76 results on '"D., Matassino"'
Search Results
2. An application of the integrative method for extending part lactation milk record in Mediterranean Italian buffalo reared in Caserta province
- Author
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D. Matassino, L. Zicarelli, C. M.A. Barone, and A. Zullo
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Mediterranean Italian buffalo, Milk record, Extending lactation ,Animal culture ,SF1-1100 - Abstract
This study was performed on 21,622 lactation of Mediterranean Italian dairy buffalo recorded by AIA with ICAR standard from 1992 to 1996 in Caserta province. The extending of lactation was performed using integrative methods (Pilla et al., 1979), taking into account the effect of lactation number per day, calving order and month of calving. The results showed that the obtained coefficient was able to extending the lactation at 270 days with good approximation also beginning from a part –lactation of 90 days. In this case, the correlation coefficient between real and estimate milk yield varied from 0.91 to 0.93 in the considered groups. Moreover, the percentage of difference between real and estimated average milk yield is not over 5%.
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- 2010
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3. Semen kinetics at collection. 1. note: comparison among cattle autochthonous genetic types (tga)
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N. Castellano, M. Grasso, G. Gigante, D. Falasca, and D. Matassino
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Animal culture ,SF1-1100 - Published
- 2010
- Full Text
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4. Local sheep breeds from peninsular Southern Italy: breeding and demography
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A. Sevi, D. Matassino, A. Rando, F. Cecchi, D. Cianci, and R. Ciampolini
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Animal culture ,SF1-1100 - Published
- 2010
- Full Text
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5. Genotyping of H-FABP loci in two pig ancient autochthonous genetic types: Calabrese and Casertana
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C.M.A. Barone, L. Ricciardi, M. Occidente, C. Incoronato, N. Castellano, and D. Matassino
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Animal culture ,SF1-1100 - Published
- 2010
- Full Text
- View/download PDF
6. Effect of cryoconservation times on semen kinetics. 3. note: comparison among cattle autochthonous genetic types
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N. Castellano, M. Grasso, G. Gigante, and D. Matassino
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Animal culture ,SF1-1100 - Published
- 2010
- Full Text
- View/download PDF
7. Proteomic characterization of electrically stimulated and aged meat of heavy kids
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C.M.A. Barone, A. Di Luccia, A. Zullo, F. Inglese, D. Consolante, and D. Matassino
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Animal culture ,SF1-1100 - Published
- 2010
- Full Text
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8. Proteomic approach to the study of proteolisys in Podolian Caciocavallo cheese. Preliminary results
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G. Serluca, F. Inglese, G. Gigante, D. Matassino, and A. Di Luccia
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Animal culture ,SF1-1100 - Published
- 2010
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9. Genetic characterization of Calabrese and Casertana pig ancient autochthonous genetic types (AAGT) at CRC locus
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C.M.A. Barone, L. Ricciardi, M. Occidente, C. Incoronato, N. Castellano, and D. Matassino
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Animal culture ,SF1-1100 - Published
- 2010
- Full Text
- View/download PDF
10. Semen kinetics after cryoconservation. 2. note: comparison among cattle autochthonous genetic types
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M. Grasso, G. Gigante, D. Matassino, and N. Castellano
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Animal culture ,SF1-1100 - Published
- 2010
- Full Text
- View/download PDF
11. Genetic type, sex, age at slaughter and feeding system effects on carcass and cut composition in lambs
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P. Colatruglio, C.M.A. Barone, D. Matassino, A. Zullo, Antonio Girolami, Barone, CARMELA MARIA ASSUNTA, Colatruglio, Pasquale, Girolami, A, Matassino, D, and Zullo, Antonio
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Veterinary medicine ,Ile de france ,General Veterinary ,Lamb ,animal diseases ,Biology ,Loin ,Crossbreed ,Animal science ,Carcass composition ,Age at slaughter ,System effects ,Animal Science and Zoology ,Artificial feeding ,Statistical analysis ,Slaughter age - Abstract
The aim of this research was to estimate the effects of grading up of Gentile di Puglia with Ile de France on carcass traits and the composition of cuts in lambs slaughtered at 35 and 54 days of age. Data was collected on 223 lambs of both sexes, single birth, belonging to the genetic types Ile de France (IF), Gentile di Puglia (GP) and the result of grading up of the latter with Ile de France rams (F1 and F2). About half of the subjects were fed with maternal milk (natural feeding) while the others were fed on a milk replacer (artificial feeding). The lambs of both groups were randomly allocated in two slaughter age subgroups: 35 and 56 days. The results of statistical analysis showed that the considered factors of variation significantly influences the weight of the carcass, the percentage of cuts and their composition. Most of the variation was due to the age and to the feeding system. The F2 lambs on average had the heaviest carcass and sides, the GP had the highest percentage of fore quarter while the IF had the highest percentage of back quarter. Furthermore F1 lambs did not show any heterotic effect compared with both parental breeds, while F2 breeds showed better performance. The carcass of the males resulted heavier than the females, with a lower percentage of dissectible fat at the neck, brisket, shoulder and leg and a higher percentage of meat in the shoulder cut. The lambs slaughtered at 35 days of age showed a higher incidence of kidney, shoulder and leg weight, while at 56 days furnished a higher percentage of kidney fat, brisket and loin weight. The artificially fed lambs furnished a lighter carcass and neck and shoulder cuts than naturally fed lambs, less kidney fat and a higher percentage of kidney, rib and loin weight. The employment of artificial feeding permitted a higher percentage of lean and less dissectible fat as well as a higher lean/bone ratio. These results show that Ile de France rams crossbreed with Gentile di Puglia determine good productive performance if the lambs derive from the F2 crossbreed and are artificially fed and slaughtered at 56 days of age.
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- 2007
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12. Protein polymorphisms and coagulation properties of Cilentana goat milk
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L. Chianese, C.M.A. Barone, M. Occidente, A. Zullo, D. Matassino, P. Colatruglio, Zullo, Antonio, Barone, CARMELA MARIA ASSUNTA, Chianese, Lina, Colatruglio, Pasquale, Occidente, M., and Matassino, D.
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Genetics ,Goat milk ,protein polymorphism ,Biology ,Total dissolved solids ,Milking ,Animal science ,Food Animals ,Coagulation ,Polymorphism (computer science) ,coagulation properties ,Genotype ,Herd ,chemical composition ,Animal Science and Zoology ,Cheesemaking ,Allele - Abstract
The study was carried out on 86 ‘Cilentana’ goats, distributed in four herds. Milk samples were collected during morning and evening milking, and pH, dry matter, fat, protein and lactose percentage as well as the lactodynamometric profile were detected to determine enzymatic phase duration, coagulation speed and curd consistency. Polymorphism of the s1-casein protein was detected. Four alleles (designated A, B, E and F) and nine genotypes were detected. The association of these nine genotypes with chemical composition and lactodynamometric characteristics was investigated. The BF genotype was the most frequent (35.5 %), followed by EE (15.1 %) and AF and BB (10.4%). The F allele showed the highest frequency and it negatively influenced cheesemaking as it was associated with a low s1-casein content. Goats with the AB genotype produced milk with higher dry matter, protein and fat content compared with the FF genotype. Moreover, milk from the AB genotype has a lower enzymatic phase duration and a higher coagulation speed than the BB genotype. Curd consistency is higher for milk from the AA genotype, when compared with the EF genotype. All the chemical and lactodynamometric characteristics varied with herd and months of control; furthermore, the milk obtained from morning milking showed better coagulation properties.
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- 2005
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13. Interventi regionali a favore delle razze autoctone italiane minacciate
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F. Panella, F. Zerbini, P. Ajmone Marsan, R. Bozzi, C. Castellini, E. Ciani, P. Crepaldi, M. De Marchi, G. Gandini, M. Gualtieri, N. Macciotta, D. Marletta, D. Matassino, DAVOLI, ROBERTA, ZAMBONELLI, PAOLO, FRANCESCO PANELLA, F. Panella, F. Zerbini, P. Ajmone Marsan, R. Bozzi, C. Castellini, E. Ciani, P. Crepaldi, R. Davoli, M. De Marchi, G. Gandini, M. Gualtieri, N. Macciotta, D. Marletta, D. Matassino, and P. Zambonelli
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RAZZE AUTOCTONE ,SALVAGUARDIA ,BIODIVERSITÀ ANIMALE - Abstract
Vengono descritti gli interventi che le regioni italiane hanno intrapreso a sostegno delle razze autoctone minacciate. Gli interventi sono riportati suddivisi per specie: bovini, ovini, caprini, equini, asinini, suini, avicoli
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- 2011
14. Contributo preliminare allo sviluppo di una strategia nazionale e di un piano di azione per le risorse genetiche animali
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G. Gandini, P. Ajmone Marsan, R. Bozzi, C. Castellini, E. Ciani, P. Crepaldi, M. De Marchi, M. Gualtieri, N. Macciotta, D. Marletta, D. Matassino, F. Panella, DAVOLI, ROBERTA, ZAMBONELLI, PAOLO, FRANCESCO PANELLA, G. Gandini, P. Ajmone Marsan, R. Bozzi, C. Castellini, E. Ciani, P. Crepaldi, R. Davoli, M. De Marchi, M. Gualtieri, N. Macciotta, D. Marletta, D. Matassino, F. Panella, and P. Zambonelli
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BIODIVERSITA' ANIMALE ,RAZZE AUTOCTONE ,SALVAGUARDIA - Abstract
Vengono descritte le azioni proposte dal gruppo di lavoro ASPA sulla biodiversità animale per la salvaguardia delle risorse genetiche animali all'interno delle priorità strategiche del global plan of action.
- Published
- 2011
15. Combined use of principal component analysis and random forests identify population-informative single nucleotide polymorphisms: application in cattle breeds
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Daniela Giovanna Calo, D. Matassino, Giuliano Galimberti, Giuseppina Schiavo, Francesca Bertolini, Luca Fontanesi, Bertolini, F, Galimberti, G., Calò, D.G., Schiavo, G., Matassino, D., and Fontanesi, L.
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Linkage disequilibrium ,Population ,Allocation ,Single-nucleotide polymorphism ,Computational biology ,Biology ,Quantitative trait locus ,Polymorphism, Single Nucleotide ,Food Animals ,Bovine genome ,SNP ,Animals ,education ,Genotyping ,Genetics ,education.field_of_study ,Principal Component Analysis ,General Medicine ,Genomics ,Tag SNP ,Informative SNP ,SNP genotyping ,SNP panel ,Population assignment ,Animal Science and Zoology ,Cattle ,Algorithms - Abstract
Summary The genetic identification of the population of origin of individuals, including animals, has several practical applications in forensics, evolution, conservation genetics, breeding and authentication of animal products. Commercial high-density single nucleotide polymorphism (SNP) genotyping tools that have been recently developed in many species provide information from a large number of polymorphic sites that can be used to identify population-/breed-informative markers. In this study, starting from Illumina BovineSNP50 v1 BeadChip array genotyping data available from 3711 cattle of four breeds (2091 Italian Holstein, 738 Italian Brown, 475 Italian Simmental and 407 Marchigiana), principal component analysis (PCA) and random forests (RFs) were combined to identify informative SNP panels useful for cattle breed identification. From a PCA preselected list of 580 SNPs, RFs were computed using ranking methods (Mean Decrease in the Gini Index and Mean Accuracy Decrease) to identify the most informative 48 and 96 SNPs for breed assignment. The out-of-bag (OOB) error rate for both ranking methods and SNP densities ranged from 0.0 to 0.1% in the reference population. Application of this approach in a test population (10% of individuals pre-extracted from the whole data set) achieved 100% of correct assignment with both classifiers. Linkage disequilibrium between selected SNPs was relevant (r2 > 0.6) only in few pairs of markers indicating that most of the selected SNPs captured different fractions of variance. Several informative SNPs were in genes/QTL regions that affect or are associated with phenotypes or production traits that might differentiate the investigated breeds. The combination of PCA and RF to perform SNP selection and breed assignment can be easily implemented and is able to identify subsets of informative SNPs useful for population assignment starting from a large number of markers derived by high-throughput genotyping platforms.
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- 2014
16. Constitutive heterochromatin distribution in pig (Sus scrofa) chromosomes
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D. Matassino, M. Palazzo, G.P. Di Meo, Lino Ferrara, Angela Perucatti, and Leopoldo Iannuzzi
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Genetics ,Chromosome pair ,Autosome ,Nucleolus ,Polymorphism (computer science) ,G banding ,Constitutive heterochromatin ,Chromosome ,Biology ,General Agricultural and Biological Sciences ,Y chromosome ,Molecular biology - Abstract
Summary Constitutive heterochromatin (HC = C-banding) distribution was studied in pig (Sus 5crofa) chromosomes from 20 animals belonging to Cinta Senese and Calabrese breeds raised in southern Italy. The use of CBG-banding, sequential GBG/CBA-banding and sequential GBGA/g- NOR/CBA-banding techniques allowed more detailed characterization of C-banding patterns in pig chromosomes (SSC). The following features were noticed: (a) all autosomes and the X-chromosome showed centromeric C-positive bands; (b) the entire q-arm and proximal part of the p-arm y chromosome were C-positive: (c) clear interstitial C-positive bands were noticed in SSC1q17, SSC3p14 and SSC16q21; (d) the nucleolus organizer (NO) chromosome 10 showed two distinct HC-blocks very far apart in both arms with large, polymorphic (different size) NORs between the chromosome pair, while NO-chromosome 8 showed only one C-positive band (the smallest) in the q-arms; (e) C-band polymorphism was observed between and within chromosome pairs also in relat...
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- 1998
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17. GENETIC IMPROVEMENT AND GERMPLASM CONSERVATION FOR QUALITY
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B.M. Moioli and D. Matassino
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Germplasm ,business.industry ,media_common.quotation_subject ,Environmental resource management ,Biodiversity ,Biology ,Animal origin ,Indigenous ,Genetic Evolution ,Genetic resources ,Quality (business) ,business ,General Economics, Econometrics and Finance ,media_common - Abstract
SUMMARYBiological diversity is the main measure of genetic evolution; it links to the state of genetic polymorphism as influenced by envirornmental changes and modulates the speed of transferring genetic information. The authors concentrate in this note on the importance of the contribution of indigenous animal genetic resources when addressing the complex and economically most important problem of the intrinsic quality of products of animal origin, with special reference to regional/local specificity.
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- 1996
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18. P4025 Random forest based approaches identify breed-informative SNPs matching selection signature regions in the pig genome
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Vincenzo Russo, L. Nanni Costa, Stefania Dall'Olio, Giuliano Galimberti, Luca Fontanesi, Giuseppina Schiavo, D. Matassino, Daniela Giovanna Calo, and Francesca Bertolini
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Genetics ,Matching (statistics) ,Informative snps ,General Medicine ,Computational biology ,Biology ,Genome ,Signature (logic) ,Breed ,Random forest ,Animal Science and Zoology ,Selection (genetic algorithm) ,Food Science - Published
- 2016
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19. Cytogenetic studies in some endangered Italian cattle breeds raised in southern Italy
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2. G.P. Di Meo, A. Perucatti, V. Genualdo, A. Iannuzzi, M. Manzone, D. Matassino, D. Di Berardino, and L. Iannuzzi.
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- 2011
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20. A New and Unusual Reciprocal Translocation in Cattle: rcp(11;25)(q11;q14-21)
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Alessandra Iannuzzi, D. Di Berardino, Pietro Parma, D. Matassino, Angela Perucatti, Leopoldo Iannuzzi, V. Genualdo, G.P. Di Meo, L. De Lorenzi, Perucatti, A., Genualdo, V., Iannuzzi, A., De Lorenzi, L., Matassino, D., Parma, P., DI BERARDINO, Dino, Iannuzzi, Leopoldo, and Di Meo, G. P.
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Male ,Genetics ,Centromere ,Agerolese cattle ,Chromosomal translocation ,Biology ,Chromosomes, Mammalian ,Translocation, Genetic ,Breed ,Reciprocal Translocation ,Animals ,Female ,Cattle ,Molecular Biology ,Cells, Cultured ,Genetics (clinical) - Abstract
A new and unusual reciprocal translocation was detected in a heifer of the Agerolese cattle breed during a routine cytogenetic screening carried out on 13 animals (2 males and 11 females) kept at the ConSDABI Conservation Center in Benevento (Southern Italy). The 13 animals investigated had a normal karyotype except for a 1-year-old female, which carried one autosome smaller than the smallest normal bovine autosomes. This small autosome showed very little C-banding in comparison to the other autosomes, while another medium-sized autosome showed 2 distinct and prominent C-bands. RBA-banding and karyotype analysis revealed that these 2 chromosomes were the result of a reciprocal translocation between chromosomes 11 and 25. FISH analysis with BAC142G06 mapping to the proximal (subcentromeric) region of both BTA25 and der11, BAC513H08 (ELN) mapping to BTA25q22dist and der25, and BAC533C11 mapping to the proximal region of BTA11 and der11 confirmed the localization of the breakpoints on band q11 (centromere) of chromosome 11 and q14–21 of chromosome 25. Ag-NOR and sequential RBA/Ag-NOR techniques detected the presence of NORs on both BTA11 and BTA25 and both der11 and der25. To our knowledge, this is the first report of a reciprocal translocation event in cattle with the breakpoint located in the centromeric region.
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- 2011
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21. CONSERVATION OF ANIMAL GERMPLASM AT RISK OF EXTINCTION IN ITALY: THE CENTRE FOR THE DEFENSE OF ANIMAL GENETIC RESOURCES OF CIRCELLO
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T. Grasso, Marisa Palazzo, D. Matassino, and A. Cappuccio
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Germplasm ,Mediterranean climate ,Geography ,Extinction ,Genetic resources ,Ecology ,General Economics, Econometrics and Finance - Abstract
SUMMARYAfter a rapid review of the sociocultural aspects justifying that rare breeds be protected, of the aim of a conservation programme. and of the possible strategies, this paper describes in details the activities implemented at the National Centre for the preservation of germplasm of animals at risk of extinction, at Circello, in the south of Italy. In this centre, established on 310 ha, are presently raised 281 animals of more than 30 different breeds, among which 11 cattle breeds, 7 sheep breeds and 10 goat breeds. Activities of the centre include preservation, description, multiplication, improvement and use of the breeds at risk. Collaboration with other insttitutions within the Mediterranean region are listed.
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- 1993
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22. Criocongelamento di seme di pesci e molluschi
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SANSONE, GIOVANNI, A. FABBROCINI, S. LUBRANO LAVADERA, M. PALAZZO, S. RISPOLI, A. ZULLO, D. MATASSINO, Sansone, Giovanni, A., Fabbrocini, S., LUBRANO LAVADERA, M., Palazzo, S., Rispoli, A., Zullo, and D., Matassino
- Published
- 1998
23. Effetti dell’esposizione ai crioprotettivi di embrioni di orata (Sparus aurata)
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A. L. LANGELLOTTI, S. IEROPOLI, A. MARTELLO, P. MASULLO, M. DO ESPIRITO SANTO, M. C. OCCIDENTE, D. MATASSINO, SANSONE, GIOVANNI, Langellotti, A. L., Ieropoli, S., Martello, A., Masullo, P., DO ESPIRITO SANTO, M., Occidente, M. C., Sansone, Giovanni, and Matassino, D.
- Published
- 2003
24. Effects of extender composition, cooling and freezing rates on sea bass (Dicentrarchus labrax, L.) spermatozoa motility on thawing
- Author
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SANSONE, GIOVANNI, A. FABBROCINI, S. IEROPOLI, A. L. LANGELLOTTI, M. OCCIDENTE, D. MATASSINO, Sansone, Giovanni, Fabbrocini, A., Ieropoli, S., Langellotti, A. L., Occidente, M., and Matassino, D.
- Published
- 2002
25. Cryopreservation of sea fish gametes
- Author
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SANSONE, GIOVANNI, A. FABBROCINI, A. L. LANGELLOTTI, S. IEROPOLI, A. ZUPA, F. ILLIANO, S. RISPOLI, P. MASULLO, L. C.O.N.T.I.N.I. M. DO ESPIRITO SANTO, M. C. OCCIDENTE, D. MATASSINO, Sansone, Giovanni, Fabbrocini, A., Langellotti, A. L., Ieropoli, S., Zupa, A., Illiano, F., Rispoli, S., Masullo, P., DO ESPIRITO SANTO, L. C. O. N. T. I. N. I. M., Occidente, M. C., and Matassino, D.
- Abstract
Convegno CNR - Progetto finalizzato Biotecnologie Genova
- Published
- 2001
26. THE ANIMAL PRODUCTION EXPERT TRAINING IN ITALY
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D. Matassino and P. Secchiari
- Published
- 1997
27. Measurement of micronuclei by cytokinesis-block method in bovine lymphocytes
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Maria Rosaria Scarfì, D. Di Berardino, A.M.R. Coviello, Olga Zeni, Maria Brigida Lioi, and D. Matassino
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Block method ,Cytochalasin B ,Health, Toxicology and Mutagenesis ,Binucleated cells ,Lymphocyte ,Biology ,chemistry.chemical_compound ,Leukocyte Count ,Genetics ,medicine ,Animals ,Lymphocytes ,Molecular Biology ,Micronucleus Tests ,Molecular biology ,Peripheral blood ,medicine.anatomical_structure ,chemistry ,Micronucleus test ,Immunology ,Cattle ,Female ,Micronucleus ,Cytokinesis ,Cell Division - Abstract
The present study was carried out in order to set up a standardized quantitative assay for spontaneous micronuclei in bovine lymphocytes. For this purpose the cytokinesis-block micronucleus (MN) method, originally proposed by Fenech and Morley (1985) for human lymphocytes, was applied to peripheral blood lymphocytes of 20 healthy cows of Italian Friesian breed. The results demonstrate that the optimal concentration of cytochalasin B to obtain the highest frequency of binucleated cells (mean = 400.26 +/- 23.76/1000 cells scored) was 6 micrograms/ml. The baseline frequency of spontaneous MN formation in 500 binucleated cells was 12.3 +/- 4.1, i.e., 3 times higher than that reported in human lymphocytes (Fenech and Morley, 1985; Scarfi et al., 1991). The possible reason(s) for this difference (sensitivity to cytochalasin B, chromosome number, environmental genotoxic pollutants) is discussed.
- Published
- 1993
28. Sequential GTG-RBA banding pattern in prometaphase chromosomes of cattle (Bos taurus L)
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D. Matassino, D Di Berardino, Maria Brigida Lioi, and Revues Inra, Import
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0106 biological sciences ,medicine.medical_specialty ,lcsh:QH426-470 ,[SDV.GEN.GA] Life Sciences [q-bio]/Genetics/Animal genetics ,Biology ,01 natural sciences ,03 medical and health sciences ,Gene mapping ,medicine ,Genetics ,Genetics(clinical) ,Prometaphase ,Ecology, Evolution, Behavior and Systematics ,ComputingMilieux_MISCELLANEOUS ,030304 developmental biology ,lcsh:SF1-1100 ,0303 health sciences ,Research ,Cytogenetics ,Karyotype ,General Medicine ,humanities ,Full article ,lcsh:Genetics ,[SDV.GEN.GA]Life Sciences [q-bio]/Genetics/Animal genetics ,Animal Science and Zoology ,lcsh:Animal culture ,010606 plant biology & botany - Abstract
the same prometaphase chromosomes of cattle, is presented with the aim of establishing correlations between G and R bands. The results of the present investigation contributed to the establishment of new standard GTG and RBA-banded karyotypes at prometaphase level, useful for the precise identification of chromosomal abnormalities, comparative cytogenetics and gene mapping in the species Bos taurus L.
- Published
- 1991
29. R-banding pattern of the prometaphase chromosomes of the goat
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Mogens Rønne, I. Burguete, Maria Brigida Lioi, D. Matassino, D. Di Berardino, and L. Taibi
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DNA Replication ,Male ,Genetics ,medicine.medical_specialty ,Goats ,Cytogenetics ,Karyotype ,Biology ,Chromosomes ,Chromosome Banding ,Staining ,Karyotyping ,medicine ,Animals ,Female ,R banding ,Prometaphase ,Molecular Biology ,Cells, Cultured ,Metaphase ,Genetics (clinical) ,Biotechnology - Abstract
R-banded prometaphase karyotypes of the goat are presented using both fluorescent and light staining techniques. A model for the standardization of the R-banded prometaphase goat karyotype is suggested.
- Published
- 1987
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30. Cytogenetic observations on a Robertsonian translocation in Saanen goats
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I. Burguete, Maria Brigida Lioi, D. Matassino, L. Taibi, and D Di Berardino
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Genetics ,medicine.medical_specialty ,lcsh:QH426-470 ,Research ,Cytogenetics ,Robertsonian translocation ,Karyotype ,Chromosomal translocation ,General Medicine ,Biology ,medicine.disease_cause ,lcsh:Genetics ,medicine ,Genetics(clinical) ,Animal Science and Zoology ,lcsh:Animal culture ,Ecology, Evolution, Behavior and Systematics ,lcsh:SF1-1100 - Published
- 1987
31. R-banding pattern of the prometaphase chromosomes of the domestic sheep Ovis aries L
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D Di Berardino, D. Matassino, M.G. D'Agostino, C. Miranda, Maria Brigida Lioi, and A. Di Milia
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medicine.medical_specialty ,biology ,lcsh:QH426-470 ,Research ,Cytogenetics ,Chromosome ,Zoology ,Karyotype ,General Medicine ,biology.organism_classification ,lcsh:Genetics ,Genetics ,medicine ,Animal Science and Zoology ,R banding ,lcsh:Animal culture ,Prometaphase ,Ovis ,Metaphase ,Ecology, Evolution, Behavior and Systematics ,lcsh:SF1-1100 - Published
- 1989
32. A new case of Robertsonian translocation in cattle
- Author
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Lino Ferrara, D. Matassino, D. Di Berardino, and Leopoldo Iannuzzi
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Genetics ,medicine ,Robertsonian translocation ,Biology ,medicine.disease_cause ,Molecular Biology ,Genetics (clinical) ,Biotechnology - Published
- 1979
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33. Myorheological, Chemical and Colour Characteristics of Meat in Water Buffalo and Bovine Calves Slaughtered at 20, 28 and 36 Weeks
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P. Colatruglio, Antonio Girolami, E. Cosentino, A. Romita, and D. Matassino
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Animal science ,Chewiness ,Water buffalo ,Organoleptic ,food and beverages ,Water holding capacity ,Dry matter ,Palatability ,Raw meat ,Biology ,Slaughter age - Abstract
The study was carried out on 13 muscles (Table 1) of water buffalo (Italian) and bovine (Italian Fviesian) calves raised under the same micro- environmental conditions and slaughtered at 20, 28 and 36 weeks of age (Table 2). The rheological (hardness, chewiness and water holding capacity, (WHO), chemical, (dry matter, protein, fat and ash) and colour variables (brightness and spectrophotometric curves) have been evaluated on raw meat. The more significant results were: 1) The muscle confirms its marked individuality by determining independently from age and species all the studied variables. 2) Age is determinant in varying the organoleptic characteristics — at 36 weeks the meat is harder, darker, fatter (positive variation in relation to palatability), requires more chewing energy and has more WHC (positive variation) than at 20 and 28 weeks. 3) The organoleptic characteristics of the meat of the two species vary in a similar way according to the slaughter age. 4) Within the age and considering the qualitative variables all together, the buffalo calves seem superior to the bovine and provide more uniform carcasses. 5) At this stage it seems opportune to integrate these results with breeding, slaughtering and cutting data, and to complete the slaughtering ages at 44 and 52 weeks. 6) The results confirm the usefulness of techniques employed for evaluation of organoleptic characteristics of meat in view of its technology, marketing and genetic improvement.
- Published
- 1978
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34. Eating Quality of Seasoned Ham in Eight Pig Genetic Types
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Antonio Girolami, E. Cosentino, D. Matassino, and F. Grasso
- Subjects
media_common.quotation_subject ,Organoleptic ,Quality (business) ,Food science ,Biology ,media_common - Abstract
The eating quality of seasoned hams from eight pig genetic types was evaluated using a sensory panel. The results showed that the factors examined (genetic type, sex, ham weight category and panellist) had significant effects on the organoleptic characteristics of the ham. The effects of sex and ham weight on meat quality varied between genetic types. It was concluded that the production standards for ‘Modena’ and ‘Parma’ hams should be re-examined in light of these results to ensure a quality seasoned ham from the genetic types of pig that are in use.
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- 1987
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35. Ag-NORs variation and banding homologies in two species of Bovidae: Bubalus bubalis and Bos taurus
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D. Di Berardino, T. M. Bettini, D. Matassino, and Leopoldo Iannuzzi
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Genetics ,Autosome ,Buffaloes ,Zoology ,Cell Biology ,Plant Science ,Bovidae ,Biology ,biology.organism_classification ,Breed ,Chromosomes ,Chromosome Banding ,Nucleolus Organizer Region ,Animals ,Cattle ,Bubalus - Abstract
G,Q and R-banding pattern comparisons between the Murrah type of Bubalus bubalis L. (2n = 50) and the Holstein Friesian breed of Bos taurus L. (2n = 60) chromosomes revealed that the autosomes are similar in both species; in the former, the five pairs of submetacentrics correspond to centric fusions of chromosomes 1-29, 2-22, 8-19, 5-28 and 16-25 in the latter. Silver staining on somatic cells of buffalo revealed telomeric Ag-NORs located on six pairs of autosomes, identified as 3p, 4p, 8, 21, 23 and 24. Only one pair of nucleolus organizer chromosomes is common to both species, namely the 4p of buffalo which corresponds to the 28 of cattle. The remaining NORs are located on different pairs. Out of 18 individuals, the number of Ag-NORs per cell varied between 3 and 10, with a mean value of 6.3 ± 1.7; the mean number of nucleolar associations per cell was between 0.1 and 1.8. In the total population of 317 cells the two variables followed the binomial and the Poisson distributions, respectively, and their correlation coefficient was not statistically significant (r = +0.36). In addition to the mean number of Ag-NORs, the mean number of nucleolar associations per cell should be used for a better understanding of the differences among individuals.
- Published
- 1981
36. Chromosome instability in a calf affected by congenital malformation
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D Di Berardino, Leopoldo Iannuzzi, A Fregola, and D. Matassino
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High rate ,Chromosome Aberrations ,General Veterinary ,Chromosome ,Cattle Diseases ,Chromosome Disorders ,General Medicine ,Biology ,Molecular biology ,Chromosome aberration ,Andrology ,Chromosome Breaks ,Cytogenetics ,Animals, Newborn ,Chromosome instability ,Sister chromatids ,Animals ,Chromatid ,Cattle ,Female ,Metaphase ,Sister Chromatid Exchange - Abstract
High rates of structural chromosome aberrations were associated with increased yields of sister chromatid exchanges (SCE) in metaphase chromosomes of a new born female calf affected by a congenital malformation. The frequency of abnormal cells was 25 per cent in the abnormal calf, 8 per cent in its dam and 3 per cent in a group of four healthy cows. Chromatid and chromosome breaks were the most frequent types of chromosome aberration found in the malformed calf; centric fusions, chromosome fragments and deletions were much less common. The mean rate of SCE/cell in the malformed calf was nearly twice that of the control and the difference was statistically significant. Possible factors involved in the occurrence of such a malformation are discussed.
37. Fractions of calving interval and reproductive efficiency in italian friesian cows
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R. Nagarcenkar and D. Matassino
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Pharmacology ,Cellular and Molecular Neuroscience ,Animal science ,Calving interval ,Molecular Medicine ,Cell Biology ,Biology ,Molecular Biology - Abstract
In relazione alle frazioni dell'intervallo interparto e stata studiata l'efficienza riproduttiva nelle vacche (445 soggetti) di razza Frisona italiana, allevate in una grande azienda del Salernitano (Italia), come numero di inseminazioni per concepimento, come percentuale degli aborti sul totale di essi e sui concepimenti, e come lunghezza del periodo dal concepimento all'aborto.
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- 1963
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38. Cloning of rabbit embryos in preimplantation stages ‘via’ isolation and ‘in vitro’ culture of single blastomeres
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I. Burguete, D. Matassino, Maria Brigida Lioi, and D. Di Berardino
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Cloning ,Food Animals ,Equine ,Animal Science and Zoology ,Embryo ,Rabbit (nuclear engineering) ,Blastomere ,Biology ,Small Animals ,Isolation (microbiology) ,In vitro ,Cell biology - Published
- 1987
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39. Sequential QFQ-RBA-banding pattern in prometaphase chromosomes of cattle (Bos taurus L)
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Maria Brigida Lioi, D Di Berardino, and D. Matassino
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medicine.medical_specialty ,lcsh:QH426-470 ,Research ,Cytogenetics ,Karyotype ,General Medicine ,Biology ,lcsh:Genetics ,Evolutionary biology ,medicine ,Genetics ,Genetics(clinical) ,Animal Science and Zoology ,lcsh:Animal culture ,Prometaphase ,Selection (genetic algorithm) ,Ecology, Evolution, Behavior and Systematics ,lcsh:SF1-1100 - Full Text
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40. A genome-wide perspective on the population structure of Italian cattle breeds
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Mastrangelo, S., Ciani, E., AJMONE MARSAN, P., Bagnato, A., Battaglini, L., Bozzi, R., Carta, A., Catillo, G., Cassandro, M., Casu, S., Ciampolini, R., Crepaldi, P., D’Andrea, M., DI GERLANDO, R., Fontanesi, L., Longeri, M., Macciotta, N. P. P., Mantovani, R., Marletta, D., Matassino, D., Mele, M., Pagnacco, G., Pieramati, C., Portolano, B., Sarti, F. M., Tolone, M., Pilla, F., and S. Mastrangelo, E. Ciani, P. Ajmone Marsan, A. Bagnato, L. Battaglini, R. Bozzi, A. Carta, G. Catillo, M. Cassandro, S. Casu, R. Ciampolini, P. Crepaldi, M. D’Andrea, R. Di Gerlando, L. Fontanesi, M. Longeri, N.P.P Macciotta, R. Mantovani, D. Marletta, D. Matassino, M. Mele, G. Pagnacco, C. Pieramati, B. Portolano, F.M. Sarti, M. Tolone, Fabio Pilla
- Subjects
Settore AGR/17 - Zootecnica Generale E Miglioramento Genetico ,single nucleotide polymorphism, inbreeding, genetic diversity, population, structure, Italian cattle breeds ,single nucleotide polymorphism ,inbreeding ,population structure ,Italian cattle breeds ,single nucleotide polymorphism, inbreeding, genetic diversity, population structure, Italian cattle breeds ,genetic diversity - Abstract
Despite the growing diffusion of cosmopolite specialized breeds, several autochthonous cattle breeds and populations are still bred in Italy. The aim of this study was to provide a high-resolution picture of the genome-wide diversity and population structure of Italian local cattle breeds using medium-density genome-wide SNP markers. After data editing, the dataset included 800 samples from 32 breeds that were genotyped for 31 013 SNPs. For several breeds we observed a low level of polymorphism and genetic diversity, that together with the small effective population sizes confirmed threat of extinction. According to the runs of homozygosity analysis, evidence of recent inbreeding was strong in some breeds. Low pair-wise genetic differentiation values, shared ancestry, admixture events, and reticulations observed on the phylogenetic tree between some breeds, all suggest high levels of gene flow. Clear clusters and relationships between breeds that originated from the same region or area were detected. However, in spite the complex admixture history of most breeds, many of the local Italian cattle breeds have retained unique identities and are differentiated breeds, and this can be due to differences in the origin, differences in climate, genetic isolation and inbreeding. This study represents the first exhaustive analysis of Italian cattle diversity. The results largely agreed with the breeding history of the Italian cattle breeds. The population structure and the low genetic diversity presented here for several breeds should be useful in creating conservation strategies. If reproductive isolation within groups of the same herd and area is maintained in subsequent generations, the short-term rate of inbreeding will increase dangerously, resulting in a decrease in the effective population size and seriously damaging the breeds future. Thus, efforts should be made to improve genetic diversity in these breeds. In particular, mating decisions will play an important role in limiting inbreeding and will increase the size of these local breeds.
- Published
- 2018
41. BOVITA: a first overview on genome-wide genetic diversity of Italian autochthonous cattle breeds
- Author
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Mastrangelo, S., Ajmone Marsan, P., Bagnato, A., Battaglini, L., Bozzi, R., Carta, A., Catillo, G., Cassandro, M., Casu, S., Ciampolini, R., Ciani, E., Pcrepaldi, P., D’Andrea, M., Di Gerlando, R., Fontanesi, L., Longeri, M., Macciotta, N., Mantovani, R., Marletta, D., Matassino, D., Mele, M., Pagnacco, G., Pieramati, C., Portolano, B., Sarti F Pilla, F., S. Mastrangelo, P. Ajmone Marsan, A. Bagnato, L. Battaglini, R. Bozzi, A. Carta, G. Catillo, M. Cassandro, S. Casu, R. Ciampolini, E. Ciani, P.Crepaldi, M. D’Andrea, R. Di Gerlando, L. Fontanesi, M. Longeri, N.P.P Macciotta, R. Mantovani, D. Marletta, D. Matassino, M. Mele, G. Pagnacco, C. Pieramati, B. Portolano, and F. M. Sarti F. Pilla.
- Subjects
Settore AGR/17 - Zootecnica Generale E Miglioramento Genetico ,SNPs, genetic diversity, local cattle breeds - Abstract
Analysis of genomic data is increasingly becoming part of the livestock industry and is an invaluable resource for effective management of breeding programs in small populations. The recent availability of genome-wide SNP panels allows providing background information concerning genome structure in domestic animals, opening new perspectives to livestock genetics. BOVITA was established to join local efforts and resources for the genomic characterization of Italian local cattle breeds. Despite the growing diffusion of some cosmopolite specialized breeds, several autochthonous breeds are still bred in Italy. The main aim of the BOVITA is to investigate the genomic structure of Italian local cattle breeds, to provide information on their genetic status that will be useful for the management of the genetic variability, as a contribution to biodiversity conservation and prioritization actions. A total of about 800 animals (20-32 per breed) belonging to thirty Italian cattle breeds (Agerolese, Barà-Pustertaler, Burlina, Cabannina, Calvana, Chianina, Cinisara, Garfagnina, Italian Brown, Italian Holstein, Italian Simmental, Marchigiana, Maremmana, Modenese, Modicana, Mucca Pisana, Pezzata Rossa d’Oropa, Piedmontese, Pinzgau, Podolica, Pontremolese, Pustertaler, Reggiana, Rendena, Romagnola, Rossa Siciliana, Sarda, Sardo-Bruna, Sardo-Modicana and Ottonese-Varzese) and two cosmopolitan breeds (Charolaise and Limousine) genotyped with the Illumina BovineSNP50 v2 BeadChip array were collected for the analysis. The genotypes of several breeds were detected in the frame of the project, whereas for some breeds these data are derived by previous studies. The dataset will be analyzed to: study several aspects of population genetic diversity, multi-dimensional scaling plot, population structure, linkage disequilibrium, and runs of homozygosity. In addition, comparative analysis of conserved haplotypes will be conducted to identify genomic segments under selection pressure. Such information also provides important insights into the mechanisms of evolution and is useful for the annotation of significant functional genomics regions. Data analysis will also be useful to select SNPs suitable for parentage test and breed genetic traceability. The analysis of the data will pinpoint the genetic distinctiveness of Italian breeds. Moreover, the obtained results contribute to a better characterization of history and genetic structure of Italian cattle breeds.
- Published
- 2017
42. Analysis of ddRAD-seq data provides new insights into the genomic structure and patterns of diversity in Italian donkey populations.
- Author
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Criscione A, Chessari G, Cesarani A, Ablondi M, Asti V, Bigi D, Bordonaro S, Ciampolini R, Cipolat-Gotet C, Congiu M, De Palo P, Landi V, Macciotta NPP, Matassino D, Portolano B, Riggio S, Sabbioni A, Sardina MT, Senczuk G, Tumino S, Vasini M, Ciani E, and Mastrangelo S
- Subjects
- Animals, Italy, Genetic Variation, Genotype, Breeding, Genome, Sequence Analysis, DNA, Genomics, Equidae genetics, Polymorphism, Single Nucleotide
- Abstract
With more than 150 recognized breeds, donkeys assume relevant economic importance, especially in developing countries. Even if the estimated number of heads worldwide is 53M, this species received less attention than other livestock species. Italy has traditionally been considered one of the cradles of European donkey breeding, and despite a considerable loss of biodiversity, today still counts nine autochthonous populations. A total of 220 animals belonging to nine different populations were genotyped using the double-digest restriction site associated DNA (ddRAD) sequencing to investigate the pattern of diversity using a multi-technique approach. A total of 418,602,730 reads were generated and successfully demultiplexed to obtain a medium-density SNP genotypes panel with about 27K markers. The diversity indices showed moderate levels of variability. The genetic distances and relationships, largely agree with the breeding history of the donkey populations under investigation. The results highlighted the separation of populations based on their genetic origin or geographical proximity between breeding areas, showed low to moderate levels of admixture, and indicated a clear genetic difference in some cases. For some breeds, the results also validate the success of proper management conservation plans. Identified runs of homozygosity islands, mapped within genomic regions related to immune response and local adaptation, are consistent with the characteristics of the species known for its rusticity and adaptability. This study is the first exhaustive genome-wide analysis of the diversity of Italian donkey populations. The results emphasized the high informativeness of genome-wide markers retrieved through the ddRAD approach. The findings take on great significance in designing and implementing conservation strategies. Standardized genotype arrays for donkey species would make it possible to combine worldwide datasets to provide further insights into the evolution of the genomic structure and origin of this important genetic resource., (© The Author(s) 2024. Published by Oxford University Press on behalf of the American Society of Animal Science.)
- Published
- 2024
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43. The genome-wide relationships of the critically endangered Quadricorna sheep in the Mediterranean region.
- Author
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Senczuk G, Di Civita M, Rillo L, Macciocchi A, Occidente M, Saralli G, D'Onofrio V, Galli T, Persichilli C, Di Giovannantonio C, Pilla F, and Matassino D
- Subjects
- Sheep genetics, Male, Animals, Humans, Genome, Inbreeding, Genotype, Mediterranean Region, Polymorphism, Single Nucleotide, Genetic Variation, Genome-Wide Association Study
- Abstract
Livestock European diffusion followed different human migration waves from the Fertile Crescent. In sheep, at least two diffusion waves have shaped the current breeds' biodiversity generating a complex genetic pattern composed by either primitive or fine-wool selected breeds. Nowadays most of the sheep European breeds derive from the second wave which is supposed to have largely replaced oldest genetic signatures, with the exception of several primitive breeds confined on the very edge of Northern Europe. Despite this, some populations also in the Mediterranean region are characterised by the presence of phenotypic traits considered ancestral such as the policeraty, large horns in the ram, short tail, and a moulting fleece. Italy is home of a large number of local breeds, albeit some are already extinct, others are listed as critically endangered, and among these there is the Quadricorna breed which is a four-horned sheep characterised by several traits considered as ancestral. In this context we genotyped 47 individuals belonging to the Quadricorna sheep breed, a relict and endangered breed, from Central and Southern Italy. In doing so we used the Illumina OvineSNP50K array in order to explore its genetic diversity and to compare it with other 41 breeds from the Mediterranean region and Middle-East, with the specific aim to reconstruct its origin. After retaining 32,862 SNPs following data filtering, the overall genomic architecture has been explored by using genetic diversity indices, Principal Component Analysis (PCA) and admixture analysis, while the genetic relationships and migration events have been inferred using a neighbor-joining tree based on Reynolds' distances and by the maximum likelihood tree as implemented in treemix. The Quadricorna breed exhibit genetic diversity indices comparable with those of most of the other analysed breeds, however, the two populations showed opposing patterns of genetic diversity suggesting different levels of genomic inbreeding and drift (FIS and FROH). In general, all the performed genome-wide analyses returned complementary results, indicating a westward longitudinal cline compatible with human migrations from the Middle-East and several additional genetic footprints which might mirror more recent historical events. Interestingly, among the Italian breeds, the original Quadricorna (QUAD_SA) first separated showing its own ancestral component. In addition, the admixture analysis does not suggest any signal of recent gene exchange with other Italian local breeds, highlighting a rather ancestral purity of this population. On the other hand, both the neighbor-joining tree and the treemix analysis seem to suggest a proximity of the Quadricorna populations to breeds of South-Eastern Mediterranean origin. Although our results do not support a robust link between the genetics of the first wave and the presence of primitive traits, the observed genetic uniqueness together with the inferred phylogeograpic reconstruction would suggest an ancient presence of the Quadricorna breed in the Italian Peninsula. Because of this singularity, urgent conservation actions are needed in order to keep the breed and all related cultural products alive., Competing Interests: NO authors have competing interests., (Copyright: © 2023 Senczuk et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.)
- Published
- 2023
- Full Text
- View/download PDF
44. Retraction: The ancestral origin of the critically endangered Quadricorna sheep as revealed by genome-wide analysis.
- Author
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Senczuk G, Di Civita M, Rillo L, Macciocchi A, Occidente M, Saralli G, D'Onofrio V, Galli T, Persichilli C, Di Giovannantonio C, Pilla F, and Matassino D
- Published
- 2022
- Full Text
- View/download PDF
45. The ancestral origin of the critically endangered Quadricorna sheep as revealed by genome-wide analysis.
- Author
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Senczuk G, Di Civita M, Rillo L, Macciocchi A, Occidente M, Saralli G, D'Onofrio V, Galli T, Persichilli C, Di Giovannantonio C, Pilla F, and Matassino D
- Subjects
- Sheep genetics, Male, Animals, Humans, Breeding, Inbreeding, Genotype, Polymorphism, Single Nucleotide, Genetic Variation, Genome
- Abstract
Livestock European diffusion followed different human migration waves from the Fertile Crescent. In sheep, at least two diffusion waves have shaped the current breeds' biodiversity generating a complex genetic pattern composed by either primitive or fine-wool selected breeds. Among primitive breeds, aside from sharing common ancestral genomic components, they also show several traits such as the policeraty, large horns in the ram, short tail, and a moulting fleece, considered as ancestral. Although most of the primitive breeds characterized by these traits are confined on the very edge of Northern Europe, several residual populations are also scattered in the Mediterranean region. In fact, although in Italy a large number of local breeds are already extinct, others are listed as critically endangered, and among these there is the Quadricorna breed which is a four-horned sheep characterized by several ancestral traits. In this context we genotyped 47 individuals belonging to the Quadricorna sheep breed, a relict and endangered breed, from Central and Southern Italy. In doing so we used the Illumina OvineSNP50K array in order to explore its genetic diversity and to compare it with other 33 primitive traits-related, Mediterranean and Middle-East breeds, with the specific aim to reconstruct its origin. After retaining 35,680 SNPs following data filtering, the overall genomic architecture has been explored by using genetic diversity indices, Principal Component Analysis (PCA) and admixture analysis, while the genetic relationships and migration events have been inferred using a neighbor-joining tree based on Reynolds' distances and by the maximum likelihood tree as implemented in treemix. Multiple convergent evidence from all our population genetics analyses, indicated that the two Quadricorna populations differ from all the other Italian breeds, while they resulted to be very close to the Middle Eastern and primitive European breeds. In addition, the genetic diversity indices highlighted values comparable with those of most of the other analyzed breeds, despite the two populations exhibit slightly different genetic indices suggesting different levels of genomic inbreeding and drift (FIS and FROH). The admixture analysis does not suggest any signal of recent gene exchange with other Italian local breeds, highlighting a rather ancestral purity of the two populations, while on the other hand the treemix analysis seems to suggest an ancient admixture with other primitive European breeds. Finally, all these evidences seem to trace back the residual Quadricorna sheep to an early Neolithic spread, probably following a Mediterranean route and that urgent conservation actions are needed in order to keep the breed and all related cultural products alive., Competing Interests: NO authors have competing interests.
- Published
- 2022
- Full Text
- View/download PDF
46. Lamb Meat Quality and Carcass Evaluation of Five Autochthonous Sheep Breeds: Towards Biodiversity Protection.
- Author
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Ciliberti MG, Santillo A, Marino R, Ciani E, Caroprese M, Rillo L, Matassino D, Sevi A, and Albenzio M
- Abstract
In the present study, the evaluation of the carcasses and meat quality, in terms of chemical composition and fatty acid profile, of lambs from five autochthonous sheep breeds (Altamurana, Bagnolese, Gentile di Puglia, Laticauda, and Leccese) reared in continental Southern Italy, were studied. All the carcasses were evaluated according to the EU Mediterranean classification system for carcasses weighing less than 13 kg. Meat chemical composition and fatty acids profile were assessed on both loin and leg commercial cuts. Fatty acid composition of loin resulted in differences among breeds, displaying lower values of saturated fatty acid in Altamurana, Bagnolese, and Leccese breeds and the highest content of polyunsaturated fatty acid in the Altamurana breed. Principal component analysis grouped lamb according to fatty acid content and to conjugated linoleic acid (CLA), omega n-3 and n-6 fatty acids; thus, Altamurana, Bagnolese, and Leccese breeds are characterized by the highest values of CLA content. Our data demonstrated that lamb meat from autochthonous breed has good carcass quality and the content of CLA, n-3, and n-6 was valuable for human consumption; therefore, the valorisation of local meat quality can help to avoid the extinction of the autochthonous breed offering to the market and consumer's high nutritive products.
- Published
- 2021
- Full Text
- View/download PDF
47. Conservation status and historical relatedness of Italian cattle breeds.
- Author
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Mastrangelo S, Ciani E, Ajmone Marsan P, Bagnato A, Battaglini L, Bozzi R, Carta A, Catillo G, Cassandro M, Casu S, Ciampolini R, Crepaldi P, D'Andrea M, Di Gerlando R, Fontanesi L, Longeri M, Macciotta NP, Mantovani R, Marletta D, Matassino D, Mele M, Pagnacco G, Pieramati C, Portolano B, Sarti FM, Tolone M, and Pilla F
- Subjects
- Animals, Breeding, Cattle, Evolution, Molecular, Genetics, Population, Genome-Wide Association Study, Linkage Disequilibrium, Phylogeny, Population Density, Animals, Domestic genetics, Conservation of Natural Resources methods, Genetic Variation, Polymorphism, Single Nucleotide
- Abstract
Background: In the last 50 years, the diversity of cattle breeds has experienced a severe contraction. However, in spite of the growing diffusion of cosmopolite specialized breeds, several local cattle breeds are still farmed in Italy. Genetic characterization of breeds represents an essential step to guide decisions in the management of farm animal genetic resources. The aim of this work was to provide a high-resolution representation of the genome-wide diversity and population structure of Italian local cattle breeds using a medium-density single nucleotide polymorphism (SNP) array., Results: After quality control filtering, the dataset included 31,013 SNPs for 800 samples from 32 breeds. Our results on the genetic diversity of these breeds agree largely with their recorded history. We observed a low level of genetic diversity, which together with the small size of the effective populations, confirmed that several breeds are threatened with extinction. According to the analysis of runs of homozygosity, evidence of recent inbreeding was strong in some local breeds, such as Garfagnina, Mucca Pisana and Pontremolese. Patterns of genetic differentiation, shared ancestry, admixture events, and the phylogenetic tree, all suggest the presence of gene flow, in particular among breeds that originate from the same geographical area, such as the Sicilian breeds. In spite of the complex admixture events that most Italian cattle breeds have experienced, they have preserved distinctive characteristics and can be clearly discriminated, which is probably due to differences in genetic origin, environment, genetic isolation and inbreeding., Conclusions: This study is the first exhaustive genome-wide analysis of the diversity of Italian cattle breeds. The results are of significant importance because they will help design and implement conservation strategies. Indeed, efforts to maintain genetic diversity in these breeds are needed. Improvement of systems to record and monitor inbreeding in these breeds may contribute to their in situ conservation and, in view of this, the availability of genomic data is a fundamental resource.
- Published
- 2018
- Full Text
- View/download PDF
48. Genetic origin, admixture and population history of aurochs (Bos primigenius) and primitive European cattle.
- Author
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Upadhyay MR, Chen W, Lenstra JA, Goderie CRJ, MacHugh DE, Park SDE, Magee DA, Matassino D, Ciani F, Megens HJ, van Arendonk JAM, and Groenen MAM
- Abstract
This corrects the article DOI: 10.1038/hdy.2016.79.
- Published
- 2017
- Full Text
- View/download PDF
49. Genome assembly and transcriptome resource for river buffalo, Bubalus bubalis (2n = 50).
- Author
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Williams JL, Iamartino D, Pruitt KD, Sonstegard T, Smith TPL, Low WY, Biagini T, Bomba L, Capomaccio S, Castiglioni B, Coletta A, Corrado F, Ferré F, Iannuzzi L, Lawley C, Macciotta N, McClure M, Mancini G, Matassino D, Mazza R, Milanesi M, Moioli B, Morandi N, Ramunno L, Peretti V, Pilla F, Ramelli P, Schroeder S, Strozzi F, Thibaud-Nissen F, Zicarelli L, Ajmone-Marsan P, Valentini A, Chillemi G, and Zimin A
- Subjects
- Animals, Contig Mapping, Genome, Molecular Sequence Annotation, Buffaloes genetics, Transcriptome
- Abstract
Water buffalo is a globally important species for agriculture and local economies. A de novo assembled, well-annotated reference sequence for the water buffalo is an important prerequisite for studying the biology of this species, and is necessary to manage genetic diversity and to use modern breeding and genomic selection techniques. However, no such genome assembly has been previously reported. There are 2 species of domestic water buffalo, the river (2 n = 50) and the swamp (2 n = 48) buffalo. Here we describe a draft quality reference sequence for the river buffalo created from Illumina GA and Roche 454 short read sequences using the MaSuRCA assembler. The assembled sequence is 2.83 Gb, consisting of 366 983 scaffolds with a scaffold N50 of 1.41 Mb and contig N50 of 21 398 bp. Annotation of the genome was supported by transcriptome data from 30 tissues and identified 21 711 predicted protein coding genes. Searches for complete mammalian BUSCO gene groups found 98.6% of curated single copy orthologs present among predicted genes, which suggests a high level of completeness of the genome. The annotated sequence is available from NCBI at accession GCA_000471725.1., (© The Author 2017. Published by Oxford University Press.)
- Published
- 2017
- Full Text
- View/download PDF
50. Combined use of principal component analysis and random forests identify population-informative single nucleotide polymorphisms: application in cattle breeds.
- Author
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Bertolini F, Galimberti G, Calò DG, Schiavo G, Matassino D, and Fontanesi L
- Subjects
- Animals, Cattle, Algorithms, Genomics methods, Polymorphism, Single Nucleotide, Principal Component Analysis
- Abstract
The genetic identification of the population of origin of individuals, including animals, has several practical applications in forensics, evolution, conservation genetics, breeding and authentication of animal products. Commercial high-density single nucleotide polymorphism (SNP) genotyping tools that have been recently developed in many species provide information from a large number of polymorphic sites that can be used to identify population-/breed-informative markers. In this study, starting from Illumina BovineSNP50 v1 BeadChip array genotyping data available from 3711 cattle of four breeds (2091 Italian Holstein, 738 Italian Brown, 475 Italian Simmental and 407 Marchigiana), principal component analysis (PCA) and random forests (RFs) were combined to identify informative SNP panels useful for cattle breed identification. From a PCA preselected list of 580 SNPs, RFs were computed using ranking methods (Mean Decrease in the Gini Index and Mean Accuracy Decrease) to identify the most informative 48 and 96 SNPs for breed assignment. The out-of-bag (OOB) error rate for both ranking methods and SNP densities ranged from 0.0 to 0.1% in the reference population. Application of this approach in a test population (10% of individuals pre-extracted from the whole data set) achieved 100% of correct assignment with both classifiers. Linkage disequilibrium between selected SNPs was relevant (r(2) > 0.6) only in few pairs of markers indicating that most of the selected SNPs captured different fractions of variance. Several informative SNPs were in genes/QTL regions that affect or are associated with phenotypes or production traits that might differentiate the investigated breeds. The combination of PCA and RF to perform SNP selection and breed assignment can be easily implemented and is able to identify subsets of informative SNPs useful for population assignment starting from a large number of markers derived by high-throughput genotyping platforms., (© 2015 Blackwell Verlag GmbH.)
- Published
- 2015
- Full Text
- View/download PDF
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