scholarly journals Differentiation and genetic structure of Sclerophoma pythiophila (Corda) v. hoehn. strains associated with various damage and disease symptoms on Pinus sylvestris L.

2012 ◽  
Vol 62 (1) ◽  
pp. 57-65 ◽  
Author(s):  
Wojciech Kraj ◽  
Tadeusz Kowalski ◽  
Marcin Zarek
Keyword(s):  
Genetic Variability ◽  
Pinus Sylvestris ◽  
Genetic Similarity ◽  
Distance Matrix ◽  
Mean Value ◽  
Shoot Tips ◽  
Disease Symptoms ◽  
Genetic Distance Matrix ◽  
Dead Shoot ◽  
High Level

Eighty-three strains of <i>Sclerophoma pythiophila</i> were isolated in the period between 1996 and 2006 from needles and shoots of <i>Pinus sylvestris</i> displaying various types of disease symptoms or damages caused by <i>Contarinia baeri</i> or <i>Thecodiplosis brachyntera</i>. On the basis of fifty-six RAMS markers, very high genetic variability of examined strains was ascertained (mean value of Jaccard's coefficient 0.58). The highest genetic similarity was shown by strains related with needles damaged by <i>Contarinia baeri</i> (0.65), whereas the lowest by those derived from dead shoot tips (0.53). No monomorphic markers were found for individual groups of strains, yet on the basis of Nei's genetic distance matrix, it was possible to determine a group of closely related fungus populations which was connected with the damaging of the needles by <i>C. baeri</i> or <i>T. brachyntera</i> (Nei's coefficient ranging from 0.035 to 0.059) and populations related with the occurrence of necrosis on shoots or decay of their tips (Nei's coefficient - 0.066). The PCA confirmed genetic similarity of strains related with damaging of the needles by insects and strains isolated from local necroses on shoots and withered shoot tips. A high level of genetic variability between populations was shown by AMOVA analysis. A high level (14.9%) and statistically significant (P=0.001) share of between-population genetic variability were ascertained.

scholarly journals Analysis of Genetic Diversity in three Kazakh Sheep using 12 Microsatellites

2018 ◽  
Vol 7 (4.38) ◽  
pp. 122
Author(s):  
Kairat Dossybayev ◽  
Aizhan Mussayeva ◽  
Bakytzhan Bekmanov ◽  
Beibit Kulataev
Keyword(s):  
Genetic Diversity ◽  
Genetic Variability ◽  
Mean Value ◽  
Fixation Index ◽  
Merino Sheep ◽  
Str Markers ◽  
Sheep Breeds ◽  
Str Loci ◽  
High Level ◽  
Two Populations

The genetic structure of three Kazakh sheep breeds was examined by using 12 microsatellite loci. A total of 144 alleles were detected from the 12 STR loci, with a mean value of 12.0. The highest allele diversity was found at the locus CSRD247 (16 alleles). PIC value showed that all studied STR markers are more informative and appropriate for genetic analysis of three Kazakh sheep populations. Beside of INRA006, all markers had high level of genetic variability. As Fixation index shows, the excess of the heterozygosity was observed only in loci MAF065. Obtained number of private alleles in Edilbai, Kazakh Arkhar Merino and Kazakh Fine-wool sheep were 25, 17 and 15 respectively. Genetic diversity was higher in Edilbai population than in other two populations. The genetic variability was lower in Kazakh Arkhar Merino sheep than in the Edilbai and Kazakh Fine-wool sheep breeds. The genetic distance was the largest between Edilbai and Kazakh Arkhar Merinos. Also, the moderate differentiation was observed between Edilbai and Kazakh Arkhar Merinos.   

scholarly journals Molecular characterization of papaya genotypes using AFLP markers

2011 ◽  
Vol 33 (3) ◽  
pp. 849-858 ◽  
Author(s):  
Eder Jorge de Oliveira ◽  
Juliana Leles Costa ◽  
Lucas Ferraz dos Santos ◽  
Fabiana Moraes de Carvalho ◽  
Aline dos Santos Silva ◽  
...  
Keyword(s):  
Genetic Variability ◽  
Genetic Distance ◽  
Carica Papaya ◽  
Fragment Length Polymorphism ◽  
Distance Matrix ◽  
Inbred Lines ◽  
Genetic Distance Matrix ◽  
Pair Method ◽  
Polymorphic Bands

Due to the low genetic variability reported in the commercial plantations of papaya (Carica papaya L.), the objective of this study was analyze the genetic diversity of 32 genotypes including cultivars, landraces, inbred lines, and improved germplasm using the AFLP technique (Amplified Fragment Length Polymorphism). The genetic distance matrix was obtained using the Nei and Li genetic distance and clustering was performed using the unweighted pair-method with arithmetic mean (UPGMA). Using 11 combinations of EcoRI/MseI primers, 383 polymorphic bands were obtained. On average, 34.8 polymorphic bands were obtained per primer combination. Five clusters were formed. The traditional cultivar 'Sunrise' and the inbred line CMF-L30-08 were the closest genotypes, and the improved germplasm (CMF041) and landrace (CMF233) the most distant. The main papaya cultivars commercially grown in Brazil, as well as four inbred lines and three improved germplasm, were clustered together, however, were not grouped in the same branch. The genetic distance between the Sunrise and Golden cultivars was 0.329, and even arising from mutation and selection within the Sunrise variety, the Golden stores considerable genetic variability. Additional variability was observed in the inbred lines derived from papaya breeding program at Embrapa Cassava and Fruits.

scholarly journals Diversity of Biscogniauxia mediterranea within Single Stromata on Cork Oak

2014 ◽  
Vol 2014 ◽  
pp. 1-5 ◽  
Author(s):  
Joana Henriques ◽  
Filomena Nóbrega ◽  
Edmundo Sousa ◽  
Arlindo Lima
Keyword(s):  
Polymerase Chain Reaction ◽  
Genetic Variation ◽  
Genetic Variability ◽  
Geographical Location ◽  
Cork Oak ◽  
Microsatellite Primers ◽  
Chain Reaction ◽  
Disease Symptoms ◽  
Polymerase Chain ◽  
High Level

Charcoal canker, caused by the fungus Biscogniauxia mediterranea, is one of the most frequent diseases of cork oak in Portugal. The pathogen has been considered a secondary invader that attacks only stressed hosts; however, in recent years, an increasing number of young trees exhibiting the disease symptoms have been recorded. A collection of monoascosporic cultures isolated from single stromata of B. mediterranea in cork oak from different locations was analyzed by means of microsatellite—Primed Polymerase Chain Reaction—using three microsatellite primers, in order to detect the genetic variation of the population thus discussing its plasticity and ability to adapt to different conditions. The results showed a high level of genetic variability among isolates obtained from the same stroma, being impossible to distinguish isolates from individual stromata neither from different geographical location.

scholarly journals Molecular characterization of elephantgrass accessions through RAPD markers

2005 ◽  
Vol 29 (3) ◽  
pp. 568-574 ◽  
Author(s):  
Leônidas Paixão Passos ◽  
Marco Antonio Machado ◽  
Maria Coletta Vidigal ◽  
Ana Lúcia Campos
Keyword(s):  
Genetic Variability ◽  
Genetic Distance ◽  
Binary Data ◽  
Rapd Markers ◽  
Dna Amplification ◽  
Distance Matrix ◽  
Genetic Distances ◽  
Average Genetic Distance ◽  
Genetic Distance Matrix

Elephantgrass pastures are limited by yield variations and reductions in forage quality and availability, thus making the search for genotypes with reduced seasonality a major concern. In order to verify the extent of genetic variability among contrasting cultivars, ten elephantgrass accessions were analyzed through DNA amplification by RAPD technique. A total of 160 DNA bands were generated with the use of 44 random primers and 23% of these bands were monomorphic for all accessions. Gel-obtained binary data (1 for presence and 0 for absence) were used for generating a genetic distance matrix, which was utilized in a UPGMA grouping analysis. Elephantgrass cultivars Cameroon and Vruckwona were the accessions mostly divergent from the others, with an average genetic distance of 0.34. The accessions with the lowest average genetic distances from the others were Pioneiro and CNPGL 27-5, both with a distance of 0.25. Overall, genetic distances ranged from 0.06 to 0.43, indicating little genetic variability for the set of accessions, despite the contrasting morphology of the studied genotypes.

scholarly journals Genetic variability assessment in bread wheat (Triticum aestivum) grown in Algeria using microsatellites SSR markers

2020 ◽  
Vol 21 (6) ◽  
Author(s):  
KARIMA KARA ◽  
MALIKA RACHED-KANOUNI ◽  
SAMAH MNASRI ◽  
Hichem Khammar ◽  
M’BAREK BEN NACEUR
Keyword(s):  
Triticum Aestivum ◽  
Genetic Variability ◽  
Bread Wheat ◽  
Ssr Markers ◽  
Genetic Similarity ◽  
Triticum Aestivum L ◽  
Breeding Programs ◽  
High Level ◽  
Derived Data ◽  
Selection Of

Abstract. Kara K, Rached-Kanouni M, Mnasri S, Khammar H, Ben Naceur MB. 2020. Genetic variability assessment in bread wheat (Triticum aestivum) grown in Algeria using microsatellites SSR markers. Biodiversitas 21: 2638-2644. The assessment of genetic diversity is a key step in evaluating the adaptation of populations to new environmental conditions, and thus in the selection of new cultivars. The present investigation aimed to assess genetic variability of bread wheat (Triticum aestivum L.) genotypes grown in Algeria. The 17 hexaploid genotypes of bread wheat were assessed using 16 molecular microsatellites of SSR (Simple Sequence Repeat). Among the 16 microsatellite markers tested, only 11 markers were the most polymorphic and reproducible. The Polymorphism Information Content (PIC) values per locus varied from 0.14 to 0.70 with an average of 0.48 and 0.49. Genetic similarity between genotypes varied from 0.27 and 0.92 with an average of 0.60. The highest genetic distance value of 0.92 has been scored between Kauz/Pastor/Fiscal and Wbll1*2/Brambling. The lowest value of 0.27 has been scored between Cham6 and Pastor/Wbll1. Genetic similarity was calculated by molecular derived data and used to produce a dendrogram. The genotypes were grouped in two clear clusters according to their origin and pedigree. The first cluster included wheat genotypes Ain Abid (local genotypes), Attila/2 Pastor, and 5119 (introduced genotypes). The second group revealed high polymorphism and was subdivided into four sub-groups. This high level of diversity revealed among the accessions of wheat, grown in Algeria could be used in breeding programs.

scholarly journals Assessment of genetic diversity of silver fir (Abies alba Mill.) in Serbia using SSR markers

Genetika ◽  
2017 ◽  
Vol 49 (3) ◽  
pp. 979-988 ◽  
Author(s):  
Vladan Popovic ◽  
Aleksandar Lucic ◽  
Ljubinko Rakonjac ◽  
Branislav Cvjetkovic ◽  
Snezana Mladenovic-Drinic ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Genetic Variability ◽  
Ssr Markers ◽  
Genetic Similarity ◽  
Natural Populations ◽  
Abies Alba ◽  
Mean Value ◽  
Silver Fir ◽  
Future Strategy ◽  
The Mean

The paper presents the results of the analysis of genetic variability of eight populations of silver fir (Abies alba Mill.) in Serbia obtained using SSR markers. The genomic DNA was isolated from tissue of needles of all eight populations. Due to the costly and lengthy process a small number of the SSR markers for Abies alba have been developed, so in this study were used the microsatellite markers of related species. The obtained results indicate a low level of the genetic variability between natural populations of silver fir. The total number of alleles detected with nine SSR markers in eight studied populations of silver fir is 28. The range of alleles varies from two for NFF15 to six for SF78 with an average of 3.1 alleles per locus. The mean value of genetic similarity between populations is 0.92. The smallest genetic similarity between pairs of populations is 0.82 (Dubocica Bare and Stara Planina; Dubocica Bare and Tara) and the greatest genetic similarity is 1 (Zlatar and Stara Planina, Zlatar and Tara, Stara Planina and Tara). A basic insight into the level of genetic diversity of natural populations of silver fir in Serbia, which are located in a relatively small area, has been given using a set of SSR markers. The obtained results can be used in the future strategy for the management and regeneration of silver fir forests.

GENETIC VARIABILITY IN Sechium spp. (Cucurbitaceae) EVALUATED WITH AFLP MARKERS

Agrociencia ◽  
2021 ◽  
Vol 55 (7) ◽  
pp. 611-626
Author(s):  
María Isabel Iñiguez Luna ◽  
Jorge Cadena Iñiguez ◽  
Moisés Cortés Cruz† ◽  
Francisco Javier Morales Flores ◽  
Kazuo N. Watanabe ◽  
...  
Keyword(s):  
Genetic Variability ◽  
Fragment Length Polymorphism ◽  
Distance Matrix ◽  
Fixation Index ◽  
Separate Species ◽  
Sechium Edule ◽  
Genetic Distance Matrix ◽  
Genetic Complexity ◽  
Genetic Cross ◽  
Very High

There are few studies in Mexico aimed at evaluating the genetic variability of Sechium spp. Despite certain biological variants are reported with very high potential to develop antineoplastic supplements to treat public health conditions. Using the Amplified Fragment Length Polymorphism (AFLP) technique, the genetic variability of a sample of 95 accessions of three species of Sechium (S. edule, S. chinantlense, S. compositum) was evaluated, with leaf DNA from the Banco Nacional de Germoplasma de Sechium edule en Mexico. Four combinations of AFPL were applied (EcoRI + ACC/MseI + CAC, EcoRI + ACC/MseI + CAT, EcoRI + ACC/MseI + CGC, and EcoRI + ACC/MseI + CGG). DNA samples were classified into three groups based on the flavour of the fruit (sweet, neutral, bitter). An average of 47.91% polymorphism, 0.16 heterozygosity, 32.83 number of polymorphic bands, and a zero Wright fixation index (Fst) was obtained. The evidence showed that the domesticated accessions (sweet, neutral) were separated from the bitter-taste genotypes. A monophyletic tree was generated with the genetic distance matrix and the neighbour-joining methodology. Analyses showed S. edule as the root taxon, deriving S. compositum and S. chinantlense as subgroups, and suggesting that there is not enough differentiation to treat them as separate species. The evaluated sample showed that there is no apparent reproductive barrier for genetic cross breeding. Genotypes behaved as a complex with evolutive dynamism; that genetic complexity would allow the design of new variants.

Sequence analysis of Mucin 13 gene region associated with piglet diarrhoea in Indian pigs

2019 ◽  
Author(s):  
Rebeka Sinha ◽  
Nihar Ranjan Sahoo ◽  
Kush Shrivastava ◽  
Pushpendra Kumar ◽  
Salauddin Qureshi ◽  
...  
Keyword(s):  
Sequence Analysis ◽  
Genetic Variability ◽  
Sus Scrofa ◽  
Genetic Similarity ◽  
Bioinformatics Analysis ◽  
Gene Region ◽  
High Level

The current study was undertaken for characterization and bioinformatics analysis of a region of Mucin 13 gene (MUC13) associated with piglet diarrhoea in Indian native pig (Sus scrofa). A total of five gene segments ( three at intron 6 and two at exon 7-8 regions) were sequenced in pig population. The sequences were compared with available sequences of other pig population (Chinese pig), sheep, goat and cattle. As expected, high level of genetic similarity was seen between Indian pig and Chinese pig. Sequences of all five alleles were submitted to the NCBI with accession numbers KX686556 and KX686558-61. Reported genetic variability in MUC13 gene can be helpful in enhancing our understanding about the genetics of piglet diarrhoea resistance and susceptibility in Indian pig population.

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 AB0189 LIPOPROTEIN ABNORMALITIES IN RHEUMATOID ARTHRITIS PATIENTS

2021 ◽  
Vol 80 (Suppl 1) ◽  
pp. 1119.1-1119
Author(s):  
L. Nacef ◽  
Y. Besbes ◽  
Y. Mabrouk ◽  
H. Ferjani ◽  
K. Maatallah ◽  
...  
Keyword(s):  
Rheumatoid Arthritis ◽  
Demographic Data ◽  
Calcium Score ◽  
Healthy Person ◽  
Mean Value ◽  
Immunological Parameters ◽  
American College Of Rheumatology ◽  
Patient Consent ◽  
The Mean ◽  
High Level

Background:The lipid paradox is termed the decreased cholesterol level in rheumatoid arthritis (RA). Nevertheless, the apolipoprotein levels are usually higher than a healthy person and are predictors of cardiovascular events.Objectives:We aimed to describe lipid abnormalities in RA patients and to look for predictor factors of these changes.Methods:The prospective study was carried out on patients with RA who met the 2010 American College of Rheumatology (ACR)/European League Against Rheumatism (EULAR) classification criteria. These patients were followed in the rheumatology department of the Kassab Institute.We collected the socio-demographic data, biological and immunological parameters.The lipid assessment included: a measurement of total cholesterol (TC), HDL, LDL, and triglycerides (TG). Lipoproteins APOA1 and APOB were measured. All data were collected after patient consent.Results:Of the 47 patients recruited, 78.7% were female. The mean age was 52.5 ±11.06 [32-76]. The average RA progressed from 86.25 ±63 months [5-288] and was erosive in 81.6% of cases. The rheumatoid factor (RF) was positive in 57.8% of patients, and citrullinated antipeptide antibodies (ACPA) were present in 62.2%. Eight patients had a previous CV history.Mean TC was 4.42 ±1.3 [1.2-7.58], mean HDL was 1.38 ±0.73 [0.18-4.10], mean LDL was 2.55 ±1.16 [0.24-5.54]. The mean TG value was 1.28 ±0.6 [0.24-5.54]. TC elevation was found in 9.1% of cases, HDL in 21.3% of cases, LDL in 5.5% of cases, and TG in 16.4% of cases. Mean APOB/APOA1 ratio was 0.67 ±0.18 [0,46-1,11]. LDL elevation was associated to a high DAS28 (p=0.06, r=0.512). APOA1 was associated to a low DAS28 (p=0.04, r=-0.642).The mean value of APO A1 was 1.36 ±0.21 [0.84-1.81], that of APOB was 0.90 ±0.22 [0.58-1.40]. APOA1 values were lower in patients with high-level LDL (p=0.767). The APOB value was associated with lipid disturbance without significant correlation (p=0.291).Conclusion:Lipid test abnormalities can be found in RA patients outside of any known CV risk factors. APOA1 seems to have a protective effect. Screening and treatment of these abnormalities can prevent CV risk.References:[1]Miguel Bernardes and al. Coronary artery calcium score in female rheumatoid arthritis patients: Associations with apolipoproteins and disease biomarkers. Int J Rheum Dis. 2019;00:1–16.[2]Anna So dergren and al. Biomarkers associated with cardiovascular disease in patients with early rheumatoid arthritis. PLOS ONE. August 5, 2019.Disclosure of Interests:None declared

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