scholarly journals Application of microsatellite analysis to group chicken according to their genetic similarity

1999 ◽  
Vol 42 (6) ◽  
pp. 629-640
Author(s):  
K. Wimmers ◽  
S. Ponsuksili ◽  
F. Schmoll ◽  
T. Hardge ◽  
E. Babafunso Sonaiya ◽  
...  
Keyword(s):  
Genetic Variability ◽  
Microsatellite Loci ◽  
Genetic Similarity ◽  
Reference Group ◽  
Genetic Distances ◽  
Microsatellite Analysis ◽  
Allele Sharing ◽  
Original Sample ◽  
Local Sample ◽  
Shared Alleles

Abstract. When estimating genetic variability of groups of local chicken from Nigeria we had to deal with the problem that the groups could not be regarded as distinct breeds or strains. The original sample groups obviously just represent individuals sampled in the same geographical region. The aim was to arrange these chicken in new groups according to their genetic similarity. Therefore 60 chicken from Nigeria and 10 Dahlem Reds (RIR) were genotyped at 20 microsatellite loci. In order to build up new groups "allele sharing" was calculated as the proportion of shared alleles between each pair of individuals and was used to construct a dendrogram of all individuals including Dahlem Reds as a reference group which represents a well defined line. All Dahlem Reds clustered in this dendrogram indicating that this is an adequate approach to group individuals according to their common genetic make-up. The Nigerian chicken were arranged in 7 new groups. CHORD genetic distances between these new groups ranged from 0.07 to 0.27 and were higher than the values revealed by the original local sample groups (0.05–0.16).

scholarly journals Genetic variability of marine shrimp in the Brazilian industry

2013 ◽  
Vol 48 (8) ◽  
pp. 968-974 ◽  
Author(s):  
Rodrigo Maggioni ◽  
Maria Raquel Moura Coimbra ◽  
Raimundo Bezerra da Costa ◽  
Fábio Mendonça Diniz ◽  
Wagner Franco Molina ◽  
...  
Keyword(s):  
Genetic Variability ◽  
Central America ◽  
Microsatellite Loci ◽  
Geographical Location ◽  
Genetic Distances ◽  
Wild Populations ◽  
Marine Shrimp ◽  
Variability Level ◽  
Recent Origin ◽  
Polymorphic Microsatellite

The objective of this work was to estimate the genetic variability level and distribution in Brazilian broodstocks of marine shrimp (Litopenaeus vannamei). Nine of the country's largest hatcheries were evaluated using codominant and highly polymorphic microsatellite markers. The results obtained from genotyping of ten microsatellite loci are indicative of genetic variability that is compatible with that found in wild populations of L. vannamei in Mexico and Central America. A possible explanation is the highly diversified and relatively recent origin of the available broodstocks. Bayesian analysis detected a signal for five founding populations. The distribution of genetic distances partially reflects geographical location, and this information will be useful for the creation of new broodstocks. Therefore, L. vannamei genetic variability among nine of the largest national hatcheries can be considered high.

Microsatellite analysis of genetic variability in Waler horses from Australia

2013 ◽  
Vol 61 (5) ◽  
pp. 357 ◽  
Author(s):  
Anas M. Khanshour ◽  
Rytis Juras ◽  
E. Gus Cothran
Keyword(s):  
Genetic Diversity ◽  
Genetic Variability ◽  
Bayesian Method ◽  
Genetic Relationships ◽  
Similarity Measures ◽  
Genetic Distances ◽  
Microsatellite Analysis ◽  
Population Subdivision ◽  
Factorial Correspondence Analysis ◽  
Horse Breed

The Waler horse breed is an integral part of Australian history. The purposes of this study were to analyse the genetic variability in Waler horses from Australia and to investigate genetic relationships with other horse breeds. We examined the genetic diversity of 70 Waler horses sampled from seven breeding stations in Australia. Also we analysed the relationships of these horses with 11 other horse breeds. Analysis of the genetic structure was carried out using 15 microsatellite loci, genetic distances, AMOVA, factorial correspondence analysis and a Bayesian method. We found that the genetic diversity in the Waler was greater than the domestic horse mean and exceeded that of all endangered horse breeds. Our findings also revealed moderate population subdivision rather than inbreeding. All genetic similarity measures indicated that the Thoroughbred might be a key ancestor to the Waler. This study indicates that there is no immediate concern for loss of variation in Waler horses. Also, there clearly has been a strong input from the Thoroughbred into the Waler horse breed. However, the genetic evidence suggests that this input was not just direct but also came through other types of horses with a Thoroughbred cross background.

scholarly journals Genetic Evidence of Intra-cultivar Variability within Iberian Olive Cultivars

HortScience ◽  
2004 ◽  
Vol 39 (7) ◽  
pp. 1562-1565 ◽  
Author(s):  
Maria Susana Lopes ◽  
Duarte Mendonça ◽  
Kristina M. Sefc ◽  
Fabíola Sabino Gil ◽  
Artur da Câmara Machado
Keyword(s):  
Genetic Variability ◽  
Microsatellite Loci ◽  
Plant Material ◽  
Genetic Evidence ◽  
Allele Sharing ◽  
Germplasm Collections ◽  
Economic Production ◽  
Olive Cultivars ◽  
Olive Trees

A collection of 130 olive samples, originating from diverse areas in Europe and corresponding to 67 different cultivars denominations, was genotyped at 14 microsatellite loci. In total, 135 alleles with a mean number of 9.6 alleles per locus were detected. All but 30 accessions showed unique genotypes. Several cases of synonymy listed in the FAO database of olive germplasm could not be confirmed, as different allelic profiles were obtained from putatively synonymous cultivars. The existence of homonyms or mislabeled samples in olive germplasm collections was evidenced by allele differences of up to 60% between samples of the same denomination. An allele-sharing phenogram of the analyzed genotypes revealed several cultivars with high levels of intra-varietal polymorphism, as well as cultivar families consisting of closely related cultivars with similar denominations. Our work shows that the current designations of olive cultivars fall short of describing the genetic variability among economically important plant material. A thorough investigation of the existing variability will prove of major importance for both management and economic production of olive trees.

scholarly journals Genetic similarity of Jatropha curcas accessions based on AFLP markers

2010 ◽  
Vol 10 (4) ◽  
pp. 364-369 ◽  
Author(s):  
Carlos Antonio Fernandes Santos ◽  
Marcos Antonio Drumond ◽  
Marciene Amorim Rodrigues ◽  
Marcio Rannieri Viana Evangelista
Keyword(s):  
Genetic Variability ◽  
Jatropha Curcas ◽  
Genetic Similarity ◽  
Aflp Marker ◽  
Genetic Relationships ◽  
Molecular Data ◽  
Genetic Distances ◽  
Similarity Coefficient ◽  
High Variability ◽  
Upgma Dendrogram

The genetic relationships between accessions of Jatropha (Jatropha curcas) were determined based on AFLP marker. A set of 50 plants from 12 accessions of J. curcas was analyzed with molecular data from 164 loci generated from 17 AFLP primer combinations. Molecular variance of data was analyzed by total decomposition between and within accessions. An UPGMA dendrogram was constructed based on genetic distances estimated by Jaccard's similarity coefficient. The well-defined dendrogram showed a cophenetic value of 0.91. Groups of plants were observed in six of the 12 accessions studied with similarity of over 30 %, indicating high genetic variability. The variation among accessions was estimated to be 0.275, also indicating high variability. These results show that the genetic variability of the studied J. curcas accessions is structured according to the origin and that a greater number of populations should be sampled to increase the genetic diversity of the studied genebank.

scholarly journals A comparative study of eleven protein systems in tamarins, genus Saguinus (Platyrrhini, Callitrichinae)

1997 ◽  
Vol 20 (1) ◽  
pp. 13-19 ◽  
Author(s):  
Carla Meireles ◽  
Iracilda Sampaio ◽  
Horacio Schneider ◽  
Stephen F. Ferrari ◽  
Adelmar F. Coimbra-Filho ◽  
...  
Keyword(s):  
Genetic Variability ◽  
Comparative Study ◽  
Phylogenetic Relationships ◽  
Genetic Similarity ◽  
Phylogenetic Analyses ◽  
Single Species ◽  
Genetic Distances ◽  
Neighbor Joining ◽  
Taxonomic Relationships

The genetic variability of six tamarin taxa, genus Saguinus, was analyzed comparatively using protein data from eleven systems coded by 15 loci. S. fuscicollis weddelli and S. midas midas were the most polymorphic taxa, and S. bicolor the least. The results of the phylogenetic analyses (UPGMA and neighbor-joining) and the genetic distances between taxa were generally consistent with their geographic and probable phylogenetic relationships. Analyses of the S. bicolor and S. midas populations suggested that they represent no more than three subspecies of a single species, S. midas, with the bicolor forms belonging to a single subspecies, S. midas bicolor. If supported by additional studies, this would have important implications for the conservation of the bicolor form, which is endangered with extinction. The genetic similarity of S. fuscicollis and S. mystax was also consistent with their geographical and morphological proximity, although more data from a larger number of taxa will be required before the taxonomic relationships within the genus can be defined.

scholarly journals An evaluation of genetic distances for use with microsatellite loci.

Genetics ◽  
1995 ◽  
Vol 139 (1) ◽  
pp. 463-471 ◽  
Author(s):  
D B Goldstein ◽  
A Ruiz Linares ◽  
L L Cavalli-Sforza ◽  
M W Feldman
Keyword(s):  
Microsatellite Loci ◽  
Phylogenetic Reconstruction ◽  
Genetic Distances ◽  
Stepwise Mutation Model ◽  
Mutation Model ◽  
Stepwise Mutation ◽  
The Difference ◽  
Nei's Distance ◽  
Infinite Alleles Model ◽  
Overall Reliability

Abstract Mutations of alleles at microsatellite loci tend to result in alleles with repeat scores similar to those of the alleles from which they were derived. Therefore the difference in repeat score between alleles carries information about the amount of time that has passed since they shared a common ancestral allele. This information is ignored by genetic distances based on the infinite alleles model. Here we develop a genetic distance based on the stepwise mutation model that includes allelic repeat score. We adapt earlier treatments of the stepwise mutation model to show analytically that the expectation of this distance is a linear function of time. We then use computer simulations to evaluate the overall reliability of this distance and to compare it with allele sharing and Nei's distance. We find that no distance is uniformly superior for all purposes, but that for phylogenetic reconstruction of taxa that are sufficiently diverged, our new distance is preferable.

scholarly journals Analysis of genetic variability in Anopheles arabiensis and Anopheles gambiae using microsatellite loci

1999 ◽  
Vol 8 (2) ◽  
pp. 287-297 ◽  
Author(s):  
L. Kamau ◽  
W. R. Mukabana ◽  
W. A. Hawley ◽  
T. Lehmann ◽  
L. W. Irungu ◽  
...  
Keyword(s):  
Genetic Variability ◽  
Anopheles Gambiae ◽  
Microsatellite Loci ◽  
Anopheles Arabiensis

scholarly journals Evaluation of genetic variability and genetic distances between eight chicken lines using microsatellite markers

1998 ◽  
Vol 77 (6) ◽  
pp. 783-790 ◽  
Author(s):  
T Vanhala ◽  
M Tuiskula-Haavisto ◽  
K Elo ◽  
J Vilkki ◽  
A Maki-Tanila
Keyword(s):  
Genetic Variability ◽  
Microsatellite Markers ◽  
Genetic Distances

scholarly journals Genetic structure and gene flow of Eugenia dysenterica natural populations

2005 ◽  
Vol 40 (10) ◽  
pp. 975-980 ◽  
Author(s):  
Maria Imaculada Zucchi ◽  
José Baldin Pinheiro ◽  
Lázaro José Chaves ◽  
Alexandre Siqueira Guedes Coelho ◽  
Mansuêmia Alves Couto ◽  
...  
Keyword(s):  
Gene Flow ◽  
Genetic Variability ◽  
Pearson Correlation ◽  
Natural Populations ◽  
Similarity Index ◽  
Genetic Distances ◽  
Strong Positive Correlation ◽  
Randomly Amplified Polymorphic Dna ◽  
Jaccard Similarity ◽  
Eugenia Dysenterica

This study was carried out to assess the genetic variability of ten "cagaita" tree (Eugenia dysenterica) populations in Southeastern Goiás. Fifty-four randomly amplified polymorphic DNA (RAPD) loci were used to characterize the population genetic variability, using the analysis of molecular variance (AMOVA). A phiST value of 0.2703 was obtained, showing that 27.03% and 72.97% of the genetic variability is present among and within populations, respectively. The Pearson correlation coefficient (r) among the genetic distances matrix (1 - Jaccard similarity index) and the geographic distances were estimated, and a strong positive correlation was detected. Results suggest that these populations are differentiating through a stochastic process, with restricted and geographic distribution dependent gene flow.

Intraspecific genetic variability of isozymes in the ectomycorrhizal fungus Suillus tomentosus

1988 ◽  
Vol 66 (3) ◽  
pp. 588-594 ◽  
Author(s):  
Hong Zhu ◽  
Kenneth O. Higginbotham ◽  
Bruce P. Dancik ◽  
Stan Navratil
Keyword(s):  
Genetic Variability ◽  
Host Selection ◽  
Gel Electrophoresis ◽  
Genetic Similarity ◽  
Ectomycorrhizal Fungus ◽  
Habitat Isolation ◽  
Starch Gel Electrophoresis ◽  
Enzyme Systems ◽  
Forest Regions ◽  
Starch Gel

Mycelial extracts of 43 isolates of Suillus tomentosus (Kauffm.) Singer, Snell & Dick collected from four boreal forest regions in Alberta were subjected to starch gel electrophoresis. A total of 21 bands was resolved from eight different enzyme systems presumably representing 13 loci. Six loci were polymorphic among these isolates. Cluster and principal components analyses demonstrated that intraspecific genetic variability of this fungus existed among and within forest regions. Polymorphic loci of acid phosphatase and alkaline phosphatase exhibited the greatest genetic similarity among the isolates within forest regions. Habitat isolation and host selection could be the major sources of genetic variation among forest regions.

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