TY  - RPRT
AU  - Dadousis, Christos
AU  - Munoz, Maria
AU  - Ovilo, Cristina
AU  - Fabbri, Maria Chiara
AU  - Araujo, Jose Pedro
AU  - Bovo, Samuele
AU  - Čandek Potokar, Marjeta
AU  - Charneca, Rui
AU  - Crovetti, Alessandro
AU  - Gallo, Maurizio
AU  - Garcia-Casco, Juan Maria
AU  - Karolyi, Danijel
AU  - Kušec, Goran
AU  - Martins, Jose Manuel
AU  - Mercat, Marie-Jose
AU  - Pugliese, Carolina
AU  - Quintanilla, Raquel
AU  - Radović, Čedomir
AU  - Razmaite, Violeta
AU  - Ribani, Anisa
AU  - Raquet, Juliet
AU  - Savić, Radomir
AU  - Schiavo, Giuseppina
AU  - Škrlep, Martin
AU  - Tinarelli, Silvia
AU  - Usai, Graziano
AU  - Zimmer, Christoph
AU  - Fontanesi, Luca
AU  - Bozzi, Riccardo
PY  - 2022
UR  - http://r.istocar.bg.ac.rs/handle/123456789/819
AB  - Preserving diversity of indigenous pig (Sus scrofa) breeds is a key factor to (i) sustain the pork chain
(both at local and global scales) including the production of high-quality branded products, (ii) enrich
the animal biobanking and (iii) progress conservation policies. Single nucleotide polymorphism (SNP)
chips ofer the opportunity for whole-genome comparisons among individuals and breeds. Animals
from twenty European local pigs breeds, reared in nine countries (Croatia: Black Slavonian, Turopolje;
France: Basque, Gascon; Germany: Schwabisch-Hällisches Schwein; Italy: Apulo Calabrese, Casertana,
Cinta Senese, Mora Romagnola, Nero Siciliano, Sarda; Lithuania: Indigenous Wattle, White Old Type;
Portugal: Alentejana, Bísara; Serbia: Moravka, Swallow-Bellied Mangalitsa; Slovenia: Krškopolje pig;
Spain: Iberian, Majorcan Black), and three commercial breeds (Duroc, Landrace and Large White) were
sampled and genotyped with the GeneSeek Genomic Profler (GGP) 70 K HD porcine genotyping chip.
A dataset of 51 Wild Boars from nine countries was also added, summing up to 1186 pigs (~49 pigs/
breed). The aim was to: (i) investigate individual admixture ancestries and (ii) assess breed traceability
via discriminant analysis on principal components (DAPC). Albeit the mosaic of shared ancestries
found for Nero Siciliano, Sarda and Moravka, admixture analysis indicated independent evolvement
PB  - Nature Portfolio
T2  - Scientifc Reports
T1  - Admixture and breed traceability in European indigenous pig breeds and wild boar using genome‑wide SNP data
VL  - 12
IS  - 7146
DO  - https://doi.org/10.1038/s41598-022-10698-8
ER  - 

@techreport{
author = "Dadousis, Christos and Munoz, Maria and Ovilo, Cristina and Fabbri, Maria Chiara and Araujo, Jose Pedro and Bovo, Samuele and Čandek Potokar, Marjeta and Charneca, Rui and Crovetti, Alessandro and Gallo, Maurizio and Garcia-Casco, Juan Maria and Karolyi, Danijel and Kušec, Goran and Martins, Jose Manuel and Mercat, Marie-Jose and Pugliese, Carolina and Quintanilla, Raquel and Radović, Čedomir and Razmaite, Violeta and Ribani, Anisa and Raquet, Juliet and Savić, Radomir and Schiavo, Giuseppina and Škrlep, Martin and Tinarelli, Silvia and Usai, Graziano and Zimmer, Christoph and Fontanesi, Luca and Bozzi, Riccardo",
year = "2022",
abstract = "Preserving diversity of indigenous pig (Sus scrofa) breeds is a key factor to (i) sustain the pork chain
(both at local and global scales) including the production of high-quality branded products, (ii) enrich
the animal biobanking and (iii) progress conservation policies. Single nucleotide polymorphism (SNP)
chips ofer the opportunity for whole-genome comparisons among individuals and breeds. Animals
from twenty European local pigs breeds, reared in nine countries (Croatia: Black Slavonian, Turopolje;
France: Basque, Gascon; Germany: Schwabisch-Hällisches Schwein; Italy: Apulo Calabrese, Casertana,
Cinta Senese, Mora Romagnola, Nero Siciliano, Sarda; Lithuania: Indigenous Wattle, White Old Type;
Portugal: Alentejana, Bísara; Serbia: Moravka, Swallow-Bellied Mangalitsa; Slovenia: Krškopolje pig;
Spain: Iberian, Majorcan Black), and three commercial breeds (Duroc, Landrace and Large White) were
sampled and genotyped with the GeneSeek Genomic Profler (GGP) 70 K HD porcine genotyping chip.
A dataset of 51 Wild Boars from nine countries was also added, summing up to 1186 pigs (~49 pigs/
breed). The aim was to: (i) investigate individual admixture ancestries and (ii) assess breed traceability
via discriminant analysis on principal components (DAPC). Albeit the mosaic of shared ancestries
found for Nero Siciliano, Sarda and Moravka, admixture analysis indicated independent evolvement",
publisher = "Nature Portfolio",
journal = "Scientifc Reports",
title = "Admixture and breed traceability in European indigenous pig breeds and wild boar using genome‑wide SNP data",
volume = "12",
number = "7146",
doi = "https://doi.org/10.1038/s41598-022-10698-8"
}

Dadousis, C., Munoz, M., Ovilo, C., Fabbri, M. C., Araujo, J. P., Bovo, S., Čandek Potokar, M., Charneca, R., Crovetti, A., Gallo, M., Garcia-Casco, J. M., Karolyi, D., Kušec, G., Martins, J. M., Mercat, M., Pugliese, C., Quintanilla, R., Radović, Č., Razmaite, V., Ribani, A., Raquet, J., Savić, R., Schiavo, G., Škrlep, M., Tinarelli, S., Usai, G., Zimmer, C., Fontanesi, L.,& Bozzi, R.. (2022). Admixture and breed traceability in European indigenous pig breeds and wild boar using genome‑wide SNP data. in Scientifc Reports
Nature Portfolio., 12(7146).
https://doi.org/https://doi.org/10.1038/s41598-022-10698-8

Dadousis C, Munoz M, Ovilo C, Fabbri MC, Araujo JP, Bovo S, Čandek Potokar M, Charneca R, Crovetti A, Gallo M, Garcia-Casco JM, Karolyi D, Kušec G, Martins JM, Mercat M, Pugliese C, Quintanilla R, Radović Č, Razmaite V, Ribani A, Raquet J, Savić R, Schiavo G, Škrlep M, Tinarelli S, Usai G, Zimmer C, Fontanesi L, Bozzi R. Admixture and breed traceability in European indigenous pig breeds and wild boar using genome‑wide SNP data. in Scientifc Reports. 2022;12(7146).
doi:https://doi.org/10.1038/s41598-022-10698-8 .

Dadousis, Christos, Munoz, Maria, Ovilo, Cristina, Fabbri, Maria Chiara, Araujo, Jose Pedro, Bovo, Samuele, Čandek Potokar, Marjeta, Charneca, Rui, Crovetti, Alessandro, Gallo, Maurizio, Garcia-Casco, Juan Maria, Karolyi, Danijel, Kušec, Goran, Martins, Jose Manuel, Mercat, Marie-Jose, Pugliese, Carolina, Quintanilla, Raquel, Radović, Čedomir, Razmaite, Violeta, Ribani, Anisa, Raquet, Juliet, Savić, Radomir, Schiavo, Giuseppina, Škrlep, Martin, Tinarelli, Silvia, Usai, Graziano, Zimmer, Christoph, Fontanesi, Luca, Bozzi, Riccardo, "Admixture and breed traceability in European indigenous pig breeds and wild boar using genome‑wide SNP data" in Scientifc Reports, 12, no. 7146 (2022),
https://doi.org/https://doi.org/10.1038/s41598-022-10698-8 . .

TY  - JOUR
AU  - Schiavo, Giussepina
AU  - Bovo, Samuele
AU  - Munoz, Maria
AU  - Ribani, Anisa
AU  - Alves, Estefania
AU  - Araujo, Jose P.
AU  - Bozzi, Riccardo
AU  - Čandek-Potokar, Marjeta
AU  - Charneca, Rui
AU  - Fernandez, Ana I.
AU  - Gallo, Maurizio
AU  - Garcia, Fabian
AU  - Karolyi, Danijel
AU  - Kušec, Goran
AU  - Martins, Jose Manuel
AU  - Mercat, Marie-Jose
AU  - Nunez, Yolanda
AU  - Quintanilla, Raquel
AU  - Radović, Čedomir
AU  - Razmaite, Violeta
AU  - Riquet, Juliette
AU  - Savić, Radomir
AU  - Usai, Graziano
AU  - Utzeri, Valerio J.
AU  - Zimmer, Christoph
AU  - Ovilo, Cristina
AU  - Fontanesi, Luca
PY  - 2021-04
UR  - http://r.istocar.bg.ac.rs/handle/123456789/925
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 common ROHs within the same population define ROH islands and indicate hotspots of
selection. In this work, we investigated ROHs in a total of 1131 pigs from 20 European local pig
breeds and in three cosmopolitan breeds, genotyped with the GGP Porcine HD Genomic 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 the
investigated pig breeds and provided information to manage these pig genetic resources.
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
VL  - 52
SP  - 155
EP  - 170
DO  - 10.1111/age.13045
ER  - 

@article{
author = "Schiavo, Giussepina and Bovo, Samuele and Munoz, Maria and Ribani, Anisa and Alves, Estefania and Araujo, Jose P. and Bozzi, Riccardo and Čandek-Potokar, Marjeta and Charneca, Rui and Fernandez, Ana I. and Gallo, Maurizio and Garcia, Fabian and Karolyi, Danijel and Kušec, Goran and Martins, Jose Manuel and Mercat, Marie-Jose and Nunez, Yolanda and Quintanilla, Raquel and Radović, Čedomir and Razmaite, Violeta and Riquet, Juliette and Savić, Radomir and Usai, Graziano and Utzeri, Valerio J. and Zimmer, Christoph and Ovilo, Cristina and Fontanesi, Luca",
year = "2021-04",
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 common ROHs within the same population define ROH islands and indicate hotspots of
selection. In this work, we investigated ROHs in a total of 1131 pigs from 20 European local pig
breeds and in three cosmopolitan breeds, genotyped with the GGP Porcine HD Genomic 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 the
investigated pig breeds and provided information to manage these pig genetic resources.",
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",
volume = "52",
pages = "155-170",
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., Nunez, Y., Quintanilla, R., Radović, Č., Razmaite, V., Riquet, J., Savić, R., Usai, G., Utzeri, V. J., Zimmer, C., Ovilo, C.,& Fontanesi, L.. (2021-04). 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., 52, 155-170.
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 Č, 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;52:155-170.
doi:10.1111/age.13045 .

Schiavo, Giussepina, Bovo, Samuele, Munoz, Maria, Ribani, Anisa, Alves, Estefania, Araujo, Jose P., Bozzi, Riccardo, Čandek-Potokar, Marjeta, Charneca, Rui, Fernandez, Ana I., Gallo, Maurizio, Garcia, Fabian, Karolyi, Danijel, Kušec, Goran, Martins, Jose Manuel, Mercat, Marie-Jose, Nunez, Yolanda, Quintanilla, Raquel, Radović, Čedomir, Razmaite, Violeta, Riquet, Juliette, Savić, Radomir, Usai, Graziano, Utzeri, Valerio J., Zimmer, Christoph, Ovilo, Cristina, Fontanesi, Luca, "Runs of homozygosity provide a genome landscape picture of inbreeding and genetic history of European autochthonous and commercial pig breeds" in Animal Genetics, 52 (2021-04):155-170,
https://doi.org/10.1111/age.13045 . .

TY  - JOUR
AU  - Bovo, Samuele
AU  - Ribani, Anisa
AU  - Munoz, Maria
AU  - Alves, Estefania
AU  - Araujo, Jose P.
AU  - Bozzi, Riccardo
AU  - Čandek-Potokar, Marjeta
AU  - Charneca, Rui
AU  - Di Palma, Federica
AU  - Etherington, Graham
AU  - Fernandez, Ana I.
AU  - Garcia, Fabian
AU  - Garcia-Casco, Juan
AU  - Karolyi, Danijel
AU  - Gallo, Maurizio
AU  - Margeta, Vladimir
AU  - Martins, Jose Manuel
AU  - Mercat, Marie J.
AU  - Moscatelli, Giulia
AU  - Nunaz, Yolanda
AU  - Quintailla, Raquel
AU  - Radović, Čedomir
AU  - Razmaite, Violeta
AU  - Riquet, Juliette
AU  - Savić, Radomir
AU  - Schiavo, Giuseppina
AU  - Usai, Graziano
AU  - Utzeri, Valerio J.
AU  - Zimmer, Christoph
AU  - Ovilo, Cristina
AU  - Fontanesi, Luca
PY  - 2020
UR  - http://r.istocar.bg.ac.rs/handle/123456789/718
AB  - Background: Natural and artificial directional selection in cosmopolitan and autochthonous pig breeds and wild boars have shaped their genomes and resulted in a reservoir of animal genetic diversity. Signatures of selection are the result of these selection events that have contributed to the adaptation of breeds to different environments and production systems. In this study, we analysed the genome variability of 19 European autochthonous pig breeds (Alentejana, Bísara, Majorcan Black, Basque, Gascon, Apulo‑Calabrese, Casertana, Cinta Senese, Mora Romagnola, Nero Siciliano, Sarda, Krškopolje pig, Black Slavonian, Turopolje, Moravka, Swallow‑Bellied Mangalitsa, Schwäbisch‑Hällisches Schwein, Lithuanian indigenous wattle and Lithuanian White old type) from nine countries, three European commercial breeds (Italian Large White, Italian Landrace and Italian Duroc), and European wild boars, by mining whole‑genome sequencing data obtained by using a DNA‑pool sequencing approach. Signatures of selection were identified by using a single‑breed approach with two statistics [within‑breed pooled heterozygosity (HP) and fixation index (FST)] and group‑based FST approaches, which compare groups of breeds defined according to external traits and use/specialization/type. Results: We detected more than 22 million single nucleotide polymorphisms (SNPs) across the 23 compared populations and identified 359 chromosome regions showing signatures of selection. These regions harbour genes that are already known or new genes that are under selection and relevant for the domestication process in this species, and that affect several morphological and physiological traits (e.g. coat colours and patterns, body size, number of vertebrae and teats, ear size and conformation, reproductive traits, growth and fat deposition traits). Wild boar related signatures of selection were detected across all the genome of several autochthonous breeds, which suggests that crossbreeding (accidental or deliberate) occurred with wild boars.
Conclusions: Our findings provide a catalogue of genetic variants of many European pig populations and identify genome regions that can explain, at least in part, the phenotypic diversity of these genetic resources.
PB  - BMC Publishing
T2  - Genetics Selection Evolution
T1  - Whole-genome sequencing of European autochthonous and commercial pig breeds allows the detection of signatures of selection for adaptation of genetic resources to different breeding and production systems
VL  - 52
IS  - 33
DO  - doi.org/10.1186/s12711-020-00553-7
ER  - 

@article{
author = "Bovo, Samuele and Ribani, Anisa and Munoz, Maria and Alves, Estefania and Araujo, Jose P. and Bozzi, Riccardo and Čandek-Potokar, Marjeta and Charneca, Rui and Di Palma, Federica and Etherington, Graham and Fernandez, Ana I. and Garcia, Fabian and Garcia-Casco, Juan and Karolyi, Danijel and Gallo, Maurizio and Margeta, Vladimir and Martins, Jose Manuel and Mercat, Marie J. and Moscatelli, Giulia and Nunaz, Yolanda and Quintailla, Raquel and Radović, Čedomir and Razmaite, Violeta and Riquet, Juliette and Savić, Radomir and Schiavo, Giuseppina and Usai, Graziano and Utzeri, Valerio J. and Zimmer, Christoph and Ovilo, Cristina and Fontanesi, Luca",
year = "2020",
abstract = "Background: Natural and artificial directional selection in cosmopolitan and autochthonous pig breeds and wild boars have shaped their genomes and resulted in a reservoir of animal genetic diversity. Signatures of selection are the result of these selection events that have contributed to the adaptation of breeds to different environments and production systems. In this study, we analysed the genome variability of 19 European autochthonous pig breeds (Alentejana, Bísara, Majorcan Black, Basque, Gascon, Apulo‑Calabrese, Casertana, Cinta Senese, Mora Romagnola, Nero Siciliano, Sarda, Krškopolje pig, Black Slavonian, Turopolje, Moravka, Swallow‑Bellied Mangalitsa, Schwäbisch‑Hällisches Schwein, Lithuanian indigenous wattle and Lithuanian White old type) from nine countries, three European commercial breeds (Italian Large White, Italian Landrace and Italian Duroc), and European wild boars, by mining whole‑genome sequencing data obtained by using a DNA‑pool sequencing approach. Signatures of selection were identified by using a single‑breed approach with two statistics [within‑breed pooled heterozygosity (HP) and fixation index (FST)] and group‑based FST approaches, which compare groups of breeds defined according to external traits and use/specialization/type. Results: We detected more than 22 million single nucleotide polymorphisms (SNPs) across the 23 compared populations and identified 359 chromosome regions showing signatures of selection. These regions harbour genes that are already known or new genes that are under selection and relevant for the domestication process in this species, and that affect several morphological and physiological traits (e.g. coat colours and patterns, body size, number of vertebrae and teats, ear size and conformation, reproductive traits, growth and fat deposition traits). Wild boar related signatures of selection were detected across all the genome of several autochthonous breeds, which suggests that crossbreeding (accidental or deliberate) occurred with wild boars.
Conclusions: Our findings provide a catalogue of genetic variants of many European pig populations and identify genome regions that can explain, at least in part, the phenotypic diversity of these genetic resources.",
publisher = "BMC Publishing",
journal = "Genetics Selection Evolution",
title = "Whole-genome sequencing of European autochthonous and commercial pig breeds allows the detection of signatures of selection for adaptation of genetic resources to different breeding and production systems",
volume = "52",
number = "33",
doi = "doi.org/10.1186/s12711-020-00553-7"
}

Bovo, S., Ribani, A., Munoz, M., Alves, E., Araujo, J. P., Bozzi, R., Čandek-Potokar, M., Charneca, R., Di Palma, F., Etherington, G., Fernandez, A. I., Garcia, F., Garcia-Casco, J., Karolyi, D., Gallo, M., Margeta, V., Martins, J. M., Mercat, M. J., Moscatelli, G., Nunaz, Y., Quintailla, R., Radović, Č., Razmaite, V., Riquet, J., Savić, R., Schiavo, G., Usai, G., Utzeri, V. J., Zimmer, C., Ovilo, C.,& Fontanesi, L.. (2020). Whole-genome sequencing of European autochthonous and commercial pig breeds allows the detection of signatures of selection for adaptation of genetic resources to different breeding and production systems. in Genetics Selection Evolution
BMC Publishing., 52(33).
https://doi.org/doi.org/10.1186/s12711-020-00553-7

Bovo S, Ribani A, Munoz M, Alves E, Araujo JP, Bozzi R, Čandek-Potokar M, Charneca R, Di Palma F, Etherington G, Fernandez AI, Garcia F, Garcia-Casco J, Karolyi D, Gallo M, Margeta V, Martins JM, Mercat MJ, Moscatelli G, Nunaz Y, Quintailla R, Radović Č, Razmaite V, Riquet J, Savić R, Schiavo G, Usai G, Utzeri VJ, Zimmer C, Ovilo C, Fontanesi L. Whole-genome sequencing of European autochthonous and commercial pig breeds allows the detection of signatures of selection for adaptation of genetic resources to different breeding and production systems. in Genetics Selection Evolution. 2020;52(33).
doi:doi.org/10.1186/s12711-020-00553-7 .

Bovo, Samuele, Ribani, Anisa, Munoz, Maria, Alves, Estefania, Araujo, Jose P., Bozzi, Riccardo, Čandek-Potokar, Marjeta, Charneca, Rui, Di Palma, Federica, Etherington, Graham, Fernandez, Ana I., Garcia, Fabian, Garcia-Casco, Juan, Karolyi, Danijel, Gallo, Maurizio, Margeta, Vladimir, Martins, Jose Manuel, Mercat, Marie J., Moscatelli, Giulia, Nunaz, Yolanda, Quintailla, Raquel, Radović, Čedomir, Razmaite, Violeta, Riquet, Juliette, Savić, Radomir, Schiavo, Giuseppina, Usai, Graziano, Utzeri, Valerio J., Zimmer, Christoph, Ovilo, Cristina, Fontanesi, Luca, "Whole-genome sequencing of European autochthonous and commercial pig breeds allows the detection of signatures of selection for adaptation of genetic resources to different breeding and production systems" in Genetics Selection Evolution, 52, no. 33 (2020),
https://doi.org/doi.org/10.1186/s12711-020-00553-7 . .

TY  - JOUR
AU  - Brossard, Ludovic
AU  - Nieto, Rosa
AU  - Charneca, Rui
AU  - Araujo, José Pedro
AU  - Pugliese, Carolina
AU  - Radović, Čedomir
AU  - Čandek-Potokar, Marjeta
PY  - 2019
UR  - http://r.istocar.bg.ac.rs/handle/123456789/644
AB  - Models such as InraPorc enable the growth of pigs to be simulated and their nutrient
requirements to be determined. However, so far, these models have not been applied to local breeds.
We used InraPorc to determine the nutrient requirements of growing pigs from local breeds (H2020
European Union project TREASURE). Data on feed composition, allowance and intake, and body
weight (BW) were obtained from literature reports or experiments conducted within the project. Data
were used in InraPorc to calibrate 16 growth and intake profiles from nine breeds (Alentejana, Basque,
Bísara, Apulo Calabrese, Cinta Senese, Iberian, Krškopolje pig, Mangalitsa, and Moravka), with one
to three profiles per breed depending on the experimental conditions or data source. On the 40–100 kg
BW range, mean protein deposition (PDm) was low for all breeds (below 116 g/d vs. over 130 g/d
in conventional breeds). The age of pigs at 40 kg BW (110 to 206 days) denoted different types of
feeding management in addition to genetic differences. The PDm and the lysine requirements were
the highest in breeds with the highest average daily gain. In all breeds, a small proportion of total
body energy retention was dedicated to protein, with the greatest proportion of energy retention in
the form of lipids. Despite some methodological limitations, this study provides initial insights into
the nutrient requirements of some local breeds.
PB  - MDPI Open Access Journals
T2  - Animals
T1  - Modelling Nutritional Requirements of Growing Pigs from Local Breeds Using InraPorc
IS  - 169
SP  - 169
DO  - doi.org/10.3390/ani9040169
ER  - 

@article{
author = "Brossard, Ludovic and Nieto, Rosa and Charneca, Rui and Araujo, José Pedro and Pugliese, Carolina and Radović, Čedomir and Čandek-Potokar, Marjeta",
year = "2019",
abstract = "Models such as InraPorc enable the growth of pigs to be simulated and their nutrient
requirements to be determined. However, so far, these models have not been applied to local breeds.
We used InraPorc to determine the nutrient requirements of growing pigs from local breeds (H2020
European Union project TREASURE). Data on feed composition, allowance and intake, and body
weight (BW) were obtained from literature reports or experiments conducted within the project. Data
were used in InraPorc to calibrate 16 growth and intake profiles from nine breeds (Alentejana, Basque,
Bísara, Apulo Calabrese, Cinta Senese, Iberian, Krškopolje pig, Mangalitsa, and Moravka), with one
to three profiles per breed depending on the experimental conditions or data source. On the 40–100 kg
BW range, mean protein deposition (PDm) was low for all breeds (below 116 g/d vs. over 130 g/d
in conventional breeds). The age of pigs at 40 kg BW (110 to 206 days) denoted different types of
feeding management in addition to genetic differences. The PDm and the lysine requirements were
the highest in breeds with the highest average daily gain. In all breeds, a small proportion of total
body energy retention was dedicated to protein, with the greatest proportion of energy retention in
the form of lipids. Despite some methodological limitations, this study provides initial insights into
the nutrient requirements of some local breeds.",
publisher = "MDPI Open Access Journals",
journal = "Animals",
title = "Modelling Nutritional Requirements of Growing Pigs from Local Breeds Using InraPorc",
number = "169",
pages = "169",
doi = "doi.org/10.3390/ani9040169"
}

Brossard, L., Nieto, R., Charneca, R., Araujo, J. P., Pugliese, C., Radović, Č.,& Čandek-Potokar, M.. (2019). Modelling Nutritional Requirements of Growing Pigs from Local Breeds Using InraPorc. in Animals
MDPI Open Access Journals.(169), 169.
https://doi.org/doi.org/10.3390/ani9040169

Brossard L, Nieto R, Charneca R, Araujo JP, Pugliese C, Radović Č, Čandek-Potokar M. Modelling Nutritional Requirements of Growing Pigs from Local Breeds Using InraPorc. in Animals. 2019;(169):169.
doi:doi.org/10.3390/ani9040169 .

Brossard, Ludovic, Nieto, Rosa, Charneca, Rui, Araujo, José Pedro, Pugliese, Carolina, Radović, Čedomir, Čandek-Potokar, Marjeta, "Modelling Nutritional Requirements of Growing Pigs from Local Breeds Using InraPorc" in Animals, no. 169 (2019):169,
https://doi.org/doi.org/10.3390/ani9040169 . .

TY  - CONF
AU  - Óvilo, Cristina
AU  - Bozzi, Riccardo
AU  - García, F.
AU  - Nuñez, Yolanda
AU  - Geraci, Claudia
AU  - Crovetti, Alessandro
AU  - Garcia Casco, Juan Maria
AU  - Alves, Estefânia
AU  - Škrlep, Martin
AU  - Charneca, Rui
AU  - Quintanilla, Raquel
AU  - Kušec, Goran
AU  - Riquet, Juliette
AU  - Mercat, Marie-José
AU  - Zimmer, Christoph
AU  - Razmaitė, Violeta
AU  - Araujo, José Pedro
AU  - Radović, Čedomir
AU  - Savić, Radomir
AU  - Čandek-Potokar, Marjeta
AU  - Fontanesi, Luca
AU  - Fernández, Ana
AU  - Muñoz, Maria
PY  - 2017
UR  - https://zenodo.org/record/1135160
UR  - http://epserbia.open.ac.rs/123456789/196
UR  - http://r.istocar.bg.ac.rs/handle/123456789/572
AB  - In the frame of the European TREASURE* project, the genetic characterization of 20 local pig breeds is being performed with genetic and genomic tools. The objectives are the study of genetic diversity in these populations and the identification of useful markers for authentication, traceability, conservation and breeding programs. In first place, a candidate gene approach has been applied and the most relevant genes and mutations associated with pig productive, meat quality, reproductive and disease resistance traits have  been prioritized and analyzed. Two OpenArray® chips of 32 and 16 SNPs were designed and genotyped in 48 animals from each one of 20 breeds included in the project (Alentejana, Apulo Calabrese, Basque, Bísaro, Black Majorcan, Black Sicilian, Black Slavonian, Casertana, Cinta Senese, Gascon, Iberian, Krskopolje, Lithuanian indigenous wattle, Mangalitsa, Mora Romagnola, Moravka, Old Lithuanian White, Sarda, Schwäbisch Hällisches, Turopolje). Forty SNPs located in 34 genes were successfully genotyped (MC1R, TYRP1, NR6A, PCK1, RYR1, IGF2, MC4R, PHKG1, SCD, GBP5, TAS2R39, TAS2R4, MUC4, ESR1, CYP2E1, LEP, CAST, MTTP, CYB5A, FTO, PPARGC1A, CAPN1, PPARD, CTSL, LEPR, PRKAG3, ACACA, KIT, ACSL4, ADIPOQ, FASN, AHR, FUT1, MSTN). Results provide relevant information regarding genetic diversity and segregation of SNPs responsible for specific production and quality traits. Coat color and morphological trait-genes, showing low level of segregation, and fixed SNPs may be useful for traceability. On the other hand, we detected SNPs which may be useful for breeding programs. For instance, we observed predominance of unfavorable alleles for disease resistance and boar taint genes in most breeds, and segregation of many genes involved in meat quality, fatness and growth. These results joint with ongoing genomic assays, will provide essential information regarding genetic diversity, structure, selective signatures and biological processes responsible for specific production and quality traits.
PB  - Badajoz : CICYTEX
C3  - Book of Abstracts of the 4th Fatty Pig Science and Utilization International Conference
T1  - Diversity across Major and Candidate Genes in European Local Pig Breeds
SP  - 51
EP  - 52
DO  - 10.5281/zenodo.1135160
ER  - 

@conference{
author = "Óvilo, Cristina and Bozzi, Riccardo and García, F. and Nuñez, Yolanda and Geraci, Claudia and Crovetti, Alessandro and Garcia Casco, Juan Maria and Alves, Estefânia and Škrlep, Martin and Charneca, Rui and Quintanilla, Raquel and Kušec, Goran and Riquet, Juliette and Mercat, Marie-José and Zimmer, Christoph and Razmaitė, Violeta and Araujo, José Pedro and Radović, Čedomir and Savić, Radomir and Čandek-Potokar, Marjeta and Fontanesi, Luca and Fernández, Ana and Muñoz, Maria",
year = "2017",
abstract = "In the frame of the European TREASURE* project, the genetic characterization of 20 local pig breeds is being performed with genetic and genomic tools. The objectives are the study of genetic diversity in these populations and the identification of useful markers for authentication, traceability, conservation and breeding programs. In first place, a candidate gene approach has been applied and the most relevant genes and mutations associated with pig productive, meat quality, reproductive and disease resistance traits have  been prioritized and analyzed. Two OpenArray® chips of 32 and 16 SNPs were designed and genotyped in 48 animals from each one of 20 breeds included in the project (Alentejana, Apulo Calabrese, Basque, Bísaro, Black Majorcan, Black Sicilian, Black Slavonian, Casertana, Cinta Senese, Gascon, Iberian, Krskopolje, Lithuanian indigenous wattle, Mangalitsa, Mora Romagnola, Moravka, Old Lithuanian White, Sarda, Schwäbisch Hällisches, Turopolje). Forty SNPs located in 34 genes were successfully genotyped (MC1R, TYRP1, NR6A, PCK1, RYR1, IGF2, MC4R, PHKG1, SCD, GBP5, TAS2R39, TAS2R4, MUC4, ESR1, CYP2E1, LEP, CAST, MTTP, CYB5A, FTO, PPARGC1A, CAPN1, PPARD, CTSL, LEPR, PRKAG3, ACACA, KIT, ACSL4, ADIPOQ, FASN, AHR, FUT1, MSTN). Results provide relevant information regarding genetic diversity and segregation of SNPs responsible for specific production and quality traits. Coat color and morphological trait-genes, showing low level of segregation, and fixed SNPs may be useful for traceability. On the other hand, we detected SNPs which may be useful for breeding programs. For instance, we observed predominance of unfavorable alleles for disease resistance and boar taint genes in most breeds, and segregation of many genes involved in meat quality, fatness and growth. These results joint with ongoing genomic assays, will provide essential information regarding genetic diversity, structure, selective signatures and biological processes responsible for specific production and quality traits.",
publisher = "Badajoz : CICYTEX",
journal = "Book of Abstracts of the 4th Fatty Pig Science and Utilization International Conference",
title = "Diversity across Major and Candidate Genes in European Local Pig Breeds",
pages = "51-52",
doi = "10.5281/zenodo.1135160"
}

Óvilo, C., Bozzi, R., García, F., Nuñez, Y., Geraci, C., Crovetti, A., Garcia Casco, J. M., Alves, E., Škrlep, M., Charneca, R., Quintanilla, R., Kušec, G., Riquet, J., Mercat, M., Zimmer, C., Razmaitė, V., Araujo, J. P., Radović, Č., Savić, R., Čandek-Potokar, M., Fontanesi, L., Fernández, A.,& Muñoz, M.. (2017). Diversity across Major and Candidate Genes in European Local Pig Breeds. in Book of Abstracts of the 4th Fatty Pig Science and Utilization International Conference
Badajoz : CICYTEX., 51-52.
https://doi.org/10.5281/zenodo.1135160

Óvilo C, Bozzi R, García F, Nuñez Y, Geraci C, Crovetti A, Garcia Casco JM, Alves E, Škrlep M, Charneca R, Quintanilla R, Kušec G, Riquet J, Mercat M, Zimmer C, Razmaitė V, Araujo JP, Radović Č, Savić R, Čandek-Potokar M, Fontanesi L, Fernández A, Muñoz M. Diversity across Major and Candidate Genes in European Local Pig Breeds. in Book of Abstracts of the 4th Fatty Pig Science and Utilization International Conference. 2017;:51-52.
doi:10.5281/zenodo.1135160 .

Óvilo, Cristina, Bozzi, Riccardo, García, F., Nuñez, Yolanda, Geraci, Claudia, Crovetti, Alessandro, Garcia Casco, Juan Maria, Alves, Estefânia, Škrlep, Martin, Charneca, Rui, Quintanilla, Raquel, Kušec, Goran, Riquet, Juliette, Mercat, Marie-José, Zimmer, Christoph, Razmaitė, Violeta, Araujo, José Pedro, Radović, Čedomir, Savić, Radomir, Čandek-Potokar, Marjeta, Fontanesi, Luca, Fernández, Ana, Muñoz, Maria, "Diversity across Major and Candidate Genes in European Local Pig Breeds" in Book of Abstracts of the 4th Fatty Pig Science and Utilization International Conference (2017):51-52,
https://doi.org/10.5281/zenodo.1135160 . .