Publications

Peer-reviewed publications at QGG

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Teng, J., Zhao, X., Yan, Q., Yang, J., Pei, F., Zhang, X., Duan, C., Chen, Z., Xu, Q., Liu, Y., Xue, G., Xia, S., Wang, H., Gu, Y., Fang, L., Liu, H., Gao, H., An, J., Jiang, L. ... Zhang, Q. (2026). Integrative analysis of GWAS, Bayesian fine-mapping, Mendelian randomization and colocalization reveals genetic determinants underlying milk-related traits in dairy cattle. Genetics Selection Evolution, 58(1), Article 4. https://doi.org/10.1186/s12711-025-01028-3

An, B., Luo, N., Liu, P., Wei, L., Fang, L., Wen, J. & Zhao, G. (2026). Integrative meta-GWAS and lipidomics reveal genetic regulators of nutritional fatty acids and lipid metabolites in chicken liver lipid accumulation. Journal of Agriculture and Food Research, 27, Article 102673. https://doi.org/10.1016/j.jafr.2026.102673

Verweij, J. W., Nielsen, H. M. & Buitenhuis, A. J. (2026). Comparative analysis of genetic diversity in rainbow trout (Oncorhynchus mykiss) populations from Denmark and Finland using SNP data. Aquaculture, 616, Article 743706. https://doi.org/10.1016/j.aquaculture.2026.743706

Muchina, P., Kinyua, J., Khamis, F., Tanga, C. M., Satti, M. A., Gebreyesus, G., Sahana, G. & Cai, Z. (2026). A haplotype reference panel and genotype imputation framework for the black soldier fly (Hermetia illucens). Genomics, 118(2), Article 111206. https://doi.org/10.1016/j.ygeno.2026.111206

Chen, L., Li, H., Teng, J., Wang, Z., Qu, X., Chen, Z., Cai, X., Zeng, H., Bai, Z., Li, J., Pan, X., Yan, L., Wang, F., Lin, L., Luo, Y., Sahana, G., Lund, M. S., Ballester, M., Crespo-Piazuelo, D. ... Yi, G. (2026). Construction of a Multitissue Cell Atlas Reveals Cell-Type-Specific Regulation of Molecular and Complex Phenotypes in Pigs. Advanced Science, 13(8), Article e04961. https://doi.org/10.1002/advs.202504961

Brix, G. S., Rasmussen, L. D., Rohde, P. D., Pagidipati, N. J., Shah, S. H., Møller, P. L., Schmidt, S. E., Kwee, L. C., Douglas, P. S., Foldyna, B., Nyegaard, M., Bøttcher, M. & Winther, S. (2026). Incorporation of Lipoprotein(a) levels improves calibration of pre-test likelihood estimates of obstructive coronary artery disease. European Heart Journal Cardiovascular Imaging. Advance online publication. https://doi.org/10.1093/ehjci/jeag021

Bouquet, A. E. R., Meinert, C. Æ. & Kargo, M. (2026). Optimizing selection decisions in the Danish Dairy Shorthorn conservation program. DCA - Nationalt Center for Fødevarer og Jordbrug. Advisory report from DCA – National Center for Food and Agriculture

Foldager, L., Lindgren, S. D., Gebreyesus, G. & Thodberg, K. (2026). Halevækst for ukuperede og kuperede svin fra fødsel til slagt: var den kuperet kortere end lovgivningen tillader? In P. Linde (Ed.), Symposium i Anvendt Statistik 2026 (pp. 184-193). Fødevare- og Ressourceøkonomisk Institut, Københavns Universitet & Symposium i Anvendt Statistik.

Lund, P., Maigaard, M., Jensen, M. B., Brask, M. J., Thorsteinsson, M., Stephansen, R. B., Nielsen, H. M., Villumsen, T. M., Nørgaard, J. V., Jensen, S. K., Stødkilde-Jørgensen, L., Hansen, N. P. & Weisbjerg, M. R., (2026). TRL for nye teknologier og tiltag, som potentielt kan reducere udledningen af metan eller andre klimagasser indenfor Fødevarestyrelsens ressort, No. 2025-0917878, 25 p., Jan 23, 2026. Rådgivningsnotat fra DCA - Nationalt Center for Fødevarer og Jordbrug

Muchina, P., Kinyua, J., Khamis, F., Tanga, C. M., Bett, R., Ssepuuya, G., Nakimbugwe, D., Sinding, M.-H. S., Gebreyesus, G., Sahana, G. & Cai, Z. (2026). Human-mediated dispersal and breeding reshape global genomic patterns in black soldier flies. Genomics, 118(2), 111208. Advance online publication. https://doi.org/10.1016/j.ygeno.2026.111208, https://doi.org/10.1016/j.ygeno.2026.111208

Bordbar, F., Jensen, J., Wadood, A. A., Jebessa, E., Cai, B. & Nie, Q. (2026). Genomic insights into egg production in Mahuang chickens: identification of key loci and candidate genes through whole genome sequencing and validation. Animal : an international journal of animal bioscience, 20(3), 101762. Advance online publication. https://doi.org/10.1016/j.animal.2026.101762, https://doi.org/10.1016/j.animal.2026.101762

Thodberg, K., Gebreyesus, G. & Foldager, L. (2026). Måling af halelængde hos grise med kuperede haler i deres vækstperiode. DCA - Nationalt Center for Fødevarer og Jordbrug. Rådgivningsnotat fra DCA - Nationalt Center for Fødevarer og Jordbrug

Kragh-Schwarz, M. V., Birkedal, H., Birk, J. O., Trtik, P., Strobl, M., Nielsen, L. P. & Bentien, A. (2026). Operando neutron imaging of an alkaline electrolysis cell for mapping gas distributions. Journal of Power Sources, 662, Article 238525. https://doi.org/10.1016/j.jpowsour.2025.238525

Madsen, C. K., Hama, J., Nielsen, B., Janss, L., Ottosen, C.-O., Ramstein, G. & Brinch-Pedersen, H., (2026). Forædling af planter med forbedrede klimaeffekter, No. 2025-0896873, 24 p., Jan 09, 2026. Rådgivningsnotat fra DCA - Nationalt Center for Fødevarer og Jordbrug

Hou, Y., Zou, D., Chu, Q., Zhan, B., Wang, R., Guan, D., Wang, W., Feng, X., Li, X., Zhu, X., Bai, Z., Gao, Y., Yin, H., Xu, T., Yuan, Z., Hu, X., Yang, N., Zhou, H., Fang, L. & Zhang, Z. (2026). The ChickenGTEx portal: a pan-tissue catalogue of regulatory variants shaping transcriptomic and phenotypic diversity. Nucleic Acids Research, 54(D1), D982-D993. https://doi.org/10.1093/nar/gkaf731

Russello, H., Alison, J., He, Z. & Geissmann, Q. (2026). miniMon: A low-cost, low-tech mini timelapse camera trap for monitoring arthropods. Abstract from Environmental and Behavioral Monitoring with Open Source, Low Cost Tools' Symposium (SICB 2026).

Ahmad, A., Gebreyesus, G., Wold, J. P., Sonesson, A. K., Berg, P. & Difford, G. F. (2026). High-throughput NIR-based phenotyping for genomic prediction of feed intake and production traits in Atlantic Salmon. Aquaculture, 611, Article 743006. https://doi.org/10.1016/j.aquaculture.2025.743006

Liu, J., Li, Y., Yu, X., Ren, B., Chen, H., Ding, F., Jiang, F., Ottosen, C. O., Song, X., Mittler, R., Wu, Z. & Zhou, R. (2026). Specific redox homeostasis, ion accumulation and gas exchange responses in tomato plants subjected to combined drought and salinity stresses. Scientia Horticulturae, 355, Article 114543. https://doi.org/10.1016/j.scienta.2025.114543

Hof, J., Vermeulen, S. & Richters, A. (2026). Biased associations between number of BCG instillations and outcome in non-muscle-invasive bladder cancer. BJU International, 137(1), 226. https://doi.org/10.1111/bju.16866

Gao, Y., Yang, L., Kuhn, K., Li, W., Zanton, G., Bowman, M., Zhao, P., Zhou, Y., Fang, L., Cole, J. B., Rosen, B. D., Ma, L., Li, C., Baldwin, R. L., Van Tassell, C. P., Zhang, Z., Smith, T. P. L. & Liu, G. E. (2026). Long read and preliminary pangenome analyses reveal breed-specific structural variations and novel sequences in Holstein and Jersey cattle. Journal of Advanced Research, 79, 137-150. https://doi.org/10.1016/j.jare.2025.04.014

Svenning, A., Mougeot, G., Alison, J., Chevalier, D., Molina, N. C., Ong, S. Q., Bjerge, K., Carrillo, J., Høye, T. T. & Geissmann, Q. (2026). A general method for detection and segmentation of terrestrial arthropods in images. Methods in Ecology and Evolution. Advance online publication. https://doi.org/10.1111/2041-210x.70249

Baghooee, M. & Geissmann, Q. (2026). Insect size matters: Using image and dimensions together improves image classification. Ecological Informatics, 94. https://doi.org/10.1016/j.ecoinf.2026.103664

Lin, Q., Cai, X., Zhong, Z., Li, T., Chen, X., Ayalew, W., Xu, Z., Wei, C., Zhang, X., Cheng, H., Zhang, Z., Li, X., Tang, Y., Chen, S., Zhou, J., Si, J., Wu, X., Ning, C., Wang, Q. ... Zhang, Z. (2026). Meta-GWAS of Pig Semen Quality Traits Reveals Conserved Genes Regulating Mammalian Fertility. Advanced Science. Advance online publication. https://doi.org/10.1002/advs.202515203

Wang, C., Zhang, Y., Chen, C., Xu, X., Qin, S., Qi, J., Bao, Y., Li, H., Chen, R., Zheng, W., Chen, Z., Fang, L., Zhao, Y. & Liu, Y. (2026). Multi-Tissue Omics Analysis Uncovers Translational Regulation Underlying Complex Traits in Pigs. Advanced Science, Article e74200. Advance online publication. https://doi.org/10.1002/advs.74200

Wang, S., Khaipho-Burch, M., Johnson, L. C., Miller, Z. R., Bradbury, P. J., Speed, D., Allen, W. J., Romay, M. C., Xue, J., Buckler, E. S., Ramstein, G. P. & Song, B. (2026). Predicted protein 3D structures provide essential insights into the genetic architecture underlying phenotypic diversity in maize. Genome Research, 36(1), 214-225. https://doi.org/10.1101/gr.280514.125

Zaalberg, R. M., Andersen, L. B., Noel, S. J., Buitenhuis, A. J., Jensen, K. & Gebreyesus, G. (Accepted/In press). Prediction of amino acid content in live black soldier fly larvae using near infrared spectroscopy. Journal of Insects as Food and Feed. https://doi.org/10.1163/23524588-bja10381

Ithurbide, M., Bouquet, A., Rupp, R., Puillet, L. & Friggens, N. C. (2026). Resilience and Robustness in the Service of Longevity and Sustainable Efficiency in Dairy Production. Annual Review of Animal Biosciences, 14(1), 229-250. https://doi.org/10.1146/annurev-animal-041125-111332

Shi, T., Shan, H., Wang, H., Guo, X., Li, H., Han, B., Zhu, S., Wang, F., Tan, G., Niyazbekova, Z., Ren, J., Zhou, Y., Zhang, Q., Zheng, W., Jia, M., Zhang, A., Cao, X., Sun, H., Sun, D. ... Jiang, Y. (2026). Single-Cell Transcriptomic Atlases of Camels and Cattle Unravel Molecular Evolution of Digestive and Metabolic Systems. Advanced Science. Advance online publication. https://doi.org/10.1002/advs.202519346

Romé, H. J. S., Bagge, M. & Jensen, J. (2026). The Genetic Basis of Resistance to Late Blight in Tetraploid Potatoes. Crop Breeding, Genetics and Genomics, 8(1). https://doi.org/10.20900/cbgg20260001

Liu, H., Christensen, O. F., Eiríksson, J. H., Boichard, D., Milkevych, V., Thomasen, J. R. & Karaman, E. (2025). Accuracy of local ancestry inference and its impact on genomic prediction in admixed dairy cattle populations. Journal of Dairy Science. Advance online publication. https://doi.org/10.3168/jds.2025-27019, https://doi.org/10.3168/jds.2025-27019

Zhu, D., Shi, K., Li, C., Yan, Y., Li, H., Bai, Z., Tan, L., Guan, D., Zhao, Y., Wang, Y., Fan, B., Jiang, Z., Xu, Z., Feng, C., Fang, L., Hu, X. & ChickenGTEx Consortium (2025). Egg-laying ChickenGTEx resource deciphers context-specific regulatory effects on fertility traits. Nature Communications. Advance online publication. https://doi.org/10.1038/s41467-025-67245-y

Liu, X., Wang, T., Zheng, Z., Dong, C., Liu, W., Niu, Z., Yang, Y., Wu, X., Qiu, Q., Yang, Y., Li, K., Lenstra, J. A., Yan, P., Kang, M., Li, B., Fang, L. & Liu, J. (2025). A 14-bp motif in the KIT active promoter region is critical for melanin accumulation in yaks, mice, and humans. BMC Biology, 23(1), Article 208. https://doi.org/10.1186/s12915-025-02311-x

Yin, H., Zhao, Q., Yang, L., Yi, G., Yao, W., Fang, L. & Bai, L. (2025). A multi-tissue and -breed catalogue of chromatin conformations and their implications in gene regulation in pigs. BMC Genomics, 26(1), Article 484. https://doi.org/10.1186/s12864-025-11490-4

Zhu, S. L., Yan, Y. N., Jia, M. H., Li, H. C., Han, B., Shi, T., Xu, L. B., Wang, X. W., Zhang, Q., Zheng, W. J., Xu, J. H., Chen, L., Qi, W., Cai, S. J., Chen, X. P., Gu, F. F., Liu, J. X., Liu, G. E., Jiang, Y. ... Sun, H. Z. (2025). Antioxidants promote metabolic remodeling in cattle rumen epithelium revealed by single-cell resolution. iMeta, 4(6), Article e70100. https://doi.org/10.1002/imt2.70100

Hanini, A. & Beljadid, A. (2025). A semi-implicit method for modeling salinity and temperature in variable-density flow. Mathematics and Computers in Simulation, 238, 222-239. https://doi.org/10.1016/j.matcom.2025.04.032

Shi, R., van der Linden, A., Ducro, B., Puillet, L. & Bouquet, A. (2025). Assessing future economic and environmental impacts of selecting resilient dairy cows using integrated mechanistic and genetic modelling. Animal : an international journal of animal bioscience, 19(12), Article 101716. https://doi.org/10.1016/j.animal.2025.101716

Morales Moreira, Z. P., Kak, K., Wei, Z. W., Yanez-Ortuno, D., Wang, N. R., Hedges, J. B., Chen, M. Y., Geissmann, Q., Zhang, W., Chatterton, S., Ryan, K. S. & Haney, C. H. (2025). Azomycin produced by Pseudomonas has both phytotoxic and anti-oomycete activity. Journal of Bacteriology, 207(12). https://doi.org/10.1128/jb.00292-25

Poulsen, B. G., Lourenco, D., Ostersen, T., Nielsen, B., Leite, N. G., Henryon, M. & Christensen, O. F. (2025). Comparison between repeatability, reproductive stage stratified repeatability, and relative risk models for prediction of breeding values for functional survival in rotationally crossbred sows. Genetics Selection Evolution, 57(1), Article 72. https://doi.org/10.1186/s12711-025-01019-4

Ssemakula, F., Nawoya, S., Kunyanga, C. N., Akol, R., Nakimbugwe, D., Bett, R. C., Karstoft, H., Bjerge, K., Katumba, A., Mwikirize, C. & Gebreyesus, G. (2025). Emerging technologies for fast determination of nutritional quality and safety of insects for food and feed: A review. Computers and Electronics in Agriculture, 239, Article 111126. https://doi.org/10.1016/j.compag.2025.111126

Berg, J. A., Sævik, B. K., Trangerud, C., Madsen, P. & Lingaas, F. (2025). Genetic analyses of lumbosacral transitional vertebra and hip dysplasia in nine dog breeds in Norway. Acta Veterinaria Scandinavica, 67(1), Article 25. https://doi.org/10.1186/s13028-025-00810-z

Gautason, E., Þórarinsdóttir, Þ. & Sahana, G. (2025). Haplotypes affecting stillbirth and fertility in Icelandic Dairy Cattle. Journal of Applied Genetics, 66(4), 1053-1064. Article e65550. https://doi.org/10.1007/s13353-025-00978-0

Tabrizi, F., Rosén, J., Grönvall, H., William-Olsson, V. R., Arner, E., Magnusson, P. K., Palm, C., Larsson, H., Viktorin, A., Bernhardsson, J., Björkdahl, J., Jansson, B., Sundin, Ö., Zhou, X., Speed, D. & Åhs, F. (2025). Heritability and polygenic load for comorbid anxiety and depression. Translational Psychiatry, 15(1), 98. Article 98. https://doi.org/10.1038/s41398-025-03325-3

Kunduru, B., Bokros, N. T., Tabaracci, K., Kumar, R., Brar, M. S., Stubbs, C. J., Oduntan, Y., DeKold, J., Bishop, R., Woomer, J., Verges, V., McDonald, A. G., McMahan, C. S., DeBolt, S., Robertson, D. J. & Sekhon, R. S. (2025). High-density Phenotype Data of Intermediate Phenotypes Associated with Stalk Lodging Resistance in Maize. Scientific Data, 12(1), Article 1721. https://doi.org/10.1038/s41597-025-06008-2

Hosseinzadeh, S., Rafat, S. A. & Fang, L. (2025). Integrated TWAS, GWAS, and RNAseq results identify candidate genes associated with reproductive traits in cows. Scientific Reports, 15(1), 1932. Article 1932. https://doi.org/10.1038/s41598-024-82448-x

Wang, X., Si, J., Wang, Y., Fang, L., Zhang, Z. & Zhang, Y. (2025). Integrating gene expression data via weighted multiple kernel ridge regression improved accuracy of genomic prediction. Genetics Selection Evolution, 57(1), Article 48. https://doi.org/10.1186/s12711-025-00997-9

An, B., Liu, P., Yang, Z., Ying, F., Liu, D., Wen, J. & Zhao, G. (2025). Integrative transcriptomics and metabolomics reveal neuroendocrine-lipid crosstalk and adenosine signaling in broiler under heat stress. BMC Genomics, 26(1), Article 699. https://doi.org/10.1186/s12864-025-11881-7

Bouquet, A., Slagboom, M., Thomasen, J. R., Kargo, M., Friggens, N. C. & Puillet, L. (2025). Interfacing mechanistic and breeding scheme simulation to predict selection response on lactation efficiency in dairy cows under different nutritional environments. Genetics Selection Evolution, 57(1), Article 68. https://doi.org/10.1186/s12711-025-01013-w

Chen, J., Huang, R., Ma, J., Su, G., Huang, M., Zhou, W., Liu, C., Liu, Q., Li, P. & Zhao, Q. (2025). Investigating the genetic imprint of long body length, high lean meat rate, high fertility and long gestation period in Danish Landrace pigs. BMC Genomics, 26(1), Article 869. https://doi.org/10.1186/s12864-025-12092-w

Xi, Y., Qi, J., Yang, Z., Zeng, Y., Zhang, H., Tao, Q., Xu, M., Huang, A., Hu, S., Han, C., Bai, L., Hu, J., Wang, J., Li, L., Fang, L. & Liu, H. (2025). Mapping multitissue regulatory variants reveals a liver-centric coexpression network associated with duck egg-laying performance. Genome Research, 35(10), 2211-2225. https://doi.org/10.1101/gr.280345.124

Zhu, X., Li, C., Luo, C., Bai, Z., Shu, D., Chen, P., Ren, J., Song, R., Fang, L., Qu, H., Wang, Y. & Hu, X. (2025). Mapping the regulatory genetic landscape of complex traits using a chicken advanced intercross line. Nature Communications, 16(1), Article 5841. https://doi.org/10.1038/s41467-025-60834-x

Hjelholt, A. J., Gholipourshahraki, T., Bai, Z., Shrestha, M., Kjolby, M., Sørensen, P. & Rohde, P. D. (2025). mLeveraging genetic correlations to prioritize drug groups for repurposing in type 2 diabetes. Pharmacogenomics Journal, 25(6), Article 33. https://doi.org/10.1038/s41397-025-00392-z

Yin, H., Yang, L., Zhao, Q., Yao, W., Teng, J., Gao, Y., Xu, Z., Lin, Q., Diao, S., Liu, X., Zhao, F., Zhou, Z., Wang, Q., Li, J., Zhang, Z., Zhou, H., Groenen, M. A. M., Madsen, O., Bai, L. ... Li, K. (2025). Multi-dimensional annotation of porcine variants using genomic and epigenomic features in pigs. BMC Biology, 23(1), Article 188. https://doi.org/10.1186/s12915-025-02279-8

Ye, X., Sahana, G., Lund, M. S., Li, B. & Cai, Z. (2025). Network analyses unraveled the complex interactions in the rumen microbiota associated with methane emission in dairy cattle. Animal Microbiome, 7(1), Article 24. https://doi.org/10.1186/s42523-025-00386-z

Tu, J. H., Liu, B. G., Lin, B. J., Liu, H. C., Guo, S. C., Ouyang, Q. Y., Fang, L. Z., He, X., Song, Z. H. & Zhang, H. H. (2025). Single-cell transcriptomic atlas of the chicken cecum reveals cellular responses and state shifts during Eimeria tenella infection. BMC Genomics, 26(1), Article 141. https://doi.org/10.1186/s12864-025-11302-9

Ollivier, R., Robin, S., Galland, M., Shih, P. Y., Morlière, S., Paulmann, M. K., Gershenzon, J., Kunert, G., Pilet-Nayel, M. L., Simon, J. C. & Sugio, A. (2025). Transcriptomic analysis reveals candidate molecular pathways involved in pea (Pisum sativum L.) resistance to pea aphid (Acyrthosiphon pisum Harris) biotypes. BMC Genomics, 26(1), Article 580. https://doi.org/10.1186/s12864-025-11742-3

Skovbjerg, C. K., Sarup, P., Wahlström, E. M., Jensen, J. D., Olesen, L., Orabi, J., Jensen, J., Ramstein, G. P. & Jahoor, A. (2025). Genomic prediction in a small barley population can benefit from training on related populations. G3 (Bethesda, Md.), 15(11). https://doi.org/10.1093/g3journal/jkaf218, https://doi.org/10.1093/g3journal/jkaf218

Þórarinsdóttir, Þ., Eiriksson, J., Gautason, E., Thomasen, J. R. & Liu, H. (2025). Evaluating genomic breeding programs for a small dairy cattle population with widespread use of private bulls. Journal of Dairy Science, 108(11), 12450-12462. https://doi.org/10.3168/jds.2025-26592

Schneider, H., Lajevardi, R. K., Bjerring, M., Løvendahl, P., Lund, M. S. & Villumsen, T. M. (2025). Genetic parameters for enteric methane traits and their genetic connection with milk production in Danish Holstein cattle. Journal of Dairy Science, 108(11), 12519-12530. https://doi.org/10.3168/jds.2025-26853

Bai, Z., Chen, W., Cai, Z. & Sahana, G. (2025). Genomic insights into young stock survival in Danish Jersey cattle: A breed-specific QTL on chromosome 10 and its regulatory potential. Genomics, 117(6), Article 111134. https://doi.org/10.1016/j.ygeno.2025.111134, https://doi.org/10.1016/j.ygeno.2025.111134

Johansen, N. H., Bellucci, A., Hansen, P. B., Marum, P., Amdahl, H., Gylstrøm, K. H., Rognli, O. A., Kemešytė, V., Brazauskas, G., Greve, M., Persson, C., Isolahti, M., Helgadóttir, Á., Aavola, R., Asp, T. & Ramstein, G. P. (2025). Genomic prediction of agronomic traits in perennial ryegrass (Lolium perenne L.) and genotype x environment interactions at the limit of the species distribution. Theoretical and Applied Genetics, 138(11), Article 281. https://doi.org/10.1007/s00122-025-05064-x

Yang, Z., Liu, P., Ying, F., Liu, D., Wen, J., Zhao, G. & An, B. (2025). The heart and liver transcriptome responses to acute and chronic heat stress in broilers. Poultry Science, 104(11), Article 105632. https://doi.org/10.1016/j.psj.2025.105632

Dai, D., Si, J., Jiang, L., Han, B., Wang, K., Wang, X., Yan, S., Yin, Y., Chen, W., Mao, H., Pauciullo, A., Li, S. T., Fang, L. & Zhang, Y. (2025). Comparative Single-Cell Transcriptomic Landscape Reveals the Regulatory Mechanisms of Lactation during Selective Breeding in Asian Water Buffalo. Advanced Science, 12(37), Article e08847. https://doi.org/10.1002/advs.202508847

Han, B., Li, H., Zheng, W., Zhang, Q., Chen, A., Zhu, S., Shi, T., Wang, F., Zou, D., Song, Y., Ye, W., Du, A., Fu, Y., Jia, M., Bai, Z., Yuan, Z., Liu, W., Tuo, W., Hope, J. C. ... Sun, D. (2025). A multi-tissue single-cell expression atlas in cattle. Nature Genetics, 57(10), 2546-2561. https://doi.org/10.1038/s41588-025-02329-5

Milkevych, V. & Villumsen, T. M. (2025). Fault detection in the sniffer-based gas emission measurement systems. Computers and Electronics in Agriculture, 237, Article 110652. https://doi.org/10.1016/j.compag.2025.110652

Wang, X., Yuan, Y., Pei, F., Yang, J., Wang, C., Bao, P., Zhao, X., Liu, H., Gao, H., Hou, M., Gao, Y., Li, J., Hao, D. & Li, R. (2025). Integrated Analysis of Proteomics and Metabolomics for Heat Stress in Chinese Holstein Cows. Animals, 15(20), Article 3049. https://doi.org/10.3390/ani15203049

Guillenea Golovanevsky, A. C., Cuyabano, B. C. D., Croiseau, P., Lund, M. S. & Karaman, E. (2025). QTL detection in multi-breed cattle populations including crossbred animals: a simulation study. Animal, 19(10), Article 101639. https://doi.org/10.1016/j.animal.2025.101639

Pei, Y., Zhao, X., Du, W., Diao, W., Zhang, W., Xiong, B., Ramstein, G. P., Ottosen, C. O., Cheng, C., Zhao, Q., Li, J., Lou, Q., Chen, J. & Yu, X. (2025). Synthetic allopolyploidy unveils hybridization-driven transcriptional reprogramming underlying thermal adaptation in Cucumis. Plant Journal, 124(1), Article e70507. https://doi.org/10.1111/tpj.70507

Adamsen, A. P. S. (Ed.), Manevski, K. (Ed.), Lærke, P. E. (Ed.), Ugilt Larsen, S., Jørgensen, U., Olesen, J. E., Andersen, M. N., Bay, S. S., Hutchings, N., Hansen, E. M., Munkholm, L. J., Børgesen, C. D., Thomsen, I. K., Elsgaard, L., Petersen, S. O., Toda, M., Ntinyari, W., Sørensen, P., Rasmussen, C. ... Nielsen, H. M. (2025). Virkemidler til reduktion af klimagasser i landbruget 2025. DCA - Nationalt Center for Fødevarer og Jordbrug. Rådgivningsrapport fra DCA - Nationalt Center for Fødevarer og Jordbrug

Gensemer, C., Petrucci, T., Beck, T., Daylor, V., Griggs, M., Griggs, C., Weintraub, A., Byerly, K., Guo, L., Morningstar, J., Kornblau, I., Biggs, R., Moore, K., Koren, N., Hastings, C., Oberlies, E., Zientara, E. R., Devey, E., Dooley, S. ... Norris, R. A. (2025). KLK15 alters connective tissues in hypermobile Ehlers-Danlos syndrome. iScience, 28(9), Article 113343. https://doi.org/10.1016/j.isci.2025.113343

van der Heide, M. E. & Janss, L., (2025). Estimated usage of organic and non-organic feed and protein-rich feedstuff for organic pig and poultry in 2024, No. 2025-0830467, 22 p., Sept 10, 2025. Rådgivningsnotat fra DCA - Nationalt Center for Fødevarer og Jordbrug

Ollivier, R., Rodriguez-Algaba, J., Patpour, M., Wadum Larsen, M., Kristensen, P. S., Mojerlou, S., Nielsen, B., Malinowska, M., Lenk, I., Justesen, A. F., Hovmøller, M. S., Boelt, B. & Asp, T. (2025). Identification of the genetic architecture of stem rust resistance in perennial ryegrass. Abstract from 36th EUCARPIA Fodder Crops and Amenity Grasses Section conference, Aberystwyth, United Kingdom.

Mouritzen, T. W., Meurer, K. H. E., Bornhofen, E., Janss, L., Weih, M. & Andersen, S. U. (2025). Faba bean genetics and crop growth models – progress to date and opportunities for integration. Plant and Soil, 514(1), 47-64. https://doi.org/10.1007/s11104-025-07459-7

Tariku, H. G., Nielsen, H. M., Walusimbi, S., Hansen, L. S., Gebreyesus, G., Rugira-Kugonza, D., Bett , R. C., Nakimbugwe, D., Geoffrey, S. & Kassie, G. T. (2025). Farmers’ Preferences for Larval Traits in Small-Scale Black Soldier Fly (Hermetia illucens) Production System [019]. 43-43. Poster session presented at BSFcon 2025, Cambridge, United Kingdom.

Nielsen, H. M., Hansen, L. S., Zaalberg, R. M., Gebreyesus, G., Kargo, M., Noer, N. K., Schou, T. M., Jensen, K., Berggreen, I. E., Nørgaard, J. V., Henryon, M. & Kristensen, T. N. (2025). FLYBREED: Efficient production of the black soldier fly through selective breeding [018]. 36-36. Abstract from BSFcon 2025, Cambridge, United Kingdom.

Furtado, B. U., Nagy, I., Tyburski, J., Roulund, N., Asp, T. & Hrynkiewicz, K. (2025). Functional Analysis of Lolium perenne L. in Response to Fungal Endophyte Inoculation and Salinity Stress. Journal of Plant Growth Regulation, 44(9), 5593-5615. https://doi.org/10.1007/s00344-025-11782-9

Dai, S., Zhao, P., Li, W., Peng, L., Jiang, E., Du, Y., Zhang, W., Dai, X., Yang, L., Li, Z., Xu, L., Lan, X., Lyu, W., Yang, L., Fang, L., Liu, G. E. & Zhou, Y. (2025). Global Pangenome Analysis Highlights the Critical Role of Structural Variants in Cattle Improvement and Identifies a Unique Event as a Novel Enhancer in IGFBP7⁺ Cells. Molecular Biology and Evolution, 42(9), Article msaf205. https://doi.org/10.1093/molbev/msaf205

Hein, L., Thomasen, J. R., Kargo, M., Nielsen, H. M., Bouquet, A. E. R. & Liu, H. (2025). Impact of increased heterozygosity on Nordic Total Merit traits in dairy cattle: Potential for mating strategy optimization. Journal of Dairy Science, 108(9), 9946-9955. https://doi.org/10.3168/jds.2024-26200

Hansen, L. S. (2025). INSECT-IMP - advancing farmed insect breeding through interdisciplinary collaboration [061] - Sponsor Talk. 11-11. Abstract from BSFcon 2025, Cambridge, United Kingdom.

Hof, J. P. & Speed, D. (2025). LDAK-KVIK performs fast and powerful mixed-model association analysis of quantitative and binary phenotypes. Nature Genetics, 57(9), 2116-2123. https://doi.org/10.1038/s41588-025-02286-z

Balding, D. J. & Speed, D. (2025). Recent Statistical Innovations in Human Genetics. Annals of Human Genetics, 89(5), 241-254. https://doi.org/10.1111/ahg.12606

Iso-Touru, T., Fischer, D., Panitz, F., Taponen, S., Cai, Z., Sahana, G., Tapio, I. & Vilkki, J. (2025). Response of primary mammary epithelial cells to pathogen challenge in dairy cows with divergent genomic breeding values for udder health. Genomics, 117(5), Article 111102. https://doi.org/10.1016/j.ygeno.2025.111102

Yu, X., Faggion, S., Liu, Y., Wang, B., Zeng, Q., Lu, C., Hu, J., Bargelloni, L., Fang, L. & Bao, Z. (2025). Role of multi-omics in aquaculture genetics and breeding: current status and future perspective. Science China Life Sciences, 68(9), 2591-2604. https://doi.org/10.1007/s11427-024-2828-8

Aalborg, T., Romé, H., Ranzau, C., Bagge, M., Jensen, J. & Nielsen, K. L. (2025). The transmission ability in a population of elite tetraploid potatoes. The Plant Genome, 18(3), Article e70066. https://doi.org/10.1002/tpg2.70066, https://doi.org/10.1002/tpg2.70066

Bouquet, A. E. R., Kargo, M., Thorup, V. M., Chen, L., Østergaard, S. & Stephansen, R. B. (2025). Modelling feed efficiency in dairy cows for selection and management decisions. In Book of Abstracts - 76th Annual Meeting of the European Federation of Animal Science (EAAP) (pp. 362). Article Theatre 5.

Teng, J., Duan, C., Zhang, X., Chen, Z., Ning, C., Li, R., Gao, Y., Gao, H., Liu, H., Li, J., Wang, X. & Zhang, Q. (2025). Bayesian fine-mapping and Mendelian randomization leveraging expression quantitative trait loci reveal novel candidate causal genes for body conformation traits in cattle. Journal of Dairy Science, 108(8), 8637-8647. https://doi.org/10.3168/jds.2025-26361

Giagnoni, G., Foldager, L., Stephansen, R. B., Liu, H., Lassen, J. & Weisbjerg, M. R. (2025). Do feed conversion efficiency and its inverse, feed conversion ratio, differ in their distributions for dairy cows?. 200. Abstract from 76th Annual Meeting of The European Federation of Animal Science, Innsbruck, Austria.

Sendrowski, J., Bataillon, T. & Ramstein, G. P. (2025). In silico prediction of variant effects: promises and limitations for precision plant breeding. Theoretical and Applied Genetics, 138(8), Article 193. https://doi.org/10.1007/s00122-025-04973-1

Li, P., Li, Z., Ying, F., Zhu, D., Liu, D., Song, X., Wen, J., Zhao, G. & An, B. (2025). Leveraging ultrasonic-derived phenotypes and estimated breeding value to improve abdominal fat weight prediction in chickens throughout the egg laying period. Smart Agricultural Technology, 11, Article 100912. https://doi.org/10.1016/j.atech.2025.100912

Nawoya, S., Geissmann, Q., Karstoft, H., Bjerge, K., Akol, R., Katumba, A., Mwikirize, C. & Gebreyesus, G. (2025). Prediction of black soldier fly larval sex and morphological traits using computer vision and deep learning. Smart Agricultural Technology, 11, Article 100953. https://doi.org/10.1016/j.atech.2025.100953

Brulin, L., Sanchez, M.-P., Cai, Z., Ducrocq, S., Even, G., Martel, S., Merlin, S., Audebert, C., Estellé, J., Sahana, G. & Croiseau, P. (2025). Sequence-based genome-wide association study reveals host genomic regions and candidate genes influencing the fecal microbiota of Holstein cows. Journal of Dairy Science, 108(8), 8666-8684. https://doi.org/10.3168/jds.2024-26203

Ye, X., Sahana, G., Lund, M. S. & Cai, Z. (2025). The crosstalk between host and rumen microbiome in cattle: insights from multi-omics approaches and genome-wide association studies. World Journal of Microbiology and Biotechnology, 41(8), Article 267. https://doi.org/10.1007/s11274-025-04504-6

CattleGTEx Consortium (2025). Genetic score omics regression and multitrait meta-analysis detect widespread cis-regulatory effects shaping bovine complex traits. PNAS Nexus, 4(7), Article pgaf208. https://doi.org/10.1093/pnasnexus/pgaf208

Zhao, Q., Liu, H., Zhang, Q., Qadri, Q. R., Pan, Y., Su, G., Li, P. & Huang, R. (2025). Optimal Combination of Different Selection and Mating Strategies on Exploiting Genetic Diversity and Genetic Gain in Small Pig Conservation Populations. Journal of Animal Breeding and Genetics, 142(4), 444-453. https://doi.org/10.1111/jbg.12917

de Hollander, C. A., Chu, T. T., Marois, D., Felipe, V. B., Lopes, F. B. & Calus, M. P. L. (2025). The Effect of Preselection on the Level of Bias and Accuracy in a Broiler Breeder Population, a Simulation Study. Journal of Animal Breeding and Genetics, 142(4), 392-407. https://doi.org/10.1111/jbg.12908

Stephansen, R. B., van Breukelen, A. E., Almasi, F., González-Recio, O., Teran, E., Milkevych, V., Miglior, F., Baes, C. F., Bakke, K. A., Benzoni, L., Finocchiaro, R., Frizzarin, M., Krattenmacher, N., Lassen, J., Pryce, J. E., Richardson, C. & Gredler-Grandl, B. (2025). Are methane sniffer phenotypes useful for genetic ranking of dairy cattle? In Book of Abstracts - ADSA 2025 Annual Meeting (pp. 143-144). Article 1513 https://www.adsa.org/Portals/0/SiteContent/Docs/Meetings/2025ADSA/Abstracts_BOOK_2025_20250624-1249.pdf

Schneider, H. H., Lajevardi, R. K., Bjerring, M., Løvendahl, P., Lund, M. S., Villumsen, T. M. & Stephansen, R. B. (2025). Genetic parameters for enteric methane traits and their relationship with milk production in Danish Holstein and Danish Jersey Cattle. In Abstracts of the 2025 American Dairy Science Association® Annual Meeting (pp. 165-166). Article 1564 https://www.adsa.org/Portals/0/SiteContent/Docs/Meetings/2025ADSA/Abstracts_BOOK_2025_20250624-1249.pdf

Lassen, J., Stephansen, R. B., Kupisiewicz, K. & Bengtson, C. (2025). Large-scale measured body weight changes effect on yield, health, reproduction, and feed efficiency in 3 different dairy cattle breeds. In Abstracts of the 2025 American Dairy Science Association® Annual Meeting (pp. 160-160). Article 1550 https://www.adsa.org/Portals/0/SiteContent/Docs/Meetings/2025ADSA/Abstracts_BOOK_2025_20250624-1249.pdf

Hendriksen, N. B., Madsen, C. K. & Sahana, G., (2025). DCA response to EFSA public consultation PC-1460 regarding scientific and technical assistance for a regular horizon scanning to assess new scientific data on plants, animals, microorganisms and products thereof obtained by new genomic techniques., No. 2025-0833795, 38 p., Jun 13, 2025. Rådgivningsnotat fra DCA - Nationalt Center for Fødevarer og Jordbrug

Kristensen, P. S., Chu, T. T., Sarup, P., Orabi, J., Mohlfeld, M., Jahoor, A. & Jensen, J. (2025). Optimizing hybrid rye breeding programs using simulations. 26. Abstract from International Symposium on Rye Breeding and Genetics, Tartu, Estonia. https://www.ryest2025.ee/userfiles/ryest2025/RYEST_abstract_book_2025_2.pdf

Adeniyi, O. O., Grochowska, E., Cai, Z. & Lühken, G. (2025). Comparative transcriptome analysis reveals genes associated with variation in liver copper concentration in Polish Merino sheep. Scientific Reports, 15(1), Article 19576. https://doi.org/10.1038/s41598-025-04330-8

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Jette Odgaard Villemoes