scholarly journals Diversity assessment among native Middle Egypt rabbit populations in North Upper-Egypt province by microsatellite polymorphism

2017 ◽  
Vol 25 (1) ◽  
pp. 9 ◽  
Author(s):  
A.M. Emam ◽  
A.A.A. Azoz ◽  
G.M.K. Mehaisen ◽  
N. Ferrand ◽  
N.A. Ahmed
Keyword(s):  
Genetic Diversity ◽  
Developed Countries ◽  
Microsatellite Polymorphism ◽  
Factorial Correspondence Analysis ◽  
Statistical Parameters ◽  
High Genetic Diversity ◽  
Upper Egypt ◽  
Mean Values ◽  
Diversity Assessment ◽  
The Mean

<p>Safeguarding biodiversity is an important goal for animal production in developed countries. This study investigated genetic diversity among native Middle-Egypt rabbit (NMER) populations in North Upper-Egypt province by using microsatellite polymorphism. Nineteen microsatellite loci were used in the study and an area of 231 km was surveyed, as native rabbits covered 14 points belonging to four Northern Upper Egypt governorates (South Giza, Fayoum, Beni Suef and Minya). Standard statistical parameters of genetic variability within and between populations confirmed that the highest genetic diversity was found towards the south. Among NMER populations, the mean number of alleles per locus was lowest in South Giza (5.32), while it was highest in Minya (6.00). This study found that NMER featured a high number of private alleles ranging between 7 and 11 (mean value was 10.5). Results also showed a high genetic diversity in NMER populations and that heterozygosity ranged between 0.384 and 0.445, strongly indicating extensive genetic variation in the NMER populations. The mean values of observed and expected heterozygosity were 0.405 and 0.612, respectively. Factorial correspondence analysis and neighbour joining trees (NJ) showed 2 main NMER rabbit groups: the Northern group (South Giza and Fayoum) and the Southern group (Beni Suef and Minya). All populations showed a high percentage of assignment in this study (0.913 to 0.946). The structure analysis showed that each population existed in separate clusters. This research provides an overview of genetic diversity of NMER populations in the Northern Upper Egypt province for the first time. In conclusion, results of this study could be used to designate priorities for conservation of NMER populations.</p>

scholarly journals Establishment and confirmation of heterotic groups and genetic diversity assessment of maize inbred lines using microsatellite data

Genetika ◽  
2016 ◽  
Vol 48 (3) ◽  
pp. 1067-1076
Author(s):  
Ana Nikolic ◽  
Jelena Bogosavljevic ◽  
Zoran Camdzija ◽  
Milomir Filipovic ◽  
Dragan Kovacevic ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Gene Diversity ◽  
Field Testing ◽  
Pedigree Data ◽  
High Genetic Diversity ◽  
Heterotic Groups ◽  
Mean Values ◽  
Average Value ◽  
Diversity Assessment ◽  
Maize Inbreds

Twenty-seven maize inbreds (12 commercial and 15 developing lines) from Maize Research Institute breeding program were subjected to microsatelite analysis. The aim was genetic diversity determination, establishing relationships among tested lines and assigning them to heterotic groups according to molecular marker data. Number of alelles detected was 97, with an average of 3.23. Major allele frequency was in a range from 0.33 to 0.82 (average 0.55). The highest value for observed heterozygosity was 10% for several developing lines. Mean values for gene diversity and PIC were 0.56 and 0.48, respectively. Frequency-based distances were calculated using Roger?s coefficient and average value of 0.57 indicates high genetic diversity in analyzed maize inbreds. Distance matrices were subjected to cluster analysis and PCA. Multivariate analysis methods showed considerable concurrency with pedigree data. Results of analysis with 30 microsatellite markers could be useful for defining/redefining heterotic groups but should be complemented with field testing data.

Genetic Diversity among Calamus brandisii Becc. (Arecaceae) Populations in Kerala Part of Western Ghats

2021 ◽  
Vol 43 (1) ◽  
pp. 38-42
Author(s):  
Kavungal Priya ◽  
◽  
Indira . ◽  
Vadakkethil Balakrishnan Sreekumar ◽  
Renuka . ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Western Ghats ◽  
Rapd Markers ◽  
Gene Diversity ◽  
Issr Markers ◽  
High Genetic Diversity ◽  
Western Ghats Of India ◽  
The Mean ◽  
Two Parameters ◽  
Two Populations

Calamus brandisii Becc. is one of the endemic slender rattans found in the Western Ghats of India. The genetic diversity of two main populations available in Kerala was investigated using 20 RAPD and 9 ISSR markers. Two parameters viz., gene diversity and genetic diversity within and among populations were analyzed. ISSR analysis showed quite high genetic diversity in Pandimotta compared to Bonacaud population whereas in RAPD markers both these populations were moderately diverse. The percentage of total genetic differentiation (Gst) among two populations is relatively higher than the mean Gst value indicating high genetic diversity within the populations. The genetic distance between these two populations was 0.1739 with ISSR markers and 0.1971 with RAPD markers. Because of its high genetic diversity, Pandimotta population can be treated as an important population of gene diversity with potentially useful genes. This may be included in the high priority reservoir for genetic conservation also.

scholarly journals Genetic diversity assessment in winter oilseed rape (Brassica napus L.) collection using AFLP, ISSR and SSR markers

2014 ◽  
Vol 50 (No. 3) ◽  
pp. 216-225 ◽  
Author(s):  
L. Havlíčková ◽  
E. Jozová ◽  
A. Rychlá ◽  
M. Klíma ◽  
V. Kučera ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Brassica Napus ◽  
Oilseed Rape ◽  
Issr Markers ◽  
Appropriate Technology ◽  
Winter Oilseed Rape ◽  
Brassica Napus L ◽  
High Genetic Diversity ◽  
Diversity Assessment ◽  
Breeding Programmes

The genetic diversity of 94 accessions of winter oilseed rape (Brassica napus L.), representing past and contemporary material utilized in the Czech breeding programmes, was determined using microsatellites (SSRs), ISSRs and AFLPs. All three kinds of markers differed in the range of observed polymorphism and differentiated clearly each accession. Altogether 89 SSR, 1003 AFLP and 53 ISSR markers were evaluated. Their average rates of polymorphic bands were 100%, 53.9% and 90.6%, respectively, indicating high genetic diversity among the accessions. The greatest genetic distance was found by ISSRs (62.3%) whereas significantly lower distances of 49.4% in SSRs and 35.5% in AFLPs were observed. The genetic similarity matrix clearly distinguished all accessions. A set of the most distinct varieties was established. The analysis of the genetic pattern of the accessions indicated two groups comprising most of the modern Czech breeding materials, revealing a distinct shift in breeding. Surprisingly, molecular analyses did not support&nbsp; breeders&rsquo; views about a narrow genetic base of the Czech breeding materials. The choice of appropriate technology for different aspects of germplasm evaluation is also discussed.

scholarly journals Assessment of Genetic Diversity among Indian and Exotic Genotypes of Brassica juncea using Phenotypic Evaluation

2020 ◽  
Author(s):  
Vivek K. Singh ◽  
Ram Avtar ◽  
Mahavir . ◽  
Nisha Kumari ◽  
Manjeet . ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Brassica Juncea ◽  
Crop Improvement ◽  
Morphological Characters ◽  
Germplasm Management ◽  
Dissimilarity Matrix ◽  
High Genetic Diversity ◽  
Early Maturity ◽  
Mean Values ◽  
Dissimilarity Coefficients

Background: Rapeseed-mustard is one of the most important oilseed crops in India, however, its genetic diversity is barely known. A better understanding on this topic is essential for the proper utilization of genotypes in crop improvement. Methods: Present study was carried out to determine the genetic diversity among 95 diverse genotypes of Brassica juncea (L.) in paired rows of 4 m length with a spacing of 30 x 10-15 cm (row × plant). Data were recorded on 11 different agro-morphological characters. Result: All the 95 genotypes were grouped into five distinct clusters based on Manhattan dissimilarity coefficients. Amongst the five clusters, cluster V and IV had the maximum number of genotypes (35 and 23 genotypes respectively) and cluster II with least number of genotypes (three). The Manhattan dissimilarity coefficients ranged from 0.741 to 8.299. Based on the genetic dissimilarity matrix, the maximum dissimilarity (8.299) was observed between the genotypes, DRMRIJ-15-133 and M 62. Cluster III recorded for medium plant height with medium early maturity and cluster I, had maximum mean values for most of the agro-morphological traits. The present work indicated the presence of high genetic diversity among genotypes, which can be used in future breeding programmes for developing mustard cultivars and germplasm management purposes.

scholarly journals Genetic diversity assessment of the Mycobacterium tuberculosis isolates of patients with tuberculosis in Karaj, Iran

2021 ◽  
Author(s):  
Morassa Sadat Farnad ◽  
Hassan Momtaz ◽  
Nader Mosavari ◽  
Yahya Khosravi ◽  
Keyvan Tadayon
Keyword(s):  
Genetic Diversity ◽  
Mycobacterium Tuberculosis ◽  
Rflp Analysis ◽  
Enzymatic Digestion ◽  
High Genetic Diversity ◽  
Genetic Types ◽  
Copy Numbers ◽  
Diversity Assessment ◽  
Study Results ◽  
Sources Of Infection

Abstract Background Tuberculosis (TB) is an old issue that is presently measured as a significant challenge. Molecular characterization of Mycobacterium tuberculosis has contributed to TB control. The present survey was aimed to assess the genetic diversity of M. tuberculosis strains isolated from patients with TB in Karaj, Iran. Methods Seventeen M. tuberculosis isolates from 2012 to 2013 were collected and subjected to an IS6110 restriction fragment length polymorphism (IS6110-RFLP) analysis. Demographically, 6 females and 14 males who had Iranian citizenship were included in this study. Results Sixteen different genetic types were obtained after enzymatic digestion and RFL analysis. Copy numbers of IS6110 in each isolate ranged from 0 to 12. The majority of isolates (66%) harbored copy numbers between 6 and 12. Each isolates harbored 6.9 copies of the IS6110 marker. Nine isolates harbored 10 to 12 copies of the IS6110 marker, 5 isolates harbored 6 to 10 copies, and 2 others harbored copies less than 6. No copy of IS6110 was found among the 4 isolates. No relationship was found between gender and copy numbers. Conclusions The high genetic diversity found amongst the M. tuberculosis isolates maybe show different sources of infection and the importance of reemerging of the TB. However, further surveys should perform to assess other molecular epidemiologic aspects of M. tuberculosis in Iran.

scholarly journals Intra-line and inter-line genetic diversity in sire lines of the Old Kladruber horse based on microsatellite analysis of DNA

2011 ◽  
Vol 56 (No. 4) ◽  
pp. 163-175 ◽  
Author(s):  
L. Vostrý ◽  
O. Kracíková ◽  
B. Hofmanová ◽  
V. Czerneková ◽  
T. Kott ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Dna Analysis ◽  
Genetic Difference ◽  
Principal Component ◽  
Genetic Distances ◽  
Mean Value ◽  
Pedigree Information ◽  
Mean Values ◽  
The Mean ◽  
Coefficient Of Relationship

The Old Kladruber horse is the oldest original Czech horse breed &ndash; gene resource, with pedigree records spanning three centuries. Because the population is closed, there is a concern about the loss of genetic variation. The genetic diversity within and amongst sire lines was evaluated using microsatellite markers and based on pedigree information. The DNA analysis, covering 16 microsatellite loci, revealed that the genetic diversity (observed heterozygosity = 0.637, genetic diversity = 0.678 and the mean number of alleles = 8.25) for the Old Kladruber horse is consistent with other populations of horses. Inter-line genetic difference in sire lines reached the mean value (the F<sub>ST</sub> values ranged from 0.020 to 0.017). Differences amongst the sire lines were identified using genetic distances and principal component analysis. One gene cluster comprised black variation sire lines, while the second cluster included the sire lines of the grey variation. In the subjects monitored, the average inbreeding coefficient of 0.076 was estimated on the basis of pedigree information. The highest mean values of the coefficient of relationship were estimated within the colour variations. When comparing the genetic distance and the average coefficient of relationship, differences were found out. These results are useful for the development of breeding strategies which consider classical horse breeding as well as recent achievements of population and conservation genetics.

Exploring the Genetic Diversity of Some Squash (Cucurbita Maxima L.) Germplasm Using Morphological and Molecular Markers in Erzincan

2021 ◽  
Author(s):  
HALIL IBRAHIM OZTURK ◽  
Veysel Dönderalp ◽  
Hüseyin Bulut ◽  
Recep Korkut ◽  
Arash HOSSEINPOUR ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Genetic Resources ◽  
Ssr Markers ◽  
Molecular Level ◽  
Polymorphic Information Content ◽  
Plant Genetic Resources ◽  
Molecular Characteristics ◽  
Cucurbita Maxima ◽  
High Genetic Diversity ◽  
The Mean

Abstract Background Plant genetic resources constitute the most valuable assets of countries. It is of great importance to determine the genetic variation among these resources and to use the data in breeding studies. Cucurbita maxima species in the cucurbitaceae family have high genetic diversity, but its genetic diversity at the molecular level is inadequately characterized. Methods and Results To determine the genetic diversity among genotypes of Cucurbita maxima species of squash, which is widely grown in Erzincan, 14 different squash genotypes collected were examined based on the morphological parameters and molecular characteristics. SSR (Simple sequence repeat) markers were used to determine genetic diversity at the molecular level. The analysis of morphological characterization within genotypes showed a wide variability in morphological traits of plant, flower, fruit, and leaf. Seven SSR markers yielded a total of 23 polymorphic bands, the number of alleles per marker ranged from 2 to 5, and the mean number of alleles was 3.286. Polymorphic information content (PIC) ranged from 0.00 (GMT-M61) to 0.202 (GMT-P25), and the mean PIC value per marker was 0.130. Cluster analysis using Nei's genetic distance determined that 14 genotypes were divided into 3 major groups. Conclusions The SSR markers used were effective in distinguish among similar winter squash or pumpkin and therefore can be beneficial for consideration of Cucurbita maxima species diversity, screening of genetic resources and their selection.

scholarly journals Partial recN gene sequencing: a new tool for identification and phylogeny within the genus Streptococcus

2010 ◽  
Vol 60 (9) ◽  
pp. 2140-2148 ◽  
Author(s):  
Olga O. Glazunova ◽  
Didier Raoult ◽  
Véronique Roux
Keyword(s):  
Genetic Diversity ◽  
Sequence Comparison ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Sequence Comparisons ◽  
High Genetic Diversity ◽  
Repair Protein ◽  
The Mean ◽  
The 16S Rrna Gene

Partial sequences of the recN gene (1249 bp), which encodes a recombination and repair protein, were analysed to determine the phylogenetic relationship and identification of streptococci. The partial sequences presented interspecies nucleotide similarity of 56.4–98.2 % and intersubspecies similarity of 89.8–98 %. The mean DNA sequence similarity of recN gene sequences (66.6 %) was found to be lower than those of the 16S rRNA gene (94.1 %), rpoB (84.6 %), sodA (74.8 %), groEL (78.1 %) and gyrB (73.2 %). Phylogenetically derived trees revealed six statistically supported groups: Streptococcus salivarius, S. equinus, S. hyovaginalis/S. pluranimalium/S. thoraltensis, S. pyogenes, S. mutans and S. suis. The ‘mitis’ group was not supported by a significant bootstrap value, but three statistically supported subgroups were noted: Streptococcus sanguinis/S. cristatus/S. sinensis, S. anginosus/S. intermedius/S. constellatus (the ‘anginosus’ subgroup) and S. mitis/S. infantis/S. peroris/S. oralis/S. oligofermentans/S. pneumoniae/S. pseudopneumoniae. The partial recN gene sequence comparison highlighted a high percentage of divergence between Streptococcus dysgalactiae subsp. dysgalactiae and S. dysgalactiae subsp. equisimilis. This observation is confirmed by other gene sequence comparisons (groEL, gyrB, rpoB and sodA). A high percentage of similarity was found between S. intermedius and S. constellatus after sequence comparison of the recN gene. To study the genetic diversity among the ‘anginosus’ subgroup, recN, groEL, sodA, gyrB and rpoB sequences were determined for 36 clinical isolates. The results that were obtained confirmed the high genetic diversity within this group of streptococci.

scholarly journals Diversity Analysis and Genetic Relationships among Local Brazilian Goat Breeds Using SSR Markers

Animals ◽  
2020 ◽  
Vol 10 (10) ◽  
pp. 1842
Author(s):  
Marcos Paulo Carrera Menezes ◽  
Amparo Martinez Martinez ◽  
Edgard Cavalcanti Pimenta Filho ◽  
Jose Luis Vega-Pla ◽  
Juan Vicente Delgado ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Genetic Relationships ◽  
Fixation Index ◽  
High Genetic Diversity ◽  
Allele Number ◽  
Hair Samples ◽  
The Mean ◽  
Polymerase Chain ◽  
Single Sequence ◽  
Brazilian Populations

The genetic diversity of six Brazilian native goats was reported using molecular markers. Hair samples of 332 animals were collected from different goat breeds (Moxotó, Canindé, Serrana Azul, Marota, Repartida, and Graúna) from five states of Northeast Brazil (Paraíba, Pernambuco, Rio Grande do Norte, Bahia, and Piauí). A panel of 27 microsatellites or single sequence repeats (SSRs) were selected and amplified using a polymerase chain reaction (PCR) technique. All populations showed an average allele number of over six. The mean observed heterozygosity for Brazilian breeds was superior to 0.50. These results demonstrated the high genetic diversity in the studied populations with values ranging from 0.53 (Serrana Azul) to 0.62 (Repartida). The expected average heterozygosity followed the same trend ranging from 0.58 (Serrana Azul) to 0.65 (Repartida), and the values obtained are very similar for all six breeds. The fixation index (Fis) had values under 10% except for the Moxotó breed (13%). The mean expected heterozygosity of all Brazilian populations was over 0.50. Results indicated a within-breed genetic variability in the Brazilian breeds based on the average number of alleles and the average observed heterozygosity. The interbreed genetic diversity values showed proper genetic differentiation among local Brazilian goat breeds.

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