Faculty Opinions recommendation of Finding the factors of reduced genetic diversity on X chromosomes of Macaca fascicularis: male-driven evolution, demography, and natural selection.

2013 ◽  
Author(s):  
Norman Johnson
Keyword(s):  
Genetic Diversity ◽  
Natural Selection ◽  
Macaca Fascicularis ◽  
X Chromosomes

scholarly journals Finding the Factors of Reduced Genetic Diversity on X Chromosomes ofMacaca fascicularis: Male-Driven Evolution, Demography, and Natural Selection

Genetics ◽  
2013 ◽  
Vol 195 (3) ◽  
pp. 1027-1035 ◽  
Author(s):  
Naoki Osada ◽  
Shigeki Nakagome ◽  
Shuhei Mano ◽  
Yosuke Kameoka ◽  
Ichiro Takahashi ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Natural Selection ◽  
X Chromosomes

scholarly journals Genetic diversity and natural selection on the thrombospondin-related adhesive protein (TRAP) gene of Plasmodium falciparum on Bioko Island, Equatorial Guinea and global comparative analysis

2021 ◽  
Vol 20 (1) ◽  
Author(s):  
Li-Yun Lin ◽  
Hui-Ying Huang ◽  
Xue-Yan Liang ◽  
Dong-De Xie ◽  
Jiang-Tao Chen ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Plasmodium Falciparum ◽  
Natural Selection ◽  
Protein Structure ◽  
Transmembrane Protein ◽  
Fixation Index ◽  
Bioko Island ◽  
Adhesive Protein ◽  
Trap Gene ◽  
Selection Of

Abstract Background Thrombospondin-related adhesive protein (TRAP) is a transmembrane protein that plays a crucial role during the invasion of Plasmodium falciparum into liver cells. As a potential malaria vaccine candidate, the genetic diversity and natural selection of PfTRAP was assessed and the global PfTRAP polymorphism pattern was described. Methods 153 blood spot samples from Bioko malaria patients were collected during 2016–2018 and the target TRAP gene was amplified. Together with the sequences from database, nucleotide diversity and natural selection analysis, and the structural prediction were preformed using bioinformatical tools. Results A total of 119 Bioko PfTRAP sequences were amplified successfully. On Bioko Island, PfTRAP shows its high degree of genetic diversity and heterogeneity, with π value for 0.01046 and Hd for 0.99. The value of dN–dS (6.2231, p < 0.05) hinted at natural selection of PfTRAP on Bioko Island. Globally, the African PfTRAPs showed more diverse than the Asian ones, and significant genetic differentiation was discovered by the fixation index between African and Asian countries (Fst > 0.15, p < 0.05). 667 Asian isolates clustered in 136 haplotypes and 739 African isolates clustered in 528 haplotypes by network analysis. The mutations I116T, L221I, Y128F, G228V and P299S were predicted as probably damaging by PolyPhen online service, while mutations L49V, R285G, R285S, P299S and K421N would lead to a significant increase of free energy difference (ΔΔG > 1) indicated a destabilization of protein structure. Conclusions Evidences in the present investigation supported that PfTRAP gene from Bioko Island and other malaria endemic countries is highly polymorphic (especially at T cell epitopes), which provided the genetic information background for developing an PfTRAP-based universal effective vaccine. Moreover, some mutations have been shown to be detrimental to the protein structure or function and deserve further study and continuous monitoring.

scholarly journals Genetic Diversity and Natural Selection of Plasmodium vivax Duffy Binding Protein-II From China-Myanmar Border of Yunnan Province, China

2021 ◽  
Vol 12 ◽  
Author(s):  
Tian-Qi Shi ◽  
Hai-Mo Shen ◽  
Shen-Bo Chen ◽  
Kokouvi Kassegne ◽  
Yan-Bing Cui ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Natural Selection ◽  
Genetic Differentiation ◽  
Positive Selection ◽  
Plasmodium Vivax ◽  
Yunnan Province ◽  
Duffy Binding Protein ◽  
Synonymous Mutations ◽  
Selection Of

Malaria incidence has declined dramatically over the past decade and China was certified malaria-free in 2021. However, the presence of malaria in border areas and the importation of cases of malaria parasites are major challenges for the consolidation of the achievements made by China. Plasmodium vivax Duffy binding protein (PvDBP) performs a significant role in erythrocyte invasion, and is considered a promising P. vivax vaccine. However, the highly polymorphic region of PvDBP (PvDBP-II) impedes the development of blood-stage vaccine against P. vivax. In this study, we investigated the genetic diversity and natural selection of PvDBP-II among 124 P. vivax isolates collected from the China-Myanmar border (CMB) in Yunnan Province, China, during 2009–2011. To compare genetic diversity, natural selection, and population structure with CMB isolates, 85 pvdbp-II sequences of eastern Myanmar isolates were obtained from GenBank. In addition, global sequences of pvdbp-II were retrieved from GenBank to establish genetic differentiation relationships and networks with the CMB isolates. In total, 22 single nucleotide polymorphisms reflected in 20 non-synonymous and two synonymous mutations were identified. The overall nucleotide diversity of PvDBP-II from the 124 CMB isolates was 0.0059 with 21 haplotypes identified (Hd = 0.91). The high ratio of non-synonymous to synonymous mutations suggests that PvDBP-II had evolved under positive selection. Population structure analysis of the CMB and eastern Myanmar isolates were optimally grouped into five sub-populations (K = 5). Polymorphisms of PvDBP-II display that CMB isolates were genetically diverse. Mutation, recombination, and positive selection promote polymorphism of PvDBP-II of P. vivax population. Although low-level genetic differentiation in eastern Myanmar was identified along with the more effective malaria control measures, the complexity of population structure in malaria parasites has maintained. In conclusion, findings from this study advance knowledge of the understanding of the dynamic of P. vivax population, which will contribute to guiding the rational design of a PvDBP-II based vaccine.

scholarly journals Latitudinal gradients in genetic diversity and natural selection at a highly adaptive gene in terrestrial mammals

Ecography ◽  
2020 ◽  
Author(s):  
Li Yiming ◽  
Wang Siqi ◽  
Cheng Chaoyuan ◽  
Zhang Jiaqi ◽  
Wang Supen ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Natural Selection ◽  
Latitudinal Gradients ◽  
Terrestrial Mammals

scholarly journals Natural Selection and Genetic Diversity in the Butterfly Heliconius melpomene

Genetics ◽  
2016 ◽  
Vol 203 (1) ◽  
pp. 525-541 ◽  
Author(s):  
Simon H. Martin ◽  
Markus Möst ◽  
William J. Palmer ◽  
Camilo Salazar ◽  
W. Owen McMillan ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Natural Selection ◽  
Heliconius Melpomene

Individual differences: Variation by design

2000 ◽  
Vol 23 (5) ◽  
pp. 676-677 ◽  
Author(s):  
Anthony J. Greene ◽  
William B. Levy
Keyword(s):  
Genetic Diversity ◽  
Genetic Variation ◽  
Individual Differences ◽  
Natural Selection ◽  
Individual Variation ◽  
Mate Selection ◽  
Behavioral Variability ◽  
Behavioral Variation ◽  
Absolute Necessity

Stanovich & West (S&W) appear to overlook the adaptivity of variation. Behavioral variability, both between and within individuals, is an absolute necessity for phylogenetic and ontological adaptation. As with all heritable characteristics, inter-individual behavioral variation is the foundation for natural selection. Similarly, intra-individual variation allows a broad exploration of potential solutions. Variation increases the likelihood that more optimal behaviors are available for selection. Four examples of the adaptivity of variation are discussed: (a) Genetic variation as it pertains to behavior and natural selection; (b) behavioral and cognitive aspects of mate selection which may facilitate genetic diversity; (c) variation as a strategy for optimizing learning through greater exploration; and (d) behavioral variation coupled with communication as a means to propagate individually discovered behavioral success.

scholarly journals Genetic diversity and natural selection footprints of the glycine amidinotransferase gene in various human populations

2016 ◽  
Vol 6 (1) ◽  
Author(s):  
Asifullah Khan ◽  
Lei Tian ◽  
Chao Zhang ◽  
Kai Yuan ◽  
Shuhua Xu
Keyword(s):  
Genetic Diversity ◽  
Natural Selection ◽  
Human Populations

Mosaic microecological differential stress causes adaptive microsatellite divergence in wild barley, Hordeum spontaneum, at Neve Yaar, Israel

Genome ◽  
2002 ◽  
Vol 45 (6) ◽  
pp. 1216-1229 ◽  
Author(s):  
Qingyang Huang ◽  
Alex Beharav ◽  
Youchun Li ◽  
Valery Kirzhner ◽  
Eviatar Nevo
Keyword(s):  
Genetic Diversity ◽  
Natural Selection ◽  
Wild Barley ◽  
Permutation Test ◽  
Balancing Selection ◽  
Real Data ◽  
Hordeum Spontaneum ◽  
Data Sets ◽  
Total Genetic Diversity ◽  
Ssr Loci

Genetic diversity at 38 microsatellite (short sequence repeats (SSRs)) loci was studied in a sample of 54 plants representing a natural population of wild barley, Hordeum spontaneum, at the Neve Yaar microsite in Israel. Wild barley at the microsite was organized in a mosaic pattern over an area of 3180 m2 in the open Tabor oak forest, which was subdivided into four microniches: (i) sun–rock (11 genotypes), (ii) sun–soil (18 genotypes), (iii) shade–soil (11 genotypes), and (iv) shade–rock (14 genotypes). Fifty-four genotypes were tested for ecological–genetic microniche correlates. Analysis of 36 loci showed that allele distributions at SSR loci were nonrandom but structured by ecological stresses (climatic and edaphic). Sixteen (45.7%) of 35 polymorphic loci varied significantly (p < 0.05) in allele frequencies among the microniches. Significant genetic divergence and diversity were found among the four subpopulations. The soil and shade subpopulations showed higher genetic diversities at SSR loci than the rock and sun subpopulations, and the lowest genetic diversity was observed in the sun–rock subpopulation, in contrast with the previous allozyme and RAPD studies. On average, of 36 loci, 88.75% of the total genetic diversity exists within the four microniches, while 11.25% exists between the microniches. In a permutation test, GST was lower for 4999 out of 5000 randomized data sets (p < 0.001) when compared with real data (0.1125). The highest genetic distance was between shade-soil and sun–rock (D = 0.222). Our results suggest that diversifying natural selection may act upon some regulatory regions, resulting in adaptive SSR divergence. Fixation of some loci (GMS61, GMS1, and EBMAC824) at a specific microniche seems to suggest directional selection. The pattern of other SSR loci suggests the operation of balancing selection. SSRs may be either direct targets of selection or markers of selected haplotypes (selective sweep).Key words: natural selection, genetic diversity, microsatellites, adaptation, Hordeum spontaneum, wild barley, microsite divergence.

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