Showing 5 results for Microsatellite
M. Bahar, S. Ghobadi, V. Erfani Moghaddam, A. Yamchi, M. Talebi Bedaf, M. M. Kaboli, A. A. Mokhtarzadeh,
Volume 10, Issue 2 (7-2006)
Abstract
To determine genetic diversity among some Iranian local varieties of alfalfa, six geographically diverse populations including: Bami, Rahnani, Nikshahri, Yazdi, Hamadani (from Isfahan), Hamadani (from Shiraz) along with Ranger, an American commercial variety, were evaluated using a set of 24 EST-SSR primers developed from cDNA library of Medicago truncatula and three microsatellite loci, identified from genomic library of M. sativa. Of the pairs of primers tested, four loci from EST-SSRs (AW9, BEE, TC6 and TC7) and genomic microsatellite (Afctt32), were found appropriate for assessing genetic diversity between these alfalfa genotypes. In total, 46 alleles were detected from the five loci in the samples of alfalfa examined. The number of alleles per locus in populations ranged from six to eleven and genetic diversity indices of loci were variable from 0.62 to 0.87 for the populations. Genetic relationship analysis of EST-SSR data revealed separation of Iranian populations from Ranger. It is likely that the parental origin of primary population from which Ranger has been derived is different from that of Iranian populations. Iranian local populations of alfalfa in this study were grouped in two main clusters. Alfalfa populations Hamadani and Rahnani, which are adapted to cold claimates, were grouped in one cluster and populations Bami, Yazdi and Nikshahri, belonging to the trpoical areas, were placed in the next cluster. The positioning of EST-SSR loci in coding regions of genome, possibly increases the usefulness of these markers to clarify inter specific genetic relationships among alfalfa populations.
M. Falahati-Anbaran, A. A. Habashi, M. Esfahany, S. A. Mohammadi, B. Ghareyazie,
Volume 10, Issue 3 (10-2006)
Abstract
Annual medics are used for hey production, soil protection, biological fixation of N2 and green manure. In the present study, the inter and intra specific genetic diversity and relatedness of 4 diploid and two tetraploid (M. rugosa and M. scutellata) annual medics were evaluated using microsatellite markers. PCR analysis was performed on genomic DNA from individual plant and PCR products were detected using standard polyacrylamide sequencing gel. Totally twenty five polymorphic alleles were observed in the studied species. Average intra-specific genetic diversity ranged from zero (0.0) in both M. rugosa and M. scutellata to 0.114 in M. minima species, and the level of genetic diversity was similar in both M. orbicularis and M. truncatula species. Analysis of molecular variance (AMOVA) was used to partition the overall genetic diversity into within and among species, and between diploids and tetraploids. The results revealed significant (P<0.05) inter and intra-specific genetic variation. Pairwise comparisons based on Fst indicated significant differences among all of the species. Clustering analysis using UPGMA algorithm based on coancestary coefficient revealed a clear genetic relationship among species. The hypothesis on a common origin of two tetraploid species was supported by UPGMA clustering and phylogenetic analysis. The high level of Genetic diversity in spiny pod species respect to spineless pod species suggested the high importance of species with spiny pods in annual medics evolution. The findings support the usefulness of microsatellite markers for assessing inter and intra specific genetic diversity, differentiation and genetic relationships.
M. H. Banabazi, S. Esmaeilkhanian, S. R. Miraei Ashtiani, M. Moradi Shahrbabak,
Volume 10, Issue 4 (1-2007)
Abstract
Genetic variation within and between five Iranian sheep populations including Sanjabi (SAN), Kordi Kordistan (KKO), Kordi Khorasan (KKH), Mehraban (MEH) and Moghani (MOG) was assessed using six microsatellite markers (McMA2, McMA26, MAF64, OarAE64, OarCP26 and OarFCB304). The PCR reactions were successfully perfomed with all primers except OarAE64. All locus-population combinations were at Hardy-Weinberg equilibrium except McMA2 in MOG population (P<0.005). Polymorphism criteria showed that the five studied loci were polymorphic in all populations. The lowest DA genetic distance (0.234) was observed between KKH and KKO and the highest (0.388) between SAN and MOG populations. The dendrograms based on DA distances were drawn using unweighted pair-group method using an arithmetic average (UPGMA) and neighbor-joining (NJ) method. KKO, KKH and SAN were grouped together at one cluster and MEH and MOG at another by both methods. The average expected heterozygosity for each populations (as interpopulation variation) ranged from 0.744 to 0.847 for KKH and MEH, respectively. The estimated time of divergence for two Kordi populations (KKO and KKH) was 445 years that complies with historical evidences. The findings of this research confirmed that microsatellite variation could be a useful tool for screening of investigating biodiversity among domestic animals.
S. Esmail Khanian, A. Negati Javaremi, F. Afraz, P. Daneshyar, S. Ghanbari,
Volume 11, Issue 41 (10-2007)
Abstract
In order to identify polymorphic microsatellite markers and evaluae genetic variation within Baluchi sheep population, nineteen microsatellite loci were studied. Whole Blood samples were collected from 156 sheep at north eastern animal breeding station of Iran (Abbasabad-Mashhad). DNA was extracted by salting-out procedure with some modifications. Polymerase chain reactions were successfully done except for UNC5C locus. PCR products were electrophoresed on 8% denaturing polyacrylamide gels stained according to rapid silver staining procedure. The genotype and allelic frequencies were calculated by direct counting and used for estimating of different polymorphism and genetic variation criteria. This population wasn't at Hardy-Weinberg equilibrium except for OarAE101 locus (P<0.005). Heterozygosity (gene variation) ranged from 0.1 to 0.93. BULGE5E and BM1329 loci were monomorphic. In conclusion, this investigation showed high polymorphism at the studied loci, so they could be used in future studies.
A Gharghni, A Talei, Z Zamani, M Fatahi Moghadam, H Haj Najari, S Gardiner,
Volume 13, Issue 48 (7-2009)
Abstract
A population of offspring from a cross between ‘Golden Smoothee’ × ‘Shafi Abadi’ apple which was developed by two methods of controlled pollination (with and without covering after controlled pollination) was used to investigate the inheritance of microsatellite alleles and the necessity of covering in controlled pollination of apple. DNA was extracted from 60 seedlings (30 from each method) as well as corresponding parents and the probable source of unwanted pollen. Four microsatellite loci (CH03d12, CH03d07, CH04a12 and CH03c07) which were polymorphic among parents were selected and their florescent primers were prepared. DNA amplification was carried out using different colored florescent primers, and alleles size were determined using ABI377 automatic gene sequencer and Gene Scan Software version 2.0 according to internal standards. Results showed that all seedlings shared one allele at each locus with each parent indicating their hybrid and true to type nature. There were no differences between two methods of controlled pollination in terms of unwanted pollination and there were no off type seedling originating from unwanted pollen source. Allele distribution among the progenies showed their co-dominant mode of inheritance, and no significant difference with Mendelian co-dominant ratio (1:1:1:1) was observed using chi square (x2) test. These results showed that there was no need for covering after controlled pollination of apple at least for less sensitive cases such as cultivar breeding which takes lots of time and cost for controlled pollination of many flowers in a limited time span. Results also showed the importance and potential of microsatellite loci in detecting parent-offspring relationship prior to inheritance study of characters and alleles, bulk segregation analysis, gene and linkage map and historical reconstruction of fruit tree pedigree.
