Invited review: Genetics and genomics of pigmentation variability in pigs: a review

Fontanesi, Luca

doi:10.1016/j.livsci.2022.105079

Cited by 6 publications

(33 citation statements)

References 157 publications

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“…This problem could also have implications for the possibility of authenticating the meat coming from these breeds and therefore using these tools to monitor the breed-branded value chains and protect them against the problems of frauds. In these cases, other strategies have been proposed, for example, a breed-specific phenotype, the belted coat colour, associated with a marker in the KIT gene, has been used to link all Cinta Senese pigs registered to their herd book to a DNA based authentication system of Cinta Senese meat derived only by this marker (Fontanesi et al, 2016(Fontanesi et al, , 2022.…”

Section: Discussionmentioning

confidence: 99%

Identification of population‐informative markers from high‐density genotyping data through combined feature selection and machine learning algorithms: Application to European autochthonous and cosmopolitan pig breeds

Schiavo,

Bertolini,

Bovo

et al. 2024

Animal Genetics

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Large genotyping datasets, obtained from high‐density single nucleotide polymorphism (SNP) arrays, developed for different livestock species, can be used to describe and differentiate breeds or populations. To identify the most discriminating genetic markers among thousands of genotyped SNPs, a few statistical approaches have been proposed. In this study, we applied the Boruta algorithm, a wrapper of the machine learning random forest algorithm, on a database of 23 European pig breeds (20 autochthonous and three cosmopolitan breeds) genotyped with a 70k SNP chip, to pre‐select informative SNPs. To identify different sets of SNPs, these pre‐selected markers were then ranked with random forest based on their mean decrease accuracy and mean decrease gene indexes. We evaluated the efficiency of these subsets for breed classification and the usefulness of this approach to detect candidate genes affecting breed‐specific phenotypes and relevant production traits that might differ among breeds. The lowest overall classification error (2.3%) was reached with a subpanel including only 398 SNPs (ranked based on their mean decrease accuracy), with no classification error in seven breeds using up to 49 SNPs. Several SNPs of these selected subpanels were in genomic regions in which previous studies had identified signatures of selection or genes associated with morphological or production traits that distinguish the analysed breeds. Therefore, even if these approaches have not been originally designed to identify signatures of selection, the obtained results showed that they could potentially be useful for this purpose.

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Section: Discussionmentioning

confidence: 99%

Identification of population‐informative markers from high‐density genotyping data through combined feature selection and machine learning algorithms: Application to European autochthonous and cosmopolitan pig breeds

Schiavo,

Bertolini,

Bovo

et al. 2024

Animal Genetics

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“…Morphologically, as the French name suggests, it is characterised by a piebald black and white coat pattern, with a black head and rump, convex back, and large fat ears hanging over its eyes. According to FAO-DAD-IS, its coat is black with a white saddle or with a white belt in other studies [6,7].…”

Section: Francementioning

confidence: 99%

“…It is described as having a white trunk, with a head and rump covered with two black patches. FAO-DAD-IS describes it as black with a white saddle, while elsewhere, it is listed as the belted breed [6,7]. These pigs are known for their slow growth rate but are described as very rustic and well adapted to a wide range of conditions; pigs are slaughtered at 16-18 months old with a weight of 160 kg [15].…”

Section: Francementioning

confidence: 99%

“…According to FAO-DAD-IS, there are five German pig breeds with a belted coat pattern: Angler Sattelschwein, Deutsches Sattelschwein, Rotbuntes Husumer Schwein, Rassegruppe Der Sattelschweine, Schwäbisch Hällisches Schwein. Other authors list three additional German breeds: Hannover-Braunschweig, Bavarian Landschwein, and Deutches Weideschwein [6,14].…”

Section: Germanymentioning

confidence: 99%

“…In general, many breeds show different widths, shapes, and positions of the belt and could be misidentified with the TEB coat pattern; animals reveal a black head and hip on a white background, resembling an alteration or an extension of the belted pattern. Here, we discuss only the genes related to the piebald pattern phenotype, but the literature offers complete references to all the genes behind pigmentation in pigs [3,6].…”

Section: Introductionmentioning

confidence: 99%

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Genetic and Phenotypic Characteristics of Belted Pig Breeds: A Review

Giovannini,

Strillacci,

Bagnato

et al. 2023

Animals

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Belted pig breeds have unique, distinguishing phenotypic characteristics. This review summarises the current knowledge on pig breeds displaying a belted coat pattern. Belts of different widths and positions around the animal’s trunk characterise specific pig breeds from all around the world. All the breeds included in the present paper have been searched through the FAO domestic animal diversity information system (DAD-IS), Every country was checked to identify all breeds described as having black or red piebald coat pattern variations. Advances in genomic technologies have made it possible to identify the specific genes and genetic markers associated with the belted phenotype and explore the genetic relationships between different local breeds. Thus, the origin, history, and production traits of these breeds, together with all the genomic information related to the mechanism of skin pigmentation, are discussed. By increasing our understanding of these breeds, we can appreciate the richness of our biological and cultural heritage and work to preserve the biodiversity of the world’s animals.

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Efficient generation of cloned cats with altered coat colour by editing of the KIT gene

Zhang,

Xu,

Yang

et al. 2024

Theriogenology

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Invited review: Genetics and genomics of pigmentation variability in pigs: a review

Cited by 6 publications

References 157 publications

Identification of population‐informative markers from high‐density genotyping data through combined feature selection and machine learning algorithms: Application to European autochthonous and cosmopolitan pig breeds

Identification of population‐informative markers from high‐density genotyping data through combined feature selection and machine learning algorithms: Application to European autochthonous and cosmopolitan pig breeds

Genetic and Phenotypic Characteristics of Belted Pig Breeds: A Review

Efficient generation of cloned cats with altered coat colour by editing of the KIT gene

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