scholarly journals Genetic structure of the Chernivtsi local stock of rainbow trout (Oncorhynchus mykiss) as determined by SSR-markers

2019 ◽  
Vol 25 ◽  
pp. 26-31
Author(s):  
O. Yu. Bielikova ◽  
O. Zaloilo ◽  
S. Тarasjuk ◽  
A. Mruk ◽  
V. Romanenko
Keyword(s):  
Rainbow Trout ◽  
Genetic Structure ◽  
Ssr Markers ◽  
Molecular Genetic ◽  
Individual Identification ◽  
High Tech ◽  
Effective Number ◽  
Population Genetic Analysis ◽  
Mean Values ◽  
Local Herd

Aim. The trend towards the development of high-tech trout farms is observed in Ukraine. The analysis of the genetic structure of rainbow trout by molecular genetic methods is necessary for breeding work. Therefore, the purpose of the study was to study polymorphism at the microsatellite loci of Oncorhynchus mykis of the chernivetsk local herd. Me-thods. The determination of the genetic polymorphism was carried out according to indicators: the effective number of alleles on the locus (ne), the observed (Но) and expected (Hе) heterozygosity, indexes of fixation (Fis) and polymorphism (PIC). Results. Specific features of the structure of the gene pool of the local herd O. mykiss by the SSR loci OMM 1032, 1077, 1088, STR 15, 60, 73 were revealed. The average value of the effective number of alleles per locus was 3.87. The high average values of the heterozygosity of the local herd and the index of fixation were fixed (mean values of H e and F is: 0.73 and -0.14, respectively). А high index of polymorphism was recorded for all used DNA markers and was 0.69. Тhe possibility to analyse the genetic structure of salmon using these SSR-markers was substantiated. Conclusions. An analysis of the genetic structure of trout (O. mykiss) was performed by using of 6 microsatellite. It was shown that the investigated local herd has a high level of heterozygosity. The conducted studies have shown the effectiveness of using selected loci for individual identification and population-genetic analysis. Keywords: Oncorhynchus mykis, SSR-markers, heterozygotes, polymorphism.

scholarly journals Influence of ecological and geographical features of breeding brown Carpathian rocks on its genetic structure

2019 ◽  
Vol 21 (91) ◽  
pp. 103-107
Author(s):  
V. Y. Bodnaruk ◽  
L. I. Muzyka ◽  
A. J. Zhmur ◽  
T. V. Orikhivskyj
Keyword(s):  
Genetic Structure ◽  
Genetic Analysis ◽  
First Generation ◽  
Molecular Genetic ◽  
Breeding Value ◽  
Population Genetic Analysis ◽  
Geographical Regions ◽  
Biochemical Systems ◽  
Genetically Determined ◽  
F1 Generation

Studying the genetic structure of cattle makes it possible to characterize it by molecular genetic markers, which in the future enable effective breeding work with animals breed to achieve the desired characteristics. Lately is becoming more apparent the need to preserve genetic diversity namely due to the peculiarities of breeding in different ecological and geographical regions. Therefore, we conducted an investigation of the genetic structure of animals of pure-bred Brown Carpathian (BC), Schwyz (S) breeds, their mixtures of the first (F1) generation (1/2BС+1/2S), Brown Carpathian with a share of hereditary breed of Schwyz breed up to 50 and more than 50%, as well as Brown Carpathian, raised in flat and mountain farms. Genetic structure was evaluated by genetically determined polymorphism of groups of genetic-biochemical systems. Of the 14 investigated loci that encode proteins and blood enzymes, polymorphism was identified in five loci, namely: transferrin (Tf), ceruloplasmin (Cr), amylase-1 (Am-1), hemoglobin (Hb), and purine nucleoside phosphorylase (NP). As a result of population-genetic analysis of polymorphic loci of proteins and enzymes of blood in animals of Brown Carpathian breed the following data were obtained:the highest level of heterozygosity (H) was found at the transferrin locus – 95%, the lowest – at the hemoglobin locus – 9.5%.The heterozygosity at the ceruloplasmin locus was 68%. Evaluation of heterozygosity at the purinnucleoside phosphorylase locus was not possible because part of the animals with the NP-H (high activity) phenotype could carry a low activity variant in the heterozygous state. For all polymorphic systems in the Brown Carpathian breed genotype frequency distribution was in a balanced state according to Hardy-Weinberg law, except for the transferrin locus,where a statistically significant deficiency of homozygotes (P > 0.95) in the most common allelic variants is detected. Analysis of the dendrogram showed that groups of animals of Brown Carpathian breed with different proportion of hereditary Schwyz form one cluster that is clearly differentiated from purebred schwyzes. First-generation domestic animals (F1), by genetic structure, are significantly closer to the maternal Brown Carpathian breed than to the Schwyz one. Thus, the data obtained indicate that the specific characteristic of Brown Carpathian breed may be a relatively increased breeding value of a number of allelic interlocal associations, in which the loci of the genetic-biochemical systems are involved in one way or another. Genetic analysis of these systems showed the presence in the breed of its specific features, which are specific to it.

scholarly journals Genetic structure of a small closed population of the New Zealand white rabbit through pedigree analyses

2018 ◽  
Vol 26 (2) ◽  
pp. 101
Author(s):  
M. Sakthivel ◽  
D. Balasubramanyam ◽  
P. Kumarasamy ◽  
A. Raja ◽  
R. Anilkumar ◽  
...  
Keyword(s):  
New Zealand ◽  
Genetic Structure ◽  
Genetic Variability ◽  
Population Size ◽  
Effective Population Size ◽  
Research Station ◽  
Percentage Increase ◽  
Effective Number ◽  
Effective Population ◽  
Mean Values

The genetic structure of a small population of New Zealand White rabbits maintained at the Sheep Breeding and Research Station, Sandynallah, The Nilgiris, India, was evaluated through pedigree analyses. Data on pedigree information (n=2503) for 18 yr (1995-2012) were used for the study. Pedigree analysis and the estimates of population genetic parameters based on the gene origin probabilities were performed. The analysis revealed that the mean values of generation interval, coefficients of inbreeding and equivalent inbreeding were 1.49 yr, 13.23 and 17.59%, respectively. The proportion of population inbred was 100%. The estimated mean values of average relatedness and individual increase in inbreeding were 22.73 and 3.00%, respectively. The percentage increase in inbreeding over generations was 1.94, 3.06 and 3.98 estimated through maximum generations, equivalent generations and complete generations, respectively. The number of ancestors contributing the majority of 50% genes (f<sub>a50</sub>) to the gene pool of reference population was only 4, which might have led to reduction in genetic variability and increased the amount of inbreeding. The extent of genetic bottleneck assessed by calculating the effective number of founders (f<sub>e</sub>) and the effective number of ancestors (f<sub>a</sub>), as expressed by the f<sub>e</sub>/f<sub>a</sub> ratio was 1.1, which is indicative of the absence of stringent bottlenecks. Up to 5th generation, 71.29% pedigree was complete, reflecting the well maintained pedigree records. The maximum known generations were 15, with an average of 7.9, and the average equivalent generations traced were 5.6, indicating a fairly good depth in pedigree. The realized effective population size was 14.93, which is very critical, and with the increasing trend of inbreeding the situation has been assessed as likely to become worse in future. The proportion of animals with the genetic conservation index (GCI) greater than 9 was 39.10%, which can be used as a scale to use such animals with higher GCI to maintain balanced contribution from the founders. From the study, it was evident that the herd was completely inbred, with a very high inbreeding coefficient, and the effective population size was critical. Recommendations were made to reduce the probability of deleterious effects of inbreeding and to improve genetic variability in the herd. The present study can help in carrying out similar studies to meet the demand for animal protein in developing countries.

scholarly journals Population Genetic Structure Analysis Reveals Decreased but Moderate Diversity for the Oriental Fire-Bellied Toad Introduced to Beijing after 90 Years of Independent Evolution

Animals ◽  
2021 ◽  
Vol 11 (5) ◽  
pp. 1429
Author(s):  
Yang Teng ◽  
Jing Yang ◽  
Guofen Zhu ◽  
Fuli Gao ◽  
Yingying Han ◽  
...  
Keyword(s):  
Genetic Structure ◽  
Structure Analysis ◽  
Phylogenetic Trees ◽  
Molecular Genetic ◽  
Genetic Research ◽  
Haplotype Diversity ◽  
Botanical Garden ◽  
Source Population ◽  
Independent Evolution ◽  
Loop Region

Detailed molecular genetic research on amphibian populations has a significant role in understanding the genetic adaptability to local environments. The oriental fire-bellied toads (Bombina orientalis) were artificially introduced to Beijing from Shandong Province in 1927, and since then, this separated population went through an independent evolution. To explore the differentiation of the introduced population with its original population, this study analyzed the genetic structure of the oriental fire-bellied toad, based on the mitochondrial genome control region and six microsatellite sites. The results showed that the haplotype diversity and nucleotide diversity of the mitochondrial D-loop region partial sequences of the Beijing Botanical Garden population and the Baiwangshan population were lower than those of the Shangdong Kunyushan population. Microsatellite marker analysis also showed that the observed heterozygosity and expected heterozygosity of the Beijing populations were lower than those of the Kunyushan population. The phylogenetic trees and network diagrams of haplotypes indicated that the three populations were not genetically separated. However, the structure analysis showed a genetic differentiation and categorized the sampling individuals into Beijing and Shandong genetic clusters, which indicated a tendency for isolated evolution in the Beijing population. Although the Beijing populations showed a decline in genetic diversity, it was still at a moderate level, which could maintain the survival of the population. Thus, there is no need to reintroduce new individuals from the Kunyushan source population.

scholarly journals Genotyping of Two Mediterranean Trout Populations in Central-Southern Italy for Conservation Purposes Using a Rainbow-Trout-Derived SNP Array

Animals ◽  
2021 ◽  
Vol 11 (6) ◽  
pp. 1803
Author(s):  
Valentino Palombo ◽  
Elena De Zio ◽  
Giovanna Salvatore ◽  
Stefano Esposito ◽  
Nicolaia Iaffaldano ◽  
...  
Keyword(s):  
Rainbow Trout ◽  
Genetic Structure ◽  
Fishery Management ◽  
Snp Array ◽  
Fine Scale ◽  
Principal Coordinates Analysis ◽  
Data Set ◽  
Management Actions ◽  
Principal Coordinates ◽  
Mediterranean Trout

Mediterranean trout is a freshwater fish of particular interest with economic significance for fishery management, aquaculture and conservation biology. Unfortunately, native trout populations’ abundance is significantly threatened by anthropogenic disturbance. The introduction of commercial hatchery strains for recreation activities has compromised the genetic integrity status of native populations. This work assessed the fine-scale genetic structure of Mediterranean trout in the two main rivers of Molise region (Italy) to support conservation actions. In total, 288 specimens were caught in 28 different sites (14 per basins) and genotyped using the Affymetrix 57 K rainbow-trout-derived SNP array. Population differentiation was analyzed using pairwise weighted FST and overall F-statistic estimated by locus-by-locus analysis of molecular variance. Furthermore, an SNP data set was processed through principal coordinates analysis, discriminant analysis of principal components and admixture Bayesian clustering analysis. Firstly, our results demonstrated that rainbow trout SNP array can be successfully used for Mediterranean trout genotyping. In fact, despite an overwhelming number of loci that resulted as monomorphic in our populations, it must be emphasized that the resulted number of polymorphic loci (i.e., ~900 SNPs) has been sufficient to reveal a fine-scale genetic structure in the investigated populations, which is useful in supporting conservation and management actions. In particular, our findings allowed us to select candidate sites for the collection of adults, needed for the production of genetically pure juvenile trout, and sites to carry out the eradication of alien trout and successive re-introduction of native trout.

Genetic structure of cultivated Zanthoxylum species investigated with SSR markers

2018 ◽  
Vol 14 (6) ◽  
Author(s):  
Yang Hu ◽  
Lu Tian ◽  
Jingwei Shi ◽  
Jieyun Tian ◽  
Lili Zhao ◽  
...  
Keyword(s):  
Genetic Structure ◽  
Ssr Markers

Genetic structure of Iranian olive cultivars and their relationship with Mediterranean's cultivars revealed by SSR markers

2014 ◽  
Vol 178 ◽  
pp. 175-183 ◽  
Author(s):  
Zahra Noormohammadi ◽  
Isabel Trujillo ◽  
Angjelina Belaj ◽  
Saeede Ataei ◽  
Mehdi Hosseini-Mazinan
Keyword(s):  
Genetic Structure ◽  
Ssr Markers ◽  
Olive Cultivars

scholarly journals Revisiting the Issue of the Molecular-genetic Structure of the Causative Agent of the Bovine Leukemia Virus in the Russian Federation

2016 ◽  
Vol 9 (42) ◽  
Author(s):  
Irina Mikhailovna Donnik ◽  
Maksim Valeryevich Petropavlovsky ◽  
Anna Sergeevna Krivonogova ◽  
Irina Alekseevna Shkuratova ◽  
Marzena Rola-Łuszczak ◽  
...  
Keyword(s):  
Genetic Structure ◽  
Russian Federation ◽  
Causative Agent ◽  
Bovine Leukemia Virus ◽  
Leukemia Virus ◽  
Molecular Genetic ◽  
The Russian Federation

scholarly journals Features of identification grape varieties and clones of Western European origin

2021 ◽  
pp. 125-133
Author(s):  
Г.Ю. Спотарь ◽  
С.А. Блинова ◽  
А.А. Шварцев ◽  
Я.И. Алексеев ◽  
С.М. Гориславец
Keyword(s):  
Ssr Markers ◽  
Gene Locus ◽  
Molecular Genetic ◽  
Pinot Noir ◽  
Chloroplast Microsatellite ◽  
European Origin ◽  
Vitis Riparia ◽  
Economically Valuable Traits ◽  
The Difference ◽  
The Cost

С помощью молекулярно-генетических и ампелографических методов проведена идентификация сортов винограда, относящихся к наиболее распространенным в мире техническим сортам западно-европейского происхождения. Генотипирование образцов проводилось с использованием 9-ядерных и 3-хлоропластных микросателлитных маркеров. На основании полученных профилей, по данным базы VIVC было установлено, что образец № 2 является сортом Каберне-Совиньон, образец № 4 - сортом Рисланер. Профиль образца № 1 совпадает с профилем сорта Мерло, за исключением разницы в двух парах нуклеотидов (п.н.) в одном аллеле локуса VVMD27, что можно объяснить редким случаем мутации в микросателлитной последовательности и не является достаточным основанием утверждать, что образец № 1 и Мерло являются разными сортами. Генетические профили образцов № 3 и № 6 соответствовали сортам сортогруппы Темпранильо, № 5 - сортам сортогруппы Рислинг рейнский, №7 - сортам сортогруппы Пино черный. Сорта в сортогруппах, полученные в результате соматических мутаций (связанных в основном с окраской ягод), имели одинаковый профиль. Принадлежность образцов к указанным сортам в сортогруппах была подтверждена ампелографическим методом. Использование для идентификации сортов в сортогруппах 6-9-ти SSR-маркеров в сочетании с ампелографическими методами позволяет получить достоверные результаты без удорожания работ. Однако дифференциация клонов и сортов, полученных в результате соматических мутаций, только SSR-маркерами потребует значительного увеличения их количества на 1-2 порядка либо использования высоковариабельных SSR-маркеров, таких как VRG ( Vitis riparia Götzhof). Таким образом, целесообразен более целенаправленный поиск полиморфизмов непосредственно в генах, отвечающих за определенные хозяйственно ценные признаки. В случае возникновения отличия в окраске ягод для дифференциации возможно использовать полиморфизм локуса гена VvMybA1, при изменении во вкусе и аромате ягод - в локусе гена VviDXS, при изменении лигнификации семян - в локусе гена VviAGL11, при повышении устойчивости к заболеваниям - в локусах соответствующих генов резистентности. The identification of grapes related to the most widespread wine varieties of West-European origin was carried out using molecular-genetic and ampelographic methods. Genotyping of samples was provided using 9- nuclear and 3-chloroplast microsatellite markers. Basing on the profiles obtained according to the VIVC database, it was established that Sample No. 2 is a ‘Cabernet-Sauvignon’ variety, and Sample No. 4 is a ‘Rieslaner’ variety. The profile of Sample No. 1 coincides with the ‘Merlot’ profile, except for the difference in 2 base pairs (bp) in one allele of the VVMD27 locus, which can be explained by a rare case of mutation in microsatellite sequence, and is not a sufficient reason to insist that Sample No. 1 and the ‘Merlot’ are different varieties. The genetic profiles of Samples No. 3 and No. 6 corresponded to the varieties of ‘Tempranillo’ group, No. 5 - to the varieties of ‘Rhein Riesling’ group, and No. 7 - to the varieties of ‘Pinot Noir’ group. The varieties of the groups, obtained as a result of somatic mutations (mainly associated with color of berries), had the same profile. The ampelographic method confirmed the origin of samples in the mentioned groups of varieties. Using of 6-9-SSR-markers in combination with ampelographic methods to identify the varieties of groups allows obtaining reliable results without increasing the cost of work. However, differentiation of clones and varieties in groups with only SSR-markers will require a significant increase in their number by 1-2 orders, or using of highly variable SSR-markers, such as VRG ( Vitis riparia Götzhof). Thus, a more targeted search for polymorphisms directly in genes responsible for certain economically valuable traits is advisable. In case of occurrence a difference in the color of berries, it is possible to use for differentiation the polymorphism of VvMybA1 gene locus, when flavor and aroma of berries change - to use the VviDXS gene locus, when seed lignification changes - the VviAGL11 gene locus, when disease resistance increases - the loci of the corresponding resistance genes.

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