Life: Computational Genomics Applications in Life Sciences

Orlov, Yuriy L.; Anashkina, Anastasia A.

doi:10.3390/life11111211

Cited by 3 publications

(2 citation statements)

References 30 publications

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“…The conference highlights recent advances in genomics, bioinformatics, systems biology, and biotechnology areas [ 9 , 10 , 11 ]. This collection continues the studies in the field of bioinformatics that were presented initially in the Frontiers in Genetics journal [ 2 ], in the PeerJ journal ( , accessed on 14 June 2022), and recently at MDPI Life special issue [ 12 ]. It refers to the topics on computational genomics in model plants for biotechnology, discussing genomics and bioinformatics approaches [ 13 ].…”

mentioning

confidence: 94%

Plant Biology and Biotechnology: Focus on Genomics and Bioinformatics

Orlov

Иванисенко

Dobrovolskaya

et al. 2022

IJMS

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confidence: 94%

Plant Biology and Biotechnology: Focus on Genomics and Bioinformatics

Orlov

Иванисенко

Dobrovolskaya

et al. 2022

IJMS

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“…The locus with more significant values of FST in comparison with other loci may indicate positive selection [ 12 , 13 ]. To date, various modifications of this method have been presented, but undoubtedly, it remains the most widespread and reliable one to identify genome traits of selection signatures between observable populations [ 14 , 15 ].…”

Section: Introductionmentioning

confidence: 99%

Investigation of the Genetic Architecture of Pigs Subjected to Breeding Intensification

Kolosov

Getmantseva

Kolosova

et al. 2022

Genes

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Pigs are strategically important animals for the agricultural industry. An assessment of genetic differentiation between pigs, undergone and not undergone to selection intensification, is of particular interest. Our research was conducted on two groups of Large White pigs grown on the same farm but in different years. A total of 165 samples were selected with 78 LW_А (n = 78, the Russian selection) and LW_B (n = 87, a commercial livestock). For genotyping, we used GeneSeek® GGP Porcine HD Genomic Profiler v1 (Illumina Inc, San Diego, CA, USA). To define breeding characteristics of selection, we used smoothing FST and segment identification of HBD (Homozygous-by-Descent). The results of smoothing FST showed 20 areas of a genome with strong ejection regions of the genome located on all chromosomes except SSC2, SSC3, and SSC8. The average realized autozygosity in Large White pigs of native selection was in (LW_A)—0.21, in LW_В—0.29. LW_А showed 13,338 HBD segments, 171 per one animal, and LW_B—15,747 HBD segments, 181 per one animal. The ejections found by the smoothing FST method were partially localized in the HBD regions. In these areas, the genes ((NCBP1, PLPPR1, GRIN3A, NBEA, TRPC4, HS6ST3, NALCN, SMG6, TTC3, KCNJ6, IKZF2, OBSL1, CARD10, ETV6, VWF, CCND2, TSPAN9, CDH13, CEP128, SERPINA11, PIK3CG, COG5, BCAP29, SLC26A4) were defined. The revealed genes can be of special interest for further studying their influence on an organism of an animal since they can act as candidate genes for selection-significant traits.

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