Study of genetic polymorphism of various chicken breeds using microsatellite markers

Deshmukh, B. T.; Kumar, Dilip; Kashyap, Neeraj; Sharma, Divya

doi:10.5958/0976-0555.2015.00001.1

Cited by 6 publications

(6 citation statements)

References 9 publications

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“…However, this investigation assessed the impact of long-term selection on egg production associated microsatellite profiles. The present observation of nine polymorphic microsatellite loci out of ten, with an average allele number per locus of 3.000 ± 1.4142 was more than in the report by ARYA (2012), who observed nine polymorphic loci out of 47 microsatellite loci using 3.4% MetaPhor Agarose in a high and low egg production sub-population of White leghorn chicken, but comparable to that of DESHMUKH et al, (2015), who reported 17 polymorphic loci out of 25 microsatellite loci in different chicken breeds using 3.4% MetaPhor Agarose. The allele number and average number of alleles per locus in the present study were lower than earlier reports in various native and exotic chicken breeds (PANDEY et al, 2002;VIJH and TANTIA, 2004;PANDEY et al, 2005;BAO et al, 2008;CHATTERJEE et al, 2010b).…”

Section: Discussioncontrasting

confidence: 43%

Genetic variability determination in a long-term selected Rhode Island Red chicken strain using microsatellite markers

Rahim¹,

Kumar²,

Yadav³

et al. 2017

Vet. arhiv

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variability determination in a long-term selected Rhode Island Red chicken strain using microsatellite markers. Vet. arhiv 87, 511-522, 2017. ABSTRACTGenetic improvement needs the existence and precise estimation of genetic variability, and microsatellites are a molecular marker of choice for its assessment. Rhode Island Red (RIR) is a brown-egger chicken breed. A RIR population, selected on the basis of 40-week part-period egg production for 30 generations, maintained as a closed flock to develop multi-colored strains for backyard farming, were studied to determine genetic variability and heterozygosity using microsatellite markers. Genomic DNA from 76 randomly selected birds was analyzed at 10 microsatellite loci, alleles were separated on 3.4% MetaPhor Agarose, sized using Quantity-One software and analyzed by POPGENE v1.32. Nine loci demonstrated polymorphism resolving 30 alleles, the average number of alleles/ locus being 3.00 ± 1.41. Allele numbers varied from two to six and size ranged from 102 to 320bp. The average polymorphic information content and Nei's heterozygosity were 0.3134 ± 0.064 and 0.4119 ± 0.2575, respectively, suggesting these loci to be moderately polymorphic and informative. The observed (N a ) and effective number (N e ) of alleles and Shannon's index averaged 3.0000 ± 1.4142, 2.0324 ± 0.9416 and 0.7342 ± 0.4649, respectively. N e was less than N a at most loci, indicating the prevalence of heterozygosity at these loci. Mean expected heterozygosity was higher than mean observed heterozygosity at most loci, indicating that the population was not in Hardy-Weinberg equilibrium but was under the influence of some forces such as selection, etc. The same was also demonstrated by Chi-square and G-square tests. It may be inferred that long-term selection for 40-week part-period egg production has resulted in Hardy-Weinberg disequilibrium at the studied microsatellite loci, thereby suggesting a probable association between these microsatellite loci and layer economic traits in RIR chicken, and this might be useful in marker assisted selection for egg production in future.

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Section: Discussioncontrasting

confidence: 43%

Genetic variability determination in a long-term selected Rhode Island Red chicken strain using microsatellite markers

Rahim¹,

Kumar²,

Yadav³

et al. 2017

Vet. arhiv

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“…Das et al (2015a) screened 24 MS loci including ADL0158, ADL0176 and MCW0044 by 6% urea-PAGE and documented quite similar alleles at MCW0044 but variable alleles at ADL0158 and ADL0176 in 24 number of RIR S population. Deshmukh et al (2015) 2010) evaluated five loci viz., ADL0023, ADL0158, ADL0176, MCW0044 and MCW0110, which were also explored in present investigation along with other microsatellite in two indigenous native breed, Kadaknath and Aseel, and three different chicken lines, viz. Vanaraja male line, Vanaraja female line and Gramapriya female line using 8% nondenaturing PAGE and reported quite comparable alleles at ADL0176, MCW0044 and MCW0110 but variable alleles at ADL0023 and ADL0158.…”

Section: Resultsmentioning

confidence: 99%

“…3 alleles at MCW0044, 4 alleles at ADL0158 and 3 alleles at ADL0176 in RIR S chicken. However, Deshmukh et al (2015) reported 2 to 3 alleles at polymorphic locus and average number of alleles per locus across the breeds was 2.41 in Hill fowl, Rhode Island Red, Kadaknath, White Cornish and White Leghorn, and also reported varied numbers of observed alleles, i.e. 3 alleles at ADL0176, 1 allele at ADL0273, 2 alleles at Chatterjee et al (2010) reported the observed numbers of alleles in two indigenous native breed (Kadaknath and Aseel) as well as three different chicken lines (Vanaraja male and female line and Gramapriya female line) for loci ADL0023, ADL0158, ADL0176, MCW0044 and MCW0110 which were close to those observed in the present investigation.…”

Section: Resultsmentioning

confidence: 99%

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Genetic variability in egg production-associated microsatellites in Rhode Island Red chicken

Debnath

Kumar

Rahim

et al. 2017

Indian J of Anim Sci

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Present investigation was carried out in 114 birds belonging to selected strains of Rhode Island Red chicken maintained at institute experimental layer farm with the objective to analyze polymorphism in egg production associated microsatellite loci and to determine various population genetics statistics based on allelic polymorphism. Genomic DNA samples were isolated from all experimental birds and PCR was performed using primers for ten microsatellite loci, reported to be associated with egg production traits in chicken. Alleles were separated on 3.4% MetaPhoreTM agarose and their sizes were determined by Quantity One software. Allelic data were analyzed by POPGENE. Allele numbers varied from 2 to 5 and average number of alleles per locus was 4.00±0.37 (Na). Allele sizes ranged from 99-280 bp. Allele frequency per locus ranged from 0.0225-0.8919. Nei's heterozygosity, Botstein's polymorphic information content (PIC) and Wright's fixation indices at each locus were estimated. All studied microsatellite loci were polymorphic and estimated PIC ranged from 0.19 (ADL0273) to 0.72 (MCW0110). Seven loci were moderate to highly polymorphic (PIC>0.50). Nei's heterozygosity per locus ranged from 0.20 (ADL0273) to 0.77 (MCW0110). Averaged effective number of alleles (Ne), Shannon's Information index (I) and Wright's fixation indices were 2.71±0.26, 1.0654±0.1046 and 0.5126±0.0757, respectively. Average observed (Ho) and expected (He) heterozygosities were 0.3036±0.0625 and 0.5930±0.0505, respectively. Study revealed prevalence of heterozygosity as the Ne was lesser than the Na. It further revealed that the population was under Hardy-Weinberg disequilibrium as (He) was more than (Ho).Chi square and G-square estimates were significant, which suggested that the studied microsatellite loci might have some association with ongoing selection for 40-week part-period egg production in RIR chicken.

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“…Genetic diversity data were analyzed with POPGENE32 (Guo and Elston, 1999;Kavitha et al 2015;Jiménez-Mena et al 2016). Polymorphism information content value (PIC) for all the loci were estimated according to Deshmukh et al (2015) and Bai et al (2016b).…”

Section: Discussionmentioning

confidence: 99%

Microsatellite DNA Markers and Their Correlation with Body Traits in Landrace, Duroc and Henan Western Black Pigs

Yang

Bian

Pang

et al. 2019

IJAR

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Twelve microsatellite loci were selected from the Food and Agriculture Organization of the United Nations to examine the genetic structure and relationship between microsatellite DNA and body traits including height, back height, body length, chest width, chest depth, head Length, Ear area, and forehead width. Twelve microsatellite loci analyzed were polymorphic in Landrace, Duroc and Henan Western Black Pigs. The total number of alleles found for the twelve microsatellite loci amounted to 150.The average expected heterozygositie ranged from 0.1287 to 0.8301 among twelve loci, and the average polymorphic information content ranged from 0.1168 to 0.7894. The results of cluster analysis showed that the genetic distance between Henan Western Black Pigs and Duroc was least 0.1414. Microsatellite loci of SW72 were significantly associated with back height and chest depth (plessthan0.05), while SO002 were significantly associated with chest depth and head Length (plessthan0.05). Finally, the results showed that Henan Western Black Pigs has a high level of genetic polymorphism and genetic differentiation. Cluster analysis shows that the relationship between Black Pigs and Duroc is closer. These were significantly associated with body traits in five microsatellite loci, including SW72, SO002, SW632, SO090 and SW1828 (plessthan0.05). These results provided scientific reference for the further cultivation and utilization of black pigs.

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Study of genetic polymorphism of various chicken breeds using microsatellite markers

Cited by 6 publications

References 9 publications

Genetic variability determination in a long-term selected Rhode Island Red chicken strain using microsatellite markers

Genetic variability determination in a long-term selected Rhode Island Red chicken strain using microsatellite markers

Genetic variability in egg production-associated microsatellites in Rhode Island Red chicken

Microsatellite DNA Markers and Their Correlation with Body Traits in Landrace, Duroc and Henan Western Black Pigs

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