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In this perspective analysis, we strive to answer the following question: how can we advance integrative biology research in the 21st century with lessons from animal science? At the University of Ljubljana, Biotechnical Faculty, Department of Animal Science, we share here our three lessons learned in the two decades from 2002 to 2022 that we believe could inform integrative biology, systems science, and animal science scholarship in other countries and geographies. Cultivating multiomics knowledge through a conceptual lens of integrative biology is crucial for life sciences research that can stand the test of diverse biological, clinical, and ecological contexts. Moreover, in an era of the current COVID-19 pandemic, animal nutrition and animal science, and the study of their interactions with human health (and vice versa) through integrative biology approaches hold enormous prospects and significance for systems medicine and ecosystem health.

In this study, we aimed to assess health related traits of first lactating cows that were kept in farms, mostly organic or low-input, with or without silage feeding of heifers in Austria (AT; 392 farms, 10,736 Fleckvieh), France (FR; 20 farms, 2,360 Holstein and Montbéliarde), Germany (DE; 34 farms, 1,566 Brown Swiss and Fleckvieh) and Slovenia (SI; 18 farms, 1269 Brown Swiss, Fleckvieh, Holstein and crosses). Cows calved between 2010 and 2019. Data originated from routine performance recording and on-site data collection. As data structure differed, analyses were performed within country. Traits analysed using the logistic regression methodology were the percentage of elevated cell counts (>100,000 cells/ml; SCC100P) during the cow’s 305-day standard lactation, fat-protein-ratio (FPR), defined as binary trait whether it was or was not >1.4 or 1.4 during the first 120 days in milk was higher, while no significant differences between feeding regimes were found in FR and SI. However, FPR

To understand consumers’ acceptance and preference in relation to Nutrition and Health Claims (NHCs) on food products and the reasons for their (non)acceptance in an Eastern European country with a weak tradition in NHC, and an enormous increase in the number of foods with NHCs in recent years, this study aimed to fill a research gap by applying a multi-methodological approach combining a survey and conjoint analysis (n = 204) and a focus group (n = 45). The survey demonstrated that Slovenian consumers in general are moderately doubtful of NHCs. Conjoint analysis showed that when Slovenians choose their breakfast cereals, NHCs are more important than whether visual images are present. Visual images convince only the youngest consumers. The study revealed the importance of social perception and trust in the social system for accepting foods with NHCs/ images. Consumers who did not trust the political and economic system also did not accept foods with NHCs/ images.

Understanding farmers' attitudes towards traits is critical for developing appropriate breeding goals for dairy production. In response to a research gap in regards to the influence of farmers' knowledge of breeding tools, this study aimed to determine the effect of farmers' knowledge on their attitudes towards the use of breeding tools and traits in typical family-owned farms in Slovenia. An online questionnaire was sent to dairy farmers affiliated with Slovenian breeding associations, and 256 dairy farmers responded. The analysis was conducted in three steps. First, the basic response patterns according to the farmers' knowledge level were determined using latent class analysis. Second, farmers' attitudes towards breeding tools were assessed by 15 statements using principal component analysis. Finally, we were interested in the relationship between farmers' attitudes and knowledge about selection. The results showed that farmers had more knowledge about the benefits of genomic selection, followed by general knowledge about breeding values and the definition of genomic selection, and they had the least knowledge about the reference population. Farmers with more knowledge were statistically significantly more likely than farmers with less knowledge to have higher education, be younger, have a larger herd size, have higher milk production per cow, have the intent to increase herd size and milk quantity, and use genomically tested bulls. No significant relationship was found between belonging to a specific knowledge class and the main breed in the herd, the farmer's gender, production system, or farming in less-favoured areas. The results also show that farmers basically agree that they need written recorded performance data about a bull/cow to know exactly how good the animal is, that the genetic merit (breeding value) of bulls/cows adds to the performance of their progeny, that it is very important to maintain the breed characteristics of bulls/cows, that cooperation in being able to compare animals with other farmers is essential for improving herd performance, and that the possibilities of selecting dairy cows with genomic selection and monogenetic traits must be fully exploited, indicating a positive attitude towards genomic selection. The level of knowledge was shown to influence attitudes towards various aspects of breeding. It was found that the higher the level of knowledge, the more positive the attitude towards genetic and genomic selection, and the more negative the attitude towards traditional selection.

In the establishment and maintenance of a housing system for cattle by farmers, their perception of housing systems plays an important role in their decision to choose the environmentally sustainable housing system. The aim of this study was to determine farmers’ attitudes towards their role, environmental sustainability, and perceived government support, to determine whether the role of cattle farmers influences their perceptions of different cattle housing systems, and to create a typology of cattle farmers based on these attitudes. The paper was based on online surveys (n = 306) and five focus groups with Slovenian cattle farmers (n = 42). Results show that the majority of participants placed a higher value on production than on the environment, but had adopted animal and environmentally friendly housing systems to achieve higher production and profits and to receive full direct payments. Four groups of cattle farmers based on the attitudes towards their role, environmental sustainability, and perceived governmental support were identified: Productivists, Traditionalists, Abandoners, and Environmentalists. Most respondents belonged to the Productivist group, who believed that environmental measures have a negative impact on agricultural development. A characteristic of the smaller Traditionalist group is that these farmers claimed to have an obligation to preserve or improve the environment for future generations. For Environmentalists, environmentally friendly agriculture is most important. The smallest group identified consists of farmers who indicated their role as a farmer was not important because they were likely to give up farming. Systematically planned communication aimed at different groups of farmers is needed to promote acceptance of changes in housing systems for cattle that reduce the greenhouse effect.

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The ProYoungStock project aimed to improve the lives of young cattle and conducted research in 8 European countries: Austria (AT), France (FR), Germany (DE), Italy (IT), Poland (PL), Slovenia (SI), Sweden (SE), and Switzerland (CH). Interviews with 104 dairy farmers in AT, FR, DE, IT, SE, CH showed that many diverse cow-calf contact systems (CCC) are practised in Europe. Better animal welfare and reduced labour were perceived as benefits of CCC, while stress when cow and calf are separated, lower amounts of saleable milk, and building constraints were seen as challenges. Trials in different countries with either focus on feeding strategies (e. g. more milk, use of supplements as linseeds or tannins, silage vs. no silage) or different rearing systems (i.e. 7 different CCC systems compared to control without CCC) revealed the following results concerning: Calf growth: Calves benefited from increased milk levels (10-12 l/day compared to 6-8 l/day) (DE, AT), from permanent CCC compared to control (PL), from CCC when fed by dams before morning milking and with 6 h/day access to dams until weaning. But there was no impact when CCC of 6 h/day was carried out for only 3 weeks (FR) as well as when CCC was restricted to 2 x 30 min/d until 16 weeks of life. These results show that CCC alone does not necessarily promote calf growth! Behaviour disorders and welfare: Main behaviour disorders in calves are sucking each other (cross sucking) or manipulating any objects with their mouth. We observed less cross sucking in calves with permanent foster cow contact and with 2x30 min/d contact to the dam (CH, PL). Calves with permanent foster cow contact also manipulated less objects compared to bucket fed calves (PL). Increased milk feeding (DE) and limited access to the dam 2x30 min/d (CH) however, did not reduce those manipulations. CCC calves had lower hair cortisol contents (less stress) before weaning, but after weaning they vocalized earlier and longer (indicating stress) than control calves. (FR). Calf health: Immunoglobulin-levels in calves’ serum from mothers supplemented with linseeds 30 days before and after calving were higher than in calves from control mothers (PL). However, calf health in 5 variations of CCC systems did not differ compared to control systems (PL, FR, SE, and CH). We found no relevant effect of CCC on the gut microbiota development in calves, nor on the passive immune transfer from cows to neonatal calves (FR), nor on a further build-up of the active immune defence during the pre-weaning period (FR, CH). Cow health: There were no differences in somatic cell count (udder health indicator) and cows’ health events in 3 variations of CCC-systems compared to control (FR, SE). CCC practices did not influence contents of immunoglobulin G and lactoferrin in cow’s milk (FR, CH). Reproductive performance of multiparous cows did not differ between CCC and control, but was improved in primiparous cows in CCC systems (FR, CH, and SE). Extensively reared animals showed lower disease incidences than animals that did not have this experience (AT, FR), but there was no influence of extensive rearing on calving interval (AT, FR, SI). There was no difference between farms with or without silage feeding regarding reproduction (AT, DE, SI), but a negative effect of silage free rearing on udder health was found (AT, DE). Milk contents: In CCC-systems we found higher protein contents and lower fat contents (except when calves suckled before milking) than in milk from control cows (FR). Linseed-feeding before calving increased unsaturated fatty acids in colostrum (PL). Milk and fat yields were higher with silage feeding than without in AT, DE, FR, but lower in SI. Feeding tannin extracts to cows during the dry season (hay feeding) revealed lower urea contents, a better fatty acid profile and a higher antioxidant capacity in milk and cheese (IT). Meat quality: pH of meat 24 h after slaughter was lower in calves with foster cow rearing, but the main fatty acids did not differ between calves from CCC systems and control (PL, CH). Economic impact of CCC: CCC systems produced 21% to 43% less saleable milk compared to control. The best compromise between milk yield and calf growth was reached with 6 – 9 h CCC between morning and evening milking until weaning (SE, FR). Ecological impact of tannin feeding: In vitro blended tannin extracts reduced ruminal protein degradation and ammonia and methane emissions; especially when hay feeding was simulated (IT). As there is no one-fits all solution (but there are many pieces of a puzzle), the large variation in management led us to organise many workshops for farmers, so they could exchange on the diverse possibilities of CCC and find out which is the best one for their farm. Those workshops are great to introduce CCC-systems because farmers advise farmers. More information for farmers and the scientific community is available at www.proyoungstock.net.

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Basic bovine behavior is a crucial parameter influencing cattle domestication. In addition, behavior has an impact on cattle productivity, welfare and adaptation. The aim of the present study was to infer quantitative genetic and genomic mechanisms contributing to natural dual-purpose cow behavior in grazing systems. In this regard, we genotyped five dual-purpose breeds for a dense SNP marker panel from four different European countries. All cows from the across-country study were equipped with the same electronic recording devices. In this regard, we analyzed 97,049 longitudinal sensor behavior observations from 319 local dual-purpose cows for rumination, feeding, basic activity, high active, not active and ear temperature. According to the specific sensor behaviors and following a welfare protocol, we computed two different welfare indices. For genomic breed characterizations and multi-breed genome-wide association studies, sensor traits and test-day production records were merged with 35,826 SNP markers per cow. For the estimation of variance components, we used the pedigree relationship matrix and a combined similarity matrix that simultaneously included both pedigree and genotypes. Heritabilities for feeding, high active and not active were in a moderate range from 0.16 to 0.20. Estimates were very similar from both relationship matrix-modeling approaches and had quite small standard errors. Heritabilities for the remaining sensor traits (feeding, basic activity, ear temperature) and welfare indices were lower than 0.09. Five significant SNPs on chromosomes 11, 17, 27 and 29 were associated with rumination, and two different SNPs significantly influenced the sensor traits "not active" (chromosome 13) and "feeding" (chromosome 23). Gene annotation analyses inferred 22 potential candidate genes with a false discovery rate lower than 20%, mostly associated with rumination (13 genes) and feeding (8 genes). Mendelian randomization based on genomic variants (i.e., the instrumental variables) was used to infer causal inference between an exposure and an outcome. Significant regression coefficients among behavior traits indicate that all specific behavioral mechanisms contribute to similar physiological processes. The regression coefficients of rumination and feeding on milk yield were 0.10 kg/% and 0.12 kg/%, respectively, indicating their positive influence on dual-purpose cow productivity. Genomically, an improved welfare behavior of grazing cattle, i.e., a higher score for welfare indices, was significantly associated with increased fat and protein percentages.

The development paths chosen by farmers and the critical success factors involved can be better understood when the business context in which these farmers operate is known. Also, interaction in the chain contributes to the strength of the chain. This raises questions such as do chain parties cooperate and is there a certain consensus concerning the future strategic route? This article provides a unique analysis of how stakeholders envisage the future of dairy farming in a period of radical policy change and what barriers they foresee to their objectives. The questionnaire used examined perceptions on development strategies, availability of resources, opportunities & threats (O&T), farmer skills and future expectations. In 2015 and early 2016, a total of 161 completed questionnaires were collected from stakeholders (leading persons in the dairy chain) in the Netherlands, Slovenia, Lithuania and Poland. Data were analysed by PCA, ANOVA, cluster and stepwise regression methods. Eight strategic clusters of stakeholders were found. Farm expansion and specialisation was the most expected development strategy (57% of stakeholders). Almost one fourth of the stakeholders took a wait and see approach, of which 15% looked for opportunities to activate at a particular moment in time, while 8% were generally pessimistic about the future. Diversification in combination with organic farming was chosen by 5% of the stakeholders, 10% of stakeholders focused on cooperation, service and high tech, and another 5% placed their trust in skills, subsidies and labour. The opinions of stakeholders were highly affected by the country of origin, while only minor variations in opinions were observed between different categories of stakeholders. Polish stakeholders showed the most specialised view on the dairy chain, but they scored relatively low on cooperation. Development towards diversification and organic agriculture received higher scores in Slovenia and Lithuania compared to the Netherlands and especially to Poland. Netherlands’ stakeholders were the most positive about the future e.g. they foresee expansion and market opportunities. It was shown that strategies, resources and O&T each directly affect future expectations, which was in agreement with the hypothetical model used.