Comparison of genomic footprints in chicken breeds with different selection history is a powerful tool in elucidating genomic regions that have been targeted by recent and more ancient selection. In the present work, we aimed at examining and comparing the trajectories of artificial selection in the genomes of the native egg-type Russian White (RW) and meat-type White Cornish (WC) breeds. Combining three different statistics (top 0.1% SNP by FST value at pairwise breed comparison, hapFLK analysis, and identification of ROH island shared by more than 50% of individuals), we detected 45 genomic regions under putative selection including 11 selective sweep regions, which were detected by at least two different methods. Four of such regions were breed-specific for each of RW breed (on GGA1, GGA5, GGA8, and GGA9) and WC breed (on GGA1, GGA5, GGA8, and GGA28), while three remaining regions on GGA2 (two sweeps) and GGA3 were common for both breeds. Most of identified genomic regions overlapped with known QTLs and/or candidate genes including those for body temperatures, egg productivity, and feed intake in RW chickens and those for growth, meat and carcass traits, and feed efficiency in WC chickens. These findings were concordant with the breed origin and history of their artificial selection. We determined a set of 188 prioritized candidate genes retrieved from the 11 overlapped regions of putative selection and reviewed their functions relative to phenotypic traits of interest in the two breeds. One of the RW-specific sweep regions harbored the known domestication gene, TSHR. Gene ontology and functional annotation analysis provided additional insight into a functional coherence of genes in the sweep regions. We also showed a greater candidate gene richness on microchromosomes relative to macrochromosomes in these genomic areas. Our results on the selection history of RW and WC chickens and their key candidate genes under selection serve as a profound information for further conservation of their genomic diversity and efficient breeding.

Despite their economic value, sheep remain relatively poorly studied animals in terms of the number of known loci and genes associated with commercially important traits. This gap in our knowledge can be filled in by performing new genome-wide association studies (GWAS) or by re-analyzing previously documented data using novel powerful statistical methods. This study is focused on the search for new loci associated with meat productivity and carcass traits in sheep. With a multivariate approach applied to publicly available GWAS results, we identified eight novel loci associated with the meat productivity and carcass traits in sheep. Using an in silico follow-up approach, we prioritized 13 genes in these loci. One of eight novel loci near the FAM3C and WNT16 genes has been replicated in an independent sample of Russian sheep populations (N = 108). The novel loci were added to our regularly updated database increasing the number of known loci to more than 140.

A b s t r a c tExtinction of many species is irreversible and is a part of the natural evolution, but human activities have influenced this process, making it much faster comparing to speciation. According to FAO, approximately 20 % of the breeds of cattle, goats, pigs, horses and poultry in the world are currently at risk of disappearance, many have died in the past few years, as a result their genetic characteristics lost forever. The role of banks in the management of genetic resources and the conservation of endangered species is particularly noticeable in the last decade. Most cryobanks focus on the cryopreservation of gametes (primarily sperm) and embryos. Their main goal is to produce offspring using reproductive technologies, which include artificial insemination, in vitro fertilization and embryo transfer. The discovery of the phenomenon of reprogramming somatic cell nuclear allowed expanding the range of forms of biological material in programs for cryopreservation. Creating cryobanks of somatic cells as donors of nuclei for cloning considered an auxiliary instrument for the preservation and improvement of the gene pool of farm animals and poultry. To obtain viable cryopreserved cell lines very small amount of biopsy material, including that of dead animals, is sufficient, but such lines contain the complete genome and proteome. In contrast to germ cells, embryos and generative tissues, the cryopreserved somatic cells after repeated thawing are capable to regenerate, i.e. almost infinitely may serve as a source of biomaterial for use in assisted reproductive technologies and biological research, including retrospective reconstruction. Furthermore, due to the small size the somatic cells are more resistant to cryopreservation. This review also provides a brief description of the principles and history of cloning. The advantages of the use of different cell types as karyoplasts are discussed. In particular, almost all types of cells (e.g. embryonic cells, mammary cells, cumulus, granulosa, oviduct, liver, fibroblasts, white blood cells and embryonic stem cells) can be used for the production of cloned animals, but the cloning efficiency depends significantly on the type of cells. Aiming embryo development and birth of live offspring, the fetal fibroblasts as donors of nuclear material for cloning are most effective. Alternatively, the stem cells may be a source of the nuclei. Stem or progenitor cells (i.e., stem, determined to differentiate in specific type cells) are easier reprogrammed than terminally differentiated cells. Also when stem cells nuclei are used as karyoplasts the number of cloned embryos significantly increased. The advances in interspecific cloning as a strategy for restoration of rare and endangered species are discussed. Numerous examples show that somatic cells can be considered the most promising material for the recovery of animal genetic resources of different types. Particularly from 1997 to 2012 using the differentiated somatic cells domestic and wild animals of different specie...

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