scholarly journals PSIII-15 Genetic variability of Russian domestic reindeer populations (Rangifer Tarandus) by microsatellites

2020 ◽  
Vol 98 (Supplement_4) ◽  
pp. 237-238
Author(s):  
Veronika R Kharzinova ◽  
Arsen V Dotsev ◽  
Anastasiya D Solovieva ◽  
Valeriy I Fedorov ◽  
Larisa D Shimit ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Genetic Variability ◽  
Indigenous Peoples ◽  
Rangifer Tarandus ◽  
R Package ◽  
Komi Republic ◽  
Middle Level ◽  
Taiga Zone ◽  
Isolated Populations ◽  
Mountain Taiga

Abstract Domestic reindeer are bred across the Russian tundra from the Kola Peninsula to Chukotka and in the mountain-taiga zone. To understand the genetic diversity and population structure of domestic reindeer, 528 individuals were analyzed using 14 microsatellites. The sample included the Nenets breed of the Komi Republic (NEN_K, n = 42), Nenets (NEN_N, n = 148), Yamalo-Nenets (NEN_Y, n = 46), Archangelsk (NEN_A, n = 47), Murmansk (NEN_M, n = 43), Taymyr (NEN_T, n = 52) regions; the Even (EVN, n = 33), the Evenk (EVK, n = 31), the Chukotka (CHUY, n = 33) breeds of Yakutia; the Chukotka breed (CHU, n = 40) of Chukotka Region; the Tuvinian (TUV, n = 32) and Mongolian (MGL, n = 21) populations of the Tuva Republic and Mongolia. Calculations were done in R package “diveRsity,” software SplitsTree 4.14.6., Structure 2.3.4. Possibly due to permanent exchanges with animals among farms of the Nenets region and thus introduction of “foreign” alleles into the herds, a higher level of genetic diversity was found in NEN_N (HE=0.699; AR =6.086). All groups had a significant homozygote excess with the maximal value of FIS in geographically isolated populations MGL (0.326) and TUV (0.229). Neighbor-Net tree showed formation of three main clusters according to breed origin and breeding region: (1) the Nenets reindeer from different regions, (2) three breeds of Yakutia and (3) TUV and MGL populations. CHU branched individually with a distance from others. At K=11 of STRUCTURE, we observed a clear clustering of CHU, MGL, TUV, NEN_T. A middle level of admixture was detected in NEN_A, NEN_Y, NEN_M and NEN_N with NEN_K and CHUY with EVN/EVK, which formed one cluster. Here, we obtained more detailed information on genetic variability of Russian domestic reindeer, which would assist to fill current gaps in knowledge about this essential species for many indigenous peoples of the Far North. The study was funded by the RSF within Project no. 16-16-10068-P.

Genetic diversity and population structure of red spruce (Picea rubens)

1994 ◽  
Vol 72 (12) ◽  
pp. 1778-1786 ◽  
Author(s):  
Gary J. Hawley ◽  
Donald H. DeHayes
Keyword(s):  
Genetic Diversity ◽  
Genetic Variability ◽  
Genetic Distance ◽  
Genetic Drift ◽  
Black Spruce ◽  
Allozyme Variation ◽  
Picea Rubens ◽  
Red Spruce ◽  
Isolated Populations ◽  
Cool Temperate

Allozyme variation at 36 loci was estimated for 19 populations of red spruce (Picea rubens Sarg.) from throughout its natural range. Average estimates of polymorphic loci (95% criterion), effective number of alleles per locus, and observed and expected heterozygosities are 23%, 1.13, 7.47%, and 7.89%, respectively. Mean genetic distance among populations is 0.007, and 93% of the genetic diversity resides within red spruce populations. Comparisons with other species indicate that red spruce is less genetically variable than most other north-temperate woody plant species. Observed heterozygosity varied significantly among geographic regions, with northern cool-temperate populations having the highest mean observed heterozygosity, followed by central montane populations, then southern isolated populations with the lowest observed heterozygosity. Regional differences in genetic variability could be due to several factors, including migration from different glacial refugia, introgression of red spruce with more genetically variable black spruce in areas of sympatry in the north, and genetic drift followed by higher than expected levels of inbreeding in small isolated southern red spruce populations. Based on genetic distance, northern cool-temperate red spruce are more closely related to nonintrogressed red spruce than to nonintrogressed black spruce, suggesting that introgression is not a major factor contributing to greater genetic variability in the northern portion of the red spruce range. Relatively high genetic differentiation among populations, higher than expected levels of inbreeding, and evidence of reduced gene flow among populations suggest that low genetic variability evident in southern red spruce populations may be a result of genetic drift followed by inbreeding. Key words: Picea rubens, genetic diversity, isozymes, population genetic structure.

PROFILING OF GUAVA GENOTYPES GROWN IN VIDARBHA CONDITIONS ON THE BASIS OF MORPHOLOGICAL TRAITS

2017 ◽  
Vol 23 (1) ◽  
Author(s):  
R.A. PATIL ◽  
S.G. BHARAD ◽  
S.N. SAWANT
Keyword(s):  
Genetic Diversity ◽  
Genetic Variability ◽  
Morphological Traits ◽  
Considerable Extent ◽  
Fruit Traits ◽  
Breeding Programmes ◽  
Tree Leaf ◽  
Qualitative Characteristics ◽  
Intrapopulation Diversity

Assessment of genetic diversity in the available germplasm is the prerequisite for development of improved genotypes through planned breeding programmes. In the view of this Forty-eight genotypes of seedling origin guava along with 1 check (L-49/Sardar) collected and conserved at germplasm block, Main Garden, Department of Horticulture, Dr. P. D. A. University, Akola were evaluated for genetic variability and diversity based on the qualitative characteristics. The genotypes were evaluated for sixteen morphological traitsviz. tree, leaf, floral and fruit traits. Results Show considerable extent of variability amongst the 49 genotypes in each traits. A sizeable amount of intrapopulation diversity recorded can be used to identify diverse parents which can be utilized in hybridization programmes.

Peculiarities of the course of the postpartum period in domestic reindeer females, its morphophysiology and behavioral reactions in the North-East of Russia (Republic of Sakha)

2020 ◽  
pp. 99-105
Author(s):  
V. Fedorov ◽  
E. Sleptsov ◽  
K. Plemyashov
Keyword(s):  
Postpartum Period ◽  
Reproductive Function ◽  
Complex Problem ◽  
Climatic Conditions ◽  
Taiga Zone ◽  
Behavioral Reactions ◽  
North East ◽  
The North ◽  
The Republic ◽  
Mountain Taiga

A growth in the number of deer and an increase in their productivity are closely related to the solution of the complex problem of reproduction and rational use of deer females. Significant damage to reindeer husbandry is caused by the barrenness of northern domestic deer, the level of which has been quite high in recent years. So, in the Republic of Sakha, on 01.01.2020, the number of domesticated reindeer was 152,068, of which female deer and heifers — 71,818, offspring per 100 females — 59, business yield amounted to 52 fawns per 100 females. The causes of infertility are very diverse, as the natural and climatic conditions of the breeding zones have a significant influence on the reproductive function of reindeer. In Yakutia, the main population of northern domestic deer is bred in mountain taiga and tundra natural-climatic zones, so there are about 55 thousand deer in the mountain taiga zone and more than 65 thousand deer in the tundra zone. In this regard, the study of the peculiarities of the postpartum period course in domestic reindeer females, its morphophysiology, and behavioral reactions depending on the natural and climatic conditions of breeding is of great importance.

ANALYSIS OF GENETIC STRUCTURE OF DOGS OF FRENCH BULLDOG BREED USING MICROSATELLITE DNA MARKERS

2018 ◽  
Vol 51 ◽  
pp. 185-192
Author(s):  
S. Kruhlyk ◽  
V. Dzitsiuk ◽  
V. Spyrydonov
Keyword(s):  
Genetic Diversity ◽  
Genetic Variability ◽  
Dna Markers ◽  
Microsatellite Dna ◽  
High Variability ◽  
Molecular Diagnostic ◽  
Allelic Variants ◽  
Microsatellite Dna Markers ◽  
Gene Complexes ◽  
French Bulldog

Genetic variability of domestic dogs is a source for effective process of breed formation and creating unique gene complexes. In the world, for preservation of genetic resources of dogs, there are dog training associations which have great confidence: American Club Dog Breeders (AKC), the British Kennel Club (KC) and the Federation Cynologique Internationale (FCI), aimed at protecting breeding dogs, standards creation, registration of a breed, and issuance of accurate pedigrees. Evaluation of the genetic diversity of dog breeds is able to significantly complement and improve their breeding programs. Since breeds of dog differ in morphological and economic characteristics, the problem of finding of the breed features in the genome of animals is becoming more topical. From this point of view, French Bulldog is an interesting breed of dog (FRANC.BULLDOGGE, FCI standard number 101) which belongs by the classification of breeds, adopted in FCI, to the group IX – a dog-companion for health and fun, but to a subgroup of fighting dogs of a small format. French Bulldog breed has been researched slightly not only in Ukraine and also abroad, as the main work of all dog association is focused on solving theoretical and practical issues of breeding, keeping, feeding, veterinary protection and others. The study was conducted at Research Department of Molecular Diagnostic Tests of Ukrainian Laboratory of Quality and Safety of Agricultural Products. 33 animals of French Bulldog breed, admitted to use in dog breeding of Ukrainian Kennel Union (UKU), were involved for the genetic analysis using DNA markers. The materials of the research were buccal epithelial cells, selected before the morning feeding of animals by scraping mucous membrane of oral cavity with disposable, dry, sterile cotton swab. Genomic DNA was extracted using KIT-set of reagents for DNA isolation according to the manufacturer's instructions. PEZ1, PEZ3, PEZ6, PEZ8, FHC 2010, FHC 2054 markers, recommended by International Society for Animal Genetics (ISAG), ACN, КC and FCI, were used for research. As a result of research 25 alleles for all the loci were detected in the experimental sample of dogs. The average number of alleles at the locus Na, obtained by direct counting, was 4.16. The most polymorphic loci for this breed were PEZ6 and PEZ3 with 8 and 6 allelic variants. Monomorphic loci were PEZ8 and FHC 2054 which had 4 and 3 alleles and the lowest level of polymorphism was observed for PEZ 1 and FHC 2010 loci in which only 2 alleles were identified. On analyzing the molecular genetic characteristics of dogs of French Bulldog breed, we found a high variability of genotype on rare alleles, which included alleles: M, C, D, E, J, K, L, O, N and representing 60% of the total number of the identified alleles. C, D, E alleles for PEZ3 locus and O allele at PEZ6 locus are unique to the sampling of dogs because they are not repeated in other loci. Typical alleles: N, F, R, I, P, K, M are 40% of the total. But F, R alleles for PEZ3 locus and P allele for locus PEZ6 are not repeated either in standard allelic variants or in rare one, indicating a high information content of these alleles and loci to be used for further monitoring of allele pool, genetic certification and identification of dogs. Microsatellite DNA loci were analyzed as a result of investigations of French Bulldogs and the most informative: PEZ3, PEZ6 and PEZ8 were found, which have high efficiency in individual and breed certification of dogs due to high variability. These data allow further monitoring of the state of genetic diversity of the breed and the development of measures for improvement of breeding to preserve the structure of breeding material. The study of individual and population genetic variability is advisable to continue for breeding of French Bulldogs "in purity" and preserving valuable gene complexes. The results are the basis for further monitoring of the proposed informative panels of microsatellite DNA markers for genotyping dog of French Bulldog breed and their complex evaluation.

scholarly journals Genetic Diversity of Landraces and Improved Varieties of Rice (Oryza sativa L.) in Taiwan

Rice ◽  
2020 ◽  
Vol 13 (1) ◽  
Author(s):  
Ai-ling Hour ◽  
Wei-hsun Hsieh ◽  
Su-huang Chang ◽  
Yong-pei Wu ◽  
Han-shiuan Chin ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Genetic Variation ◽  
Indigenous Peoples ◽  
Oryza Sativa L ◽  
Crop Improvement ◽  
Genetic Erosion ◽  
Germplasm Conservation ◽  
Gene Pools ◽  
Improved Varieties ◽  
Breeding Goals

Abstract Background Rice, the most important crop in Asia, has been cultivated in Taiwan for more than 5000 years. The landraces preserved by indigenous peoples and brought by immigrants from China hundreds of years ago exhibit large variation in morphology, implying that they comprise rich genetic resources. Breeding goals according to the preferences of farmers, consumers and government policies also alter gene pools and genetic diversity of improved varieties. To unveil how genetic diversity is affected by natural, farmers’, and breeders’ selections is crucial for germplasm conservation and crop improvement. Results A diversity panel of 148 rice accessions, including 47 cultivars and 59 landraces from Taiwan and 42 accessions from other countries, were genotyped by using 75 molecular markers that revealed an average of 12.7 alleles per locus with mean polymorphism information content of 0.72. These accessions could be grouped into five subpopulations corresponding to wild rice, japonica landraces, indica landraces, indica cultivars, and japonica cultivars. The genetic diversity within subpopulations was: wild rices > landraces > cultivars; and indica rice > japonica rice. Despite having less variation among cultivars, japonica landraces had greater genetic variation than indica landraces because the majority of Taiwanese japonica landraces preserved by indigenous peoples were classified as tropical japonica. Two major clusters of indica landraces were formed by phylogenetic analysis, in accordance with immigration from two origins. Genetic erosion had occurred in later japonica varieties due to a narrow selection of germplasm being incorporated into breeding programs for premium grain quality. Genetic differentiation between early and late cultivars was significant in japonica (FST = 0.3751) but not in indica (FST = 0.0045), indicating effects of different breeding goals on modern germplasm. Indigenous landraces with unique intermediate and admixed genetic backgrounds were untapped, representing valuable resources for rice breeding. Conclusions The genetic diversity of improved rice varieties has been substantially shaped by breeding goals, leading to differentiation between indica and japonica cultivars. Taiwanese landraces with different origins possess various and unique genetic backgrounds. Taiwanese rice germplasm provides diverse genetic variation for association mapping to unveil useful genes and is a precious genetic reservoir for rice improvement.

Assessment of genetic variability amongst cultivated populations of Khasi mandarin (Citrus reticulata Blanco) detected by ISSR

2021 ◽  
pp. 1-11
Author(s):  
Karishma Kashyap ◽  
Rasika M. Bhagwat ◽  
Sofia Banu
Keyword(s):  
Genetic Diversity ◽  
Genetic Variability ◽  
Inter Simple Sequence Repeat ◽  
Northeast India ◽  
Issr Markers ◽  
Citrus Reticulata ◽  
Brahmaputra Valley ◽  
Indian Food ◽  
Cultivated Populations ◽  
High Level

Abstract Khasi mandarin (Citrus reticulata Blanco) is a commercial mandarin variety grown in northeast India and one of the 175 Indian food items included in the global first food atlas. The cultivated plantations of Khasi mandarin grown prominently in the lower Brahmaputra valley of Assam, northeast India, have been genetically eroded. The lack in the efforts for conservation of genetic variability in this mandarin variety prompted diversity analysis of Khasi mandarin germplasm across the region. Thus, the study aimed to investigate genetic diversity and partitioning of the genetic variations within and among 92 populations of Khasi mandarin collected from 10 cultivated sites in Kamrup and Kamrup (M) districts of Assam, India, using Inter-Simple Sequence Repeat (ISSR) markers. The amplification of genomic DNA with 17 ISSR primers yielded 216 scorable DNA amplicons of which 177 (81.94%) were polymorphic. The average polymorphism information content was 0.39 per primer. The total genetic diversity (HT = 0.28 ± 0.03) was close to the diversity within the population (HS = 0.20 ± 0.01). A high mean coefficient of gene differentiation (GST = 0.29) reflected a high level of gene flow (Nm = 1.22), indicating high genetic differentiation among the populations. Analysis of Molecular Variance (AMOVA) showed 78% of intra-population differentiation, 21% among the population and 1% among the districts. The obtained results indicate the existence of a high level of genetic diversity in the cultivated Khasi mandarin populations, indicating the need for preservation of each existing population to revive the dying out orchards in northeast India.

scholarly journals Genetic Investigation of Four Beluga Sturgeon (Huso huso, L.) Broodstocks for its Reintroduction in the Po River Basin

Environments ◽  
2021 ◽  
Vol 8 (4) ◽  
pp. 25
Author(s):  
Caterina M. Antognazza ◽  
Isabella Vanetti ◽  
Vanessa De Santis ◽  
Adriano Bellani ◽  
Monica Di Francesco ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Mitochondrial Dna ◽  
Genetic Variability ◽  
River Basin ◽  
Captive Breeding ◽  
Conservation Strategies ◽  
Huso Huso ◽  
Po River ◽  
Beluga Sturgeon ◽  
Po River Basin

The reintroduction of the extinct beluga sturgeon (Huso huso L.), an anadromous species with economic and traditional relevance, is a priority in next conservation strategies in Northern Italy. The EU-LIFE NATURA project aims to reintroduce the beluga sturgeon in the Po River basin through a captive breeding program. Critical requirements for the success of the program are river connectivity and knowledge of genetic diversity of the selected broodstocks to ensure self-sustainability of reintroduced populations. Here, the four broodstocks used for the reintroduction of beluga sturgeon have been genetically screened, genotyping 13 loci and sequencing mitochondrial DNA cytochrome b (Cyt b) gene and the entire mitochondrial DNA control region (D-Loop). The four broodstocks showed a medium-high level of nuclear genetic variability and the presence of two sub-populations, evidencing a total level of inbreeding coefficients able to sustain the good potential as future breeders. Mitochondrial analyses showed a genetic variability comparable to wild populations, further strengthening the positive potential of the investigated broodstock. Therefore, this study, showed how the degree of genetic diversity found within the four broodstocks used for H. huso reintroduction in the Po River basin could be suitable to ensure the success of the program, avoiding the inbreeding depression associated with founder effect and captive breeding.

scholarly journals Whole genome sequencing reveals high differentiation, low levels of genetic diversity and short runs of homozygosity among Swedish wels catfish

Heredity ◽  
2021 ◽  
Author(s):  
Axel Jensen ◽  
Mette Lillie ◽  
Kristofer Bergström ◽  
Per Larsson ◽  
Jacob Höglund
Keyword(s):  
Genetic Diversity ◽  
Whole Genome Sequencing ◽  
Genome Sequencing ◽  
Whole Genome Sequencing Data ◽  
Peripheral Populations ◽  
Whole Genome ◽  
Runs Of Homozygosity ◽  
Sequencing Data ◽  
Isolated Populations ◽  
Native Populations

AbstractThe use of genetic markers in the context of conservation is largely being outcompeted by whole-genome data. Comparative studies between the two are sparse, and the knowledge about potential effects of this methodology shift is limited. Here, we used whole-genome sequencing data to assess the genetic status of peripheral populations of the wels catfish (Silurus glanis), and discuss the results in light of a recent microsatellite study of the same populations. The Swedish populations of the wels catfish have suffered from severe declines during the last centuries and persists in only a few isolated water systems. Fragmented populations generally are at greater risk of extinction, for example due to loss of genetic diversity, and may thus require conservation actions. We sequenced individuals from the three remaining native populations (Båven, Emån, and Möckeln) and one reintroduced population of admixed origin (Helge å), and found that genetic diversity was highest in Emån but low overall, with strong differentiation among the populations. No signature of recent inbreeding was found, but a considerable number of short runs of homozygosity were present in all populations, likely linked to historically small population sizes and bottleneck events. Genetic substructure within any of the native populations was at best weak. Individuals from the admixed population Helge å shared most genetic ancestry with the Båven population (72%). Our results are largely in agreement with the microsatellite study, and stresses the need to protect these isolated populations at the northern edge of the distribution of the species.

scholarly journals Genetic Diversity of Rice stripe necrosis virus and New Insights into Evolution of the Genus Benyvirus

Viruses ◽  
2021 ◽  
Vol 13 (5) ◽  
pp. 737
Author(s):  
Issiaka Bagayoko ◽  
Marcos Giovanni Celli ◽  
Gustavo Romay ◽  
Nils Poulicard ◽  
Agnès Pinel-Galzi ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Genetic Variability ◽  
Sierra Leone ◽  
Evolutionary History ◽  
Molecular Diversity ◽  
Genomic Data ◽  
Gene Recombination ◽  
Necrosis Virus ◽  
History Of ◽  
Complex Evolutionary History

The rice stripe necrosis virus (RSNV) has been reported to infect rice in several countries in Africa and South America, but limited genomic data are currently publicly available. Here, eleven RSNV genomes were entirely sequenced, including the first corpus of RSNV genomes of African isolates. The genetic variability was differently distributed along the two genomic segments. The segment RNA1, within which clusters of polymorphisms were identified, showed a higher nucleotidic variability than did the beet necrotic yellow vein virus (BNYVV) RNA1 segment. The diversity patterns of both viruses were similar in the RNA2 segment, except for an in-frame insertion of 243 nucleotides located in the RSNV tgbp1 gene. Recombination events were detected into RNA1 and RNA2 segments, in particular in the two most divergent RSNV isolates from Colombia and Sierra Leone. In contrast to BNYVV, the RSNV molecular diversity had a geographical structure with two main RSNV lineages distributed in America and in Africa. Our data on the genetic diversity of RSNV revealed unexpected differences with BNYVV suggesting a complex evolutionary history of the genus Benyvirus.

scholarly journals Small population size and low genomic diversity have no effect on fitness in experimental translocations of a wild fish

2019 ◽  
Vol 286 (1916) ◽  
pp. 20191989 ◽  
Author(s):  
M. C. Yates ◽  
E. Bowles ◽  
D. J. Fraser
Keyword(s):  
Genetic Diversity ◽  
Body Size ◽  
Population Size ◽  
Brook Trout ◽  
Habitat Degradation ◽  
Species Conservation ◽  
Empirical Work ◽  
Genomic Diversity ◽  
Effective Population ◽  
Isolated Populations

Little empirical work in nature has quantified how wild populations with varying effective population sizes and genetic diversity perform when exposed to a gradient of ecologically important environmental conditions. To achieve this, juvenile brook trout from 12 isolated populations or closed metapopulations that differ substantially in population size and genetic diversity were transplanted to previously fishless ponds spanning a wide gradient of ecologically important variables. We evaluated the effect of genome-wide variation, effective population size ( N e ), pond habitat, and initial body size on two fitness correlates (survival and growth). Genetic variables had no effect on either fitness correlate, which was determined primarily by habitat (pond temperature, depth, and pH) and initial body size. These results suggest that some vertebrate populations with low genomic diversity, low N e , and long-term isolation can represent important sources of variation and are capable of maintaining fitness in, and ultimately persisting and adapting to, changing environments. Our results also reinforce the paramount importance of improving available habitat and slowing habitat degradation for species conservation.

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