ROHs are long stretches of DNA homozygous at each polymorphic position. The proportion of
genome covered by ROHs and their length are indicators of the level and origin of inbreeding.
Frequent commonROHs withinthe samepopulationdefineROHislandsand indicatehotspots of
selection. In this work, we investigated ROHs in a total of 1131 pigs from20 European local pig
breeds and in three cosmopolitan breeds, genotyped with the GGP PorcineHDGenomic Profiler.
PLINK software was used to identify ROHs. Size classes and genomic inbreeding parameters were
evaluated. ROH islands were defined by evaluating different thresholds of homozygous SNP
frequency. A functional overview of breed-specific ROH islands was obtained via overrepresentation
analyses of GO biological processes. Mora Romagnola and Turopolje breeds had
the largest proportions of genome covered with ROH (~1003 and ~955 Mb respectively),
whereas Nero Siciliano and Sarda breeds had the lowest proportions (~207 and 247 Mb
respec...tively). The highest proportion of long ROH (>16 Mb) was in Apulo-Calabrese, Mora
Romagnola and Casertana. The largest number of ROH islands was identified in the Italian
Landrace (n=32), Cinta Senese (n=26) and LithuanianWhite Old Type (n=22) breeds. Several
ROH islands were in regions encompassing genes known to affect morphological traits.
Comparative ROH structure analysis among breeds indicated the similar genetic structure of
local breeds across Europe. This study contributed to understanding of the genetic history of
Ključne reči:
autozygosity / population genomics / selection signature / single nucleotide polymorphism / Sus scrofa
TY - JOUR
AU - Schiavo, G.
AU - Bovo, S.
AU - Munoz, M.
AU - Ribani, A.
AU - Alves, E.
AU - Araujo, J. P.
AU - Bozzi, R.
AU - Čandek-Potokar, M.
AU - Charneca, R.
AU - Fernandez, A. I.
AU - Gallo, M.
AU - Garcia, F.
AU - Karolyi, D.
AU - Kušec, G.
AU - Martins, J. M.
AU - Mercat, M.-J.
AU - Nunez, Y.
AU - Quintanilla, R.
AU - Radović, C.
AU - Razmaite, V.
AU - Riquet, J.
AU - Savić, R.
AU - Usai, G.
AU - Utzeri, V. J.
AU - Zimmer, C.
AU - Ovilo, C.
AU - Fontanesi, L.
PY - 2021
UR - http://aspace.agrif.bg.ac.rs/handle/123456789/5804
AB - ROHs are long stretches of DNA homozygous at each polymorphic position. The proportion of
genome covered by ROHs and their length are indicators of the level and origin of inbreeding.
Frequent commonROHs withinthe samepopulationdefineROHislandsand indicatehotspots of
selection. In this work, we investigated ROHs in a total of 1131 pigs from20 European local pig
breeds and in three cosmopolitan breeds, genotyped with the GGP PorcineHDGenomic Profiler.
PLINK software was used to identify ROHs. Size classes and genomic inbreeding parameters were
evaluated. ROH islands were defined by evaluating different thresholds of homozygous SNP
frequency. A functional overview of breed-specific ROH islands was obtained via overrepresentation
analyses of GO biological processes. Mora Romagnola and Turopolje breeds had
the largest proportions of genome covered with ROH (~1003 and ~955 Mb respectively),
whereas Nero Siciliano and Sarda breeds had the lowest proportions (~207 and 247 Mb
respectively). The highest proportion of long ROH (>16 Mb) was in Apulo-Calabrese, Mora
Romagnola and Casertana. The largest number of ROH islands was identified in the Italian
Landrace (n=32), Cinta Senese (n=26) and LithuanianWhite Old Type (n=22) breeds. Several
ROH islands were in regions encompassing genes known to affect morphological traits.
Comparative ROH structure analysis among breeds indicated the similar genetic structure of
local breeds across Europe. This study contributed to understanding of the genetic history of
PB - Blackwell Publishing Ltd
T2 - Animal Genetics
T1 - Runs of homozygosity provide a genome landscape picture of inbreeding and genetic history of European autochthonous and commercial pig breeds
DO - 10.1111/age.13045
ER -
@article{
author = "Schiavo, G. and Bovo, S. and Munoz, M. and Ribani, A. and Alves, E. and Araujo, J. P. and Bozzi, R. and Čandek-Potokar, M. and Charneca, R. and Fernandez, A. I. and Gallo, M. and Garcia, F. and Karolyi, D. and Kušec, G. and Martins, J. M. and Mercat, M.-J. and Nunez, Y. and Quintanilla, R. and Radović, C. and Razmaite, V. and Riquet, J. and Savić, R. and Usai, G. and Utzeri, V. J. and Zimmer, C. and Ovilo, C. and Fontanesi, L.",
year = "2021",
abstract = "ROHs are long stretches of DNA homozygous at each polymorphic position. The proportion of
genome covered by ROHs and their length are indicators of the level and origin of inbreeding.
Frequent commonROHs withinthe samepopulationdefineROHislandsand indicatehotspots of
selection. In this work, we investigated ROHs in a total of 1131 pigs from20 European local pig
breeds and in three cosmopolitan breeds, genotyped with the GGP PorcineHDGenomic Profiler.
PLINK software was used to identify ROHs. Size classes and genomic inbreeding parameters were
evaluated. ROH islands were defined by evaluating different thresholds of homozygous SNP
frequency. A functional overview of breed-specific ROH islands was obtained via overrepresentation
analyses of GO biological processes. Mora Romagnola and Turopolje breeds had
the largest proportions of genome covered with ROH (~1003 and ~955 Mb respectively),
whereas Nero Siciliano and Sarda breeds had the lowest proportions (~207 and 247 Mb
respectively). The highest proportion of long ROH (>16 Mb) was in Apulo-Calabrese, Mora
Romagnola and Casertana. The largest number of ROH islands was identified in the Italian
Landrace (n=32), Cinta Senese (n=26) and LithuanianWhite Old Type (n=22) breeds. Several
ROH islands were in regions encompassing genes known to affect morphological traits.
Comparative ROH structure analysis among breeds indicated the similar genetic structure of
local breeds across Europe. This study contributed to understanding of the genetic history of",
publisher = "Blackwell Publishing Ltd",
journal = "Animal Genetics",
title = "Runs of homozygosity provide a genome landscape picture of inbreeding and genetic history of European autochthonous and commercial pig breeds",
doi = "10.1111/age.13045"
}
Schiavo, G., Bovo, S., Munoz, M., Ribani, A., Alves, E., Araujo, J. P., Bozzi, R., Čandek-Potokar, M., Charneca, R., Fernandez, A. I., Gallo, M., Garcia, F., Karolyi, D., Kušec, G., Martins, J. M., Mercat, M.-J., Nunez, Y., Quintanilla, R., Radović, C., Razmaite, V., Riquet, J., Savić, R., Usai, G., Utzeri, V. J., Zimmer, C., Ovilo, C.,& Fontanesi, L.. (2021). Runs of homozygosity provide a genome landscape picture of inbreeding and genetic history of European autochthonous and commercial pig breeds. in Animal Genetics
Blackwell Publishing Ltd..
https://doi.org/10.1111/age.13045
Schiavo G, Bovo S, Munoz M, Ribani A, Alves E, Araujo JP, Bozzi R, Čandek-Potokar M, Charneca R, Fernandez AI, Gallo M, Garcia F, Karolyi D, Kušec G, Martins JM, Mercat M, Nunez Y, Quintanilla R, Radović C, Razmaite V, Riquet J, Savić R, Usai G, Utzeri VJ, Zimmer C, Ovilo C, Fontanesi L. Runs of homozygosity provide a genome landscape picture of inbreeding and genetic history of European autochthonous and commercial pig breeds. in Animal Genetics. 2021;.
doi:10.1111/age.13045 .
Schiavo, G., Bovo, S., Munoz, M., Ribani, A., Alves, E., Araujo, J. P., Bozzi, R., Čandek-Potokar, M., Charneca, R., Fernandez, A. I., Gallo, M., Garcia, F., Karolyi, D., Kušec, G., Martins, J. M., Mercat, M.-J., Nunez, Y., Quintanilla, R., Radović, C., Razmaite, V., Riquet, J., Savić, R., Usai, G., Utzeri, V. J., Zimmer, C., Ovilo, C., Fontanesi, L., "Runs of homozygosity provide a genome landscape picture of inbreeding and genetic history of European autochthonous and commercial pig breeds" in Animal Genetics (2021),
https://doi.org/10.1111/age.13045 . .
