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Population structure

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WGS based study of the population structure of Salmonella enterica serovar Infantis

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WGS based study of the population structure of Salmonella enterica serovar Infantis. Infantis) is one of the most frequent Salmonella serovars isolated from human cases of salmonellosis and the most detected serovar from animal and food sources in Europe. Increasing the knowledge of the S.

New insights into the phylogenetics and population structure of the prairie falcon (Falco mexicanus)

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New insights into the phylogenetics and population structure of the prairie falcon ( Falco mexicanus.

Genetic characterization and population structure of maize populations using SSR markers

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Genetic diversity and population structure of maize landraces from Cte dIvoire.. Genetic Diversity and Modern Plant Breeding. (eds) Genetic Diversity and Erosion in Plants.

Fine-scale population structure and evidence for local adaptation in Australian giant black tiger shrimp (Penaeus monodon) using SNP analysis

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Fine-scale population structure and. evidence for local adaptation in Australian giant black tiger shrimp ( Penaeus monodon ) using SNP analysis. monodon populations.. Conclusion: This study provides new insights on genetic population structure of Australian P.

The population structure, production and management of co swine breed in Nghe An province, Vietnam

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This descriptive-evaluative study was undertaken in order to evaluate the current condition of the Co pig population in Nghe An province, Vietnam in terms of size, structure and effective size. Based on its current population structure, the Co pig can be classified as a rare breed and even though the effective population size is less than 500.

High-resolution population structure and runs of homozygosity reveal the genetic architecture of complex traits in the Lipizzan horse

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High-resolution population structure and runs of homozygosity reveal the genetic architecture of complex traits in the. In this study we derived the high-resolution population structure and levels of autozygosity of 377 Lipizzan horses originating from five different European stud farms utilizing the SNP genotype information of the high density 700 k Affymetrix Axiom ™ Equine genotyping array.

Molecular genetic analysis of spring wheat core collection using genetic diversity, population structure, and linkage disequilibrium

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Studying the population structure is very helpful in un- derstanding the genetic diversity of the tested genotypes.. This exchange resulted in the pres- ence of diverse genetic backgrounds in the same country, and thus the presence of genotypes from differ- ent countries in the same subpopulation. Understand- ing this presence of population structure in the tested 103-spring wheat genotypes is very important.

Genomic epidemiology and population structure of Neisseria gonorrhoeae from remote highly endemic Western Australian populations

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Genomic epidemiology and population structure of Neisseria gonorrhoeae from. One of the highest notification rates of gonorrhoea is found in the remote regions of Western Australia (WA). gonorrhoeae collection were used to investigate relatedness of isolates cultured in the metropolitan and remote areas. Results: Population structure analysis of the 59 isolates together with 72 isolates from an international collection, revealed six population groups suggesting that N.

GeneMates: An R package for detecting horizontal gene co-transfer between bacteria using gene-gene associations controlled for population structure

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Altogether, numbers of cgSNP sites used for correcting for population structure (namely, bial- lelic cgSNP sites) of the 169 E. Further- more, the REML estimate of parameter λ (which reflects the effect of population structure on the distribution of the response allele) in the null LMM for presence- absence of each allele of AMR genes perfectly predicted whether ≥ 5 PCs had significant effects (Bonferroni- corrected p-values ≤ 0.05) on the distribution of this allele (Figure s9b)..

Genetic variation and population structure of maize inbred lines adapted to the midaltitude sub-humid maize agro-ecology of Ethiopia using single nucleotide polymorphic (SNP) markers

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Genetic variation and population structure of maize inbred lines adapted to the mid- altitude sub-humid maize agro-ecology of Ethiopia using single nucleotide.

Genome sequencing of 39 Akkermansia muciniphila isolates reveals its population structure, genomic and functional diverisity, and global distribution in mammalian gut microbiotas

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Keywords: Akkermansia muciniphila , Genome diversity, Population structure, Mammalian gut microbiota, Antibiotic resistance. Akkermansia muciniphila is a commensal anaerobe that is found to reside in the intestinal tract of more than 80% of human population [1–3], constituting 1–4% of the total bacterial cells in the healthy adult feces.

Unlocking the novel genetic diversity and population structure of synthetic Hexaploid wheat

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Population structure. The population structure of 101 SHW was first analyzed on the basis of the ABD genome to study them using all of their genetic diversity. Then the 101 SHWs were analyzed on the basis of the AB and the D genome separately to study gen- etic diversity of durum and Ae. Population structure of the ABD genome (synthetic hexaploid wheat).

Population structure, demographic history and local adaptation of the grass carp

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Nevertheless, local adaptation has likely played important roles in shaping the contemporary population structure of grass carp. Balancing selection is also likely indispensable to the survival of grass carp during introduction so as to adapt to new habitats. Our data shed new lights on population structure, genetic di- versity, sources of introduction and the strong ability of the grass carp in adapting to diverse environments, which could, in turn, facilitate its aquaculture..

Population structure, genetic diversity, and selective signature of Chaka sheep revealed by whole genome sequencing

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Specific SNPs and Indels in CKA sheep. 2 Analysis of the population structure in four sheep breeds. The cross-population composite likelihood ratio (XP- CLR) was used to detect the selective signal by compar- ing CKA with other three breeds grouped together, and Fst detected positive selection signatures in CKA sheep compared with the other three sheep breeds as per the results of population structure (Fig. 4a and Supplementary Table 5)..

Evaluation of linkage disequilibrium, population structure, and genetic diversity in the U.S. peanut mini core collection

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population structure, and genetic diversity in the U.S. peanut mini core collection. We report an analysis of linkage disequilibrium (LD), population structure, and genetic diversity, and examine the ability of GWA to infer marker-trait associations in the U.S. Results: LD persists over long distances in the collection, decaying to r 2 = half decay distance at 3.78 Mb.

Whole-genome DNA similarity and population structure of Plasmodiophora brassicae strains from Canada

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population structure of Plasmodiophora brassicae strains from Canada. Information on genetic similarity among pathogen populations across Canada could be useful in estimating the genetic variation in pathogen populations, predicting the effect of subsequent selection pressure on changes in the pathogen population over time, and even in identifying the origin of the initial pathogen introduction to canola in Alberta..

Spatiotemporal distribution and population structure of Clibanarius symmetricus (Randall, 1840) (Crustacea, Diogenidae) in an Amazon estuary

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Population structure and reproductive period of the tropical hermit crab Calcinus tibicen (Decapoda: Diogenidae) in the region of Ubatuba, São Paulo, Brazil. Structure of seasonal migrations of the littoral hermit crab Clibanarius vittatus (Bosc). Movement patterns and dispersal of the hermit crab Clibanarius longitarsus in a mangrove swamp.

Population structure of Apodemus flavicollis and comparison to Apodemus sylvaticus in northern Poland based on RAD-seq

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New view of population genetics of zooplankton: Rad-seq analysis reveals population structure of the north atlantic planktonic copepod centropages typicus. Identification of the sibling species apodemus sylvaticus and apodemus flavicollis (rodentia, muridae)—comparison of molecular methods. Phylogenetic relationships of apodemus kaup, 1829 (rodentia: Muridae) species in the eastern mediterranean inferred from mitochondrial dna, with emphasis on iranian species.

Unravelling population structure heterogeneity within the genome of the malaria vector Anopheles gambiae

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Genetic structure of a local population of the Anopheles gambiae complex in Burkina Faso. https://doi.org/10.1186/s . doi.org/10.1534/genetics . https://doi.org/10.1101/. Detecting recent positive selection in the human genome from haplotype structure. https://doi.org/10.1073/pnas.. https://doi.org/10.1111/j x.. CYP6 P450 enzymes and ACE-1 duplication produce extreme and multiple insecticide resistance in the malaria mosquito Anopheles gambiae..

Genetic structure and population dynamics of the silver pheasant (Lophura nycthemera) in southern China

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STRUCTURE version 2.3.3 was used to examine the patterns of population structure (Pritchard et al., 2000).. The first-generation migration among populations was tested by GENECLASS 2.0 (Cornuet et al., 1999), and the long-term interisland gene flow rate was estimated by MIGRATE-N 3.2.6 (Beerli and Palczewski, 2010).. This observation in population HN could be treated as occasional (Miller et al., 2012).