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Genetic Relationship in Chicken Breeds Using Molecular Co-ancestry Information
Ahlawat, S.P.S.,Vijh, R.K.,Mishra, Bina,Kumar, S.T. Bharani,Tantia, M.S. Asian Australasian Association of Animal Productio 2008 Animal Bioscience Vol.21 No.1
Five chicken populations viz. Chittagong, Ghagus, Kalasthi, Kadaknath, Tellichery were genotyped using 25 highly polymorphic microsatellite loci. White leg horn was taken as an outgroup. To reveal the relationship and distinctiveness among five indigenous breeds various genetic distances based on molecular co-ancestry were estimated and multidimensional scaling was performed. The Ghagus and Kalasthi breeds were closely related and their separation was recent, whereas Chittagong had a remote ancestry with other indigenous chicken populations.
Multilocus Genotyping to Study Population Structure in Three Buffalo Populations of India
Tantia, M.S.,Vijh, R.K.,Mishra, Bina,Kumar, S.T. Bharani,Arora, Reena Asian Australasian Association of Animal Productio 2006 Animal Bioscience Vol.19 No.8
Three buffalo populations viz. Bhadawari, Tarai and local buffaloes of Kerala were genotyped using 24 heterologous polymorphic microsatellite loci. A total of 140 alleles were observed with an average observed heterozygosity of 0.63. All the loci were neutral and 18 out of the 24 loci were in Hardy Weinberg Equilibrium. The $F_{IS}$ values (estimate of inbreeding) for 16 loci in all the three populations were negative. This indicated lack of population structure in the three populations. The effective number of immigrants was 5.88 per generation between the Tarai and Bhadawari populations which was quite high suggesting substantial gene flow. The genetic distances revealed closeness between the Tarai and Bhadawari populations which was expected from geographical contiguity. The FST values were not significantly different from zero showing no population differentiation. The Correspondence Analysis based on the allelic frequency data clustered the majority of the Tarai and Bhadawari individuals as an admixture.
Genetic Variation and Phylogenetic Relationships of Indian Buffaloes of Uttar Pradesh
Joshi, Jyoti,Salar, R.K.,Banerjee, Priyanka,Upasna, S.,Tantia, M.S.,Vijh, R.K. Asian Australasian Association of Animal Productio 2013 Animal Bioscience Vol.26 No.9
India possesses a total buffalo population of 105 million out of which 26.1% inhabit Uttar Pradesh. The buffalo of Uttar Pradesh are described as nondescript or local buffaloes. Currently, there is no report about the genetic diversity, phylogenetic relationship and matrilineal genetic structure of these buffaloes. To determine the origin and genetic diversity of UP buffaloes, we sequenced and analysed the mitochondrial DNA D-loop sequences in 259 samples from entire Uttar Pradesh. One hundred nine haplotypes were identified in UP buffaloes that were defined by 96 polymorphic sites. We implemented neutrality tests to assess signatures of recent historical demographic events like Tajima's D test and Fu's Fs test. The phylogenetic studies revealed that there was no geographic differentiation and UP buffaloes had a single maternal lineage while buffaloes of Eastern UP were distinctive from rest of the UP buffaloes.
A. K. Pandey,Dinesh Kumar,Rekha Sharma,Uma Sharma,R. K. Vijh,S. P. S. Ahlawat 아세아·태평양축산학회 2005 Animal Bioscience Vol.18 No.7
Genetic variation at 25 microsatellite loci, population structure, and genetic bottleneck hypothesis were examined for Ankleshwar poultry population found in Gujrat, India. The estimates of genetic variability such as effective number of alleles and gene diversities revealed substantial genetic variation frequently displayed by microsatellite markers. The average polymorphism across the studied loci and the expected gene diversity in the population were 6.44 and 0.670짹0.144, respectively. The population was observed to be significantly differentiated into different groups, and showed fairly high level of inbreeding (f = 0.240짹0.052) and global heterozygote deficit. The bottleneck analysis indicated the absence of genetic bottleneck in the past. The study revealed that the Ankleshwar poultry breed needs appropriate genetic management for its conservation and improvement. The information generated in this study may further be utilized for studying differentiation and relationships among different Indian poultry breeds.
Microsatellite Sequences of Mammals and Their Applications in Genome Analysis in Pigs - A Review
Behl, Rahul,Sheoran, Neelam,Behl, Jyotsna,Tantia, M.S.,Vijh, R.K. Asian Australasian Association of Animal Productio 2002 Animal Bioscience Vol.15 No.12
The microsatellites are the short tandem repeats of 1 to 6 bp long monomer sequences that are repeated several times. These short tandem repeats are considered to be generated by the slipped strand mispairing. Based on the unique capability of alternating purine-pyrimidine residues to form Z-DNA, the possible role of the microsatellites in gene regulation has been proposed. The microsatellites are highly polymorphic, follow Mendelian inheritance and are evenly distributed throughout the genomes of eukaryotes. They are easy to isolate and the polymerase chain reaction based typing of the alleles can be readily automated. These properties make them the preferred markers for comparison of the genetic structure of the closely related breeds/populations; very high-resolution genetic mapping and parentage testing etc. The microsatellites have rapidly replaced the restriction fragment length polymorphism (RFLP) and the random amplified polymorphic DNA (RAPD) in most applications in the population genetics studies in most species, including the various farm animals viz. cattle, buffalo, goat, sheep and pigs etc. More and more reports are now available describing the use of microsatellites in pigs ranging from measurement of genetic variation between breeds/populations, developing high resolution genetic maps to identifying and mapping genes of biological and economic importance.
Microsatellite Analysis of Three Poultry Breeds of India
Pandey, A.K.,Tantia, M.S.,Kumar, Dinesh,Mishra, Bina,Chaudhary, Preeti,Vijh, R.K. Asian Australasian Association of Animal Productio 2002 Animal Bioscience Vol.15 No.11
The genetic variability of three poultry breeds namely Aseel, Miri and Nicobari taken from different geographical locations of India were evaluated using 15 microsatellite loci. No. of alleles varied from 3 to 9 in Aseel, 3 to 8 in Miri and 2 to 7 in Nicobari. Mean PIC values in Aseel, Miri and Nicobari breeds were 0.64, 0.66 and 0.63, respectively. Average unbiased heterozygosity and direct count heterozygosity were 0.65 and 0.59, 0.68 and 0.61, and 0.64 and 0.57 in Aseel, Miri and Nicobari breeds, respectively. High heterozygosity values revealed in this study are indicative of low level of inbreeding, large population size and no or low selection pressure for commercial trait in all three populations. The estimate of genetic distances using Nei's standard, Nei's minimum and Reynold's distance revealed Aseel and Nicobari to be more closely related than Miri breed of poultry.
Sharma, Aditi,Lee, SeungHwan,Lee, JunHeon,Dang, Changgwon,Kim, Hyeong Cheul,Yeon, SeongHum,Kang, HeeSeol,Kanwar, Shamsher Singh,Vijh, Ramesh Kumar Institute of Agricultural Science 2014 Korean Journal of Agricultural Science Vol.41 No.4
The evolutionary history of cattle and buffalo has always been a topic of great interest to the evolutionary biologists. The phylogenetic studies of bovin species has been carried out at various levels, varying from the study of domestication and migration of populations to major cladogenesis. Along with the archeological studies there are studies from molecular biology and more recently from genomics. The phylogenetic perspective of the bovins and their evolutionary history, are reviewed in terms of what has been done, what needs to be done and potential challenges in doing it.