227 results on '"Jordana, Jordi"'
Search Results
2. Measuring and modeling for the assessment of the genetic background behind cognitive processes in donkeys
- Author
-
Navas, Francisco Javier, Jordana, Jordi, León, José Manuel, Arando, Ander, Pizarro, Gabriela, McLean, Amy Katherine, and Delgado, Juan Vicente
- Subjects
Agricultural ,Veterinary and Food Sciences ,Animal Production ,Life on Land ,Age Factors ,Animals ,Breeding ,Cognition ,Conservation of Natural Resources ,Environment ,Equidae ,Female ,Genetic Background ,Male ,Models ,Genetic ,Sex Factors ,Animal cognition ,Animal intelligence ,Ass ,Coping styles ,Linear model ,Veterinary Sciences ,Animal production ,Veterinary sciences - Abstract
New productive niches can offer new commercial perspectives linked to donkeys' products and human therapeutic or leisure applications. However, no assessment for selection criteria has been carried out yet. First, we assessed the animal inherent features and environmental factors that may potentially influence several cognitive processes in donkeys. Then, we aimed at describing a practical methodology to quantify such cognitive processes, seeking their inclusion in breeding and conservation programmes, through a multifactorial linear model. Sixteen cognitive process-related traits were scored on a problem-solving test in a sample of 300 Andalusian donkeys for three consecutive years from 2013 to 2015. The linear model assessed the influence and interactions of four environmental factors, sex as an animal-inherent factor, age as a covariable, and the interactions between these factors. Analyses of variance were performed with GLM procedure of SPSS Statistics for Windows, Version 24.0 software to assess the relative importance of each factor. All traits were significantly (P
- Published
- 2017
3. Single and longitudinal genome-wide association studies for dairy traits available in goats with three recorded lactations
- Author
-
Ministerio de Ciencia, Innovación y Universidades (España), Agencia Estatal de Investigación (España), European Commission, Generalitat de Catalunya, Ministerio de Economía y Competitividad (España), Luigi-Sierra, Maria Gracia [0000-0002-6414-0550], Castelló, Anna [0000-0001-8497-6251], Amills, Marcel [0000-0002-8999-0770], Luigi-Sierra, Maria Gracia, Martínez, Amparo, Macri, Martina, Delgado, Juan Vicente, Castelló, Anna, Fernández-Álvarez, Javier, Such, Xavier, Jordana, Jordi, Amills, Marcel, Ministerio de Ciencia, Innovación y Universidades (España), Agencia Estatal de Investigación (España), European Commission, Generalitat de Catalunya, Ministerio de Economía y Competitividad (España), Luigi-Sierra, Maria Gracia [0000-0002-6414-0550], Castelló, Anna [0000-0001-8497-6251], Amills, Marcel [0000-0002-8999-0770], Luigi-Sierra, Maria Gracia, Martínez, Amparo, Macri, Martina, Delgado, Juan Vicente, Castelló, Anna, Fernández-Álvarez, Javier, Such, Xavier, Jordana, Jordi, and Amills, Marcel
- Abstract
Milk yield and composition phenotypes are systematically recorded across several lactations in goats, but the majority of genome-wide association studies (GWAS) performed so far have rather ignored the longitudinal nature of such data. Here, we have used two different GWAS approaches to analyse data from three lactations recorded in Murciano-Granadina goats. In Analysis 1, independent GWAS have been carried out for each trait and lactation, while a single longitudinal GWAS, jointly considering all data, has been performed in Analysis 2. In both analyses, genome-wide significant QTL for lactose percentage on chromosome 2 (129.77–131.01 Mb) and for milk protein percentage on the chromosome 6 (74.8–94.6 Mb) casein gene cluster region were detected. In Analysis 1, several QTL were not replicated in all three lactations, possibly due to the existence of lactation-specific genetic determinants. In Analysis 2, we identified several genome-wide significant QTL related to milk yield and protein content that were not uncovered in Analysis 1. The increased number of QTL identified in Analysis 2 suggests that the longitudinal GWAS is particularly well suited for the genetic analysis of dairy traits. Moreover, our data confirm that variability within or close to the casein complex is the main genetic determinant of milk protein percentage in Murciano-Granadina goats.
- Published
- 2024
4. Single and longitudinal genome‐wide association studies for dairy traits available in goats with three recorded lactations
- Author
-
Luigi‐Sierra, Maria Gracia, primary, Martínez, Amparo, additional, Macri, Martina, additional, Delgado, Juan Vicente, additional, Castelló, Anna, additional, Alvarez, Javier Fernández, additional, Such, Xavier, additional, Jordana, Jordi, additional, and Amills, Marcel, additional
- Published
- 2023
- Full Text
- View/download PDF
5. Author Correction: Donkey genomes provide new insights into domestication and selection for coat color
- Author
-
Wang, Changfa, Li, Haijing, Guo, Yu, Huang, Jinming, Sun, Yan, Min, Jiumeng, Wang, Jinpeng, Fang, Xiaodong, Zhao, Zicheng, Wang, Shuai, Zhang, Yanlin, Liu, Qingfeng, Jiang, Qiang, Wang, Xiuge, Guo, Yijun, Yang, Chunhong, Wang, Yinchao, Tian, Fang, Zhuang, Guilong, Fan, Yanna, Gao, Qican, Li, Yuhua, Ju, Zhihua, Li, Jianbin, Li, Rongling, Hou, Minghai, Yang, Guiwen, Liu, Guiqin, Liu, Wenqiang, Guo, Jiao, Pan, Shanshan, Fan, Guangyi, Zhang, Wei, Zhang, Ruitao, Yu, Jie, Zhang, Xinhao, Yin, Qi, Ji, Chuanliang, Jin, Yuanchun, Yue, Guidong, Liu, Mei, Xu, Jiake, Liu, Shimin, Jordana, Jordi, Noce, Antonia, Amills, Marcel, Wu, Dong Dong, Li, Shuaicheng, Zhou, Xiangshan, and Zhong, Jifeng
- Published
- 2021
- Full Text
- View/download PDF
6. Single and longitudinal genome‐wide association studies for dairy traits available in goats with three recorded lactations.
- Author
-
Luigi‐Sierra, Maria Gracia, Martínez, Amparo, Macri, Martina, Delgado, Juan Vicente, Castelló, Anna, Alvarez, Javier Fernández, Such, Xavier, Jordana, Jordi, and Amills, Marcel
- Subjects
GENOME-wide association studies ,GOAT milk ,MILK proteins ,LACTATION ,GOATS ,COMPOSITION of milk ,MILK yield ,CATTLE genetics ,ANIMAL species - Abstract
Milk yield and composition phenotypes are systematically recorded across several lactations in goats, but the majority of genome‐wide association studies (GWAS) performed so far have rather ignored the longitudinal nature of such data. Here, we have used two different GWAS approaches to analyse data from three lactations recorded in Murciano‐Granadina goats. In Analysis 1, independent GWAS have been carried out for each trait and lactation, while a single longitudinal GWAS, jointly considering all data, has been performed in Analysis 2. In both analyses, genome‐wide significant QTL for lactose percentage on chromosome 2 (129.77–131.01 Mb) and for milk protein percentage on the chromosome 6 (74.8–94.6 Mb) casein gene cluster region were detected. In Analysis 1, several QTL were not replicated in all three lactations, possibly due to the existence of lactation‐specific genetic determinants. In Analysis 2, we identified several genome‐wide significant QTL related to milk yield and protein content that were not uncovered in Analysis 1. The increased number of QTL identified in Analysis 2 suggests that the longitudinal GWAS is particularly well suited for the genetic analysis of dairy traits. Moreover, our data confirm that variability within or close to the casein complex is the main genetic determinant of milk protein percentage in Murciano‐Granadina goats. [ABSTRACT FROM AUTHOR]
- Published
- 2024
- Full Text
- View/download PDF
7. Conservation of Goat Populations from Southwestern Europe Based on Molecular Diversity Criteria
- Author
-
Ginja, Catarina, Cortés, Oscar, Gama, Luís T., Delgado, Juan V., Amills, Marcel, de Sousa, Carolina Bruno, Cañón, Javier, Capote, Juan, Dunner, Susana, Ferrando, Ainhoa, Carpio, Mayra Gómez, Gómez, Mariano, Jordana, Jordi, Landi, Vincenzo, Manunza, Arianna, Martin-Burriel, Inmaculada, Barro, Agueda Pons, Rodellar, Clementina, Santos-Silva, Fátima, Sevane, Natalia, Vidal, Oriol, Zaragoza, Pilar, Martínez, Amparo M., Simões, João, editor, and Gutiérrez, Carlos, editor
- Published
- 2017
- Full Text
- View/download PDF
8. A genome-wide analysis of copy number variation in Murciano-Granadina goats
- Author
-
Guan, Dailu, Martínez, Amparo, Castelló, Anna, Landi, Vincenzo, Luigi-Sierra, María Gracia, Fernández-Álvarez, Javier, Cabrera, Betlem, Delgado, Juan Vicente, Such, Xavier, Jordana, Jordi, and Amills, Marcel
- Published
- 2020
- Full Text
- View/download PDF
9. Donkey genomes provide new insights into domestication and selection for coat color
- Author
-
Wang, Changfa, Li, Haijing, Guo, Yu, Huang, Jinming, Sun, Yan, Min, Jiumeng, Wang, Jinpeng, Fang, Xiaodong, Zhao, Zicheng, Wang, Shuai, Zhang, Yanlin, Liu, Qingfeng, Jiang, Qiang, Wang, Xiuge, Guo, Yijun, Yang, Chunhong, Wang, Yinchao, Tian, Fang, Zhuang, Guilong, Fan, Yanna, Gao, Qican, Li, Yuhua, Ju, Zhihua, Li, Jianbin, Li, Rongling, Hou, Minghai, Yang, Guiwen, Liu, Guiqin, Liu, Wenqiang, Guo, Jiao, Pan, Shanshan, Fan, Guangyi, Zhang, Wei, Zhang, Ruitao, Yu, Jie, Zhang, Xinhao, Yin, Qi, Ji, Chuanliang, Jin, Yuanchun, Yue, Guidong, Liu, Mei, Xu, Jiake, Liu, Shimin, Jordana, Jordi, Noce, Antonia, Amills, Marcel, Wu, Dong Dong, Li, Shuaicheng, Zhou, Xiangshan, and Zhong, Jifeng
- Published
- 2020
- Full Text
- View/download PDF
10. Analyzing the genomic and transcriptomic architecture of milk traits in Murciano-Granadina goats
- Author
-
Guan, Dailu, Landi, Vincenzo, Luigi-Sierra, María Gracia, Delgado, Juan Vicente, Such, Xavier, Castelló, Anna, Cabrera, Betlem, Mármol-Sánchez, Emilio, Fernández-Alvarez, Javier, de la Torre Casañas, José Luis Ruiz, Martínez, Amparo, Jordana, Jordi, and Amills, Marcel
- Published
- 2020
- Full Text
- View/download PDF
11. Genomic patterns of homozygosity and inbreeding depression in Murciano-Granadina goats
- Author
-
Ministerio de Ciencia e Innovación (España), Ministerio de Economía y Competitividad (España), China Scholarship Council, European Commission, Agencia Estatal de Investigación (España), Generalitat de Catalunya, Luigi-Sierra, Maria Gracia [0000-0002-6414-0550], Fernández, Almudena [0000-0002-4495-9366], Martínez, Amparo [0000-0002-6944-0501], Guan, Dailu [0000-0001-8800-3158], Delgado, Juan Vicente [000-0003-1657-8838], Fernández Álvarez, Javier [0000-0003-0450-5869], Landi, Vincenzo [0000-0003-1385-8439], Such, Xavier [0000-0002-9712-4477], Jordana, Jordi [0000-0002-7789-2989], Saura, María [0000-0002-2744-2840], Amills, Marcel [0000-0002-8999-0770], Luigi-Sierra, Maria Gracia, Fernández, Almudena, Martínez, Amparo, Guan, Dailu, Delgado, Juan Vicente, Fernández-Álvarez, Javier, Landi, Vincenzo, Such, Xavier, Jordana, Jordi, Saura, María, Amills, Marcel, Ministerio de Ciencia e Innovación (España), Ministerio de Economía y Competitividad (España), China Scholarship Council, European Commission, Agencia Estatal de Investigación (España), Generalitat de Catalunya, Luigi-Sierra, Maria Gracia [0000-0002-6414-0550], Fernández, Almudena [0000-0002-4495-9366], Martínez, Amparo [0000-0002-6944-0501], Guan, Dailu [0000-0001-8800-3158], Delgado, Juan Vicente [000-0003-1657-8838], Fernández Álvarez, Javier [0000-0003-0450-5869], Landi, Vincenzo [0000-0003-1385-8439], Such, Xavier [0000-0002-9712-4477], Jordana, Jordi [0000-0002-7789-2989], Saura, María [0000-0002-2744-2840], Amills, Marcel [0000-0002-8999-0770], Luigi-Sierra, Maria Gracia, Fernández, Almudena, Martínez, Amparo, Guan, Dailu, Delgado, Juan Vicente, Fernández-Álvarez, Javier, Landi, Vincenzo, Such, Xavier, Jordana, Jordi, Saura, María, and Amills, Marcel
- Abstract
[Background] Inbreeding depression can adversely affect traits related to fitness, reproduction and productive performance. Although current research suggests that inbreeding levels are generally low in most goat breeds, the impact of inbreeding depression on phenotypes of economic interest has only been investigated in a few studies based on genealogical data. [Results] We genotyped 1040 goats with the Goat SNP50 BeadChip. This information was used to estimate different molecular inbreeding coefficients and characterise runs of homozygosity and homozygosity patterns. We detected 38 genomic regions with increased homozygosity as well as 8 ROH hotspots mapping to chromosomes 1, 2, 4, 6, 14, 16 and 17. Eight hundred seventeen goats with available records for dairy traits were analysed to evaluate the potential consequences of inbreeding depression on milk phenotypes. Four regions on chromosomes 8 and 25 were significantly associated with inbreeding depression for the natural logarithm of the somatic cell count. Notably, these regions contain several genes related with immunity, such as SYK, IL27, CCL19 and CCL21. Moreover, one region on chromosome 2 was significantly associated with inbreeding depression for milk yield. [Conclusions] Although genomic inbreeding levels are low in Murciano-Granadina goats, significant evidence of inbreeding depression for the logarithm of the somatic cell count, a phenotype closely associated with udder health and milk yield, have been detected in this population. Minimising inbreeding would be expected to augment economic gain by increasing milk yield and reducing the incidence of mastitis, which is one of the main causes of dairy goat culling.
- Published
- 2022
12. Estudi per a la potabilització de l'aigua procedent de diferents captacions, per a la construcció d'una ETAP a Sabadell
- Author
-
Universitat Politècnica de Catalunya. Departament d’Enginyeria Gràfica i de Disseny, Cusola Aumedes, Oriol, Membrado Jordana, Jordi, Fabregas Ribó, Oriol, Universitat Politècnica de Catalunya. Departament d’Enginyeria Gràfica i de Disseny, Cusola Aumedes, Oriol, Membrado Jordana, Jordi, and Fabregas Ribó, Oriol
- Published
- 2023
13. Patterns of homozygosity in insular and continental goat breeds
- Author
-
Cardoso, Taina F., Amills, Marcel, Bertolini, Francesca, Rothschild, Max, Marras, Gabriele, Boink, Geert, Jordana, Jordi, Capote, Juan, Carolan, Sean, Hallsson, Jón H., Kantanen, Juha, Pons, Agueda, Lenstra, Johannes A., and The AdaptMap Consortium
- Published
- 2018
- Full Text
- View/download PDF
14. Effect of donkey seminal plasma on sperm movement and sperm–polymorphonuclear neutrophils attachment in vitro
- Author
-
Miró, Jordi, Vilés, Karina, García, Wilber, Jordana, Jordi, and Yeste, Marc
- Published
- 2013
- Full Text
- View/download PDF
15. Additional file 3 of Genomic patterns of homozygosity and inbreeding depression in Murciano-Granadina goats
- Author
-
Luigi-Sierra, Mar��a Gracia, Fern��ndez, Almudena, Mart��nez, Amparo, Guan, Dailu, Delgado, Juan Vicente, ��lvarez, Javier Fern��ndez, Landi, Vincenzo, Such, Francesc Xavier, Jordana, Jordi, Saura, Mar��a, and Amills, Marcel
- Abstract
Additional file 3: Figure S2. Number of ROH per chromosome (represented as yellow bars, left axis) and the percentage of each chromosome covered by ROH (represented by a red line, right axis) in 1040 Murciano-Granadina goats.
- Published
- 2022
- Full Text
- View/download PDF
16. Additional file 2 of Genomic patterns of homozygosity and inbreeding depression in Murciano-Granadina goats
- Author
-
Luigi-Sierra, Mar��a Gracia, Fern��ndez, Almudena, Mart��nez, Amparo, Guan, Dailu, Delgado, Juan Vicente, ��lvarez, Javier Fern��ndez, Landi, Vincenzo, Such, Francesc Xavier, Jordana, Jordi, Saura, Mar��a, and Amills, Marcel
- Abstract
Additional file 2: Figure S1. Principal component analysis of 1040 Murciano-Granadina goats distributed in 15 farms (each farm is indicated with a different colour).
- Published
- 2022
- Full Text
- View/download PDF
17. Genetic diversity in Spanish donkey breeds using microsatellite DNA markers
- Author
-
Jordana Jordi, Aranguren-Méndez José, and Gomez Mariano
- Subjects
donkey ,endangered breed ,microsatellite ,diversity ,genetic variability ,Animal culture ,SF1-1100 ,Genetics ,QH426-470 - Abstract
Abstract Genetic diversity at 13 equine microsatellite loci was compared in five endangered Spanish donkey breeds: Andaluza, Catalana, Mallorquina, Encartaciones and Zamorano-Leonesa. All of the equine microsatellites used in this study were amplified and were polymorphic in the domestic donkey breeds with the exception of HMS1, which was monomorphic, and ASB2, which failed to amplify. Allele number, frequency distributions and mean heterozygosities were very similar among the Spanish donkey breeds. The unbiased expected heterozygosity (HE) over all the populations varied between 0.637 and 0.684 in this study. The low GST value showed that only 3.6% of the diversity was between breeds (P < 0.01). Significant deviations from Hardy-Weinberg equilibrium were shown for a number of locus-population combinations, except HMS5 that showed agreement in all analysed populations. The cumulative exclusion probability (PE) was 0.999 in each breed, suggesting that the loci would be suitable for donkey parentage testing. The constructed dendrogram from the DA distance matrix showed little differentiation between Spanish breeds, but great differentiation between them and the Moroccan ass and also with the horse, used as an outgroup. These results confirm the potential use of equine microsatellite loci as a tool for genetic studies in domestic donkey populations, which could also be useful for conservation plans.
- Published
- 2001
- Full Text
- View/download PDF
18. Genetic diversity measures of local European beef cattle breeds for conservation purposes
- Author
-
Pereira Albano, Sanchez Armand, Laloë Denis, Jordana Jordi, Garcia David, Ferran Nuno, Dunner Susana, Carretero Yolanda, Bessa Isabel, Carleos Carlos, Alexandrino Paolo, Cañón Javier, and Moazami-Goudarzi Katayoun
- Subjects
local beef cattle breeds ,microsatellite ,genetic diversity ,Animal culture ,SF1-1100 ,Genetics ,QH426-470 - Abstract
Abstract This study was undertaken to determine the genetic structure, evolutionary relationships, and the genetic diversity among 18 local cattle breeds from Spain, Portugal, and France using 16 microsatellites. Heterozygosities, estimates of Fst, genetic distances, multivariate and diversity analyses, and assignment tests were performed. Heterozygosities ranged from 0.54 in the Pirenaica breed to 0.72 in the Barrosã breed. Seven percent of the total genetic variability can be attributed to differences among breeds (mean Fst = 0.07; P < 0.01). Five different genetic distances were computed and compared with no correlation found to be significantly different from 0 between distances based on the effective size of the population and those which use the size of the alleles. The Weitzman recursive approach and a multivariate analysis were used to measure the contribution of the breeds diversity. The Weitzman approach suggests that the most important breeds to be preserved are those grouped into two clusters: the cluster formed by the Mirandesa and Alistana breeds and that of the Sayaguesa and Tudanca breeds. The hypothetical extinction of one of those clusters represents a 17% loss of diversity. A correspondence analysis not only distinguished four breed groups but also confirmed results of previous studies classifying the important breeds contributing to diversity. In addition, the variation between breeds was sufficiently high so as to allow individuals to be assigned to their breed of origin with a probability of 99% for simulated samples.
- Published
- 2001
- Full Text
- View/download PDF
19. Markers with low GenTrain scores can generate spurious signals in genome‐wide scans for transmission ratio distortion
- Author
-
Luigi‐Sierra, María Gracia, primary, Casellas, Joaquim, additional, Martínez, Amparo, additional, Vicente Delgado, Juan, additional, Fernández Álvarez, Javier, additional, Such, Francesc Xavier, additional, Jordana, Jordi, additional, and Amills, Marcel, additional
- Published
- 2021
- Full Text
- View/download PDF
20. Impact of SNP calling quality on the detection of transmission ratio distortion in goats
- Author
-
Luigi-Sierra, María Gracia, primary, Casellas, Joaquim, additional, Martínez, Amparo, additional, Delgado, Juan Vicente, additional, Álvarez, Javier Fernández, additional, Such, Francesc Xavier, additional, Jordana, Jordi, additional, and Amills, Marcel, additional
- Published
- 2021
- Full Text
- View/download PDF
21. Ra��a av��cola Empordanesa: an��lisi del Llibre Geneal��gic. Evoluci�� i comparativa dels par��metres demogr��fics, reproductius i geneal��gics
- Author
-
Jordana, Jordi
- Published
- 2021
- Full Text
- View/download PDF
22. The detection of transmission ratio distortion signals in the goat genome is strongly affected by SNP calling quality
- Author
-
Luigi-Sierra, Maria Gracia, Casellas, Joaquim, Martínez, Amparo, Delgado, Juan Vicente, Alvarez, J. F., Such, Xavier, Jordana, Jordi, and Amills, Marcel
- Abstract
Resumen del póster presentado a la 38th International Conference on Animal Genetics (ISAG), celebrada virtualmente del 26 al 30 de julio de 2021., Transmission ratio distortion (TRD) refers to instances in which the 2 alleles harbored by a parent are not transmitted in equal proportions to the offspring. Transmission ratio distortion can arise as a consequence of multiple factors related with germline selection during mitosis of germ cells, meiotic drive, gametic competition of sperm cells to fertilize the oocyte, embryonic death and faulty imprinting, among others. Obviously, TRD is mostly explained by the existence of deleterious alleles with adverse effects on embryo and fetal viability of domestic animals, thus influencing reproductive success, one of the main parameters that determines the income of farmers. In 2012, a novel methodology to detect TRD at a genome-wide scale was developed, being further refined in the following years. One appealing feature of this statistical approach is that TRD detection can be performed even in pedigrees with incomplete trios. This can be achieved by calculating the probability that the missing parent has a given genotype for a SNP based on its frequencies in the general population. Here, we have investigated the effect of SNP calling quality on the identification of genomic regions associated with TRD in the Murciano-Granadina goat breed. Seventeen bucks and their offspring (n = 305) were genotyped with the Goat SNP50 BeadChip by following standard procedures, while dams were not genotyped. By carrying out a genome-wide scan in these 305 individuals, we found 36 SNPs displaying significant evidence of TRD. Interestingly, 25 of these SNPs showed GenTrain scores below 0.8. Even more, we also observed, for these 25 markers, that allele frequencies inferred for ungenotyped dams did not correlate with allele frequencies estimated in the genotyped offspring. These findings suggest that TRD signals associated with these 25 markers are most likely spurious. Our main conclusion is that SNP calling quality is a fundamental parameter to be taken into account to obtain reliable results in TRD scans.
- Published
- 2021
23. Ús i abús de la natura, impactes i propostes de gestió. El cas de Catalunya com a paradigma
- Author
-
Peñuelas, Josep, Germain, Josep, Álvarez, Enrique, Aparicio, Enric, Arús, Pere, Basnou, Corina, Blanché, Cèsar, Bonada, Núria, Canals, Puri, Capodiferro, Marco, Carceller, Xavier, Casademunt, Alexandre, Casals, Joan, Casals, Pere, Casañas, F., Catalán, Jordi, Checa, Joan, Cordero, Pedro J., Corominas, Joaquim, Espelta, Josep Maria, Estrada, Marta, Folch, Ramon, Franquesa, Teresa, Garcia-Lozano, Carla, Garí, Mercè, Geli, Anna Maria, González-Guerrero, Óscar, Gordillo, Javier, Gosálbez, Joaquim, Grimalt, Joan O., Guàrdia, Anna, Isern, Rosó, Jordana, Jordi, Junqué, Eva, Lascurain, Josep, Lleonart, Jordi, Llorente, Gustavo A., Lloret, Francisco, Lloret, Josep, Mallarach, J. Mª, Martín-Vide, Javier, Medir, Rosa Maria, Melero, Yolanda, Montasell, Josep, Montori, Albert, Munné, Antoni, Nel·lo, Oriol, Palazón, Santiago, Palmero, Marina, Parés, Margarita, Pino, Joan, Pintó, Josep, Planagumà, Llorenç, Pons, Xavier, Prat, Narcís, Puig, Carme, Puig Ventosa, Ignasi, Puigdomènech, Pere, Pujol-Buxó, Eudald, Roca, Núria, Rodrigo, Jofre, Rodríguez-Teijeiro, José D., Roig-Munar, Francesc Xavier, Romanyà, Joan, Rovira, Pere, Sáez, Llorenç, Sauras-Yera, Maria Teresa, Serrat, D., Simó, Joan, Soler, Jordi, Sostoa, Adolf de, Terradas, Jaume, Vallejo, Ramón, Vicente, Paloma, Vilaplana, Joan Manuel, and Vinyoles, Dolors
- Abstract
78 pages, 10 figures, 20 tables, Fem aquí un balanç dels darrers quaranta anys d'ús, en molts casos abús, dels recursos naturals a Catalunya, un país representatiu dels països europeus, en especial dels mediterranis. [...]
- Published
- 2021
24. Ra��a av��cola Prat: an��lisi del Llibre Geneal��gic. Evoluci�� i comparativa dels par��metres demogr��fics, reproductius i geneal��gics
- Author
-
Jordana, Jordi
- Published
- 2021
- Full Text
- View/download PDF
25. Impacts of use and abuse of nature in Catalonia with proposals for sustainable management
- Author
-
Institut d'Estudis Catalans, Agencia Estatal de Investigación (España), Peñuelas, Josep, Germain, Josep, Álvarez, Enrique, Aparicio, Enric, Arús, Pere, Basnou, Corina, Blanché, Cèsar, Bonada, Núria, Canals, Puri, Capodiferro, Marco, Carceller, Xavier, Casademunt, Alexandre, Casals, Joan, Casals, Pere, Casañas, Francesc, Catalán, Jordi, Checa, Joan, Cordero, Pedro J., Corominas, Joaquim, De Sostoa, Adolfo, Espelta, Josep Maria, Estrada, Marta, Folch, Ramón, Franquesa, Teresa, García-Lozano, Carla, Garí, Mercè, Geli, Anna Maria, González-Guerrero, Óscar, Gordillo, Javier, Gosálbez, Joaquim, Grimalt, Joan O., Guàrdia, Anna, Isern, Rosó, Jordana, Jordi, Junqué, Eva, Lascurain, Josep, Lleonart, Jordi, Llorente, Gustavo A., Lloret, Francisco, Lloret, Josep, Mallarach, Josep María, Martín-Vide, Javier, Medir, Rosa Maria, Melero, Yolanda, Montasell, Josep, Montori, Albert, Munné, Antoni, Nel·lo, Oriol, Palazón, Santiago, Palmero, Marina, Parés, Margarita, Pino, Joan, Pintó, Josep, Planagumà, Llorenç, Pons, Xavier, Prat, Narcís, Puig, Carme, Puig Ventosa, Ignasi, Puigdomènech, Pere, Pujol-Buxó, Eudald, Roca, Núria, Rodrigo, Jofre, Rodríguez-Teijeiro, José D., Roig-Munar, Francesc Xavier, Romanyà, Joan, Rovira, Pere, Sáez, Llorenç, Sauras-Yera, Maria Teresa, Serrat, D., Simó, Joan, Soler, Jordi, Terradas, Jaume, Vallejo, Ramón, Vicente, Paloma, Vilaplana, Joan Manuel, Vinyoles, Dolors, Institut d'Estudis Catalans, Agencia Estatal de Investigación (España), Peñuelas, Josep, Germain, Josep, Álvarez, Enrique, Aparicio, Enric, Arús, Pere, Basnou, Corina, Blanché, Cèsar, Bonada, Núria, Canals, Puri, Capodiferro, Marco, Carceller, Xavier, Casademunt, Alexandre, Casals, Joan, Casals, Pere, Casañas, Francesc, Catalán, Jordi, Checa, Joan, Cordero, Pedro J., Corominas, Joaquim, De Sostoa, Adolfo, Espelta, Josep Maria, Estrada, Marta, Folch, Ramón, Franquesa, Teresa, García-Lozano, Carla, Garí, Mercè, Geli, Anna Maria, González-Guerrero, Óscar, Gordillo, Javier, Gosálbez, Joaquim, Grimalt, Joan O., Guàrdia, Anna, Isern, Rosó, Jordana, Jordi, Junqué, Eva, Lascurain, Josep, Lleonart, Jordi, Llorente, Gustavo A., Lloret, Francisco, Lloret, Josep, Mallarach, Josep María, Martín-Vide, Javier, Medir, Rosa Maria, Melero, Yolanda, Montasell, Josep, Montori, Albert, Munné, Antoni, Nel·lo, Oriol, Palazón, Santiago, Palmero, Marina, Parés, Margarita, Pino, Joan, Pintó, Josep, Planagumà, Llorenç, Pons, Xavier, Prat, Narcís, Puig, Carme, Puig Ventosa, Ignasi, Puigdomènech, Pere, Pujol-Buxó, Eudald, Roca, Núria, Rodrigo, Jofre, Rodríguez-Teijeiro, José D., Roig-Munar, Francesc Xavier, Romanyà, Joan, Rovira, Pere, Sáez, Llorenç, Sauras-Yera, Maria Teresa, Serrat, D., Simó, Joan, Soler, Jordi, Terradas, Jaume, Vallejo, Ramón, Vicente, Paloma, Vilaplana, Joan Manuel, and Vinyoles, Dolors
- Abstract
This paper provides an overview of the last 40 years of use, and in many cases abuse, of the natural resources in Catalonia, a country that is representative of European countries in general, and especially those in the Mediterranean region. It analyses the use of natural resources made by mining, agriculture, livestock, logging, fishing, nature tourism, and energy production and consumption. This use results in an ecological footprint, i.e., the productive land and sea surface required to generate the consumed resources and absorb the resulting waste, which is about seven times the amount available, a very high number but very similar to other European countries. This overexploitation of natural resources has a huge impact on land and its different forms of cover, air, and water. For the last 25 years, forests and urban areas have each gained almost 3% more of the territory at the expense of agricultural land; those municipalities bordering the sea have increased their number of inhabitants and activity, and although they only occupy 6.7% of the total surface area, they account for 43.3% of the population; air quality has stabilized since the turn of the century, and there has been some improvement in the state of aquatic ecosystems, but still only 36% are in good condition, while the remainder have suffered morphological changes and different forms of nonpoint source pollution; meanwhile the biodiversity of flora and fauna remains still under threat. Environmental policies do not go far enough so there is a need for revision of the legislation related to environmental impact and the protection of natural areas, flora, and fauna. The promotion of environmental research must be accompanied by environmental education to foster a society which is more knowledgeable, has more control and influence over the decisions that deeply affect it. Indeed, nature conservation goes hand in hand with other social and economic challenges that require a more sustainable vision. Toda
- Published
- 2021
26. Detecting the footprint of selection on the genomes of Murciano-Granadina goats
- Author
-
European Commission, Agencia Estatal de Investigación (España), Ministerio de Ciencia e Innovación (España), Ministerio de Ciencia, Innovación y Universidades (España), Generalitat de Catalunya, China Scholarship Council, Ministerio de Economía y Competitividad (España), Guan, Dailu, Martínez, Amparo, Luigi-Sierra, Maria Gracia, Delgado, Juan Vicente, Landi, Vincenzo, Castelló, Anna, Fernández-Álvarez, Javier, Such, Xavier, Jordana, Jordi, Amills, Marcel, European Commission, Agencia Estatal de Investigación (España), Ministerio de Ciencia e Innovación (España), Ministerio de Ciencia, Innovación y Universidades (España), Generalitat de Catalunya, China Scholarship Council, Ministerio de Economía y Competitividad (España), Guan, Dailu, Martínez, Amparo, Luigi-Sierra, Maria Gracia, Delgado, Juan Vicente, Landi, Vincenzo, Castelló, Anna, Fernández-Álvarez, Javier, Such, Xavier, Jordana, Jordi, and Amills, Marcel
- Abstract
Artificial selection is one of the major forces modifying the genetic composition of livestock populations. Identifying genes under selection could be useful to elucidate their impact on phenotypic variation. We aimed to identify genomic regions targeted by selection for dairy and pigmentation traits in Murciano-Granadina goats. Performance of a selection scan based on the integrated haplotype score test in a population of 1183 Murciano-Granadina goats resulted in the identification of 77 candidate genomic regions/SNPs. The most significant selective sweeps mapped to chromosomes 1 (69.86 Mb), 4 (41.80–49.95 Mb), 11 (65.74 Mb), 12 (31.24 and 52.51 Mb), 17 (34.76–37.67 Mb), 22 (31.75 Mb), and 26 (26.69–31.05 Mb). By using previously generated RNA-Seq data, we built a catalogue of 6414 genes that are differentially expressed across goat lactation (i.e. 78 days post-partum, early lactation; 216 days post-partum, late lactation; 285 days post-partum, dry period). Interestingly, 183 of these genes mapped to selective sweeps and several of them display functions related with lipid, protein, and carbohydrate metabolism, insulin signaling, cell proliferation, as well as mammary development and involution. Of particular interest are the CSN3 and CSN1S2 genes, which encode two major milk proteins. Additionally, we found three pigmentation genes (GLI3, MC1R, and MITF) co-localizing with selective sweeps. Performance of a genome-wide association study and Sanger sequencing and TaqMan genotyping experiments revealed that the c.801C>G (p.Cys267Trp) polymorphism in the melanocortin 1 receptor (MC1R) gene is the main determinant of the black (GG or GC genotypes) and brown (CC genotypes) colorations of Murciano-Granadina goats.
- Published
- 2021
27. Markers with low GenTrain scores can generate spurious signals in genome-wide scans for transmission ratio distortion
- Author
-
European Commission, Agencia Estatal de Investigación (España), Ministerio de Ciencia, Innovación y Universidades (España), Ministerio de Economía y Competitividad (España), Luigi-Sierra, Maria Gracia, Casellas, Joaquim, Martínez, Amparo, Delgado, Juan Vicente, Fernández-Álvarez, Javier, Such, Xavier, Jordana, Jordi, Amills, Marcel, European Commission, Agencia Estatal de Investigación (España), Ministerio de Ciencia, Innovación y Universidades (España), Ministerio de Economía y Competitividad (España), Luigi-Sierra, Maria Gracia, Casellas, Joaquim, Martínez, Amparo, Delgado, Juan Vicente, Fernández-Álvarez, Javier, Such, Xavier, Jordana, Jordi, and Amills, Marcel
- Abstract
Transmission ratio distortion (TRD) is the preferential transmission of one specific allele to offspring at the expense of the other. The existence of TRD is mostly explained by the segregation of genetic variants with deleterious effects on the developmental processes that go from the formation of gametes to fecundation and birth. A few years ago, a statistical methodology was implemented in order to detect TRD signals on a genome-wide scale as a first step toward uncovering the biological basis of TRD and reproductive success in domestic species. In the current work, we have analyzed the impact of SNP calling quality on the detection of TRD signals in a population of Murciano–Granadina goats. Seventeen bucks and their offspring (N = 288) were typed with the Goat SNP50 BeadChip, whereas the genotypes of the dams were lacking. Performance of a genome-wide scan revealed the existence of 36 SNPs showing significant evidence of TRD. When we calculated GenTrain scores for each of the SNPs, we observed that 25 SNPs showed scores below 0.8. The allele frequencies of these SNPs in the offspring were not correlated with the allele frequencies estimated in the dams with statistical methods, providing evidence that flawed SNP calling quality might lead to the detection of spurious TRD signals. We conclude that, when performing TRD scans, the GenTrain scores of markers should be taken into account to discriminate SNPs that are truly under TRD from those yielding spurious signals owing to technical problems.
- Published
- 2021
28. Demographic characterization, inbreeding and maintenance of genetic diversity in the endangered Catalonian donkey breed
- Author
-
Jordana Jordi and Folch Pilar
- Subjects
Animal culture ,SF1-1100 ,Genetics ,QH426-470 - Published
- 1998
- Full Text
- View/download PDF
29. Genetic variation at the caprine lactalbumin, alpha (LALBA) gene and its association with milk lactose concentration
- Author
-
Zidi, Ali, Casas, Eduard, Amills, Marcel, Jordana, Jordi, Carrizosa, Juan, Urrutia, Baltasar, and Serradilla, Juan M.
- Published
- 2014
- Full Text
- View/download PDF
30. Impacts of Use and Abuse of Nature in Catalonia with Proposals for Sustainable Management
- Author
-
Peñuelas, Josep, primary, Germain, Josep, additional, Álvarez, Enrique, additional, Aparicio, Enric, additional, Arús, Pere, additional, Basnou, Corina, additional, Blanché, Cèsar, additional, Bonada, Núria, additional, Canals, Puri, additional, Capodiferro, Marco, additional, Carceller, Xavier, additional, Casademunt, Alexandre, additional, Casals, Joan, additional, Casals, Pere, additional, Casañas, Francesc, additional, Catalán, Jordi, additional, Checa, Joan, additional, Cordero, Pedro J., additional, Corominas, Joaquim, additional, de Sostoa, Adolf, additional, Espelta Morral, Josep-Maria, additional, Estrada, Marta, additional, Folch, Ramon, additional, Franquesa, Teresa, additional, Garcia-Lozano, Carla, additional, Garí, Mercè, additional, Geli, Anna Maria, additional, González-Guerrero, Óscar, additional, Gordillo, Javier, additional, Gosálbez, Joaquim, additional, Grimalt, Joan O., additional, Guàrdia, Anna, additional, Isern, Rosó, additional, Jordana, Jordi, additional, Junqué, Eva, additional, Lascurain, Josep, additional, Lleonart, Jordi, additional, Llorente, Gustavo A., additional, Lloret, Francisco, additional, Lloret, Josep, additional, Mallarach, Josep Maria, additional, Martín-Vide, Javier, additional, Medir, Rosa Maria, additional, Melero, Yolanda, additional, Montasell, Josep, additional, Montori, Albert, additional, Munné, Antoni, additional, Nel·lo, Oriol, additional, Palazón, Santiago, additional, Palmero, Marina, additional, Parés, Margarita, additional, Pino, Joan, additional, Pintó, Josep, additional, Planagumà, Llorenç, additional, Pons, Xavier, additional, Prat, Narcís, additional, Puig, Carme, additional, Puig, Ignasi, additional, Puigdomènech, Pere, additional, Pujol-Buxó, Eudald, additional, Roca, Núria, additional, Rodrigo, Jofre, additional, Rodríguez-Teijeiro, José Domingo, additional, Roig-Munar, Francesc Xavier, additional, Romanyà, Joan, additional, Rovira, Pere, additional, Sàez, Llorenç, additional, Sauras-Yera, Maria Teresa, additional, Serrat, David, additional, Simó, Joan, additional, Soler, Jordi, additional, Terradas, Jaume, additional, Vallejo, Ramon, additional, Vicente, Paloma, additional, Vilaplana, Joan Manuel, additional, and Vinyoles, Dolors, additional
- Published
- 2021
- Full Text
- View/download PDF
31. Diversidad genetica de la raza Criollo Limonero utilizando marcadores de adn microsatelites
- Author
-
Villasmil-Ontiveros, Yenen, Roman Bravo, Rafael, Yanez-Cuellar, Luis, Contreras, Gloria, Jordana, Jordi, and Aranguren-Mendez, Jose
- Published
- 2008
32. Pedigree analysis in Criollo Limonero
- Author
-
Villasmil-Ontiveros, Yenen, Aranguren-Mendez, Jose, Roman, Rafael, Isea, William, Contreras, Gloria, Zambrano, Sunny, and Jordana, Jordi
- Published
- 2008
33. Additional file 2 of Analyzing the genomic and transcriptomic architecture of milk traits in Murciano-Granadina goats
- Author
-
Dailu Guan, Landi, Vincenzo, Luigi-Sierra, María Gracia, Delgado, Juan Vicente, Such, Xavier, Castelló, Anna, Betlem Cabrera, Mármol-Sánchez, Emilio, Fernández-Alvarez, Javier, Casañas, José Luis Ruiz De La Torre, Martínez, Amparo, Jordana, Jordi, and Amills, Marcel
- Abstract
Additional file 2: Figure S1. Similarity matrix of samples used for detecting differentially expressed genes. T1, T2 and T3 correspond to 78.25 ± 9.29 d (T1, early lactation), 216.25 ± 9.29 d (T2, late lactation) and 285.25 ± 9.29 d (T3, dry period) after parturition, respectively. The sample T3-22 (red arrow) clustered with T1/T2 samples probably because it was obtained from a goat that was not successfully dried-off at the time of sampling.
- Published
- 2020
- Full Text
- View/download PDF
34. Additional file 4 of Analyzing the genomic and transcriptomic architecture of milk traits in Murciano-Granadina goats
- Author
-
Dailu Guan, Landi, Vincenzo, Luigi-Sierra, María Gracia, Delgado, Juan Vicente, Such, Xavier, Castelló, Anna, Betlem Cabrera, Mármol-Sánchez, Emilio, Fernández-Alvarez, Javier, Casañas, José Luis Ruiz De La Torre, Martínez, Amparo, Jordana, Jordi, and Amills, Marcel
- Abstract
Additional file 4: Figure S2. Venn diagram depicting the overlaps of differentially expressed genes between pair-wise T1 vs. T2, T1 vs. T3 and T2 vs. T3 comparisons. T1 and T2 represent early (78.25 ± 9.29 d after parturition) and late (216.25 ± 9.29 d) lactation, respectively, while T3 (285.25 ± 9.29 d) corresponds to the dry period.
- Published
- 2020
- Full Text
- View/download PDF
35. Additional file 9 of Analyzing the genomic and transcriptomic architecture of milk traits in Murciano-Granadina goats
- Author
-
Dailu Guan, Landi, Vincenzo, Luigi-Sierra, María Gracia, Delgado, Juan Vicente, Such, Xavier, Castelló, Anna, Betlem Cabrera, Mármol-Sánchez, Emilio, Fernández-Alvarez, Javier, Casañas, José Luis Ruiz De La Torre, Martínez, Amparo, Jordana, Jordi, and Amills, Marcel
- Abstract
Additional file 9: Figure S5. Linkage disequilibrium (LD) decay in 822 Murciano-Granadina goats with available Goat SNP50 BeadChip genotypes. The scatter plot shows the decline of r2 between single nucleotide polymorphisms (y-axis) with distance expressed in bp (x-axis). The fitting line is depicted in red.
- Published
- 2020
- Full Text
- View/download PDF
36. Ra��a av��cola Pairal: an��lisi del Llibre Geneal��gic. Evoluci�� i comparativa dels par��metres demogr��fics, reproductius i geneal��gics
- Author
-
Jordana, Jordi
- Published
- 2020
- Full Text
- View/download PDF
37. Additional file 1 of Analyzing the genomic and transcriptomic architecture of milk traits in Murciano-Granadina goats
- Author
-
Dailu Guan, Landi, Vincenzo, Luigi-Sierra, María Gracia, Delgado, Juan Vicente, Such, Xavier, Castelló, Anna, Betlem Cabrera, Mármol-Sánchez, Emilio, Fernández-Alvarez, Javier, Casañas, José Luis Ruiz De La Torre, Martínez, Amparo, Jordana, Jordi, and Amills, Marcel
- Abstract
Additional file 1: Table S1. Information about the Murciano-Granadina goats sampled in the RNA-Seq experiment.
- Published
- 2020
- Full Text
- View/download PDF
38. Additional file 8 of Analyzing the genomic and transcriptomic architecture of milk traits in Murciano-Granadina goats
- Author
-
Dailu Guan, Landi, Vincenzo, Luigi-Sierra, María Gracia, Delgado, Juan Vicente, Such, Xavier, Castelló, Anna, Betlem Cabrera, Mármol-Sánchez, Emilio, Fernández-Alvarez, Javier, Casañas, José Luis Ruiz De La Torre, Martínez, Amparo, Jordana, Jordi, and Amills, Marcel
- Abstract
Additional file 8: Figure S4. Structure of the Murciano-Granadina population employed in the GWAS as assessed by principal component analysis (PCA) based on Goat SNP50 BeadChip genotypes. PC1 and PC2 indicate the principal components 1 and 2, respectively. Values in parentheses reflect the percentage of variance in the data explained by each principal component.
- Published
- 2020
- Full Text
- View/download PDF
39. Additional file 7 of Analyzing the genomic and transcriptomic architecture of milk traits in Murciano-Granadina goats
- Author
-
Dailu Guan, Landi, Vincenzo, Luigi-Sierra, María Gracia, Delgado, Juan Vicente, Such, Xavier, Castelló, Anna, Betlem Cabrera, Mármol-Sánchez, Emilio, Fernández-Alvarez, Javier, Casañas, José Luis Ruiz De La Torre, Martínez, Amparo, Jordana, Jordi, and Amills, Marcel
- Abstract
Additional file 7: Figure S3. Histograms of the phenotypic values of the percentage of protein (a), fat (b), lactose (c) and dry matter (d), milk yield normalized to 210 d (e), length of lactation (f), logarithmically transformed somatic cell count (g) recorded in the first lactation of Murciano-Granadina goats. The raw somatic cell count is (× 103 cells/mL) shown in (h).
- Published
- 2020
- Full Text
- View/download PDF
40. Analyzing the genomic and transcriptomic architecture of milk traits in Murciano-Granadina goats
- Author
-
Ministerio de Economía y Competitividad (España), Agencia Estatal de Investigación (España), Ministerio de Ciencia, Innovación y Universidades (España), European Commission, Generalitat de Catalunya, Ministerio de Educación, Cultura y Deporte (España), Guan, Dailu, Landi, Vincenzo, Luigi-Sierra, Maria Gracia, Delgado, Juan Vicente, Such, Xavier, Castelló, Anna, Cabrera, Betlem, Mármol-Sánchez, Emilio, Fernández-Álvarez, Javier, Ruiz de la Torre, José Luis, Martínez, Amparo, Jordana, Jordi, Amills, Marcel, Ministerio de Economía y Competitividad (España), Agencia Estatal de Investigación (España), Ministerio de Ciencia, Innovación y Universidades (España), European Commission, Generalitat de Catalunya, Ministerio de Educación, Cultura y Deporte (España), Guan, Dailu, Landi, Vincenzo, Luigi-Sierra, Maria Gracia, Delgado, Juan Vicente, Such, Xavier, Castelló, Anna, Cabrera, Betlem, Mármol-Sánchez, Emilio, Fernández-Álvarez, Javier, Ruiz de la Torre, José Luis, Martínez, Amparo, Jordana, Jordi, and Amills, Marcel
- Abstract
[Background]: In this study, we aimed to investigate the molecular basis of lactation as well as to identify the genetic factors that influence milk yield and composition in goats. To achieve these two goals, we have analyzed how the mRNA profile of the mammary gland changes in seven Murciano-Granadina goats at each of three different time points, i.e. 78 d (T1, early lactation), 216 d (T2, late lactation) and 285 d (T3, dry period) after parturition. Moreover, we have performed a genome-wide association study (GWAS) for seven dairy traits recorded in the 1st lactation of 822 Murciano-Granadina goats., [Results]: The expression profiles of the mammary gland in the early (T1) and late (T2) lactation were quite similar (42 differentially expressed genes), while strong transcriptomic differences (more than one thousand differentially expressed genes) were observed between the lactating (T1/T2) and non-lactating (T3) mammary glands. A large number of differentially expressed genes were involved in pathways related with the biosynthesis of amino acids, cholesterol, triglycerides and steroids as well as with glycerophospholipid metabolism, adipocytokine signaling, lipid binding, regulation of ion transmembrane transport, calcium ion binding, metalloendopeptidase activity and complement and coagulation cascades. With regard to the second goal of the study, the performance of the GWAS allowed us to detect 24 quantitative trait loci (QTLs), including three genome-wide significant associations: QTL1 (chromosome 2, 130.72-131.01 Mb) for lactose percentage, QTL6 (chromosome 6, 78.90-93.48 Mb) for protein percentage and QTL17 (chromosome 17, 11.20 Mb) for both protein and dry matter percentages. Interestingly, QTL6 shows positional coincidence with the casein genes, which encode 80% of milk proteins., [Conclusions]: The abrogation of lactation involves dramatic changes in the expression of genes participating in a broad array of physiological processes such as protein, lipid and carbohydrate metabolism, calcium homeostasis, cell death and tissue remodeling, as well as immunity. We also conclude that genetic variation at the casein genes has a major impact on the milk protein content of Murciano-Granadina goats.
- Published
- 2020
41. Donkey genomes provide new insights into domestication and selection for coat color
- Author
-
National Natural Science Foundation of China, Natural Science Foundation of Shandong Province, Wang, Changfa, Li, Haijing, Guo, Yu, Huang, Jinming, Sun, Yan, Min, Jiumeng, Wang, Jinpeng, Fang, Xiaodong, Zhao, Zicheng, Wang, Shuai, Zhang, Yanlin, Liu, Qingfeng, Jiang, Qiang, Wang, Xiuge, Guo, Yijun, Yang, Chunhong, Wang, Yinchao, Tian, Fang, Zhuang, Guilong, Fan, Yanna, Gao, Qican, Li, Yuhua, Ju, Zhihua, Li, Jianbin, Li, Rongling, Hou, Minghai, Yang, Guiwen, Liu, Guiqin, Liu, Wenqiang, Guo, Jiao, Pan, Shanshan, Fan, Guangyi, Zhang, Wei, Zhang, Ruitao, Yu, Jie, Zhang, Xinhao, Yin, Qi, JI, Chuanliang, Yue, Guidong, Liu, Mei, Xu, Jiake, Liu, Shimin, Jordana, Jordi, Noce, Antonia, Amills, Marcel, Wu, Dong Dong, Li, Shuaicheng, Zhou, Xiangshan, Zhong, Jifeng, National Natural Science Foundation of China, Natural Science Foundation of Shandong Province, Wang, Changfa, Li, Haijing, Guo, Yu, Huang, Jinming, Sun, Yan, Min, Jiumeng, Wang, Jinpeng, Fang, Xiaodong, Zhao, Zicheng, Wang, Shuai, Zhang, Yanlin, Liu, Qingfeng, Jiang, Qiang, Wang, Xiuge, Guo, Yijun, Yang, Chunhong, Wang, Yinchao, Tian, Fang, Zhuang, Guilong, Fan, Yanna, Gao, Qican, Li, Yuhua, Ju, Zhihua, Li, Jianbin, Li, Rongling, Hou, Minghai, Yang, Guiwen, Liu, Guiqin, Liu, Wenqiang, Guo, Jiao, Pan, Shanshan, Fan, Guangyi, Zhang, Wei, Zhang, Ruitao, Yu, Jie, Zhang, Xinhao, Yin, Qi, JI, Chuanliang, Yue, Guidong, Liu, Mei, Xu, Jiake, Liu, Shimin, Jordana, Jordi, Noce, Antonia, Amills, Marcel, Wu, Dong Dong, Li, Shuaicheng, Zhou, Xiangshan, and Zhong, Jifeng
- Abstract
Current knowledge about the evolutionary history of donkeys is still incomplete due to the lack of archeological and whole-genome diversity data. To fill this gap, we have de novo assembled a chromosome-level reference genome of one male Dezhou donkey and analyzed the genomes of 126 domestic donkeys and seven wild asses. Population genomics analyses indicate that donkeys were domesticated in Africa and conclusively show reduced levels of Y chromosome variability and discordant paternal and maternal histories, possibly reflecting the consequences of reproductive management. We also investigate the genetic basis of coat color. While wild asses show diluted gray pigmentation (Dun phenotype), domestic donkeys display non-diluted black or chestnut coat colors (non-Dun) that were probably established during domestication. Here, we show that the non-Dun phenotype is caused by a 1 bp deletion downstream of the TBX3 gene, which decreases the expression of this gene and its inhibitory effect on pigment deposition.
- Published
- 2020
42. A genome-wide association analysis for body, udder, and leg conformation traits recorded in Murciano-Granadina goats
- Author
-
Ministerio de Economía y Competitividad (España), Agencia Estatal de Investigación (España), Ministerio de Ciencia, Innovación y Universidades (España), European Commission, Luigi-Sierra, Maria Gracia, Landi, Vincenzo, Guan, Dailu, Delgado, Juan Vicente, Castelló, Anna, Cabrera, Betlem, Mármol-Sánchez, Emilio, Fernández-Álvarez, Javier, Gómez-Carpio, Mayra, Martínez, Amparo, Such, Xavier, Jordana, Jordi, Amills, Marcel, Ministerio de Economía y Competitividad (España), Agencia Estatal de Investigación (España), Ministerio de Ciencia, Innovación y Universidades (España), European Commission, Luigi-Sierra, Maria Gracia, Landi, Vincenzo, Guan, Dailu, Delgado, Juan Vicente, Castelló, Anna, Cabrera, Betlem, Mármol-Sánchez, Emilio, Fernández-Álvarez, Javier, Gómez-Carpio, Mayra, Martínez, Amparo, Such, Xavier, Jordana, Jordi, and Amills, Marcel
- Abstract
Morphological traits are of great importance to dairy goat production given their effect on phenotypes of economic interest. However, their underlying genomic architecture has not yet been extensively characterized. Herein, we aimed to identify genomic regions associated with body, udder, and leg conformation traits recorded in 825 Murciano-Granadina goats. We genotyped this resource population using the GoatSNP50 BeadChip (Illumina Inc., San Diego, CA) and performed genome-wide association analyses using the GEMMA software. We found 2 genome-wide significant associations between markers rs268273468 [Capra hircus (CHI) 16:69617700] and rs268249346 (CHI 28:18321523) and medial suspensory ligament. In contrast, we did not detect any genome-wide significant associations for body and leg traits. Moreover, we found 12, 19, and 7 chromosome-wide significant associations for udder, body, and leg traits, respectively. Comparison of our data with previous studies revealed a low level of positional concordance between regions associated with morphological traits. In addition to technical factors, this lack of concordance could be due to a substantial level of genetic heterogeneity among breeds or to the strong polygenic background of morphological traits, which makes it difficult to detect genetic factors that have small phenotypic effects.
- Published
- 2020
43. A genome-wide analysis of copy number variation in Murciano-Granadina goats
- Author
-
European Commission, Ministerio de Economía y Competitividad (España), China Scholarship Council, Agencia Estatal de Investigación (España), Ministerio de Ciencia, Innovación y Universidades (España), Guan, Dailu, Martínez, Amparo, Castelló, Anna, Landi, Vincenzo, Luigi-Sierra, Maria Gracia, Fernández-Álvarez, Javier, Cabrera, Betlem, Delgado, Juan Vicente, Such, Xavier, Jordana, Jordi, Amills, Marcel, European Commission, Ministerio de Economía y Competitividad (España), China Scholarship Council, Agencia Estatal de Investigación (España), Ministerio de Ciencia, Innovación y Universidades (España), Guan, Dailu, Martínez, Amparo, Castelló, Anna, Landi, Vincenzo, Luigi-Sierra, Maria Gracia, Fernández-Álvarez, Javier, Cabrera, Betlem, Delgado, Juan Vicente, Such, Xavier, Jordana, Jordi, and Amills, Marcel
- Abstract
[Background]: In this work, our aim was to generate a map of the copy number variations (CNV) segregating in a population of Murciano-Granadina goats, the most important dairy breed in Spain, and to ascertain the main biological functions of the genes that map to copy number variable regions., [Results]: Using a dataset that comprised 1036 Murciano-Granadina goats genotyped with the Goat SNP50 BeadChip, we were able to detect 4617 and 7750 autosomal CNV with the PennCNV and QuantiSNP software, respectively. By applying the EnsembleCNV algorithm, these CNV were assembled into 1461 CNV regions (CNVR), of which 486 (33.3% of the total CNVR count) were consistently called by PennCNV and QuantiSNP and used in subsequent analyses. In this set of 486 CNVR, we identified 78 gain, 353 loss and 55 gain/loss events. The total length of all the CNVR (95.69 Mb) represented 3.9% of the goat autosomal genome (2466.19 Mb), whereas their size ranged from 2.0 kb to 11.1 Mb, with an average size of 196.89 kb. Functional annotation of the genes that overlapped with the CNVR revealed an enrichment of pathways related with olfactory transduction (fold-enrichment = 2.33, q-value = 1.61 × 10−10), ABC transporters (fold-enrichment = 5.27, q-value = 4.27 × 10−04) and bile secretion (fold-enrichment = 3.90, q-value = 5.70 × 10−03)., [Conclusions]: A previous study reported that the average number of CNVR per goat breed was ~ 20 (978 CNVR/50 breeds), which is much smaller than the number we found here (486 CNVR). We attribute this difference to the fact that the previous study included multiple caprine breeds that were represented by small to moderate numbers of individuals. Given the low frequencies of CNV (in our study, the average frequency of CNV is 1.44%), such a design would probably underestimate the levels of the diversity of CNV at the within-breed level. We also observed that functions related with sensory perception, metabolism and embryo development are overrepresented in the set of genes that overlapped with CNV, and that these loci often belong to large multigene families with tens, hundreds or thousands of paralogous members, a feature that could favor the occurrence of duplications or deletions by non-allelic homologous recombination.
- Published
- 2020
44. An association analysis for 14 candidate genes mapping to meat quality quantitative trait loci in a Duroc pig population reveals that the ATP1A2 genotype is highly associated with muscle electric conductivity
- Author
-
Ministerio de Economía y Competitividad (España), Generalitat de Catalunya, Ministerio de Educación, Cultura y Deporte (España), Amills, Marcel [0000-0002-8999-0770], Jordana Vidal, Jordi [0000-0002-7789-2989], Quintanilla, Raquel [0000-0003-3274-3434], Mármol-Sánchez, Emilio [0000-0002-4393-1740], Mármol-Sánchez, Emilio, Quintanilla, Raquel, Jordana, Jordi, Amills, Marcel, Ministerio de Economía y Competitividad (España), Generalitat de Catalunya, Ministerio de Educación, Cultura y Deporte (España), Amills, Marcel [0000-0002-8999-0770], Jordana Vidal, Jordi [0000-0002-7789-2989], Quintanilla, Raquel [0000-0003-3274-3434], Mármol-Sánchez, Emilio [0000-0002-4393-1740], Mármol-Sánchez, Emilio, Quintanilla, Raquel, Jordana, Jordi, and Amills, Marcel
- Abstract
In previous GWAS carried out in a Duroc commercial line (Lipgen population), we detected on pig chromosomes 3, 4 and 14 several QTL for gluteus medius muscle redness (GM a*), electric conductivity in the longissimus dorsi muscle (LD CE) and vaccenic acid content in the LD muscle (LD C18:1 n − 7), respectively. We have genotyped, in the Lipgen population, 19 SNPs mapping to 14 genes located within these QTL. Subsequently, association analyses have been performed. After correction for multiple testing, two SNPs in the TGFBRAP1 (rs321173745) and SELENOI (rs330820437) genes were associated with GM a*, whereas ACADSB (rs81449951) and GPR26 (rs343087568) genotypes displayed significant associations with LD vaccenic content. Moreover, the polymorphisms located at the ATP1A2 (rs344748241), ATP8B2 (rs81382410) and CREB3L4 (rs321278469 and rs330133789) genes showed significant associations with LD CE. We made a second round of association analyses including the SNPs mentioned above as well as other SNPs located in the chromosomes to which they map. After performing a correction for multiple testing, the only association that remained significant at the chromosome‐wide level was that between the ATP1A2 genotype and LD CE. From a functional point of view, this association is meaningful because this locus encodes a subunit of the Na+/K+‐ATPase responsible for maintaining an electrochemical gradient across the plasma membrane.
- Published
- 2020
45. A genome-wide association analysis for body, udder, and leg conformation traits recorded in Murciano-Granadina goats
- Author
-
Luigi-Sierra, Maria Gracia, primary, Landi, Vincenzo, additional, Guan, Dailu, additional, Delgado, Juan Vicente, additional, Castelló, Anna, additional, Cabrera, Betlem, additional, Mármol-Sánchez, Emilio, additional, Alvarez, Javier Fernández, additional, Gómez-Carpio, Mayra, additional, Martínez, Amparo, additional, Such, Xavier, additional, Jordana, Jordi, additional, and Amills, Marcel, additional
- Published
- 2020
- Full Text
- View/download PDF
46. Genetic Factors that Regulate Milk Protein and Lipid Composition in Goats
- Author
-
Amills, Marcel, primary, Jordana, Jordi, additional, Zidi, Ali, additional, and Manuel, Juan, additional
- Published
- 2012
- Full Text
- View/download PDF
47. Estudio de la variabilidad genetica en la raza bovina mallorquina para propositos de conservacion
- Author
-
Aranguren-Méndez, José, Jordana, Jordi, Avellanet, Rosa, and Torrens, Miquel
- Published
- 2002
48. Lineal Discrimination of Horses and Mules. A Sympatric Case from Arauca, Colombia
- Author
-
Salamanca-Carreño, Arcesio, primary, Jordana, Jordi, additional, Crosby-Granados, Rene Alejandro, additional, Bentez-Molano, Jannet, additional, and Parés-Casanova, Pere M., additional
- Published
- 2020
- Full Text
- View/download PDF
49. HOMOGRAPHY OF INVENTORSHIP: DABUS AND VALUING INVENTORS.
- Author
-
GOODMAN, JORDANA (JORDI)
- Subjects
- *
HOMOGRAPHY (Computer vision) , *INVENTORS , *PATENT invalidation , *PATIENT advocacy - Abstract
On July 28, 2021, the Device for the Autonomous Bootstrapping of Unified Sentience ("DABUS") became the first computer to be recognized as a patent inventor. Due to the advocacy of DABUS's inventor, Dr. Stephen Thaler, the world's definition of "inventor" has finally fractured - dividing patent regimes between recognition of machine inventorship and lack thereof. This division has sparked many scholarly conversations about inventorship contribution, but none have discussed the implications of a homographic inventorship. This Article addresses the implications of international homographic inventorship - where countries have different notions and rules concerning patent inventorship - and the consequences for failing to understand the divergences that could result in patent invalidation. This Article adds to the literature by addressing Thaler's tireless inventorship advocacy, highlighting that Thaler uses his position of privilege to argue for inventorship acknowledgement of his machine and simultaneously to relinquish his own inventorship recognition. To emphasize, there is no existing caselaw except the DABUS case where a potential inventor has argued for the acknowledgement of another inventor and simultaneously relinquished their own recognition - whether that unacknowledged inventor was human or not human. Thaler's advocacy amplifies the need for continued conversation regarding closing the patent inventorship gap for women and underrepresented minorities of color, who are too often tokenized and marginalized in STEM and in the patent process. By bringing the definition of inventor to the forefront, the DABUS case represents more than just a case of AI inventorship: it is a potential gateway to provide language and arguments to frame conversations about inventorship equity. In particular, the unique instance of Thaler's inventorship advocacy for his machine prompts questions about why inventors from privileged positions do not advocate for inventors from historically marginalized backgrounds. Based on a review of patent case law and sociology studies concerning power dynamics and communal recognition, this Article provides recommendations to address this issue and accelerate the stagnant process of achieving inventorship equity. [ABSTRACT FROM AUTHOR]
- Published
- 2022
50. Mapping copy number variation in Murciano-Granadina goats
- Author
-
Guan, Dailu, Castelló, Anna, Landi, Vincenzo, Luigi-Sierra, Maria Gracia, Delgado, Juan Vicente, Alvarez, J. F., Martínez, Amparo, Such, Xavier, Jordana, Jordi, and Amills, Marcel
- Abstract
Resumen del póster presentado a la 37th International Conference on Animal Genetics (ISAG), celebrada en Lleida (España) del 7 al 12 de julio de 2019., Copy number variation (CNV) plays an important role in phenotypic diversity and evolutionary adaptation in livestock. In this study, we have searched for caprine CNV regions (CNVRs) by using Goat SNP50 BeadChip data from 1,036 Murciano-Granadina goats. Two softwares, PennCNV and QuantiSNP, have been employed to call CNVs in this resource population. The CNVRs were defined as genomic regions containing CNV that overlap at least 30% by 2 callers. The CNV scan resulted in the identification of 486 CNVRs that were consistently detected with PennCNV and QuantiSNP. Interestingly, one of the CNVRs mapped to the casein cluster, so it would be worth to investigate its association with milk composition. Indeed, one of the null alleles of the CSN1S1 gene involves a partial deletion of this locus and causes a marked decrease in milk protein content. Moreover, another CNVR mapped to the ASIP gene, which has been reported to be associated with white color in sheep and goats. To further validate the presence of the ASIP CNVR, a qPCR assay was developed to estimate its copy number in several goat populations. We have found evidence of the presence of structural variation in the ASIP locus in goat populations, such as Murciano-Granadina, which have a solid non-white color.
- Published
- 2019
Catalog
Discovery Service for Jio Institute Digital Library
For full access to our library's resources, please sign in.