Publications

2026

Publications in peer reviewed journals 

Guignet, Agathe; Hemelsdaël, Adeline; Gaspar, Daniel; Halpin, Áine; Mattiangeli, Valeria; Navarrete, Vanessa; López-Reyes, Dani; et al. "Bridging morphometrics and Archaeogenetics: a non-destructive approach to species identification of sheep, goats and pigs based on bony labyrinth". World Archaeology (2026): 1-13. https://doi.org/10.1080/00438243.2026.2720450. 

Thesis

Halpin, Á. (2026). "Baa-ck in time: Uncovering the demography of ancient sheep through population genomics" [PhD thesis, Trinity College Dublin]. https://www.tara.tcd.ie/items/80a4f610-33d5-4bd7-97b5-8d74dec98ca8 

2025

Publications in peer reviewed journals 

Pires, Ana; Ginja, Catarina. "Arqueogenómica e biodiversidade dos animais domésticos". Revista de Ciência Elementar 13 1 (2025): 009. https://doi.org/10.24927/rce2025.009 

Conference abstracts

Gaspar, D.; Usié, A.; Bruno de Sousa, Carolina; Matos, José; Matos, Claudino António Pereira de ; Pires, Ana Elisabete; Ginja, Catarina. "Unveiling genome-wide diversity and selection signatures in Portuguese sheep breeds" (Oral Communication). Paper presented in XXI International Meeting of the Portuguese Association for Evolutionary Biology (ENBE). https://enbe2025.campus.ciencias.ulisboa.pt/, Bragança, Portugal 2025

Gaspar, D.; Halpin, Aine; Mattiangeli, Valeria; Usié, A.; Ginja, Catarina. "Tracing the evolutionary history of Iberian and North African sheep through ancient DNA" (Oral communication). Paper presented in 11th International Council for Archaeozoology (ICAZ) Archaeozoology, Genetics, Proteomics, and Morphometrics (AGPM) Working Group Meeting. https://sites.google.com/palaeome.org/11th-icaz-apgm-dk/home, Copenhagen, Denmark 2025.

Gaspar, D.; Usié, A.; Bruno de Sousa, Carolina; Matos, Claudino António Pereira de ; Pires, Ana Elisabete; Ginja, Catarina. "A genome-wide analysis uncovers genetic diversity and differentiation in portuguese sheep breeds" (Oral communication). Paper presented in REGAD2025 - III SIMPOSIO DE LA RED IBEROAMERICANA SOBRE LOS RECURSOS ZOOGENÓMICOS Y SU RESILIENCIA (REZGEN-IBA). https://sites.google.com/unal.edu.co/programa-regad2025/xxvi-conbiand/bloque-3-ponencias?authuser=0, Monteria, Colombia 2025.

Gaspar, D.; Usié, A.; Bruno de Sousa, Carolina; Matos, José; Matos, Claudino António Pereira de ; Pires, Ana Elisabete; Ginja, Catarina. "Genomic diversity and selection signatures in Portuguese coarse wool sheep breeds" (Oral and poster communication). Paper presented in 40th International Society for Animal Genetics Conference. https://www.isag.us/2025/, Daejeon, Republic of Korea 2025 

Thesis

Gaspar, D. (2025). "Genomic tools for conservation and management of Portuguese native sheep" [PhD thesis, University of Porto]. https://doi.org/10.34626/wnt3-s734 

Fonseca, C. (2025). "Genomic diversity and population structure of coarse-wool native sheep from Portugal" [Master’s thesis , University of Lisbon]. http://hdl.handle.net/10400.5/118404 

2024

Publications in peer reviewed journals 

Gaspar, D; Ginja, C; Carolino, N; Leão, C; Monteiro, H; Tábuas, L; Branco, S; Padre, L; Caetano, P; Romão, R; Matos, C; Ramos, A.M; Bettencourt, E; Usié, A. Genome-Wide Association Study Identifies Genetic Variants Underlying Footrot in Portuguese Merino Sheep. BMC Genomics 2024, 25, 1–11, doi:10.1186/S12864-023-09844-X/FIGURES/2. 

Pires, Ana Elisabete; Gaspar Simões, Luciana; Ginja, Catarina. "Nós humanos e os animais domésticos: revisão (incompleta) da investigação arqueogenómica realizada em Portugal". Al-Madan IIª série 27 (2024): 82-94. https://almadan.publ.pt/%C3%9Altimo%20(geral%20duplo).html

Ginja, Catarina; Bruno-de-Sousa, Carolina. "Biodiversidade dos animais domésticos da Península Ibérica: uma perspetiva genómica / Biodiversity of Iberian farm animal genetic resources: a genomics perspective". Cultivar: cadernos de análise e prospetiva - Melhoramento e técnicas genómicas 30 (2024): 79-92. https://www.gpp.pt/images/GPP/O_que_disponibilizamos/Publicacoes/CULTIVAR_30/78/. Open access • Published

Book chapters

Gaspar, Daniel; Halpin, Aine; Sarmento, Cindy; Guimarães, Silvia; Mattiangeli, Valeria; Usié, A.; Soares, Joaquina; et al. "The impact of the Roman empire on Iberian sheep husbandry: an archaeogenomics study.". In Animais e plantas na Lusitania romana, edited by Centro de Arqueologia da Universidade de Lisboa, 109-123. Lisbon, Portugal: Centro de Arqueologia da Universidade de Lisboa, 2024. Published • https://doi.org/10.51427/arq.2024.26 

Conference abstracts

Gaspar, Daniel; Halpin, Aine; Mattiangeli, Valeria; Guimarães, Silvia; Sarmento, Cindy; Daly, Kevin; Usié, Ana; et al. "The impact of the Roman Empire on Portuguese sheep husbandry: An archaeogenomics study of Iberian sheep from the Roman Period." (Oral communication). Paper presented in Iberian Zooarchaeology Meeting – EZI2024 Barcelona. 17-19 June. https://ezi2024barcelona.wordpress.com/wp-content/uploads/2024/05/libro_abstracts_ezi_2024.pdf, Barcelona, 2024

Gaspar, D; Usié, A; Matos, C; Bruno-de-Sousa, C; Ginja, C. (2024) Genomic tools for conservation and management of Portuguese native sheep. III Meeting AL4AnimaLs. Porto, Portugal. Poster presentation 

Gaspar, D.; Ginja, C.; Matos, C.; Bruno de Sousa, C.; Pires, A.E.; Ramos, A.M.; Usié, A. Corresponding author: Usié, A. "Ferramentas genómicas para a conservação e gestão de ovelhas nativas portuguesas" (Poster  presentation). Paper presented in IV Congresso Luso – Espanhol da Pecuária Extensiva – Caminhos para a Sustentabilidade e Renovação Geracional. https://congresso-pecuaria-extensiva.pt/programa/, 2024  

2023

Conference abstracts

Gaspar, D; Halpin, A; Mattiangeli, V; Guimarães, S; Sarmento, C; Daly, K; Usié, A; Soares, J; Silva, C.T; Heras, J; Bustamante, M; Arruda, A; Viegas, C; Davis, S; Silva, R; Gonçalves, A; Valenzuela-Lamas, S; Detry, C; Pires, A.E; Bradley, D.G. & Ginja, C. (2023). An archaeogenetics study of Iberian sheep from the Roman Period. 10th ICAZ AGPM Working Group Meeting. Munich, Germany. Poster presentation. 

Gaspar, D; Guimarães, S; Usié, A; Fonseca, A; Valera, A; Fernández-Rodríguez, C; Bruno de Sousa, C; Matos, C; Detry, C; Pereira, F; Cardoso, J; Matos, J; Gama, L; Valente, M.J; Diniz, M; Almeida, N; Fonseca, R; Davis, S; Aniceti, V; Pires, A.E; Valenzuela-Lamas, S. & Ginja, C (2023). ARIES - The variation of Iberian sheep under domestication: an archaeogenetics study. XIX ENBE Annual Meeting of the Portuguese Association for Evolutionary Biology. Lisboa, Portugal. Poster presentation. 

Gaspar, D; Bruno-de-Sousa, C; Dias-de-Oliveira, A; Oliveira, F; Guerreiro, R; Pires, AE; Matos, C; Usié, A & Ginja, C (2023). Estudio genómico de la raza ovina autóctona portuguesa churra algarvia. XXIV Simposio Iberoamericano CONBIAND sobre conservación y utilización de recursos zoogenéticos y I SIMPOSIO REZGEN-IBA., Veracruz, México. Oral presentation.

Gaspar, D; Ginja, C; Leão, C; Monteiro, H; Tábuas, L; Branco, S; Padre, L; Bettencourt, E; Caetano, P; Carolino, N; Matos, C; Ramos, A.M. & Usié, A. (2023). Genome-wide insights on footrot resistance in Portuguese native Merino. ISAG – 39th International Society for Animal Genetics Conference, Cape Town, South Africa. Poster presentation. 

Gaspar, D; Usié, A; Leão, C; Guimarães, S; Pires, A. E; Matos, C; Ramos, AM; & Ginja, C (2023). Genome-wide diversity and population structure analysis of four Portuguese native sheep breeds. International Seminar on Climate Change and Animal Genetic Improvement. (Online). Oral presentation.