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2023 Journal Article Skim-Nanopore sequencing for routine genomic evaluation and bacterial pathogen detection in cattleLamb, H. J., Nguyen, L. T., Briody, T. E., Ambrose, R. K., Hayes, B. J., Mahony, T. J. and Ross, E. M. (2023). Skim-Nanopore sequencing for routine genomic evaluation and bacterial pathogen detection in cattle. Animal Production Science, 63 (11), 1074-1085. doi: 10.1071/an22451 |
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2023 Journal Article Predicting phenotypes of beef eating quality traitsForutan, Mehrnush, Lynn, Andrew, Aliloo, Hassan, Clark, Samuel A., McGilchrist, Peter, Polkinghorne, Rod and Hayes, Ben J. (2023). Predicting phenotypes of beef eating quality traits. Frontiers in Genetics, 14 1089490, 1089490. doi: 10.3389/fgene.2023.1089490 |
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2023 Journal Article In it for the long run: perspectives on exploiting long-read sequencing in livestock for population scale studies of structural variantsNguyen, Tuan V., Vander Jagt, Christy J., Wang, Jianghui, Daetwyler, Hans D., Xiang, Ruidong, Goddard, Michael E., Nguyen, Loan T., Ross, Elizabeth M, Hayes, Ben J., Chamberlain, Amanda J. and MacLeod, Iona M. (2023). In it for the long run: perspectives on exploiting long-read sequencing in livestock for population scale studies of structural variants. Genetics Selection Evolution, 55 (1) 9, 1-15. doi: 10.1186/s12711-023-00783-5 |
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2023 Journal Article Multi-breed genomic predictions and functional variants for fertility of tropical bullsPorto-Neto, Laercio R., Alexandre, Pamela A., Hudson, Nicholas J., Bertram, John, McWilliam, Sean M., Tan, Andre W. L., Fortes, Marina R. S., McGowan, Michael R., Hayes, Ben J. and Reverter, Antonio (2023). Multi-breed genomic predictions and functional variants for fertility of tropical bulls. PLoS One, 18 (1) e0279398, 1-19. doi: 10.1371/journal.pone.0279398 |
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2022 Journal Article Genomic mate-allocation strategies exploiting additive and non-additive genetic effects to maximise total clonal performance in sugarcaneYadav, Seema, Ross, Elizabeth, Wei, Xianming, Powell, Owen, Hivert, Valentin, Hickey, Lee T., Atkin, Felicity, Deomano, Emily, Aitken, Karen S., Voss-Fels, Kai P. and Hayes, Ben J. (2022). Genomic mate-allocation strategies exploiting additive and non-additive genetic effects to maximise total clonal performance in sugarcane. |
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2022 Journal Article Identification of genomic variants causing variation in quantitative traits: a reviewMeuwissen, Theo, Hayes, Ben, MacLeod, Iona and Goddard, Michael (2022). Identification of genomic variants causing variation in quantitative traits: a review. Agriculture, 12 (10) 1713, 1-11. doi: 10.3390/agriculture12101713 |
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2022 Journal Article Correlation scan: identifying genomic regions that affect genetic correlations applied to fertility traitsOlasege, Babatunde S., Porto-Neto, Laercio R., Tahir, Muhammad S., Gouveia, Gabriela C., Cánovas, Angela, Hayes, Ben J. and Fortes, Marina R. S. (2022). Correlation scan: identifying genomic regions that affect genetic correlations applied to fertility traits. BMC Genomics, 23 (1) 684, 1-20. doi: 10.1186/s12864-022-08898-7 |
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2022 Journal Article Multivariate analysis identifying the main factors associated with cow productivity and welfare in tropical smallholder dairy farms in VietnamBang, Nguyen N., Chanh, Nguyen V., Trach, Nguyen X., Khang, Duong N., Hayes, Ben J., Gaughan, John B., Lyons, Russell E. and McNeill, David M. (2022). Multivariate analysis identifying the main factors associated with cow productivity and welfare in tropical smallholder dairy farms in Vietnam. Tropical Animal Health and Production, 54 (5) 313, 313. doi: 10.1007/s11250-022-03303-7 |
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2022 Journal Article Promoting sustainable utilization and genetic improvement of Indonesian local beef cattle breeds: a reviewWidyas, Nuzul, Widi, Tri Satya Mastuti, Prastowo, Sigit, Sumantri, Ika, Hayes, Ben J. and Burrow, Heather M. (2022). Promoting sustainable utilization and genetic improvement of Indonesian local beef cattle breeds: a review. Agriculture, 12 (10) 1566, 1566. doi: 10.3390/agriculture12101566 |
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2022 Journal Article genomicSimulation: fast R functions for stochastic simulation of breeding programsVilliers, Kira, Dinglasan, Eric, Hayes, Ben J and Voss-Fels, Kai P (2022). genomicSimulation: fast R functions for stochastic simulation of breeding programs. G3 Genes|Genomes|Genetics, 12 (10) jkac216, 1-6. doi: 10.1093/g3journal/jkac216 |
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2022 Journal Article Application of infrared thermal technology to assess the level of heat stress and milk yield reduction of cows in tropical smallholder dairy farmsBang, Nguyen N., Gaughan, John B., Hayes, Ben J., Lyons, Russell E. and McNeill, David M. (2022). Application of infrared thermal technology to assess the level of heat stress and milk yield reduction of cows in tropical smallholder dairy farms. Journal of Dairy Science, 105 (10), 8454-8469. doi: 10.3168/jds.2021-21343 |
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2022 Journal Article Adaptive sampling during sequencing reveals the origins of the bovine reproductive tract microbiome across reproductive stages and sexesOng, Chian Teng, Ross, Elizabeth M., Boe-Hansen, Gry, Turni, Conny, Hayes, Ben J., Fordyce, Geoffry and Tabor, Ala E. (2022). Adaptive sampling during sequencing reveals the origins of the bovine reproductive tract microbiome across reproductive stages and sexes. Scientific reports, 12 (1) 15075, 1-12. doi: 10.1038/s41598-022-19022-w |
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2022 Journal Article Metagenomic predictions: a review 10 years onRoss, Elizabeth M. and Hayes, Ben J. (2022). Metagenomic predictions: a review 10 years on. Frontiers in Genetics, 13 865765, 1-9. doi: 10.3389/fgene.2022.865765 |
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2022 Journal Article Transcriptional changes in the peripheral blood leukocytes from Brangus cattle before and after tick challenge with Rhipicephalus australisMantilla Valdivieso, Emily F., Ross, Elizabeth M., Raza, Ali, Naseem, Muhammad Noman, Kamran, Muhammad, Hayes, Ben J., Jonsson, Nicholas N., James, Peter and Tabor, Ala E. (2022). Transcriptional changes in the peripheral blood leukocytes from Brangus cattle before and after tick challenge with Rhipicephalus australis. BMC Genomics, 23 (1) 454, 1-20. doi: 10.1186/s12864-022-08686-3 |
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2022 Journal Article Genomics applied to livestock and aquaculture breedingYáñez, José M., Xu, Peng, Carvalheiro, Roberto and Hayes, Ben (2022). Genomics applied to livestock and aquaculture breeding. Evolutionary Applications, 15 (4), 517-522. doi: 10.1111/eva.13378 |
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2022 Journal Article Evaluation of host depletion and extraction methods for shotgun metagenomic analysis of bovine vaginal samplesOng, Chian Teng, Boe-Hansen, Gry, Ross, Elizabeth M., Blackall, Patrick J., Turni, Conny, Hayes, Ben J. and Tabor, Ala E. (2022). Evaluation of host depletion and extraction methods for shotgun metagenomic analysis of bovine vaginal samples. Microbiology Spectrum, 10 (2), e0041221. doi: 10.1128/spectrum.00412-21 |
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2022 Journal Article Environmental variation effects fertility in tropical beef cattleCopley, James P., Engle, Bailey N., Ross, Elizabeth M., Speight, Shannon, Fordyce, Geoffry, Wood, Benjamin J., Voss-Fels, Kai P. and Hayes, Benjamin J. (2022). Environmental variation effects fertility in tropical beef cattle. Translational Animal Science, 6 (2) txac035, 1-10. doi: 10.1093/tas/txac035 |
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2022 Journal Article Author correction: a chickpea genetic variation map based on the sequencing of 3,366 genomesVarshney, Rajeev K., Roorkiwal, Manish, Sun, Shuai, Bajaj, Prasad, Chitikineni, Annapurna, Thudi, Mahendar, Singh, Narendra P., Du, Xiao, Upadhyaya, Hari D., Khan, Aamir W., Wang, Yue, Garg, Vanika, Fan, Guangyi, Cowling, Wallace A., Crossa, José, Gentzbittel, Laurent, Voss-Fels, Kai Peter, Valluri, Vinod Kumar, Sinha, Pallavi, Singh, Vikas K., Ben, Cécile, Rathore, Abhishek, Punna, Ramu, Singh, Muneendra K., Tar’an, Bunyamin, Bharadwaj, Chellapilla, Yasin, Mohammad, Pithia, Motisagar S., Singh, Servejeet ... Liu, Xin (2022). Author correction: a chickpea genetic variation map based on the sequencing of 3,366 genomes. Nature, 604 (7905), E12-E12. doi: 10.1038/s41586-022-04660-x |
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2022 Journal Article Extensive variation in gene expression is revealed in 13 fertility-related genes using RNA-Seq, ISO-Seq, and CAGE-Seq from Brahman cattleRoss, Elizabeth M., Sanjana, Hari, Nguyen, Loan T., Cheng, YuanYuan, Moore, Stephen S. and Hayes, Ben J. (2022). Extensive variation in gene expression is revealed in 13 fertility-related genes using RNA-Seq, ISO-Seq, and CAGE-Seq from Brahman cattle. Frontiers in Genetics, 13 784663, 784663. doi: 10.3389/fgene.2022.784663 |
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2022 Journal Article Genetic variation in PLAG1 is associated with early fertility in Australian Brahman cattleEngle, Bailey N and Hayes, Ben J (2022). Genetic variation in PLAG1 is associated with early fertility in Australian Brahman cattle. Journal of Animal Science, 100 (4) skac084. doi: 10.1093/jas/skac084 |
