scholarly journals Genetic diversity detection of the domestic horse (Equus caballus) by genes associated with coat color

2015 ◽  
pp. 4779-4789
Author(s):  
Luz Correa A ◽  
Cindy Reyes E ◽  
Enrique Pardo P ◽  
Teodora Cavadia M
Keyword(s):  
Genetic Diversity ◽  
Gene Flow ◽  
Genetic Distance ◽  
Coat Color ◽  
Equus Caballus ◽  
Phenotypic Characterization ◽  
Domestic Horse ◽  
Global Level ◽  
Weinberg Equilibrium ◽  
Hardy Weinberg Equilibrium

ABSTRACT Objective. To assess the population structure and genetic diversity in populations of domestic horse (Equus caballus) in the municipality Cienaga de Oro-Córdoba (Colombia). Materials and methods. Random sampling were conducted between August and October 2013, in adult animals on farms seven districts, which was carried out phenotypic characterization of each animal, based on autosomal markers encoding morphological Extension (E) , Agouti (A), Cream (C), White (W), Gray (G), Tobiano (TO), Overo (O) and Roan (RN). Population genetic parameters: allele frequency, genetic diversity, gene flow, Hardy-Weinberg equilibrium and genetic distance were calculated through the program POPGENE 1.31; the genetic structure was assessed using the program FSTAT v. 2.9.3.2. Results. 341 individuals were analyzed in the seven populations studied, where the Extension gene Was the MOST faq frequently as the Overo and Tobiano genes showed the lowest values. Insignificant values of genetic variability and population recorded a global level, likewise, low genetic differentiation among populations, accompanied by a high gene flow was obtained; an excess of heterozygotes at population and global level was observed; to this is added the presence of Hardy-Weinberg equilibrium in all populations relative to the markers studied and low genetic distance values were reported. Conclusions. The populations are highly genetically related, a situation that may result from the existing geographical proximity between them, favoring genetic exchange and the establishment of a metapopulation.

scholarly journals Novel intron 2 polymorphism in the melanophilin gene is in Hardy-Weinberg equilibrium and is not associated with coat color in goats

2013 ◽  
Vol 03 (03) ◽  
pp. 195-200 ◽  
Author(s):  
Mufliat A. Adefenwa ◽  
Brilliant O. Agaviezor ◽  
Sunday O. Peters ◽  
Matthew Wheto ◽  
Oludotun J. Ekundayo ◽  
...  
Keyword(s):  
Coat Color ◽  
Weinberg Equilibrium ◽  
Hardy Weinberg Equilibrium ◽  
Intron 2

scholarly journals Non-linear genetic diversity and notable population differentiation caused by low gene flow of bermudagrass [Cynodon dactylon (L.) Pers.] along longitude gradients

PeerJ ◽  
2021 ◽  
Vol 9 ◽  
pp. e11953
Author(s):  
Jing-Xue Zhang ◽  
Miaoli Wang ◽  
Jibiao Fan ◽  
Zhi-Peng Guo ◽  
Yongzhuo Guan ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Gene Flow ◽  
Genetic Distance ◽  
Ploidy Level ◽  
Population Genetic ◽  
Annual Precipitation ◽  
Mean Annual Precipitation ◽  
Ploidy Levels ◽  
Population Genetic Diversity

Background Environmental variation related to ecological habitat is the main driver of plant adaptive divergence. Longitude plays an important role in the formation of plant population structure, indicating that environmental differentiation can significantly shape population structure. Methods Genetic diversity and population genetic structure were estimated using 105 expressed sequence tag-derived simple sequence repeat (EST-SSR) loci. A total of 249 C. dactylon (L.) Pers. (common bermudagrass) individuals were sampled from 13 geographic sites along the longitude (105°57′34″–119°27′06″E). Results There was no obvious linear trend of intra-population genetic diversity along longitude and the intra-population genetic diversity was not related to climate in this study. Low gene flow (Nm = 0.7701) meant a rich genetic differentiation among populations of C. dactylon along longitude gradients. Significantly positive Mantel correlation (r = 0.438, P = 0.001) was found between genetic distance and geographical interval while no significant partial Mantel correlation after controlling the effect of mean annual precipitation, which indicated geographic distance correlated with mean annual precipitation affect genetic distance. The genetic diversity of C. dactylon with higher ploidy level was higher than that with lower ploidy level and groups of individuals with higher ploidy level were separated further away by genetic distance from the lower ploidy levels. Understanding the different genetic bases of local adaptation comparatively between latitude and longitude is one of the core findings in the adaptive evolution of plants.

Genetic variation within and relationships among five subpopulations of Slovak Thoroughbred

2004 ◽  
Vol 52 (3) ◽  
pp. 259-265
Author(s):  
Daniela Šátková-Jakabová ◽  
J. Trandžík ◽  
Ľudmila Hudecová-Kvasňáková ◽  
Erika Hegedüšová-Zetochová ◽  
A. Bugarský ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Genetic Variation ◽  
Genetic Differentiation ◽  
International Society ◽  
Microsatellite Loci ◽  
Genetic Relationships ◽  
Allele Frequencies ◽  
Weinberg Equilibrium ◽  
Hardy Weinberg Equilibrium

Genetic variation at six microsatellite loci was analysed for five Thoroughbred subpopulations to determine the magnitude of genetic differentiation and the genetic relationships among the subpopulations. Significant deviations from Hardy-Weinberg equilibrium were shown for a number of locus-population combinations, with all subpopulations. The genetic diversities and relationships of five Thoroughbred subpopulations were evaluated using six microsatellites recommended by the International Society of Animal Genetics (ISAG). The allele frequencies, the effective numbers of alleles, and the observed and expected heterozygosities were calculated. POPGENE v. 1.31 (Yeh et al., 1997) was used to test for deviations from the Hardy-Weinberg (H-W) equilibrium and to assign FIS estimates (Weir, 1990). The utility of microsatellites for evaluating genetic diversity of horses is discussed.

scholarly journals Going with the flow: analysis of population structure reveals high gene flow shaping invasion pattern and inducing range expansion of Mikania micrantha in Asia

2020 ◽  
Vol 125 (7) ◽  
pp. 1113-1126
Author(s):  
Achyut Kumar Banerjee ◽  
Zhuangwei Hou ◽  
Yuting Lin ◽  
Wentao Lan ◽  
Fengxiao Tan ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Genetic Variation ◽  
Gene Flow ◽  
Genetic Distance ◽  
Range Expansion ◽  
Mikania Micrantha ◽  
High Gene Flow ◽  
Genetic Pattern ◽  
High Gene

Abstract Background and Aims Mikania micrantha, a climbing perennial weed of the family Asteraceae, is native to Latin America and is highly invasive in the tropical belt of Asia, Oceania and Australia. This study was framed to investigate the population structure of M. micrantha at a large spatial scale in Asia and to identify how introduction history, evolutionary forces and landscape features influenced the genetic pattern of the species in this region. Methods We assessed the genetic diversity and structure of 1052 individuals from 46 populations for 12 microsatellite loci. The spatial pattern of genetic variation was investigated by estimating the relationship between genetic distance and geographical, climatic and landscape resistances hypothesized to influence gene flow between populations. Key Results We found high genetic diversity of M. micrantha in this region, as compared with the genetic diversity parameters of other invasive species. Spatial and non-spatial clustering algorithms identified the presence of multiple genetic clusters and admixture between populations. Most of the populations showed heterozygote deficiency, primarily due to inbreeding, and the founder populations showed evidence of a genetic bottleneck. Persistent gene flow throughout the invasive range caused low genetic differentiation among populations and provided beneficial genetic variation to the marginal populations in a heterogeneous environment. Environmental suitability was found to buffer the detrimental effects of inbreeding at the leading edge of range expansion. Both linear and non-linear regression models demonstrated a weak relationship between genetic distance and geographical distance, as well as bioclimatic variables and environmental resistance surfaces. Conclusions These findings provide evidence that extensive gene flow and admixture between populations have influenced the current genetic pattern of M. micrantha in this region. High gene flow across the invaded landscape may facilitate adaptation, establishment and long-term persistence of the population, thereby indicating the range expansion ability of the species.

Microsatellite marker-based estimation of the genetic diversity of cattle in Chongqing

2018 ◽  
Author(s):  
Weiwei Ni ◽  
An Jiang ◽  
Jian Zhang ◽  
Guangxin E ◽  
Yongfu Huang
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Markers ◽  
Microsatellite Marker ◽  
Weinberg Equilibrium ◽  
The Future ◽  
Hardy Weinberg Equilibrium ◽  
The Mean ◽  
Coefficient Of Inbreeding

Cattle are the main source of meat in Chongqing. This study investigated the genetic diversity of cattle native to Chongqing and 4 introduced breeds. A total of 96 individuals from 5 breeds were genotyped using six microsatellite markers. Five markers were highly polymorphic within the breed populations, and one marker had moderate levels of polymorphism. Heterozygosity ranged from 0.5379±0.0434 in Simmental to 0.6667±0.0559 in Charolais. The heterozygosity deficit was significant in all populations analyzed compared with the expected level of heterozygosity. In addition, two microsatellite markers (TGLA53 and OarFCB20) deviated from Hardy-Weinberg equilibrium across populations (except in cattle native to Chongqing). The mean number of alleles ranged from 6.00±2.37 in Angus to 7.17±2.14 in Droughtmaster across six markers. The coefficient of inbreeding ranged from 0.0017 in Simmental and Droughtmaster to 0.0367 in Angus. Pairwise difference analyses revealed that Simmental and Droughtmaster were the most differentiated (FST= 0.06861) from each other, whereas cattle native to Chongqing and Charolais were the least differentiated (FST= 0.00557). In summary, this study showed that cattle native to Chongqing and 4 introduced breeds were genetically well protected in Chongqing, and information from this study would be helpful for guiding hybridization and genetic improvements in the future.

Genetic structure and proposed conservation strategy for natural populations of Calycanthus chinensis Cheng et S.Y. Chang (Calycanthaceae)

2008 ◽  
Vol 88 (1) ◽  
pp. 179-186 ◽  
Author(s):  
Chu-Chuan Fan ◽  
Nicola Pecchioni ◽  
Long-Qing Chen
Keyword(s):  
Genetic Diversity ◽  
Gene Flow ◽  
Genetic Differentiation ◽  
Genetic Distance ◽  
Gene Diversity ◽  
Genetic Relationships ◽  
Natural Populations ◽  
Population Level ◽  
Conservation Strategy ◽  
Information Index

Calycanthus chinensis Cheng et S.Y. Chang, a tertiary relic species in China, is a shade-loving and deciduous bush withan elegant shape and beautiful flower of high ornamental value. It was widely planted in gardens and miniature scapes in China.The objective of this study was to characterize the genetic variation and structure in the three extant populations of the species, in order to provide useful information for a future conservation strategy. Twenty-two of 120 RAPD primers were selected and a total of 257 stable and clear DNA fragments were scored. Calycanthus chinensis showed a lower level of genetic diversity. At the population level, the percentage of polymorphic loci, Nei's gene diversity and Shannon’s information index were 40.9%, 0.1641 and 0.2386, respectively; while at the species level, the corresponding values were 59.1%, 0.2097 and 0.3123, respectively. The estimates of genetic differentiation based on Shannon’s information index (0.2360), Nei’s gene diversity (0.2175) and AMOVA (24.94%) were very similar, and significantly higher than the average genetic differentiation reported in outcrossed spermatophyte. So it suggested high genetic differentiation emerged among populations of C. chinensis. Genetic relationships among populations were assessed by Nei’s standard genetic distance, which suggested that the Tiantai population was genetically distinct from the other two populations. Moreover, the genetic distance was significantly correlated with geographical distance among populations (r = 0.997, t > t0.05). The gene flow (Nm) was 0.8994, indicating that gene exchange among populations was restricted. A conservation strategy was proposed based on the low gene flow and habitat deterioration, which are contributing to the endangered status of this species. Key words: Genetic diversity, endangered plant, population genetics, RAPD

Abundant genetic diversity and maternal origins of modern horses

2019 ◽  
Vol 99 (4) ◽  
pp. 929-934
Author(s):  
Hongzhao Lu ◽  
Hao Bai ◽  
Ling Wang ◽  
Tao Zhang
Keyword(s):  
Genetic Diversity ◽  
Mitochondrial Dna ◽  
Gene Flow ◽  
Domestic Horse ◽  
European Regions ◽  
Geographical Regions ◽  
D Loop ◽  
Ancient Times

To clarify the origin and genetic diversity of modern horses, mitochondrial DNA (mtDNA) D-loop sequences were generated for 3965 horses from 12 geographical regions. From these sequences, we observed 439 haplotypes defined by 138 polymorphic nucleotide sites. All horses were genetically diverse (HD = 0.973 ± 0.001, π = 0.0243 ± 0.0005), which showed that maternal lineages of the domestic horse are worldwide highly diverse. In general, all 18 haplogroups were presented in the Asian horse. The majority of modern horse sequences belong to haplogroups L, Q, and A. At the same time, 194 archaeological samples from four geographical regions were obtained. Indeed, haplogroup distributions are overlapping in modern and ancient samples, indicating that most haplogroups were already present in ancient times at least in Europe and Asia. The network showed that breeds of Asian and Europe regions overlapped, suggesting that extensive gene flow had occurred between different horse breeds in Asian and European regions.

Lakes Michigan and Huron limit gene flow between the subspecies of the butterfly Limenitis arthemis

1988 ◽  
Vol 66 (8) ◽  
pp. 1790-1795 ◽  
Author(s):  
G. P. Waldbauer ◽  
J. G. Sternburg ◽  
A. W. Ghent
Keyword(s):  
Gene Flow ◽  
Upper Peninsula ◽  
Weinberg Equilibrium ◽  
Hardy Weinberg Equilibrium ◽  
Lower Peninsula ◽  
Straits Of Mackinac

Near the Straits of Mackinac, the Limenitis arthemis population on Michigan's Upper Peninsula consists mostly of the disruptively banded L. a. arthemis, while the population on its Lower Peninsula consists mostly of the unbanded, mimetic L. a. astyanax and arthemis–astyanax intergrades. Except at the straits, the Upper and Lower peninsulas are broadly separated by lakes Michigan and Huron. On the Lower Peninsula, arthemis-like forms are most common on the shore close to the Upper Peninsula but are much less frequent only 20 km south, probably because of the northward flow of astyanax genes. Neither population is in Hardy–Weinberg equilibrium because of a deficiency of "hétérozygotes," possibly because of cross-lake emigration at the straits.

Genetic Differentiation among Populations of the Northern Redbelly Dace (Phoxinus eos) in Ontario

1994 ◽  
Vol 51 (6) ◽  
pp. 1218-1228 ◽  
Author(s):  
C. Anna Toline ◽  
Allan J. Baker
Keyword(s):  
Gene Flow ◽  
Genetic Differentiation ◽  
Fish Species ◽  
Protein Electrophoresis ◽  
The Other ◽  
Population Divergence ◽  
Average Heterozygosity ◽  
Weinberg Equilibrium ◽  
Hardy Weinberg Equilibrium ◽  
Population Substructuring

Eighteen populations of northern redbelly dace (Phoxinus eos) from three regions in Ontario were examined genetically using protein electrophoresis. Differentiation among regions was greater (FST = 0.100) than within them (FST = 0.045–0.064), suggesting that levels of gene flow are high enough to prevent differentiation through drift only within regions. Levels of heterozygosity, percent polymorphic loci, and number of alleles per locus are high relative to other fish species, which suggests that populations of dace in this study have not been subject to severe bottlenecks. Thus, population divergence has apparently occurred gradually over the last 10 000 yr. Average heterozygosity was not correlated with pond area. Thus, populations in Algonquin Park are not more prone to the effects of drift than those in the other two regions. Populations from the Sudbury region were genetically differentiated from those in Algonquin Park and from near Kingston, a result consistent with the historical biogeography of Ontario. Despite relatively high levels of heterozygosity, observed levels in this study deviated significantly from those expected from Hardy–Weinberg equilibrium. The breeding biology of P. eos and other fish suggests that our results may be explained by the presence of population substructuring in the localities sampled.

scholarly journals A Significant Genetic Admixture in Farmed Populations of the Noble Scallop Chlamys nobilis Revealed by Microsatellite DNA Analysis in Southern China

2021 ◽  
Vol 8 ◽  
Author(s):  
Haitao Ma ◽  
Dongmei Yu ◽  
Shu Xiao ◽  
Yanping Qin ◽  
Yang Zhang ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Dna Analysis ◽  
Wild Population ◽  
Southern China ◽  
Genetic Admixture ◽  
Chlamys Nobilis ◽  
Weinberg Equilibrium ◽  
Artificial Breeding ◽  
Hardy Weinberg Equilibrium ◽  
Bayesian Assignment

The noble scallop, Chlamys nobilis, is an important bivalve mollusk with high commercial value and is usually farmed in the waters of southern China. To date, very little is known about the genetic diversity and population structure of C. nobilis. In this study, 10 microsatellite loci of four farmed C. nobilis populations were compared with one another and compared wild population in southern China. A total of 83 alleles were found. Surprisingly, the level of genetic diversity of the farmed C. nobilis populations was higher than that of the wild population. Although the population genetic of wild population was completely in the Hardy–Weinberg equilibrium, due to heterozygote deficiency, significant deviations from the Hardy–Weinberg equilibrium were found in all farmed populations, suggesting a genetic admixture caused by the mixing of seeds from various hatcheries. The Fst and AMOVA values showed significant genetic differences between wild and farmed populations. The Bayesian assignment also confirmed that genetic admixture was significant and widespread in artificial breeding of C. nobilis. Furthermore, the UPGMA tree topology and PCA demonstrated that the genetic diversity of wild population can be clearly distinguished from farmed populations. In a nutshell, the findings of this study not only fill the knowledge gaps in genetic diversity of wild and farmed C. nobilis populations, but also serve as a guide for maintaining the genetic diversity of C. nobilis in both farmed and wild populations.

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