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

Emam, Ahmed Mostafa; Azoz, A.A.A.; Mehaisen, Gamal M. K.; Ferrand, Nuno; Ahmed, Nasim

doi:10.4995/wrs.2017.5298

Cited by 8 publications

(10 citation statements)

References 22 publications

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“…and Khalil 1994;Khalil 2002;Emam et al, 2017). However, Spanish common rabbits (SCR) are characterised by good fertility and maternal ability and are nowadays used only in backyard production in small population sizes (González-Redondo, 2007).…”

Section: W O R L D R a B B I T S C I E N C Ementioning

confidence: 99%

Status and origin of Egyptian local rabbits in comparison with Spanish common rabbits using mitochondrial DNA sequence analysis

et al. 2020

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Mitochondrial DNA (mtDNA) and cytochrome b (cyt b) gene sequences were used to determine the status of genetic diversity and phylogeny for 132 individuals from local rabbit breeds in Egypt and Spain. The Egyptian local rabbit breeds were Egyptian Red Baladi (ERB), Egyptian Black Baladi (EBB) and Egyptian Gabali Sinai (EGS). However, the Spanish local rabbit breed was Spanish common rabbit (SCR). Previous breeds were compared with European Wild Rabbit taken from Albacete, Spain (EWR). A total of 353 mutations, 290 polymorphic sites, 14 haplotypes, 0.06126 haplotype diversity and -1.900 (P<0.05) for Tajima’s D were defined in this study. Haplotype A mostly occurred in 83.3% of Egyptian rabbits and 11.7% of EWR, while haplotype B occurred in 63.8% of Spanish rabbits and 36.2% of the EGS breed. A total of 47 domestic and wild Oryctolagus cuniculus published sequences were used to investigate the origin and relation among the rabbit breeds tested in this study. The most common haplotype (A) was combined with 44.7% of published sequences. However, haplotype B was combined with 8.5%. Haplotypes of Egyptian, SCR and EWR were scattered in cluster 1, while we found only one EGS haplotype with two haplotypes of EWR in cluster 2. Our results assumed that genetic diversity for ERB, EBB and SCR was very low. Egyptian breeds and SCR were introduced from European rabbits. We found that ERB and EBB belong to one breed.

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Section: W O R L D R a B B I T S C I E N C Ementioning

confidence: 99%

Status and origin of Egyptian local rabbits in comparison with Spanish common rabbits using mitochondrial DNA sequence analysis

et al. 2020

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“…Genetic diversity studies of the native breeds provide valuable information, which enables us to understand the domestication process and evolution history of these breeds. Such studies help us suggest correct breeding plans for the conservation and improvement of native breeds (Emam et al, 2017). Moreover, appropriate genetic markers are able to generate the information necessary for the planning of crossing and selection of genotypes in the genetic breeding programmes (Bruford and Wayne, 1993;MacHugh et al, 1997;Khalil et al, 2008).…”

Section: Introductionmentioning

confidence: 99%

Molecular genetic diversity and conservation priorities of Egyptian rabbit breeds

et al. 2019

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The limited rabbit resources in Egypt are threatened by the danger of extinction, whereas genetic diversity studies of native breeds could play a vital role in conservation and improvement of these breeds. In this study, 3 native rabbit breeds: Gabali (G), Baladi Red (BR) and Baladi Black (BB), in addition to New Zealand White (NZW), were genotyped using 12 microsatellite markers. All the typed microsatellites were polymorphic by average number of alleles 5.25 per locus. Observed and expected heterozygosity per locus averaged 0.62 and 0.68, respectively. The average polymorphic information content was 0.71 and the highest polymorphic information content was recorded in locus SOL33 by 0.85. All the studied loci except SAT7 and SAT2 showed deviation from Hardy-Weinberg equilibrium with significant level. The inbreeding coefficient of the individuals relative to the total population was 0.07. The within-population heterozygote deficit averaged 0.07 and ranged from 0.141 in BR to 0.015 in BB breeds. The highest pairwise differentiation among the populations was recorded between BB and NZW (0.071), while the lowest value was recorded between BR and both of G (0.038) and BB (0.039). The lowest pairwise Nei’s genetic distance was recorded between BR and BB (0.190), while the highest was recorded between NZW and BB breeds (0.409). BR and G populations were clustered together forming an admixed mosaic cluster. BR recorded the highest contribution in the aggregate genetic diversity based on the three prioritisation methods used.

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“…In addition, the detection of SNPs via sequencing techniques is more costly than analyses based on microsatellite markers, and it has been successfully used to investigate genetic diversity in rabbits (Emam et al, 2017).…”

Section: Introductionmentioning

confidence: 99%

Population structure and phylogenetic analysis of laboratory rabbits in Taiwan based on microsatellite markers

Lai

Ding

et al. 2018

World Rabbit Sci.

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Laboratory rabbits used in Taiwan are primarily supplied by the Livestock Research Institute (LRI) and the Animal Drugs Inspection Branch (ADIB) of the Animal Health Research Institute. An analysis of the genetic characteristics and structure of these populations would thus be a fundamental step in building a long-term management programme for maintaining stable animal quality and preserving the genetic variation among the populations. In this study, DNA samples were isolated from founders of 5 populations: New Zealand White rabbits (NZW) and Japanese White rabbits (JPN) from the ADIB, NZW and Rex rabbits (REX) from the LRI, and NZW from a private rabbit breeding farm in Ban Ciao (BC). A set of microsatellite markers, 18 in total, was designed for genetic analysis. The average values for the allele number (Na), effective number of alleles (Ne), observed heterozygosity (Ho), expected heterozygosity (H E ), and Wright's fixation index (F IS ) were 5.50, 2.437, 0.442, 0.568 and 0.232, respectively. These results revealed that this set of microsatellite markers has high diversity and that the major local populations have a tendency toward inbreeding. At the same time, analysis of molecular variance results showed that the laboratory rabbits used in Taiwan have maintained a high level of within-population genetic differentiation (83%). The genetic differentiation among clusters was moderate (F ST =0.18), and Bayesian cluster analysis showed that the most likely number of groups was 4 (K=4). Principal component analysis (PCA) also showed 4 divergent clusters. The LRI and BC NZW populations were not separated when K=4 was used in a Structure software analysis and were also hard to split until principal component 3 in PCA. The individual unrooted phylogenetic tree showed that the 5 populations were separated, except that some individuals from the LRI NZW population overlapped with the ADIB NZW and BC NZW populations. As such, in order to counteract the reduced F IS (0.232) and maximise heterozygosity, the 3 NZW populations could be interbred or have new genes introduced into them. The set of microsatellite markers used herein was useful for studying the relationships and genetic diversities among these rabbit populations of Taiwan. Based on the resulting data, rabbit farms in Taiwan could select parental stocks for planned mating in the future as part of strategies to preserve and restore the rational breeding of laboratory rabbits.

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

Cited by 8 publications

References 22 publications

Status and origin of Egyptian local rabbits in comparison with Spanish common rabbits using mitochondrial DNA sequence analysis

Status and origin of Egyptian local rabbits in comparison with Spanish common rabbits using mitochondrial DNA sequence analysis

Molecular genetic diversity and conservation priorities of Egyptian rabbit breeds

Population structure and phylogenetic analysis of laboratory rabbits in Taiwan based on microsatellite markers

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