excitation experiments, employing radioactive 29,30Na beams with a final beam energy of 2.85 MeV/nucleon, were performed at REX-ISOLDE, CERN. De-excitation γ rays were detected by the MINIBALL γ-ray spectrometer in coincidence with scattered particles in a segmented Si detector. Transition probabilities to excited states were deduced. The measured B (E2) values agree well with shell-model predictions, supporting the idea that in the Na isotopic chain the ground-state wave function contains significant intruder admixture already at N =18, with N =19 having an almost pure two-particle-two-hole deformed ground-state configuration.

  4. Two-locus admixture linkage analysis of bipolar and unipolar affective disorder supports the presence of susceptibility loci on chromosomes 11p15 and 21q22

    SciTech Connect

    Smyth, C.; Kalsi, G.; O`Neill, J.

    1997-02-01

    Following a report of a linkage study that yielded evidence for a susceptibility locus for bipolar affective disorder on the long arm of chromosome 21, we studied 23 multiply affected pedigrees collected from Iceland and the UK, using the markers PFKL, D21S171, and D21S49. Counting only bipolar cases as affected, a two-point LOD of 1.28 was obtained using D21S171 ({theta} = 0.01, {alpha} = 0.35), with three Icelandic families producing LODs of 0.63, 0.62, and 1.74 (all at {theta} = 0.0). Affected sib pair analysis demonstrated increased allele sharing at D21S171 (P = 0.001) when unipolar cases were also considered affected. The same set of pedigrees had previously been typed for a tyrosine hydroxylase gene (TH) polymorphism at 11p15 and had shown some moderate evidence for linkage. When information from TH and the 21q markers was combined in a two-locus admixture analysis, an overall admixture LOD of 3.87 was obtained using the bipolar affection model. Thus the data are compatible with the hypothesis that a locus at or near TH influences susceptibility in some pedigrees, while a locus near D21S171 is active in others. Similar analyses in other datasets should be carried out to confirm or refute our tentative finding. 66 refs., 3 tabs.

  5. Growth, structural, spectral, mechanical, thermal and dielectric characterization of phosphoric acid admixtured L-alanine (PLA) single crystals

    NASA Astrophysics Data System (ADS)

    Rose, A. S. J. Lucia; Selvarajan, P.; Perumal, S.

    2011-10-01

    Phosphoric acid admixtured L-alanine (PLA) single crystals were grown successfully by solution method with slow evaporation technique at room temperature. Crystals of size 18 mm × 12 mm × 8 mm have been obtained in 28 days. The grown crystals were colorless and transparent. The solubility of the grown samples has been found out at various temperatures. The lattice parameters of the grown crystals were determined by X-ray diffraction technique. The reflection planes of the sample were confirmed by the powder X-ray diffraction study and diffraction peaks were indexed. Fourier transform infrared (FTIR) studies were used to confirm the presence of various functional groups in the crystals. UV-visible transmittance spectrum was recorded to study the optical transparency of grown crystal. The nonlinear optical (NLO) property of the grown crystal was confirmed by Kurtz-Perry powder technique and a study of its second harmonic generation efficiency in comparison with potassium dihydrogen phosphate (KDP) has been made. The mechanical strength of the crystal was estimated by Vickers hardness test. The grown crystals were subjected to thermo gravimetric and differential thermal analysis (TG/DTA). The dielectric behavior of the sample was also studied.

  6. Mapping soil surface macropores using infrared thermography: an exploratory laboratory study.

    PubMed

    de Lima, João L M P; Abrantes, João R C B; Silva, Valdemir P; de Lima, M Isabel P; Montenegro, Abelardo A A

    2014-01-01

    Macropores and water flow in soils and substrates are complex and are related to topics like preferential flow, nonequilibrium flow, and dual-continuum. Hence, the quantification of the number of macropores and the determination of their geometry are expected to provide a better understanding on the effects of pores on the soil's physical and hydraulic properties. This exploratory study aimed at evaluating the potential of using infrared thermography for mapping macroporosity at the soil surface and estimating the number and size of such macropores. The presented technique was applied to a small scale study (laboratory soil flume). PMID:25371915

  7. Comprehensive personal RF-EMF exposure map and its potential use in epidemiological studies.

    PubMed

    Gonzalez-Rubio, Jesus; Najera, Alberto; Arribas, Enrique

    2016-08-01

    In recent years, numerous epidemiological studies, which deal with the potential effects of mobile phone antennas on health, have almost exclusively focused on their distance to mobile phone base stations. Although it is known that this is not the best approach to the problem, this situation occurs due to the numerous difficulties when determining the personal exposure to the radiofrequency electromagnetic fields (RF-EMF). However, due to the rise of personal exposimeters, the evolution of spatial statistics, the development of geographical information systems and the use of powerful software, new alternatives are available to deal with these epidemiological studies and thus overcome the aforementioned difficulties. Using these tools, this paper presents a lattice map of personal RF-EMF exposure from exterior mobile phone base stations, covering the entire 110 administrative regions in the city of Albacete (Spain). For this purpose, we used a personal exposimeter, Satimo EME Spy 140 model, performing measurements every 4s The exposimeter was located inside the plastic basket of a bicycle, whose versatility permitted the access to all the zones of the city. Once the exposure map was prepared, its relation with the known antenna locations was studied. The 64 mobile telephone antennas of the city were also georeferenced; the randomness of both variables (exposure and antennas) were studied by means of the Moran's I test. Results showed that the distribution of the antennas follows a grouped pattern (p<0.001), while the distribution of the average exposure values have a random distribution (p=0.618). In addition, we showed two Spearman correlation studies: the first between the average exposure values and the number of mobile telephone antennas per administrative region, and the second, also considering the antennas of the neighbouring regions. No substantial correlation was detected in either of the two cases. This study also reveals the weaknesses of the

  8. Snow hydrology studies using data from the Heat Capacity Mapping Mission

    NASA Technical Reports Server (NTRS)

    Barnes, J. C.; Bowley, C. J.

    1981-01-01

    This paper describes a study of the snow hydrology application of thermal infrared (IR) data from the Heat Capacity Mapping Mission (HCMM) satellite. The HCMM data in both imagery and digital tape formats are analyzed for two study areas: the Salt-Verde Watershed in central Arizona and the southern Sierra Nevada in California. The analysis procedures are described, including the development of a unique contour plotting program that makes it possible to overlay HCMM thermal contours directly onto the visible channel imagery. The results indicate that satellite thermal-IR data can provide the hydrologist with additional useful information on snow cover.

  9. Comprehensive personal RF-EMF exposure map and its potential use in epidemiological studies.

    PubMed

    Gonzalez-Rubio, Jesus; Najera, Alberto; Arribas, Enrique

    2016-08-01

    In recent years, numerous epidemiological studies, which deal with the potential effects of mobile phone antennas on health, have almost exclusively focused on their distance to mobile phone base stations. Although it is known that this is not the best approach to the problem, this situation occurs due to the numerous difficulties when determining the personal exposure to the radiofrequency electromagnetic fields (RF-EMF). However, due to the rise of personal exposimeters, the evolution of spatial statistics, the development of geographical information systems and the use of powerful software, new alternatives are available to deal with these epidemiological studies and thus overcome the aforementioned difficulties. Using these tools, this paper presents a lattice map of personal RF-EMF exposure from exterior mobile phone base stations, covering the entire 110 administrative regions in the city of Albacete (Spain). For this purpose, we used a personal exposimeter, Satimo EME Spy 140 model, performing measurements every 4s The exposimeter was located inside the plastic basket of a bicycle, whose versatility permitted the access to all the zones of the city. Once the exposure map was prepared, its relation with the known antenna locations was studied. The 64 mobile telephone antennas of the city were also georeferenced; the randomness of both variables (exposure and antennas) were studied by means of the Moran's I test. Results showed that the distribution of the antennas follows a grouped pattern (p<0.001), while the distribution of the average exposure values have a random distribution (p=0.618). In addition, we showed two Spearman correlation studies: the first between the average exposure values and the number of mobile telephone antennas per administrative region, and the second, also considering the antennas of the neighbouring regions. No substantial correlation was detected in either of the two cases. This study also reveals the weaknesses of the

  10. A plastic scintillator-based 2D thermal neutron mapping system for use in BNCT studies.

    PubMed

    Ghal-Eh, N; Green, S

    2016-06-01

    In this study, a scintillator-based measurement instrument is proposed which is capable of measuring a two-dimensional map of thermal neutrons within a phantom based on the detection of 2.22MeV gamma rays generated via nth+H→D+γ reaction. The proposed instrument locates around a small rectangular water phantom (14cm×15cm×20cm) used in Birmingham BNCT facility. The whole system has been simulated using MCNPX 2.6. The results confirm that the thermal flux peaks somewhere between 2cm and 4cm distance from the system entrance which is in agreement with previous studies. PMID:26986813

  11. Mineral classification map using MF and SAM techniques: A case study in the Nohwa Island, Korea

    SciTech Connect

    Son, Young-Sun; Yoon, Wang-Jung

    2015-03-10

    The purpose of this study is to map pyprophyllite distribution at surface of the Nohwa deposit, Korea by using Advanced Spaceborne Thermal Emission and Reflectance Radiometer (ASTER) data. For this, combined Spectral Angle Mapper (SAM), and Matched Filtering (MF) technique based on mathematical algorithm was applied. The regional distribution of high-grade and low-grade pyrophyllite in the Nohwa deposit area could be differentiated by this method. The results of this study show that ASTER data analysis using combination of SAM and MF techniques will assist in exploration of pyrophyllite at the exposed surface.

  12. A study of kindergarten children's spatial representation in a mapping project

    NASA Astrophysics Data System (ADS)

    Davis, Genevieve A.; Hyun, Eunsook

    2005-02-01

    This phenomenological study examined kindergarten children's development of spatial representation in a year long mapping project. Findings and discussion relative to how children conceptualised and represented physical space are presented in light of theoretical notions advanced by Piaget, van Hiele, and cognitive science researchers Battista and Clements. Analyses of the processes the children used and their finished products indicate that children can negotiate meaning for complex systems of geometric concepts when given opportunities to debate, negotiate, reflect, evaluate and seek meaning for representing space. The complexity and "holistic" nature of spatial representation of young children emerged in this study.

  13. D Mapping of Cultural Heritage: Special Problems and best Practices in Extreme Case-Studies

    NASA Astrophysics Data System (ADS)

    Patias, P.; Kaimaris, D.; Georgiadis, Ch.; Stamnas, A.; Antoniadis, D.; Papadimitrakis, D.

    2013-07-01

    Photogrammetrey has a long successful history in the area of 3D modelling and documentation of cultural heritage monuments. In some cases an extensive study, preparation and the application of novel solutions is required for the successful documentation and 3D modelling of monuments. In most of the cases the problem that we have to face is difficulties regarding accessing, photographing, and measuring the monument from the optimal distance, in combination with the need for a high spatial resolution mapping. This paper is highlighting the special problems and the novel solutions, performed during mapping of two significant cultural heritage monuments in Greece. The Roussanou monastery (1527-1529 A.C., Meteora, Center Greece) and its underlying rock, had to be photographed and measured from a far distance and measured with various spatial resolutions. In the lakeside Neolithic settlement of Dispilio (6.000 B.C., western Greece) the enclosure which is covered with vegetation above a height of 3 m, had to be measured with high spatial resolution. The combined use of a laser scanner, a digital camera equipped with a telephoto lens and UAV allowed the successful mapping and the production of orthophotomaps in each case.

  14. Design of a Brassica rapa core collection for association mapping studies.

    PubMed

    Zhao, Jianjun; Artemyeva, Anna; Del Carpio, Dunia Pino; Basnet, Ram Kumar; Zhang, Ningwen; Gao, Jie; Li, Fei; Bucher, Johan; Wang, Xiaowu; Visser, Richard G F; Bonnema, Guusje

    2010-11-01

    A Brassica rapa collection of 239 accessions, based on two core collections representing different morphotypes from different geographical origins, is presented and its use for association mapping is illustrated for flowering time. We analyzed phenotypic variation of leaf and seed pod traits, plant architecture, and flowering time using data collected from three field experiments and evaluated the genetic diversity with a set of SSR markers. The Wageningen University and Research Centre (WUR) and the Vavilov Research Institute of Plant Industry (VIR) core collections had similar representations of most morphotypes, as illustrated by the phenotypic and genetic variation within these groups. The analysis of population structure revealed five subgroups in the collection, whereas previous studies of the WUR core collection indicated four subgroups; the fifth group identified consisted mainly of oil accessions from the VIR core collection, winter oils from Pakistan, and a number of other types. A very small group of summer oils is described, that is not related to other oil accessions. A candidate gene approach was chosen for association mapping of flowering time with a BrFLC1 biallelic CAPS marker and a BrFLC2 multiallelic SSR marker. The two markers were significantly associated with flowering time, but their effects were confined to certain morphotypes and (or) alleles. Based on these results, we discuss the optimal design for an association mapping population and the need to fix the heterogeneous accessions to facilitate phenotyping and genotyping.

  15. Quantitative NumART2* mapping in functional MRI studies at 1.5 T.

    PubMed

    Hagberg, Gisela E; Bianciardi, Marta; Patria, Fabiana; Indovina, Iole

    2003-12-01

    Quantitative mapping of the effective transverse relaxation time, T2* and proton density was performed in a motor activation functional MRI (fMRI) study using multi-echo, echo planar imaging (EPI) and NumART2* (Numerical Algorithm for Real time T2*). Comparisons between NumART2* and conventional single echo EPI with an echo time of 64 ms were performed for five healthy participants examined twice. Simulations were also performed to address specific issues associated with the two techniques, such as echo time-dependent signal variation. While the single echo contrast varied with the baseline T2* value, relative changes in T2* remained unaffected. Statistical analysis of the T2* maps yielded fMRI activation patterns with an improved statistical detection relative to conventional EPI but with less activated voxels, suggesting that NumART2* has superior spatial specificity. Two effects, inflow and dephasing, that may explain this finding were investigated. Particularly, a statistically significant increase in proton density was found in a brain area that was detected as activated by conventional EPI but not by NumART2* while no such changes were observed in brain areas that showed stimulus correlated signal changes on T2* maps.

  16. New leads for selective GSK-3 inhibition: pharmacophore mapping and virtual screening studies.

    PubMed

    Patel, Dhilon S; Bharatam, Prasad V

    2006-01-01

    Glycogen Synthase Kinase-3 is a regulatory serine/threonine kinase, which is being targeted for the treatment of a number of human diseases including type-2 diabetes mellitus, neurodegenerative diseases, cancer and chronic inflammation. Selective GSK-3 inhibition is an important requirement owing to the possibility of side effects arising from other kinases. A pharmacophore mapping strategy is employed in this work to identify new leads for selective GSK-3 inhibition. Ligands known to show selective GSK-3 inhibition were employed in generating a pharmacophore map using distance comparison method (DISCO). The derived pharmacophore map was validated using (i) important interactions involved in selective GSK-3 inhibitions, and (ii) an in-house database containing different classes of GSK-3 selective, non-selective and inactive molecules. New Lead identification was carried out by performing virtual screening using validated pharmacophoric query and three chemical databases namely NCI, Maybridge and Leadquest. Further data reduction was carried out by employing virtual filters based on (i) Lipinski's rule of 5 (ii) van der Waals bumps and (iii) restricting the number of rotatable bonds to seven. Final screening was carried out using FlexX based molecular docking study.

  17. Design of a Brassica rapa core collection for association mapping studies.

    PubMed

    Zhao, Jianjun; Artemyeva, Anna; Del Carpio, Dunia Pino; Basnet, Ram Kumar; Zhang, Ningwen; Gao, Jie; Li, Fei; Bucher, Johan; Wang, Xiaowu; Visser, Richard G F; Bonnema, Guusje

    2010-11-01

    A Brassica rapa collection of 239 accessions, based on two core collections representing different morphotypes from different geographical origins, is presented and its use for association mapping is illustrated for flowering time. We analyzed phenotypic variation of leaf and seed pod traits, plant architecture, and flowering time using data collected from three field experiments and evaluated the genetic diversity with a set of SSR markers. The Wageningen University and Research Centre (WUR) and the Vavilov Research Institute of Plant Industry (VIR) core collections had similar representations of most morphotypes, as illustrated by the phenotypic and genetic variation within these groups. The analysis of population structure revealed five subgroups in the collection, whereas previous studies of the WUR core collection indicated four subgroups; the fifth group identified consisted mainly of oil accessions from the VIR core collection, winter oils from Pakistan, and a number of other types. A very small group of summer oils is described, that is not related to other oil accessions. A candidate gene approach was chosen for association mapping of flowering time with a BrFLC1 biallelic CAPS marker and a BrFLC2 multiallelic SSR marker. The two markers were significantly associated with flowering time, but their effects were confined to certain morphotypes and (or) alleles. Based on these results, we discuss the optimal design for an association mapping population and the need to fix the heterogeneous accessions to facilitate phenotyping and genotyping. PMID:21076504

  18. Improving the performance of digital soil maps by the application of remotely sensed data used in terroir mapping - case study of the Tokaj wine region

    NASA Astrophysics Data System (ADS)

    Takács, Katalin; Laborczi, Annamária; Lukácsy, György; Pásztor, László

    2015-04-01

    The aim of the soil mapping is to explore and visualize the spatial extension and variability of the thematic knowledge about soils. Soil maps are thematic maps, which can present information about the primary or derivative soil characteristics, soil classes and knowledge about the processes, function and services of the soils. The method for information obtaining about soils is sampling which results only point data and should be spatially extended by a properly chosen process. The digital soil mapping (DSM) method uses environmental auxiliary variables for the spatial extension. These variables should be in direct or indirect relation with the target soil characteristic and should provide full coverage for the target area. Environmental variables can be derived from digital elevation models, land cover data or satellite images which can be obtained most efficiently with remote sensing methods. The soil-landscape relation can be modelled by geostatistical and data mining methods based the soil data and auxiliary variables. The study area is Tokaj wine region (approximately 400 km2) which is located in Northeast-Hungary, in Tokaj Mountains. Soil data is available for 200 sampling points. The terrain variables - such as elevation, slope, aspect and other derivatives - are derived from a relatively high resolution digital elevation model (DEM; 1 m), that was generated by LiDAR. The other environmental variables - such as land cover, NDVI - are prepared based on Landsat images which are acquired at different seasons in line with vegetation phenology and soil coverage. The target maps are prepared by digital soil mapping methods. For the analysis of the relationship between soil sampling data and the auxiliary variables different geostatistical methods are used to choose the most appropriate environmental variables for the spatial modelling. The spatial extension of point data are performed by interpolation methods. For summarizing the main aim of this study is to test

  19. Introgressive hybridization and latitudinal admixture clines in North Atlantic eels

    PubMed Central

    2014-01-01

    Background Hybridization, the interbreeding of diagnosably divergent species, is a major focus in evolutionary studies. Eels, both from North America and Europe migrate through the Atlantic to mate in a vast, overlapping area in the Sargasso Sea. Due to the lack of direct observation, it is unknown how these species remain reproductively isolated. The detection of inter-species hybrids in Iceland suggests on-going gene flow, but few studies to date have addressed the influence of introgression on genetic differentiation in North Atlantic eels. Results Here, we show that while mitochondrial lineages remain completely distinct on both sides of the Atlantic, limited hybridization is detectable with nuclear DNA markers. The nuclear hybridization signal peaks in the northern areas and decreases towards the southern range limits on both continents according to Bayesian assignment analyses. By simulating increasing proportions of both F1 hybrids and admixed individuals from the southern to the northern-most locations, we were able to generate highly significant isolation-by-distance patterns in both cases, reminiscent of previously published data for the European eel. Finally, fitting an isolation-with-migration model to our data supports the hypothesis of recent asymmetric introgression and refutes the alternative hypothesis of ancient polymorphism. Conclusions Fluctuating degrees of introgressive hybridization between Atlantic eel species are sufficient to explain temporally varying correlations of geographic and genetic distances reported for populations of the European eel. PMID:24674242

  20. Genome-wide admixture and ecological niche modelling reveal the maintenance of species boundaries despite long history of interspecific gene flow

    PubMed Central

    De La Torre, Amanda R; Roberts, David R; Aitken, Sally N

    2014-01-01

    The maintenance of species boundaries despite interspecific gene flow has been a continuous source of interest in evolutionary biology. Many hybridizing species have porous genomes with regions impermeable to introgression, conferring reproductive barriers between species. We used ecological niche modelling to study the glacial and postglacial recolonization patterns between the widely hybridizing spruce species Picea glauca and P. engelmannii in western North America. Genome-wide estimates of admixture based on a panel of 311 candidate gene single nucleotide polymorphisms (SNP) from 290 genes were used to assess levels of admixture and introgression and to identify loci putatively involved in adaptive differences or reproductive barriers between species. Our palaeoclimatic modelling suggests that these two closely related species have a long history of hybridization and introgression, dating to at least 21 000 years ago, yet species integrity is maintained by a combination of strong environmental selection and reduced current interspecific gene flow. Twenty loci showed evidence of divergent selection, including six loci that were both Fst outliers and associated with climatic gradients, and fourteen loci that were either outliers or showed associations with climate. These included genes responsible for carbohydrate metabolism, signal transduction and transcription factors. PMID:24597663

  1. Regional mapping of forest canopy water content and biomass using AIRSAR images over BOREAS study area

    NASA Technical Reports Server (NTRS)

    Saatchi, Sasan; Rignot, Eric; Vanzyl, Jakob

    1995-01-01

    In recent years, monitoring vegetation biomass over various climate zones has become the primary focus of several studies interested in assessing the role of the ecosystem responses to climate change and human activities. Airborne and spaceborne Synthetic Aperture Radar (SAR) systems provide a useful tool to directly estimate biomass due to its sensitivity to structural and moisture characteristics of vegetation canopies. Even though the sensitivity of SAR data to total aboveground biomass has been successfully demonstrated in many controlled experiments over boreal forests and forest plantations, so far, no biomass estimation algorithm has been developed. This is mainly due to the fact that the SAR data, even at lowest frequency (P-band) saturates at biomass levels of about 200 tons/ha, and the structure and moisture information in the SAR signal forces the estimation algorithm to be forest type dependent. In this paper, we discuss the development of a hybrid forest biomass algorithm which uses a SAR derived land cover map in conjunction with a forest backscatter model and an inversion algorithm to estimate forest canopy water content. It is shown that unlike the direct biomass estimation from SAR data, the estimation of water content does not depend on the seasonal and/or environmental conditions. The total aboveground biomass can then be derived from canopy water content for each type of forest by incorporating other ecological information. Preliminary results from this technique over several boreal forest stands indicate that (1) the forest biomass can be estimated with reasonable accuracy, and (2) the saturation level of the SAR signal can be enhanced by separating the crown and trunk biomass in the inversion algorithm. We have used the JPL AIRSAR data over BOREAS southern study area to test the algorithm and to generate regional scale water content and biomass maps. The results are compared with ground data and the sources of errors are discussed. Several SAR

  2. Polar and brown bear genomes reveal ancient admixture and demographic footprints of past climate change.

    PubMed

    Miller, Webb; Schuster, Stephan C; Welch, Andreanna J; Ratan, Aakrosh; Bedoya-Reina, Oscar C; Zhao, Fangqing; Kim, Hie Lim; Burhans, Richard C; Drautz, Daniela I; Wittekindt, Nicola E; Tomsho, Lynn P; Ibarra-Laclette, Enrique; Herrera-Estrella, Luis; Peacock, Elizabeth; Farley, Sean; Sage, George K; Rode, Karyn; Obbard, Martyn; Montiel, Rafael; Bachmann, Lutz; Ingólfsson, Olafur; Aars, Jon; Mailund, Thomas; Wiig, Oystein; Talbot, Sandra L; Lindqvist, Charlotte

    2012-09-01

    Polar bears (PBs) are superbly adapted to the extreme Arctic environment and have become emblematic of the threat to biodiversity from global climate change. Their divergence from the lower-latitude brown bear provides a textbook example of rapid evolution of distinct phenotypes. However, limited mitochondrial and nuclear DNA evidence conflicts in the timing of PB origin as well as placement of the species within versus sister to the brown bear lineage. We gathered extensive genomic sequence data from contemporary polar, brown, and American black bear samples, in addition to a 130,000- to 110,000-y old PB, to examine this problem from a genome-wide perspective. Nuclear DNA markers reflect a species tree consistent with expectation, showing polar and brown bears to be sister species. However, for the enigmatic brown bears native to Alaska's Alexander Archipelago, we estimate that not only their mitochondrial genome, but also 5-10% of their nuclear genome, is most closely related to PBs, indicating ancient admixture between the two species. Explicit admixture analyses are consistent with ancient splits among PBs, brown bears and black bears that were later followed by occasional admixture. We also provide paleodemographic estimates that suggest bear evolution has tracked key climate events, and that PB in particular experienced a prolonged and dramatic decline in its effective population size during the last ca. 500,000 years. We demonstrate that brown bears and PBs have had sufficiently independent evolutionary histories over the last 4-5 million years to leave imprints in the PB nuclear genome that likely are associated with ecological adaptation to the Arctic environment. PMID:22826254

  3. Polar and brown bear genomes reveal ancient admixture and demographic footprints of past climate change

    USGS Publications Warehouse

    Miller, Webb; Schuster, Stephan C.; Welch, Andreanna J.; Ratan, Aakrosh; Bedoya-Reina, Oscar C.; Zhao, Fangqing; Kim, Hie Lim; Burhans, Richard C.; Drautz, Daniela I.; Wittekindt, Nicola E.; Tomsho, Lynn P.; Ibarra-Laclette, Enrique; Herrera-Estrella, Luis; Peacock, Elizabeth; Farley, Sean; Sage, George K.; Rode, Karyn; Obbard, Martyn E.; Montiel, Rafael; Bachmann, Lutz; Ingólfsson, Ólafur; Aars, Jon; Mailund, Thomas; Wiig, Øystein; Talbot, Sandra L.; Lindqvist, Charlotte

    2012-01-01

    Polar bears (PBs) are superbly adapted to the extreme Arctic environment and have become emblematic of the threat to biodiversity from global climate change. Their divergence from the lower-latitude brown bear provides a textbook example of rapid evolution of distinct phenotypes. However, limited mitochondrial and nuclear DNA evidence conflicts in the timing of PB origin as well as placement of the species within versus sister to the brown bear lineage. We gathered extensive genomic sequence data from contemporary polar, brown, and American black bear samples, in addition to a 130,000- to 110,000-y old PB, to examine this problem from a genome-wide perspective. Nuclear DNA markers reflect a species tree consistent with expectation, showing polar and brown bears to be sister species. However, for the enigmatic brown bears native to Alaska's Alexander Archipelago, we estimate that not only their mitochondrial genome, but also 5–10% of their nuclear genome, is most closely related to PBs, indicating ancient admixture between the two species. Explicit admixture analyses are consistent with ancient splits among PBs, brown bears and black bears that were later followed by occasional admixture. We also provide paleodemographic estimates that suggest bear evolution has tracked key climate events, and that PB in particular experienced a prolonged and dramatic decline in its effective population size during the last ca. 500,000 years. We demonstrate that brown bears and PBs have had sufficiently independent evolutionary histories over the last 4–5 million years to leave imprints in the PB nuclear genome that likely are associated with ecological adaptation to the Arctic environment.

  4. Polar and brown bear genomes reveal ancient admixture and demographic footprints of past climate change.

    PubMed

    Miller, Webb; Schuster, Stephan C; Welch, Andreanna J; Ratan, Aakrosh; Bedoya-Reina, Oscar C; Zhao, Fangqing; Kim, Hie Lim; Burhans, Richard C; Drautz, Daniela I; Wittekindt, Nicola E; Tomsho, Lynn P; Ibarra-Laclette, Enrique; Herrera-Estrella, Luis; Peacock, Elizabeth; Farley, Sean; Sage, George K; Rode, Karyn; Obbard, Martyn; Montiel, Rafael; Bachmann, Lutz; Ingólfsson, Olafur; Aars, Jon; Mailund, Thomas; Wiig, Oystein; Talbot, Sandra L; Lindqvist, Charlotte

    2012-09-01

    Polar bears (PBs) are superbly adapted to the extreme Arctic environment and have become emblematic of the threat to biodiversity from global climate change. Their divergence from the lower-latitude brown bear provides a textbook example of rapid evolution of distinct phenotypes. However, limited mitochondrial and nuclear DNA evidence conflicts in the timing of PB origin as well as placement of the species within versus sister to the brown bear lineage. We gathered extensive genomic sequence data from contemporary polar, brown, and American black bear samples, in addition to a 130,000- to 110,000-y old PB, to examine this problem from a genome-wide perspective. Nuclear DNA markers reflect a species tree consistent with expectation, showing polar and brown bears to be sister species. However, for the enigmatic brown bears native to Alaska's Alexander Archipelago, we estimate that not only their mitochondrial genome, but also 5-10% of their nuclear genome, is most closely related to PBs, indicating ancient admixture between the two species. Explicit admixture analyses are consistent with ancient splits among PBs, brown bears and black bears that were later followed by occasional admixture. We also provide paleodemographic estimates that suggest bear evolution has tracked key climate events, and that PB in particular experienced a prolonged and dramatic decline in its effective population size during the last ca. 500,000 years. We demonstrate that brown bears and PBs have had sufficiently independent evolutionary histories over the last 4-5 million years to leave imprints in the PB nuclear genome that likely are associated with ecological adaptation to the Arctic environment.

  5. Origins, admixture and founder lineages in European Roma.

    PubMed

    Martínez-Cruz, Begoña; Mendizabal, Isabel; Harmant, Christine; de Pablo, Rosario; Ioana, Mihai; Angelicheva, Dora; Kouvatsi, Anastasia; Makukh, Halyna; Netea, Mihai G; Pamjav, Horolma; Zalán, Andrea; Tournev, Ivailo; Marushiakova, Elena; Popov, Vesselin; Bertranpetit, Jaume; Kalaydjieva, Luba; Quintana-Murci, Lluis; Comas, David

    2016-06-01

    The Roma, also known as 'Gypsies', represent the largest and the most widespread ethnic minority of Europe. There is increasing evidence, based on linguistic, anthropological and genetic data, to suggest that they originated from the Indian subcontinent, with subsequent bottlenecks and undetermined gene flow from/to hosting populations during their diaspora. Further support comes from the presence of Indian uniparentally inherited lineages, such as mitochondrial DNA M and Y-chromosome H haplogroups, in a significant number of Roma individuals. However, the limited resolution of most genetic studies so far, together with the restriction of the samples used, have prevented the detection of other non-Indian founder lineages that might have been present in the proto-Roma population. We performed a high-resolution study of the uniparental genomes of 753 Roma and 984 non-Roma hosting European individuals. Roma groups show lower genetic diversity and high heterogeneity compared with non-Roma samples as a result of lower effective population size and extensive drift, consistent with a series of bottlenecks during their diaspora. We found a set of founder lineages, present in the Roma and virtually absent in the non-Roma, for the maternal (H7, J1b3, J1c1, M18, M35b, M5a1, U3, and X2d) and paternal (I-P259, J-M92, and J-M67) genomes. This lineage classification allows us to identify extensive gene flow from non-Roma to Roma groups, whereas the opposite pattern, although not negligible, is substantially lower (up to 6.3%). Finally, the exact haplotype matching analysis of both uniparental lineages consistently points to a Northwestern origin of the proto-Roma population within the Indian subcontinent. PMID:26374132

  6. Admixture and local breed marginalization threaten Algerian sheep diversity.

    PubMed

    Gaouar, Samir Bachir Souheil; Da Silva, Anne; Ciani, Elena; Kdidi, Samia; Aouissat, Miloud; Dhimi, Laziz; Lafri, Mohamed; Maftah, Abderrahman; Mehtar, Nadhira

    2015-01-01

    Due to its geo-climatic conditions, Algeria represents a biodiversity hotspot, with sheep breeds well adapted to a patchwork of extremely heterogeneous harsh habitats. The importance of this peculiar genetic reservoir increases as climate change drives the demand for new adaptations. However, the expansion of a single breed (Ouled-Djellal) which occurred in the last decades has generated a critical situation for the other breeds; some of them are being subjected to uncontrolled cross-breeding with the favored breed and/or to marginalization (effective size contraction). This study investigated genetic diversity within and among six of the nine Algerian breeds, by use of 30 microsatellite markers. Our results showed that, in spite of the census contraction experienced by most of the considered breeds, genetic diversity is still substantial (average gene diversity ranging 0.68 to 0.76) and inbreeding was not identified as a problem. However, two breeds (Rembi and Taâdmit) appeared to have lost most of their genetic originality because of intensive cross-breeding with Ouled-Djellal. Based on the above evidence, we suggest Hamra, Sidaoun, and D'man as breeds deserving the highest priority for conservation in Algeria.

  7. Admixture and Local Breed Marginalization Threaten Algerian Sheep Diversity

    PubMed Central

    Ciani, Elena; Kdidi, Samia; Aouissat, Miloud; Dhimi, Laziz; Lafri, Mohamed; Maftah, Abderrahman; Mehtar, Nadhira

    2015-01-01

    Due to its geo-climatic conditions, Algeria represents a biodiversity hotspot, with sheep breeds well adapted to a patchwork of extremely heterogeneous harsh habitats. The importance of this peculiar genetic reservoir increases as climate change drives the demand for new adaptations. However, the expansion of a single breed (Ouled-Djellal) which occurred in the last decades has generated a critical situation for the other breeds; some of them are being subjected to uncontrolled cross-breeding with the favored breed and/or to marginalization (effective size contraction). This study investigated genetic diversity within and among six of the nine Algerian breeds, by use of 30 microsatellite markers. Our results showed that, in spite of the census contraction experienced by most of the considered breeds, genetic diversity is still substantial (average gene diversity ranging 0.68 to 0.76) and inbreeding was not identified as a problem. However, two breeds (Rembi and Taâdmit) appeared to have lost most of their genetic originality because of intensive cross-breeding with Ouled-Djellal. Based on the above evidence, we suggest Hamra, Sidaoun, and D’man as breeds deserving the highest priority for conservation in Algeria. PMID:25875832

  8. Characterization of ceramic roof tile wastes as pozzolanic admixture.

    PubMed

    Lavat, Araceli E; Trezza, Monica A; Poggi, Mónica

    2009-05-01

    The aim of this work is to study the recycling of tile wastes in the manufacture of blended cements. Cracked or broken ceramic bodies are not accepted as commercial products and, therefore, the unsold waste of the ceramic industry becomes an environment problem. The use of powdered roof tile in cement production, as pozzolanic addition, is reported. The wastes were classified as nonglazed, natural and black glazed tiles. The mineralogy of the powders was controlled by SEM-EDX microscopy, XRD analysis and FTIR spectroscopy. Particle size was checked by laser granulometry. Once the materials were fully characterized, pozzolanic lime consumption tests and Fratini tests were carried out. Different formulations of cement-tile blends were prepared by incorporation of up to 30% weight ratios of recycled waste. The compressive strength of the resulting specimens was measured. The evolution of hydration of the cement-tile blends was analyzed by XRD and FTIR techniques. Vibrational spectroscopy presented accurate evidence of pozzolanic activity. The results of the investigation confirmed the potential use of these waste materials to produce pozzolanic cement. PMID:19124234

  9. Characterization of ceramic roof tile wastes as pozzolanic admixture.

    PubMed

    Lavat, Araceli E; Trezza, Monica A; Poggi, Mónica

    2009-05-01

    The aim of this work is to study the recycling of tile wastes in the manufacture of blended cements. Cracked or broken ceramic bodies are not accepted as commercial products and, therefore, the unsold waste of the ceramic industry becomes an environment problem. The use of powdered roof tile in cement production, as pozzolanic addition, is reported. The wastes were classified as nonglazed, natural and black glazed tiles. The mineralogy of the powders was controlled by SEM-EDX microscopy, XRD analysis and FTIR spectroscopy. Particle size was checked by laser granulometry. Once the materials were fully characterized, pozzolanic lime consumption tests and Fratini tests were carried out. Different formulations of cement-tile blends were prepared by incorporation of up to 30% weight ratios of recycled waste. The compressive strength of the resulting specimens was measured. The evolution of hydration of the cement-tile blends was analyzed by XRD and FTIR techniques. Vibrational spectroscopy presented accurate evidence of pozzolanic activity. The results of the investigation confirmed the potential use of these waste materials to produce pozzolanic cement.

  10. Composts with and without wood ash admixture for the management of tropical acid soils: chemical, physical and microbiological effects

    NASA Astrophysics Data System (ADS)

    Bougnom, B. P.; Insam, H.; Etoa, F. X.

    2009-04-01

    Acid soils generally found in the tropics have a low pH, are poor in organic matter, deficient in Ca2+, Mg+, P, or Mo ; limited in mineralization, nitrification, nodulation, and mycorrhizal infection , suffer from Al or Mn toxicity. Within the framework aiming at using organic wastes and wood ash to overcome soil infertility in tropical acidic soils, a green house experiment was conducted with two acid soils collected from Cameroon (Ferralsol and Acrisol) and amended with three types of compost 3:1(W/W) containing 0 (K0), 8(K8) and 16% (K16) wood ash admixture respectively for two consecutive cycles of 100 days, during which soybean (Glycine max) was grown on the first, the second cycle was left as fallow. Generally the same trends of variation of the physico-chemical parameters were observed in both soils. Addition of organic wastes increased the pH electrical conductivity, soil organic matter, water holding capacity, total Carbone and total nitrogen as compared to the controls. The rate of nitrification highly increased posing the problem of possible leaching of nitrates in the ground water. The cations and micronutrients content followed the same trends. These changes leaded to an increase of the P availability and a decrease of Al toxicity. At the end of the second cycle, generally most of the different parameters slightly decreased except for the electrical conductivity. All composts passed a toxicity test, and the amended soils had significant better fresh and dried plant biomass, the Total nitrogen also significantly increased. Amended soils with K0 generally performed better than those amended with K8 and K16, thinking that their pH (closer to the neutrality) was responsible of these performances, all the parameters were significantly correlated to the pH. K8 and K16 performances could be performed by reducing the added quantities. The study of PCR-DGGE have shown a shift in the fungal and bacterial communities, Ammonia oxidizing bacteria community were

  11. Ethnic Admixture Affects Diabetes Risk in Native Hawaiians: The Multiethnic Cohort

    PubMed Central

    Maskarinec, Gertraud; Morimoto, Yukiko; Jacobs, Simone; Grandinetti, Andrew; Mau, Marjorie K.; Kolonel, Laurence N.

    2016-01-01

    Background/Objectives Obesity and diabetes rates are high in Native Hawaiians (NH) who commonly have mixed ancestries. Persons of Asian ancestry experience a high risk of type 2 diabetes despite the relatively low body weight. We evaluated the impact of ethnic admixture on diabetes risk among NH in the Multiethnic Cohort (MEC). Methods/Subjects Based on self-reports, 11,521 eligible men and women were categorized into NH/white, NH/other, NH alone, NH/Asian, and the most common three ancestry admixture, NH/Chinese/white. Cox proportional hazard ratios (HRs) and 95% confidence intervals (CIs) were calculated with the NH/white category as the reference group; covariates included known confounders, i.e., body mass index (BMI), dietary and other life-style factors. Results The NH alone category had the highest proportion of overweight and obese individuals and the NH/Asian category the lowest proportion. During 12 years of follow-up after cohort entry at 56 years, 2,072 incident cases were ascertained through questionnaires and health plan linkages. All NH categories had higher HRs than the NH/white category before and after adjustment for BMI. In fully-adjusted models, the NH/Asian category showed the highest risk (HR=1.45; 95%CI: 1.27–1.65), followed by NH/other (HR=1.20; 95%CI: 1.03–1.39), NH/Chinese/white (HR=1.19; 95%CI: 1.04–1.37), and NH alone (HR=1.19; 95%CI: 1.03–1.37). The elevated risk by Asian admixture was more pronounced in normal weight than overweight/obese individuals. Conclusions These findings indicate that Asian admixture in NHs is associated with higher risk for type 2 diabetes independent of known risk factors and suggest a role for ethnicity-related genetic factors in the development of this disease. PMID:27026423

  12. Methodology for Elaborating Regional Susceptibility Maps of Slope Instability: the State of Guerrero (mexico) Case Study

    NASA Astrophysics Data System (ADS)

    González Huesca, A. E.; Ferrés, D.; Domínguez-M, L.

    2013-05-01

    Numerous cases of different types of slope instability occur every year in the mountain areas of México. Sometimes these instabilities severely affect the exposed communities, roads and infrastructure, causing deaths and serious material damage, mainly in the states of Puebla, Veracruz, Oaxaca, Guerrero and Chiapas, at the central and south sectors of the country. The occurrence of the slope instability is the result of the combination of climatic, geologic, hydrologic, geomorphologic and anthropogenic factors. The National Center for Disaster Prevention (CENAPRED) is developing several projects in order to offer civil protection authorities of the Mexican states some methodologies to address the hazard assessment for different natural phenomena in a regional level. In this framework, during the past two years, a methodology was prepared to construct susceptibility maps for slope instability at regional (≤ 1:100 000) and national (≤ 1:1 000 000) levels. This research was addressed in accordance to the criteria established by the International Association of Engineering Geology, which is the highest international authority in this topic. The state of Guerrero has been taken as a pilot scheme to elaborate the susceptibility map for slope instability at a regional level. The major constraints considered in the methodology to calculate susceptibility are: a) the slope of the surface, b) the geology and c) the land use, which were integrated using a Geographic Information System (GIS). The arithmetic sum and weighting factors to obtain the final susceptibility map were based on the average values calculated in the individual study of several cases of slope instability occurred in the state in the past decade. For each case, the evaluation format proposed by CENAPRED in 2006 in the "Guía Básica para la elaboración de Atlas Estatales y Municipales de Peligros y Riesgos" to evaluate instabilities in a local level, was applied. The resulting susceptibility map shows

  13. Landslide hazard mapping with selected dominant factors: A study case of Penang Island, Malaysia

    SciTech Connect

    Tay, Lea Tien; Alkhasawneh, Mutasem Sh.; Ngah, Umi Kalthum; Lateh, Habibah

    2015-05-15

    Landslide is one of the destructive natural geohazards in Malaysia. In addition to rainfall as triggering factos for landslide in Malaysia, topographical and geological factors play important role in the landslide susceptibility analysis. Conventional topographic factors such as elevation, slope angle, slope aspect, plan curvature and profile curvature have been considered as landslide causative factors in many research works. However, other topographic factors such as diagonal length, surface area, surface roughness and rugosity have not been considered, especially for the research work in landslide hazard analysis in Malaysia. This paper presents landslide hazard mapping using Frequency Ratio (FR) and the study area is Penang Island of Malaysia. Frequency ratio approach is a variant of probabilistic method that is based on the observed relationships between the distribution of landslides and each landslide-causative factor. Landslide hazard map of Penang Island is produced by considering twenty-two (22) landslide causative factors. Among these twenty-two (22) factors, fourteen (14) factors are topographic factors. They are elevation, slope gradient, slope aspect, plan curvature, profile curvature, general curvature, tangential curvature, longitudinal curvature, cross section curvature, total curvature, diagonal length, surface area, surface roughness and rugosity. These topographic factors are extracted from the digital elevation model of Penang Island. The other eight (8) non-topographic factors considered are land cover, vegetation cover, distance from road, distance from stream, distance from fault line, geology, soil texture and rainfall precipitation. After considering all twenty-two factors for landslide hazard mapping, the analysis is repeated with fourteen dominant factors which are selected from the twenty-two factors. Landslide hazard map was segregated into four categories of risks, i.e. Highly hazardous area, Hazardous area, Moderately hazardous area

  14. Effect of Expansive Admixtures on the Shrinkage and Mechanical Properties of High-Performance Fiber-Reinforced Cement Composites

    PubMed Central

    Choi, Won-Chang; Yun, Hyun-Do

    2013-01-01

    High-performance fiber-reinforced cement composites (HPFRCCs) are characterized by strain-hardening and multiple cracking during the inelastic deformation process, but they also develop high shrinkage strain. This study investigates the effects of replacing Portland cement with calcium sulfoaluminate-based expansive admixtures (CSA EXAs) to compensate for the shrinkage and associated mechanical behavior of HPFRCCs. Two types of CSA EXA (CSA-K and CSA-J), each with a different chemical composition, are used in this study. Various replacement ratios (0%, 8%, 10%, 12%, and 14% by weight of cement) of CSA EXA are considered for the design of HPFRCC mixtures reinforced with 1.5% polyethylene (PE) fibers by volume. Mechanical properties, such as shrinkage compensation, compressive strength, flexural strength, and direct tensile strength, of the HPFRCC mixtures are examined. Also, crack width and development are investigated to determine the effects of the EXAs on the performance of the HPFRCC mixtures, and a performance index is used to quantify the performance of mixture. The results indicate that replacements of 10% CSA-K (Type 1) and 8% CSA-J (Type 2) considerably enhance the mechanical properties and reduce shrinkage of HPFRCCs. PMID:24376382

  15. In the name of the migrant father—Analysis of surname origins identifies genetic admixture events undetectable from genealogical records

    PubMed Central

    Larmuseau, M H D; Vanoverbeke, J; Gielis, G; Vanderheyden, N; Larmuseau, H F M; Decorte, R

    2012-01-01

    Patrilineal heritable surnames are widely used to select autochthonous participants for studies on small-scale population genetic patterns owing to the unique link between the surname and a genetic marker, the Y-chromosome (Y-chr). Today, the question arises as to whether the surname origin will be informative on top of in-depth genealogical pedigrees. Admixture events that happened in the period after giving heritable surnames but before the start of genealogical records may be informative about the additional value of the surname origin. In this context, an interesting historical event is the demic migration from French-speaking regions in Northern France to the depopulated and Dutch-speaking region Flanders at the end of the sixteenth century. Y-chr subhaplogroups of individuals with a French/Roman surname that could be associated with this migration event were compared with those of a group with autochthonous Flemish surnames. Although these groups could not be differentiated based on in-depth genealogical data, they were significantly genetically different from each other. Moreover, the observed genetic divergence was related to the differences in the distributions of main Y-subhaplogroups between contemporary populations from Northern France and Flanders. Therefore, these results indicate that the surname origin can be an important feature on top of in-depth genealogical results to select autochthonous participants for a regional population genetic study based on Y-chromosomes. PMID:22511074

  16. Order of magnitude enhancement in neutron emission with deuterium-krypton admixture operation in miniature plasma focus device

    SciTech Connect

    Verma, Rishi; Lee, P.; Lee, S.; Springham, S. V.; Tan, T. L.; Rawat, R. S.; Krishnan, M.

    2008-09-08

    The effect of varied concentrations of deuterium-krypton (D{sub 2}-Kr) admixture on the neutron emission of a fast miniature plasma focus device was investigated. It was found that a judicious concentration of Kr in D{sub 2} can significantly enhance the neutron yield. The maximum average neutron yield of (1{+-}0.27)x10{sup 4} n/shot for pure D{sub 2} filling at 3 mbars was enhanced to (3.14{+-}0.4)x10{sup 5} n/shot with D{sub 2}+2% Kr admixture operation, which represents a >30-fold increase. More than an order of magnitude enhancement in the average neutron yield was observed over the broader operating range of 1-4 mbars for D{sub 2}+2% Kr and D{sub 2}+5% Kr admixtures.

  17. Salt Repository Project site study plan for surface geological mapping: Revision 1, December 22, 1987

    SciTech Connect

    Not Available

    1988-03-01

    This site study plan describes the Surface Geological Mapping field activities to be conducted during early stages of Site Characterization for the Deaf Smith County Site, Texas. The field program has been designed to provide data useful in addressing information and design data needs resulting from Federal/State/local regulatory requirements and repository program requirements. Air and ground surveys and an extensive literature search will be conducted to map areas within and hear proposed nuclear waste repository site in the Deaf Smith County. Findings from this study may identify additional areas requiring further investigation, for which a new site study plan will be prepared. The Salt Repository Project (SRP) Networks specify the schedule under which the program will operate. The Technical and Field Services Contractor (TFSC) is responsible for conducting the field program. Data will be handled and reported in accordance with established SRP procedures. A quality assurance program will be utilized to assure that activities affecting quality are performed correctly and the appropriate documentation is maintained. 27 refs., 13 figs., 5 tabs.

  18. Optimization of process parameters for the manufacturing of rocket casings: A study using processing maps

    NASA Astrophysics Data System (ADS)

    Avadhani, G. S.

    2003-12-01

    Maraging steels possess ultrahigh strength combined with ductility and toughness and could be easily fabricated and heat-treated. Bulk metalworking of maraging steels is an important step in the component manufacture. To optimize the hot-working parameters (temperature and strain rate) for the ring rolling process of maraging steel used for the manufacture of rocket casings, a systematic study was conducted to characterize the hot working behavior by developing processing maps for γ-iron and an indigenous 250 grade maraging steel. The hot deformation behavior of binary alloys of iron with Ni, Co, and Mo, which are major constituents of maraging steel, is also studied. Results from the investigation suggest that all the materials tested exhibit a domain of dynamic recrystallization (DRX). From the instability maps, it was revealed that strain rates above 10 s-1 are not suitable for hot working of these materials. An important result from the stress-strain behavior is that while Co strengthens γ-iron, Ni and Mo cause flow softening. Temperatures around 1125 °C and strain rate range between 0.001 and 0.1 s-1 are suitable for the hot working of maraging steel in the DRX domain. Also, higher strain rates may be used in the meta-dynamic recrystallization domain above 1075 °C for high strain rate applications such as ring rolling. The microstructural mechanisms identified from the processing maps along with grain size analyses and hot ductility measurements could be used to design hot-working schedules for maraging steel.

  19. Forgotten forests - issues and prospects in biome mapping using Seasonally Dry Tropical Forests as a case study

    PubMed Central

    2011-01-01

    Background South America is one of the most species diverse continents in the world. Within South America diversity is not distributed evenly at both local and continental scales and this has led to the recognition of various areas with unique species assemblages. Several schemes currently exist which divide the continental-level diversity into large species assemblages referred to as biomes. Here we review five currently available biome maps for South America, including the WWF Ecoregions, the Americas basemap, the Land Cover Map of South America, Morrone's Biogeographic regions of Latin America, and the Ecological Systems Map. The comparison is performed through a case study on the Seasonally Dry Tropical Forest (SDTF) biome using herbarium data of habitat specialist species. Results Current biome maps of South America perform poorly in depicting SDTF distribution. The poor performance of the maps can be attributed to two main factors: (1) poor spatial resolution, and (2) poor biome delimitation. Poor spatial resolution strongly limits the use of some of the maps in GIS applications, especially for areas with heterogeneous landscape such as the Andes. Whilst the Land Cover Map did not suffer from poor spatial resolution, it showed poor delimitation of biomes. The results highlight that delimiting structurally heterogeneous vegetation is difficult based on remote sensed data alone. A new refined working map of South American SDTF biome is proposed, derived using the Biome Distribution Modelling (BDM) approach where georeferenced herbarium data is used in conjunction with bioclimatic data. Conclusions Georeferenced specimen data play potentially an important role in biome mapping. Our study shows that herbarium data could be used as a way of ground-truthing biome maps in silico. The results also illustrate that herbarium data can be used to model vegetation maps through predictive modelling. The BDM approach is a promising new method in biome mapping, and could be

  20. Genetic origin, admixture, and asymmetry in maternal and paternal human lineages in Cuba

    PubMed Central

    2008-01-01

    Background Before the arrival of Europeans to Cuba, the island was inhabited by two Native American groups, the Tainos and the Ciboneys. Most of the present archaeological, linguistic and ancient DNA evidence indicates a South American origin for these populations. In colonial times, Cuban Native American people were replaced by European settlers and slaves from Africa. It is still unknown however, to what extent their genetic pool intermingled with and was 'diluted' by the arrival of newcomers. In order to investigate the demographic processes that gave rise to the current Cuban population, we analyzed the hypervariable region I (HVS-I) and five single nucleotide polymorphisms (SNPs) in the mitochondrial DNA (mtDNA) coding region in 245 individuals, and 40 Y-chromosome SNPs in 132 male individuals. Results The Native American contribution to present-day Cubans accounted for 33% of the maternal lineages, whereas Africa and Eurasia contributed 45% and 22% of the lineages, respectively. This Native American substrate in Cuba cannot be traced back to a single origin within the American continent, as previously suggested by ancient DNA analyses. Strikingly, no Native American lineages were found for the Y-chromosome, for which the Eurasian and African contributions were around 80% and 20%, respectively. Conclusion While the ancestral Native American substrate is still appreciable in the maternal lineages, the extensive process of population admixture in Cuba has left no trace of the paternal Native American lineages, mirroring the strong sexual bias in the admixture processes taking place during colonial times. PMID:18644108

  1. Legacy of mutiny on the Bounty: founder effect and admixture on Norfolk Island

    PubMed Central

    Macgregor, Stuart; Bellis, Claire; Lea, Rod A; Cox, Hannah; Dyer, Tom; Blangero, John; Visscher, Peter M; Griffiths, Lyn R

    2010-01-01

    The population of Norfolk Island, located off the eastern coast of Australia, possesses an unusual and fascinating history. Most present-day islanders are related to a small number of the ‘Bounty' mutineer founders. These founders consisted of Caucasian males and Polynesian females and led to an admixed present-day population. By examining a single large pedigree of 5742 individuals, spanning >200 years, we analyzed the influence of admixture and founder effect on various cardiovascular disease (CVD)-related traits. On account of the relative isolation of the population, on average one-third of the genomes of present-day islanders (single large pedigree individuals) is derived from 17 initial founders. The proportion of Polynesian ancestry in the present-day individuals was found to significantly influence total triglycerides, body mass index, systolic blood pressure and diastolic blood pressure. For various cholesterol traits, the influence of ancestry was less marked but overall the direction of effect for all CVD-related traits was consistent with Polynesian ancestry conferring greater CVD risk. Marker-derived homozygosity was computed and agreed with measures of inbreeding derived from pedigree information. Founder effect (inbreeding and marker-derived homozygosity) significantly influenced height. In conclusion, both founder effect and extreme admixture have substantially influenced the genetic architecture of a variety of CVD-related traits in this population. PMID:19584896

  2. Preliminary Geological Map of the Ac-H-1 Asari Quadrangle of Ceres: An Integrated Mapping Study Using Dawn Spacecraft Data.

    NASA Astrophysics Data System (ADS)

    Ruesch, O.; McFadden, L. A.; Hiesinger, H.; Scully, J. E. C.; Kneissl, T.; Hughson, K.; Williams, D. A.; Roatsch, T.; Preusker, F.; Schmedemann, N.; Marchi, S.; Jaumann, R.; Nathues, A.; Raymond, C. A.; Russell, C. T.

    2015-12-01

    We used geologic mapping applied to Dawn spacecraft data as a tool to understand the geologic history of the Ac-H-1 Asari quadrangle of dwarf planet Ceres. The Dawn Framing Camera observed the quadrangle (north polar area: 66°N-90°N) from an altitude of 4424 km and a clear-filter mosaic was produced at a spatial resolution of 400 m/pixel. A stereo-photogrammetric digital elevation model was calculated from images acquired during a higher altitude resulting in a spatial resolution of 1.4 km/pixel. Key characteristics of the study area are (1) a high density of impact craters and (2) moderate topographic variations. We measured a crater density of 9.8E-04 (km-2) for crater diameters >10 km, the highest on Ceres. Few isolated topographic highs (plateaus), reaching ~5 km in altitude relative to the ellipsoid, are present. Their irregular shape is often sculpted by impacts. We also note a positive relief with relatively steep slopes (~13°) and a cone-like shape centered at 85°N/8°E. Topographic lows, reaching -4 km, correspond to the floors of impact craters with diameters up to 64 km. The morphology of impact craters exhibits varying degrees of degradation. Degraded crater floors show central peaks and mass wasting deposits. The largest morphologically fresh deposit (78°N/38°E) is 20 km long, and has a lobate shape with striations on its surface. It extends from a crater rim downslope. No extensive ejecta deposits are present in the study area. In the course of the ongoing mission, we will incorporate mosaics from the High Altitude Mapping Orbit (~140 m/pixel) and Low Altitude Mapping Orbit (~35 m/pixel) phases to complete the preliminary photo-geological map and stratigraphy.

  3. Population genetic structure in Indian Austroasiatic speakers: the role of landscape barriers and sex-specific admixture.

    PubMed

    Chaubey, Gyaneshwer; Metspalu, Mait; Choi, Ying; Mägi, Reedik; Romero, Irene Gallego; Soares, Pedro; van Oven, Mannis; Behar, Doron M; Rootsi, Siiri; Hudjashov, Georgi; Mallick, Chandana Basu; Karmin, Monika; Nelis, Mari; Parik, Jüri; Reddy, Alla Goverdhana; Metspalu, Ene; van Driem, George; Xue, Yali; Tyler-Smith, Chris; Thangaraj, Kumarasamy; Singh, Lalji; Remm, Maido; Richards, Martin B; Lahr, Marta Mirazon; Kayser, Manfred; Villems, Richard; Kivisild, Toomas

    2011-02-01

    The geographic origin and time of dispersal of Austroasiatic (AA) speakers, presently settled in south and southeast Asia, remains disputed. Two rival hypotheses, both assuming a demic component to the language dispersal, have been proposed. The first of these places the origin of Austroasiatic speakers in southeast Asia with a later dispersal to south Asia during the Neolithic, whereas the second hypothesis advocates pre-Neolithic origins and dispersal of this language family from south Asia. To test the two alternative models, this study combines the analysis of uniparentally inherited markers with 610,000 common single nucleotide polymorphism loci from the nuclear genome. Indian AA speakers have high frequencies of Y chromosome haplogroup O2a; our results show that this haplogroup has significantly higher diversity and coalescent time (17-28 thousand years ago) in southeast Asia, strongly supporting the first of the two hypotheses. Nevertheless, the results of principal component and "structure-like" analyses on autosomal loci also show that the population history of AA speakers in India is more complex, being characterized by two ancestral components-one represented in the pattern of Y chromosomal and EDAR results and the other by mitochondrial DNA diversity and genomic structure. We propose that AA speakers in India today are derived from dispersal from southeast Asia, followed by extensive sex-specific admixture with local Indian populations.

  4. Population genetic structure in Indian Austroasiatic speakers: the role of landscape barriers and sex-specific admixture.

    PubMed

    Chaubey, Gyaneshwer; Metspalu, Mait; Choi, Ying; Mägi, Reedik; Romero, Irene Gallego; Soares, Pedro; van Oven, Mannis; Behar, Doron M; Rootsi, Siiri; Hudjashov, Georgi; Mallick, Chandana Basu; Karmin, Monika; Nelis, Mari; Parik, Jüri; Reddy, Alla Goverdhana; Metspalu, Ene; van Driem, George; Xue, Yali; Tyler-Smith, Chris; Thangaraj, Kumarasamy; Singh, Lalji; Remm, Maido; Richards, Martin B; Lahr, Marta Mirazon; Kayser, Manfred; Villems, Richard; Kivisild, Toomas

    2011-02-01

    The geographic origin and time of dispersal of Austroasiatic (AA) speakers, presently settled in south and southeast Asia, remains disputed. Two rival hypotheses, both assuming a demic component to the language dispersal, have been proposed. The first of these places the origin of Austroasiatic speakers in southeast Asia with a later dispersal to south Asia during the Neolithic, whereas the second hypothesis advocates pre-Neolithic origins and dispersal of this language family from south Asia. To test the two alternative models, this study combines the analysis of uniparentally inherited markers with 610,000 common single nucleotide polymorphism loci from the nuclear genome. Indian AA speakers have high frequencies of Y chromosome haplogroup O2a; our results show that this haplogroup has significantly higher diversity and coalescent time (17-28 thousand years ago) in southeast Asia, strongly supporting the first of the two hypotheses. Nevertheless, the results of principal component and "structure-like" analyses on autosomal loci also show that the population history of AA speakers in India is more complex, being characterized by two ancestral components-one represented in the pattern of Y chromosomal and EDAR results and the other by mitochondrial DNA diversity and genomic structure. We propose that AA speakers in India today are derived from dispersal from southeast Asia, followed by extensive sex-specific admixture with local Indian populations. PMID:20978040

  5. Using MatContM in the study of a nonlinear map in economics

    NASA Astrophysics Data System (ADS)

    Neirynck, Niels; Al-Hdaibat, Bashir; Govaerts, Willy; Kuznetsov, Yuri A.; Meijer, Hil G. E.

    2016-02-01

    MatContM is a MATLAB interactive toolbox for the numerical study of iterated smooth maps, their Lyapunov exponents, fixed points, and periodic, homoclinic and heteroclinic orbits as well as their stable and unstable invariant manifolds. The bifurcation analysis is based on continuation methods, tracing out solution manifolds of various types of objects while some of the parameters of the map vary. In particular, MatContM computes codimension 1 bifurcation curves of cycles and supports the computation of the normal form coefficients of their codimension two bifurcations, and allows branch switching from codimension 2 points to secondary curves. MatContM builds on an earlier command-line MATLAB package CL MatContM but provides new computational routines and functionalities, as well as a graphical user interface, enabling interactive control of all computations, data handling and archiving. We apply MatContM in our study of the monopoly model of T. Puu with cubic price and quadratic marginal cost functions. Using MatContM, we analyze the fixed points and their stability and we compute branches of solutions of period 5, 10, 13 17. The chaotic and periodic behavior of the monopoly model is further analyzed by computing the largest Lyapunov exponents.

  6. Geospatial modelling for groundwater quality mapping: a case study of Rupnagar district, Punjab, India

    NASA Astrophysics Data System (ADS)

    Sahoo, S.; Kaur, A.; Litoria, P.; Pateriya, B.

    2014-11-01

    Over period of time, the water usage and management is under stress for various reasons including pollution in both surface and subsurface. The groundwater quality decreases due to the solid waste from urban and industrial nodes, rapid use of insecticides and pesticides in agricultural practices. In this study, ground water quality maps for Rupnagar district of Punjab has been prepared using geospatial interpolation technique through Inverse Distance Weighted (IDW) approach. IDW technique has been used for major ground water quality parameters observed from the field samples like Arsenic, Hardness, pH, Iron, Fluoride, TDS, and Sulphate. To assess the ground water quality of the Rupnagar district, total 280 numbers of samples from various sources of tubewells for both pre and post monsoon have collected. Out of which, 80 to 113 samples found Iron with non potable limits ranging 0.3-1.1mg/l and 0.3-1.02mg/l according to BIS standard for both the seasons respectively. Chamkaur Sahib, Rupnagar, Morinda blocks have been found non potable limit of iron in both pre & post-monsoon. 11 to 52 samples in this region have sulphate with permissible limits in both the season ranging 200-400mg/l and 201-400mg/l. But arsenic had acceptable limit in both the season. Various parameters-wise ground water quality map is generated using the range values of drinking water quality to know the distribution of different parameters and diversification in the concentration of different elements. These maps are very much needful for human being to expand awareness among the people to maintain the Cleanness of water at their highest quality and purity levels to achieve a healthy life.

  7. AVIRIS Land-Surface Mapping in Support of the Boreal Ecosystem-Atmosphere Study (BOREAS)

    NASA Technical Reports Server (NTRS)

    Roberts, Dar A.; Gamon, John; Keightley, Keir; Prentiss, Dylan; Reith, Ernest; Green, Robert

    2001-01-01

    A key scientific objective of the original Boreal Ecosystem-Atmospheric Study (BOREAS) field campaign (1993-1996) was to obtain the baseline data required for modeling and predicting fluxes of energy, mass, and trace gases in the boreal forest biome. These data sets are necessary to determine the sensitivity of the boreal forest biome to potential climatic changes and potential biophysical feedbacks on climate. A considerable volume of remotely-sensed and supporting field data were acquired by numerous researchers to meet this objective. By design, remote sensing and modeling were considered critical components for scaling efforts, extending point measurements from flux towers and field sites over larger spatial and longer temporal scales. A major focus of the BOREAS follow-on program is concerned with integrating the diverse remotely sensed and ground-based data sets to address specific questions such as carbon dynamics at local to regional scales. The Airborne Visible/Infrared Imaging Spectrometer (AVIRIS) has the potential of contributing to BOREAS through: (1) accurate retrieved apparent surface reflectance; (2) improved landcover classification; and (3) direct assessment of biochemical/biophysical information such as canopy liquid water and chlorophyll concentration through pigment fits. In this paper, we present initial products for major flux tower sites including: (1) surface reflectance of dominant cover types; (2) a land-cover classification developed using spectral mixture analysis (SMA) and Multiple Endmember Spectral Mixture Analysis (MESMA); and (3) liquid water maps. Our goal is to compare these land-cover maps to existing maps and to incorporate AVIRIS image products into models of photosynthetic flux.

  8. Spectral density mapping at multiple magnetic fields suitable for 13C NMR relaxation studies

    NASA Astrophysics Data System (ADS)

    Kadeřávek, Pavel; Zapletal, Vojtěch; Fiala, Radovan; Srb, Pavel; Padrta, Petr; Přecechtělová, Jana Pavlíková; Šoltésová, Mária; Kowalewski, Jozef; Widmalm, Göran; Chmelík, Josef; Sklenář, Vladimír; Žídek, Lukáš

    2016-05-01

    Standard spectral density mapping protocols, well suited for the analysis of 15N relaxation rates, introduce significant systematic errors when applied to 13C relaxation data, especially if the dynamics is dominated by motions with short correlation times (small molecules, dynamic residues of macromolecules). A possibility to improve the accuracy by employing cross-correlated relaxation rates and on measurements taken at several magnetic fields has been examined. A suite of protocols for analyzing such data has been developed and their performance tested. Applicability of the proposed protocols is documented in two case studies, spectral density mapping of a uniformly labeled RNA hairpin and of a selectively labeled disaccharide exhibiting highly anisotropic tumbling. Combination of auto- and cross-correlated relaxation data acquired at three magnetic fields was applied in the former case in order to separate effects of fast motions and conformational or chemical exchange. An approach using auto-correlated relaxation rates acquired at five magnetic fields, applicable to anisotropically moving molecules, was used in the latter case. The results were compared with a more advanced analysis of data obtained by interpolation of auto-correlated relaxation rates measured at seven magnetic fields, and with the spectral density mapping of cross-correlated relaxation rates. The results showed that sufficiently accurate values of auto- and cross-correlated spectral density functions at zero and 13C frequencies can be obtained from data acquired at three magnetic fields for uniformly 13C -labeled molecules with a moderate anisotropy of the rotational diffusion tensor. Analysis of auto-correlated relaxation rates at five magnetic fields represents an alternative for molecules undergoing highly anisotropic motions.

  9. Particulate matter concentration mapping from MODIS satellite data: a Vietnamese case study

    NASA Astrophysics Data System (ADS)

    Nguyen, Thanh T. N.; Bui, Hung Q.; Pham, Ha V.; Luu, Hung V.; Man, Chuc D.; Pham, Hai N.; Le, Ha T.; Nguyen, Thuy T.

    2015-09-01

    Particulate Matter (PM) pollution is one of the most important air quality concerns in Vietnam. In this study, we integrate ground-based measurements, meteorological and satellite data to map temporal PM concentrations at a 10 × 10 km grid for the entire of Vietnam. We specifically used MODIS Aqua and Terra data and developed statistically-significant regression models to map and extend the ground-based PM concentrations. We validated our models over diverse geographic provinces i.e., North East, Red River Delta, North Central Coast and South Central Coast in Vietnam. Validation suggested good results for satellite-derived PM2.5 data compared to ground-based PM2.5 (n = 285, r2 = 0.411, RMSE = 20.299 μg m-3 and RE = 39.789%). Further, validation of satellite-derived PM2.5 on two independent datasets for North East and South Central Coast suggested similar results (n = 40, r2 = 0.455, RMSE = 21.512 μg m-3, RE = 45.236% and n = 45, r2 = 0.444, RMSE = 8.551 μg m-3, RE = 46.446% respectively). Also, our satellite-derived PM2.5 maps were able to replicate seasonal and spatial trends of ground-based measurements in four different regions. Our results highlight the potential use of MODIS datasets for PM estimation at a regional scale in Vietnam. However, model limitation in capturing maximal or minimal PM2.5 peaks needs further investigations on ground data, atmospheric conditions and physical aspects.

  10. The International Association for the Study of Lung Cancer Lymph Node Map: A Radiologic Atlas and Review.

    PubMed

    Kim, Jin Hwan; van Beek, Edwin Jr; Murchison, John T; Marin, Aleksander; Mirsadraee, Saeed

    2015-07-01

    Accurate lymph node staging of lung cancer is crucial in determining optimal treatment plans and predicting patient outcome. Currently used lymph node maps have been reconciled to the internationally accepted International Association for the Study of Lung Cancer (IASLC) map published in the seventh edition of TNM classification system of malignant tumours. This article provides computed tomographic illustrations of the IASLC nodal map, to facilitate its application in day-to-day clinical practice in order to increase the appropriate classification in lung cancer staging.

  11. PETROLEUM RESIDUA SOLUBILITY PARAMETER/POLARITY MAP: STABILITY STUDIES OF RESIDUA PYROLYSIS

    SciTech Connect

    John F. Schabron; A. Troy Pauli; Joseph F. Rovani, Jr.

    1999-04-30

    A new molecular weight/polarity map based on the Scatchard-Hildebrand solubility equation has been developed for petroleum residua. A series of extractions are performed with solvents of increasing solubility parameter, and the fractions are analyzed by vapor pressure osmometry for number average molecular weight and by analytical-scale size exclusion chromatography for molecular weight spread. Work was performed for a heavy oil material subjected to three increasing severities of thermal treatment prior to and through the onset of coke formation. The results are diagnostic of the layers of solvations by resin-type molecules around a central asphaltene core. Two additional stability diagnostic methods were also used. These were the Heithaus titration ''P-index'' and Gaestel ''G'' index, which have been applied to paving asphalts for decades. The Heithaus titration involves the titration of three toluene solutions of a residuum at three concentrations with a poor solvent, such as isooctane, to the point of asphaltene flocculation. In the present work, the significance of the data are developed in terms of the Hildebrand solubility parameter. The Heithaus results are combined with data from the new molecular weight/polarity map. The solubility parameters for the toluene-soluble asphaltene components are measured, and the solubility parameters of the maltenes can be calculated. As thermal treatment progresses, the solubility parameters of asphaltene materials increase and the molecular weights decrease. A new coking index is proposed based on Heithaus titration data. Preliminary results suggest that an alternative, simpler coking index may be developed by measuring the weight percent of cyclohexane solubles in heptane asphaltenes. Coking onset appears to coincide with the depletion of these resin-type asphaltene solubilizing components of residua. The objective of the present study was to develop a mapping tool that will enhance understanding of the changes that occur

  12. Computer generated maps from digital satellite data - A case study in Florida

    NASA Technical Reports Server (NTRS)

    Arvanitis, L. G.; Reich, R. M.; Newburne, R.

    1981-01-01

    Ground cover maps are important tools to a wide array of users. Over the past three decades, much progress has been made in supplementing planimetric and topographic maps with ground cover details obtained from aerial photographs. The present investigation evaluates the feasibility of using computer maps of ground cover from satellite input tapes. Attention is given to the selection of test sites, a satellite data processing system, a multispectral image analyzer, general purpose computer-generated maps, the preliminary evaluation of computer maps, a test for areal correspondence, the preparation of overlays and acreage estimation of land cover types on the Landsat computer maps. There is every indication to suggest that digital multispectral image processing systems based on Landsat input data will play an increasingly important role in pattern recognition and mapping land cover in the years to come.

  13. Lava flow volume and morphology from digitised contour maps: a case study at Mount Etna, Sicily

    NASA Astrophysics Data System (ADS)

    Stevens, N. F.; Wadge, G.; Murray, J. B.

    1999-07-01

    The volume and morphology of a lava flow-field can be measured by mapping and comparing the topography before and after lava emplacement. Contour maps are a widely available source of topographic data, containing a record of the geomorphological changes at volcanoes due to lava emplacement. This paper explores the use of 1:25,000 scale digitised contour maps for mapping two lava flows of diverse eruption history and morphology at Mount Etna, Sicily. We find that subtracting DEMs created from these maps gives a good representation of volume and shape for thicker lava flows (>10 m mean thickness) in the case of the 1983 lava flow. However, thinner (<10 m) flows, e.g., the 1981 flow, are not represented on this scale of map and the technique cannot be used. Hence, caution is required in using this technique. The assumption of accurate representation of modified topography in contour maps may not always be valid.

  14. Geospatial approach in mapping soil erodibility using CartoDEM - A case study in hilly watershed of Lower Himalayan Range

    NASA Astrophysics Data System (ADS)

    Kumar, Suresh; Gupta, Surya

    2016-09-01

    Soil erodibility is one of the most important factors used in spatial soil erosion risk assessment. Soil information derived from soil map is used to generate soil erodibility factor map. Soil maps are not available at appropriate scale. In general, soil maps at small scale are used in deriving soil erodibility map that largely generalized spatial variability and it largely ignores the spatial variability since soil map units are discrete polygons. The present study was attempted to generate soil erodibilty map using terrain indices derived from DTM and surface soil sample data. Soil variability in the hilly landscape is largely controlled by topography represented by DTM. The CartoDEM (30 m) was used to derive terrain indices such as terrain wetness index (TWI), stream power index (SPI), sediment transport index (STI) and slope parameters. A total of 95 surface soil samples were collected to compute soil erodibility factor (K) values. The K values ranged from 0.23 to 0.81 t ha-1R-1 in the watershed. Correlation analysis among K-factor and terrain parameters showed highest correlation of soil erodibilty with TWI (r 2= 0.561) followed by slope (r 2= 0.33). A multiple linear regression model was developed to derive soil erodibilty using terrain parameters. A set of 20 soil sample points were used to assess the accuracy of the model. The coefficient of determination (r 2) and RMSE were computed to be 0.76 and 0.07 t ha-1R-1 respectively. The proposed methodology is quite useful in generating soil erodibilty factor map using digital elevation model (DEM) for any hilly terrain areas. The equation/model need to be established for the particular hilly terrain under the study. The developed model was used to generate spatial soil erodibility factor (K)