Submit a preprint

Latest recommendations

IdTitle * Authors * Abstract * Picture * Thematic fields * RecommenderReviewersSubmission date
31 Jan 2020
article picture

OneARK: Strengthening the links between animal production science and animal ecology

When scientific communities intertwine

Recommended by based on reviews by Rowland Raymond Kao, Arata Hidano and 1 anonymous reviewer

Scientific research can be seen by some as a competitive territory: competition of opinions, concepts, publications, competition for funding. Fortunately, it is above all a territory of sharing and cross-fertilization of ideas. It is gradually becoming a territory of productive interdisciplinary collaborations, despite persistent resistance to making borders more permeable [1]. At the crossroads of worlds, many challenges must be met for communities to understand each other, to be able to communicate with one another, and to benefit mutually from scientific interactions [2].

Delphine Destoumieux-Garzon and co-authors [3] propose to stimulate a single Animal Research Kinship (OneARK) to promote the crossing of the scientific communities in animal production and animal ecology. These two communities share many concepts and methods, which, while they are based on marked specificities (natural versus artificial systems), also and above all have common points that need to be explored more closely. Seven concepts of shared interest to improve the resilience and sustainability of animal population systems were explored by the authors: selection, system viability, system management, animal adaptability, inter-individual diversity in systems, agroecology, and animal monitoring.

This foundation stone paves the way for a finer integration between these two communities, which are close and yet distant, and which are slowly getting to know, understand, and recognize each other.

References

[1] Ledford, H. (2015). How to solve the world’s biggest problems. Nature, 525, 308–311. doi: 10.1038/525308a
[2] Knapp, B., Bardenet, R., Bernabeu, M. O., Bordas, R., Bruna, M., Calderhead, B., … Deane, C. M. (2015). Ten simple rules for a successful cross-disciplinary collaboration. PLoS Computational Biology, 11(4), e1004214. doi: 10.1371/journal.pcbi.1004214
[3] Destoumieux-Garzón, D., Bonnet, P., Teplitsky, C., Criscuolo, F., Henry, P.-Y., Mazurais, D., … Friggens, N. (2020). OneARK: Strengthening the links between animal production science and animal ecology. Ver 6 Peer-Reviewed and Recommended by PCI Animal Science. doi: 10.5281/zenodo.3632731

OneARK: Strengthening the links between animal production science and animal ecologyDelphine Destoumieux-Garzón, Pascal Bonnet, Céline Teplitsky, François Criscuolo, Pierre-Yves Henry, David Mazurais, Patrick Prunet, Gilles Salvat, Philippe Usseglio-Polatera, Etienne Verrier and Nicolas Friggens<p>1. Wild and farmed animals are key elements of natural and managed ecosystems that deliver functions such as pollination, pest control and nutrient cycling within the broader roles they play in contributing to biodiversity and to every category...Agricultural sustainability, Animal genetics, Animal welfare, Ecology, Precision livestock farming, Veterinary epidemiology Pauline Ezanno2019-07-05 15:33:21 View
16 Apr 2021
article picture

Modelling the impact of the macroalgae Asparagopsis taxiformis on rumen microbial fermentation and methane production

Understanding the mechanisms behind natural bioactive compounds that can potentially reduce methane production in anaerobic conditions. A case study of Asparagopsis taxiformis

Recommended by ORCID_LOGO based on reviews by Alberto Atzori, Henk van Lingen and 2 anonymous reviewers

Naturally occurring compounds that can reduce methane production in anaerobic conditions have been studied for quite some time as feasible approaches to mitigate methane production in ruminant animals, especially those of commercial importance. Asparagopsis taxiformis (red algae) and Dictyota bartayresii (brown algae) are effective inhibitors of methane synthesis under in vitro anaerobic fermentation systems (Machado et al., 2014) likely because of their high concentration of secondary metabolites that are toxic to the typical rumen microbiota, including protozoa. In addition to phytoplankton (Palmer and Reason, 2009), Asparagopsis contains a high concentration of haloform compounds (e.g., bromoform, chloroform) while Dictyota has a high concentration of isoprenoid terpenes. Despite the economic and biological impact of diverse phytochemicals on reducing methane production in ruminant animals (Tedeschi et al., 2021), haloform compounds’ environmental impact and safety, in particular, are still unclear. In the present study, Munõz-Tamayo and collaborators (2021) listed relevant literature about the impact of A. taxiformis on ruminal methane production.

Concurrent to the understanding of mechanisms and biology behind the reduction of ruminal methane, mathematical models can lead the way to enhance the effectiveness of feeding A. taxiformis under commercial applications. Thus, in the present study, Munõz-Tamayo and collaborators (2021) sought to develop a mathematical model to understand the rumen fermentation changes in vitro experimentation containing extract of A. taxiformis by adapting a previously documented model by Muñoz-Tamayo et al. (2016).

Modeling development, calibration, and evaluation steps should be independent of each other, requiring complete, distinct, and separate databases (Tedeschi, 2006). However, in rare circumstances where such requirements cannot be met because data availability is scarce, the cross-validation technique, when possible, should be considered to assess data dispersion’s effects on model adequacy. In other situations, clear reasoning for failing to do so must be addressed in the paper. In the present paper, Munõz-Tamayo and collaborators (2021) explained the limitations in their modeling efforts were primarily due to the lack of ideal data: “experiments with simultaneous dynamic data of bromoform, volatile fatty acids, hydrogen, and methane.” Regardless of the availability of ideal data, improvements in the conceptual model are warranted to include amino acids and branched-chain fatty acids fermentation dynamics in the rumen and the fluctuations in ruminal pH.

References

Machado L, Magnusson M, Paul NA, Nys R de, Tomkins N (2014) Effects of Marine and Freshwater Macroalgae on In Vitro Total Gas and Methane Production. PLOS ONE, 9, e85289. https://doi.org/10.1371/journal.pone.0085289

Muñoz-Tamayo R, Chagas JC, Ramin M, Krizsan SJ (2021) Modelling the impact of the macroalgae Asparagopsis taxiformis on rumen microbial fermentation and methane production. bioRxiv, 2020.11.09.374330, ver. 4 peer-reviewed and recommended by PCI Animal Science. https://doi.org/10.1101/2020.11.09.374330

Muñoz-Tamayo R, Giger-Reverdin S, Sauvant D (2016) Mechanistic modelling of in vitro fermentation and methane production by rumen microbiota. Animal Feed Science and Technology, 220, 1–21. https://doi.org/10.1016/j.anifeedsci.2016.07.005

Palmer CJ, Reason CJ (2009) Relationships of surface bromoform concentrations with mixed layer depth and salinity in the tropical oceans. Global Biogeochemical Cycles, 23. https://doi.org/10.1029/2008GB003338

Tedeschi LO (2006) Assessment of the adequacy of mathematical models. Agricultural Systems, 89, 225–247. https://doi.org/10.1016/j.agsy.2005.11.004

Tedeschi LO, Muir JP, Naumann HD, Norris AB, Ramírez-Restrepo CA, Mertens-Talcott SU (2021) Nutritional Aspects of Ecologically Relevant Phytochemicals in Ruminant Production. Frontiers in Veterinary Science, 8. https://doi.org/10.3389/fvets.2021.628445

Modelling the impact of the macroalgae Asparagopsis taxiformis on rumen microbial fermentation and methane productionRafael Muñoz-Tamayo , Juana C. Chagas, Mohammad Ramin, Sophie J. Krizsan<p>Background: The red macroalgae Asparagopsis taxiformis is a potent natural supplement for reducing methane production from cattle. A. taxiformis contains several anti-methanogenic compounds including bromoform that inhibits directly methanogene...Agricultural sustainability, Animal nutrition modelling, Emissions , Mathematical modelling, Microbial fermentation, Rumen microbiology, Rumen microbiome Luis Tedeschi2020-11-17 06:28:29 View
15 Dec 2020
article picture

Accuracy of predicting chemical body composition of growing pigs using dual-energy X-ray absorptiometry

Accurate predictions of chemical composition of pigs for a wide range of body weights: no longer a myth!

Recommended by based on reviews by Mathieu Monziols and 1 anonymous reviewer

Assessing body or carcass composition in growing pigs is essential to refine nutritional models, select for specific traits and evaluate pork products. The gold standard methods are dissection and chemical measurements, which are time-consuming and invasive ways to obtain the data. Different teams have tested dual-energy x-ray absorptiometry (DEXA), especially for determining total and regional body composition of fat, soft lean tissues and bone minerals [1-3]. The DEXA measurements are quick, non-invasive, precise, and operator independent. However, the instruments from different manufacturers are unique in implementation so that it is difficult to obtain and share generalized equations. In addition, the validity and accuracy of the measures when applied to pigs having very different composition have been scarcely addressed.

 

The present manuscript shows that carcass analysis by DEXA can be used to predict empty body chemical composition, and it provides accuracy values for the content in single nutrients (protein, lipids, Ca, P). The body weight range used to generate differences in body composition is very large (20 to 100 kg), which is important when studying pigs along growth. Moreover, regression equations within weight classes (20, 60 and 100 kg) show no important biases, with the exception for body fat especially at the earliest growth stages. Limitations of the technique are the needs of anesthesia when applied to living pigs, and of standardizing the positions of body, carcass and cuts when applied to living or dissected pigs. Another originality of the manuscript is the comparison of the obtained calibrations with previously published prediction models, showing that the differences do not preclude the possibility to use a single model when built from a meta-analysis of the different data. Taken together, this work offers good perspectives to refine nutritional models by inputs from rapidly analyzed body chemical composition and to monitor body and carcass composition in several pigs for genetics applications.

 

References

[1] Mitchell AD., Scholz AM., Pursel VG., and Evock-Clover CM. (1998). Composition analysis of pork carcasses by dual-energy x-ray absorptiometry. Journal of Animal Science. 76(8), 2104-14. https://doi.org/10.2527/1998.7682104x

[2] Marcoux M., Bernier JF., and Pomar C. (2003). Estimation of Canadian and European lean yields and composition of pig carcasses by dual-energy X-ray absorptiometry. Meat Science. 63(3), 359-65. https://doi.org/10.1016/S0309-1740(02)00094-3

[3] Kipper M., Marcoux M., Andretta I., and Pomar C. (2018). Repeatability and reproducibility of measurements obtained by dual-energy X-ray absorptiometry on pig carcasses. Journal of Animal Science, 96(5), 2027-2037. https://doi.org/10.1093/jas/skx046 "

Accuracy of predicting chemical body composition of growing pigs using dual-energy X-ray absorptiometryClaudia Kasper, Patrick Schlegel, Isabel Ruiz-Ascacibar, Peter Stoll, Giuseppe Bee<p>Studies in animal science assessing nutrient and energy efficiency or determining nutrient requirements necessitate gathering exact measurements of body composition or body nutrient contents. Wet chemical analysis methods or standardized dissec...Agricultural sustainability, Animal nutrition modelling, Monogastrics, Physiology, Pig nutritionFlorence Gondret2020-09-17 10:44:58 View
06 Feb 2025
article picture

Preferred livestock interventions for small-scale farmers in the Great Limpopo Transfrontier Conservation Area: a demand-driven and participatory approach

What kind of livestock interventions are relevant for small-scale farmers in Great Limpopo Transfrontier Conservation Area?

Recommended by ORCID_LOGO based on reviews by 2 anonymous reviewers

The predominant form of agriculture in sub-Saharan Africa is mixed crop and livestock production, typically in extensive systems characterised by low productivity and little input (Tui et al., 2021). Such extensive systems experience many challenges, including access to rangeland and other sources of livestock feed, loss of soil quality, increasingly unpredictable climate but also operational constraints such as access to markets and veterinary care.

The work by Gobvu and collaborators (2025) addresses livestock farming sustainability specifically in the context of a Transfrontier Conservation Area (TFCA). A TFCA is defined as part of an ecological region reaching across boundaries of two or more countries and in which there are protected areas as well as resource use areas. TFCAs are founded to facilitate collective management of resources for the benefit of biodiversity as well as socio-economic development (SADC, 2025).

Livestock farming in TFCAs face additional challenges arising from the tension between biodiversity protection and resource use, such as wildlife predation on livestock, competition between livestock and wildlife for feed and water as well as spread of infections between livestock and wild animals (Matseketsa et al., 2019; Caron et al., 2013; Cumming, 2011).

The paper reports a study that was part of a larger project (EU-ProSuLi project, Caron et al.,  2022) aiming at promoting local development and well-being of residents in the Great Limpopo TFCA, with focus on the Sengwe Communal Area in Zimbabwe. The specific aim was to test a methodology for identifying interventions that are aligned with the needs of the local stakeholders (demand-driven interventions. Anticipatory scenario building in the context of workshops was used in combination with individual questionnaires.

Community representatives (n=31) were purposefully selected for their expected ability to act as knowledge brokers. A team of 10 facilitators supported the discussion through plenary and group work sessions. The participants were asked to identify factors of change with impact on local community livelihood, and subsequently to vote to select the most influential factors. Different future states for the year 2038, resulting from the impact of the factors of change, were discussed. In a follow-up workshop, participants were asked to propose activities that would support the development towards the most desirable scenario. In addition, a questionnaire was distributed through semi-structured/structured interviews to 126 households in nine villages.

Results were largely similar and complementary between the two approaches. Preferred interventions were: restocking herds with locally adapted breeds, training in livestock management, marketing support, feed development and value addition, loan schemes for investment in livestock production and support for animal health interventions to reduce the heavy disease burden. Whereas the participatory process is time consuming and requires considerable human resources, it is important to ensure locally relevant interventions are chosen, and it is in itself part of the process towards successful implementation of these interventions.

The study is thoughtfully designed based on previous work by the authors. The paper is well written and has been further improved through the reviewer feedback and revision process.

References

Caron, A., Miguel, E., Gomo, C., Makaya, P., Pfukenyi, D.M., Foggin, C., Hove, T. and de Garine-Wichatitsky, M., 2013. Relationship between burden of infection in ungulate populations and wildlife/livestock interfaces. Epidemiology & Infection, 141 (7), pp.1522-1535. https://doi.org/10.1017/S0950268813000204

Caron, A., Mugabe, P., Bourgeois, R., Delay, E., Bitu, F., Ducrot, R., Fafetine, J., Fynn, R., Guerbois, C., Motsholapheko, M. and Daré, W., 2022. Social-ecological System Health in  Transfrontier Conservation Areas to Promote the Coexistence Between People and Nature. One Health Cases. https://doi.org/10.1079/onehealthcases.2022.0005 

Cumming, D. H. M. 2011. Constraints to conservation and development success at the wildlife-livestock-human interface in southern African transfrontier conservation areas: a preliminary review. Wildlife Conservation Society, New York.  http://www.wcs-ahead.org/workinggrps_kaza.html

Gobvu, V. Ncube, S. Imbayarwo-Chikosi, V.E., Bourgeois, R. Mugabe, P.H. and Caron A. 2025. Preferred livestock interventions for small-scale farmers in the Great Limpopo Transfrontier Conservation Area: a demand-driven and participatory approach. HAL, ver.5 peer-reviewed and recommended by PCI Animal Science. https://hal.science/hal-04060712

Matseketsa, G., Muboko, N., Gandiwa, E., Kombora, D.M. and Chibememe, G., 2019. An assessment of human-wildlife conflicts in local communities bordering the western part of Save Valley Conservancy, Zimbabwe. Global Ecology and Conservation, 20, p.e00737. https://doi.org/10.1016/j.gecco.2019.e00737 

Tui, S.H.K., Descheemaeker, K., Valdivia, R.O., Masikati, P., Sisito, G., Moyo, E.N., Crespo, O., Ruane, A.C. and Rosenzweig, C., 2021. Climate change impacts and adaptation for dryland farming systems in Zimbabwe: a stakeholder-driven integrated multi-model assessment. Climatic Change, 168 (1-2), p.10. https://doi.org/10.1007/s10584-021-03151-8 

South African Development Community. 2025. Transfrontier Conservation Areas.  . Consulted 7 January 2025. https://www.sadc.int/pillars/transfrontier-conservation-areas

 

Preferred livestock interventions for small-scale farmers in the Great Limpopo Transfrontier Conservation Area: a demand-driven and participatory approachVimbai Gobvu, Sharai Ncube, Venancio E. Imbayarwo-Chikosi, Robin Bourgeois, Prisca H. Mugabe, Alexandre Caron<p>In southern Africa, residents of Transfrontier Conservation Areas (TFCAs), devoted to biodiversity &nbsp;conservation and local development and well-being, practice small-scale farming in semi-arid environments constrained by the presence of pr...Agricultural sustainability, Cattle productionAnna Olsson2023-04-06 12:54:58 View
24 Mar 2023
article picture

The use of pigs vocalisation structure to assess the quality of human-pig relationship

Qualitative aspects of grunts vary with pigs' mental states

Recommended by based on reviews by Matteo Chincarini and 1 anonymous reviewer

Villain et al., (2023) investigated the structure of vocalisations in piglets in relation to human-animal-relationship. They first established a positive relationship by habituating piglets to be positively handled at weaning or later on after weaning. They then compared the reactions of piglets previously positively handled at weaning to that of non-handled piglets during tests in presence of a human (interacting or not), and also before and after the conditioning period when all piglets received positive contacts. They showed that the duration and frequency of grunts emitted in the presence of the human depends on previous contacts. More specifically, grunts are shorter and higher pitched in pigs that have been positively handled, in line with a positive human-animal relationship which is also observed through proximity of the piglets with the human. The authors concluded that the structure of pig vocalisation can reflect the quality of their relationship with humans. 

The authors also showed that not only the response to humans is modified by positive contacts but also the general mood of piglets, with piglets positively handled at weaning emitting shorter grunts than non-handled piglets, whatever the context. 

Another interesting finding is the temporality of behaviour of pigs habituated to positive contacts: during the first tests, they stay close to the human, probably being reassured by the proximity of the human. Then, when tests are repeated, they explore more the test room, using the human as an exploratory basis as already reported in the literature. 

The hypotheses of the study are clear. The methods are reported in details so that the work is reproducible. The interpretation of results is sound. The manuscript is clearly written. 

This paper brings new and original knowledge in the field of animals’ emotional responses and human-animal relationship: on the structure of grunts in relation to positive affects (positive emotion, positive mood) and on the temporality of the responses to human presence.

I recommend this manuscript for its originality and quality.

Isabelle Veissier

Villain, A.S., Guérin, C., Tallet, C., 2023. The use of pigs vocalisation structure to assess the quality of human-pig relationship. bioRxiv 2022.03.15.484457, ver. 5 peer-reviewed and recommended by Peer Community in Animal Science. https://doi.org/10.1101/2022.03.15.484457

The use of pigs vocalisation structure to assess the quality of human-pig relationshipAvelyne S Villain, Carole Guérin, Céline Tallet<p>Studying human-animal interactions in domestic species and how they affect the establishment of a positive Human-Animal Relationship (HAR) may help us improve animal welfare and better understand the evolution of interspecific interactions asso...Animal behaviour , Animal cognition, Animal welfareIsabelle Veissier2022-03-23 09:34:45 View
20 Aug 2024
article picture

Goats who stare at video screens – assessing behavioural responses of goats towards images of familiar and unfamiliar con- and heterospecifics

Gazing behaviour as a tool to study goat cognition

Recommended by based on reviews by Richard Bon and 1 anonymous reviewer

Many cognitive studies use paradigms based on active decision-making, that require that animals are motivated to participate and interested in the reward (e.g. Rivas-Blanco et al., 2023). By contrast, looking time paradigms, in which the visual attention of an animal to a stimulus is measured, requires little training and little action from the subject, and can be used without reinforcement (e.g. Wilson et al., 2023). 

In this methodological paper, Jana Deutsch and her collaborators investigated the possibility of using a looking time paradigm to study perception and cognition in goats. The advantage of such a paradigm would be that it requires little training and can be used with no reinforcement. Goats were observed in front of two video screens presenting pictures of goats (familiar or not), of humans (familiar or not), or remaining white. The authors hypothesised that goats would pay more attention to pictures than to a white screen, would pay more attention to goats than to humans, and would discriminate familiar vs. unfamiliar beings. The goats had received previous positive contacts with the familiar humans. The goats were extensively habituated to the experimental set-up so that stress did not interfere in responses to testing. The stimuli were presented on the screens in a pseudorandomized and counterbalanced order.

As hypothesised, goats looked longer at screen with pictures, and longer when the picture was that of another goat (familiar or not) than of a human being. Goats however did not seem to discriminate between familiar and unfamiliar being, or were equally motivated by the two types of beings. Ear postures were also recorded but did not show a relation with looking time and were not related to the type of picture shown on screens. Therefore, the authors argue that looking time but not ear posture is considered appropriate to test discrimination abilities or preferences in goats. More studies are needed to check if goats can differentiate familiar vs. unfamiliar beings.

The experimental design is sound. The statistical analyses are rigorous and very relevant.  The paper is clearly written.

I recommend the manuscript for publication for its originality and its quality; In addition, the paper bring findings – that looking time is an adequate paradigm in goats to analyse how they pay attention to stimuli – that have potential impacts on further studies in animal cognition.

References

Deutsch, J., Lebing, S., Eggert, A., Nawroth, C. (2024). Goats who stare at video screens – assessing behavioural responses of goats towards images of familiar and unfamiliar con- and heterospecifics. OSF, ver.4 peer-reviewed and recommended by Peer Community In Animal Science. https://doi.org/10.31219/osf.io/d4nzk

Rivas-Blanco, D., Monteiro, T., Virányi, Z., Range, F. (2024). Going back to “basics”: Harlow’s learning set task with wolves and dogs. Learning & Behavior. https://doi.org/10.3758/s13420-024-00631-6 

Wilson, V. A. D., Bethell, E. J., Nawroth, C. (2023). The use of gaze to study cognition: limitations, solutions, and applications to animal welfare. Frontiers in Psychology, 14:1147278. https://doi.org/10.3389/fpsyg.2023.1147278 

 

Goats who stare at video screens – assessing behavioural responses of goats towards images of familiar and unfamiliar con- and heterospecificsJana Deutsch, Steve Lebing, Anja Eggert, Christian Nawroth<p>Many cognitive paradigms rely on active decision-making, creating participation biases (e.g. subjects may lack motivation to participate in the training) and once-learned contingencies may bias the outcomes of subsequent similar tests. We here ...Animal behaviour , Animal cognition, Animal welfare, Small ruminantsIsabelle Veissier2023-12-05 13:07:18 View
07 Oct 2024
article picture

From data on gross activity to the characterization of animal behaviour: which metrics for which purposes?

A guide to improving the use of activity data in animal research

Recommended by ORCID_LOGO based on reviews by Birte L Nielsen and Anna Olsson

In production animals, behavioural activity plays a crucial role across a wide range of scientific disciplines and is often measured for various purposes depending on the field: ethology, animal welfare, reproduction, animal production, and so on. Historically, direct observation was the primary method of collecting such data, a process that was time-consuming and prone to possible observer bias. With the advent of automated systems and sensors, behavioural activity can now be recorded continuously and non-invasively, leading to a growing body of more reliable data  (1). However, the lack of standardisation in how these data are calculated and interpreted has created challenges for cross-study comparisons. To fully harness the potential of studying behavioural activity, scientific studies must harmonise the methods used to calculate this measure. Standardising these methods would make it easier to compare results and identify possible gaps in knowledge.

In the work by van Dixhoorn et al.(2), the authors examine the various metrics most commonly used to study behavioural activity. Through a series of examples, they address the definitions, calculation methods, and biological significance of metrics such as overall activity, fluctuations around mean activity, cyclicity of activity, and synchrony between animals. The authors suggest how these different metrics can be applied in specific contexts and guide readers in using appropriate terminology to ensure future studies are more easily comparable. In addition, by clarifying these concepts, the authors provide researchers with the tools to make informed decisions about which metric best suits their study's objectives.

A key contribution of this work is its emphasis on standardising the metrics and terminology used in behavioural activity studies. Studies using different metrics may arrive at conclusions that appear contradictory, not because of actual differences in animal behaviour, but due to inconsistencies in how behaviour is quantified. By advocating for a common framework, the authors aim to improve the replicability of studies, facilitate meta-analyses, and allow for a more cohesive understanding of animal behaviour across different research groups. This, in turn, could accelerate the identification of key behavioural indicators, ultimately leading to better animal management practices and welfare assessments.

This article provides a timely and valuable contribution to the field of animal science. As technology continues to evolve, so too must our methods for interpreting the vast amounts of data it generates (3). By ensuring that studies are comparable and data is interpreted consistently, the research community can work towards more meaningful discoveries in animal behaviour. I highly recommend this paper to researchers looking to deepen their understanding of activity metrics in animal behaviour studies.

References

1. Rushen J, Chapinal N, de Passilé AM (2012). Automated monitoring of behavioural-based animal welfare indicators. Animal Welfare 21(3):339-50. https://doi.org/10.7120/09627286.21.3.339 

2. van Dixhoorn IDE, Aubé L, van Zyl C, de Mol R, van der Werf J, Lardy R, Mialon MM, van Reenen CG, and Veissier I (2024). From data on gross activity to the characterization of animal behaviour: which metrics for which purposes?. Zenodo, 10420600, ver.5 peer-reviewed and recommended by PCI Animal Science. https://doi.org/10.5281/zenodo.10420600 

3. Riaboff L, Shalloo L, Smeaton AF, Couvreur S, Madouasse A, Keane MT (2022). Predicting livestock behaviour using accelerometers: A systematic review of processing techniques for ruminant behaviour prediction from raw accelerometer data. Computers and Electronics in Agriculture 192:106610. https://doi.org/10.1016/j.compag.2021.106610 
 

From data on gross activity to the characterization of animal behaviour: which metrics for which purposes?Ingrid D.E. van Dixhoorn, Lydiane Aubé, Coenraad van Zyl ,Rudi de Mol, Joop van der Werf, Romain Lardy, Marie Madeleine Mialon, Kees C.G. van Reenen, and Isabelle Veissier <p>The behaviour of an animal is closely linked to its internal state. Various metrics can be calculated from activity data. Complex patterns of activity within or between individuals, such as cyclic patterns and synchrony, can inform on the biolo...Animal behaviour , Animal health, Animal welfare, Precision livestock farmingMatteo Chincarini2023-12-21 23:36:35 View
13 Mar 2025
article picture

Shade use, welfare and performance of ewes grazing in temperate silvopastures differing in tree density

Provision of optimal shade for ewes: a question of choice

Recommended by ORCID_LOGO based on reviews by Matteo Chincarini and Pol Llonch

As the world slowly (or not so slowly) warms, the ability to regulate heat becomes even more pertinent for livestock kept in enclosed areas. Trees are not always present on land grazed by sheep, and when the pasture has some forestation, the coverage will provide varying degrees of shade. In this study by Ginane et al. (2025), ewes kept in enclosures with different levels of tree cover were observed at different times over a period of three years to investigate the extent to which the animals chose to spend time in the shade. By using fields with very different provision of shade (approximately 1, 40, and 81% shade, respectively), the authors wanted to test the hypothesis that ewes would actively seek out tree shade when the combined temperature and humidity increased – especially if the conditions reached levels associated with heat stress. Even at the lowest provision of shade, which consisted of a single tree in the paddock, all ewes could fit within the shade cast by the tree; but if the distribution of ewes or groups of ewes were random, i.e. independent of shade, the likelihood of these ewes being in the shade by chance was effectively 1%. By factoring in the element of chance, the authors found that mean shade use was greater than the tree canopy cover for the low and medium shade treatments, whereas it didn’t differ from chance for the densely forested treatment. Across treatments, all ewes spent just under 60% of the observation time grazing, and the ewes with the low and medium level of shade actively selected shade for foraging activity, whereas the ewes with over 80% canopy cover avoided it. Across treatments, shade was used primarily for resting and ruminating.

Tree cover affected the availability of forage in a negative manner, with more biomass available for ewes in the low shade treatment and significantly less in the high treatment, although this did not translate into significant differences in live weight or body condition score. Using this information, Ginane et al. (2025) calculated the optimal level of tree cover to be somewhere between the low and medium cover, at roughly 30 trees per hectare – preferably spread out over the area to offer different locations of shade and to encourage a natural spread of manure.

This longitudinal study of shade use by ewes provides novel and useful information on the positive and negative effects of tree cover in paddocks used to rear ewes with lambs. The authors raise the limitation of the study themselves, and they would have liked to also include observations on non-sunny days, to be able to eliminate place preferences independently of shade availability. But the clever calculation of active shade-selection makes this study easily applicable for use in the assessment of paddock suitability for pregnant ewes.

References

Cécile Ginane, Mickaël Bernard, Véronique Deiss, Donato Andueza, Camille Béral (2025) Shade use, welfare and performance of ewes grazing in temperate silvopastures differing in tree density. Zenodo, ver.4 peer-reviewed and recommended by PCI Animal Science https://doi.org/10.5281/zenodo.15001481

Shade use, welfare and performance of ewes grazing in temperate silvopastures differing in tree densityCécile Ginane, Mickaël Bernard, Véronique Deiss, Donato Andueza, Camille Béral<p>The study aimed to objectify the importance of trees for sheep welfare by characterising how productive ewes, grazing in temperate mid-mountain pastures, use shade depending on climatic conditions and tree density. The impact of trees on sheep ...Animal behaviour , Animal welfare, Grazing management , Small ruminantsBirte L Nielsen2024-04-03 11:39:54 View
23 Aug 2023
article picture

Ensuring ethical animal welfare research: Are more ethics review committees the solution?

Can a consensus be reached on the ethical review of animal experimentation for livestock species?

Recommended by based on reviews by Christian Nawroth, Patrick Gonin and Leon borgdorf

"Ensuring ethical animal welfare research: Are more ethics review committees the solution?" by Birte Nielsen and colleagues [1] provides food for thought on the ethical assessment of experiments involving farm animals. While regulations can provide a precise framework, they differ from country to country and do not consider several cases, mainly when the experimentation involves non- or minimally invasive manipulations. It is also the case when research projects use farmed animals that do not fall within the scope of the regulations on animal experimentation but have undergone practices that can be authorised on farms but may raise ethical questions (tail docking, live castration, tooth filing, beak trimming, dehorning). On the other hand, the heterogeneity of the criteria taken into account by the ethics committees, when they exist (and this can differ greatly from one country to another), do not necessarily correspond to the criteria of the journals, the reviewers and the bodies brought in to evaluate the research project, or to the regulations specific to each country.  

All these paradoxes lead the authors to propose solutions, the most straightforward and spontaneous of which is to ask ourselves questions about this issue upstream of the experimental design required to answer a given scientific question. While increasing the number of ethical review committees may be an insufficient option, the authors insist on the importance of improving committee members' training, taking into consideration jurisdictions' differences between countries and spending more time on ethics evaluation during manuscripts' reviewing. In addition, the upstream assessment of research projects by ethics committees, specific to an institution (research institute, universities, companies), a scientific publisher or even a dedicated international ethical review board may also be a good option.

The ethical evaluation of research projects is a question at the heart of our research activities, for which we do not have all the answers. As with scientific reviewing, we must take on the role of evaluator or be evaluated ourselves, using criteria and feelings that are not always consensual. The heterogeneity of evaluation systems within the scientific community, the lack of training for scientists in the fundamentals of ethical evaluation, and the different perceptions of the animal condition between countries and cultures can lead to a reciprocal lack of understanding between evaluator and evaluated, and sometimes a feeling of injustice, as some research may be easy to conduct in one country but difficult in another. Indeed, it is exciting to read the exchanges between the authors and the three reviewers who assessed this opinion paper to appreciate the diversity of points of view and see specific points of divergence.

In addition to animal experimentation, the judgment handed down on 30 June 2023 by the French court penalising a pig farmer for the abusive use of an authorised breeding practice (tail docking) is a perfect illustration of the fact that the ethical assessment of practices and handling of farm animals now extends far beyond the scientific world and is becoming an increasingly important factor in the relationship between society and animal breeding. Failure to consider this evolution, whether in experimentation or animal husbandry, may have legal consequences and increase the lack of understanding between our practices and how society perceives them. The questions raised and the solutions proposed in the article by Nielsen et al. are central to our concerns, not only for the scientific community but also to meet the expectations of all stakeholders.

Finally, although the authors do not directly address the question of genome editing and research using edited farm animals, this is and will be at the heart of future issues concerning the ethical evaluation of research projects. As with practices and manipulations, the intentionality of the modifications induced leads us to question and evaluate, in farmed species, their consequences on animal welfare and their relevance to society and the development of more sustainable and socially accepted animal husbandry.

Reference

[1] Nielsen, B. L., Golledge, H. D. R., Chou, J., Camerlink, I., Pongrácz, P., Ceballos, M., Whittaker, A. L., Olsson, I. S. (2023) Ensuring ethical animal welfare research: Are more ethics review committees the solution? OSF Preprints. Ver. 3 peer-reviewed and recommended by Peer Community in Animal Science. https://doi.org/10.31219/osf.io/s6459

Ensuring ethical animal welfare research: Are more ethics review committees the solution?Birte L. Nielsen, Huw D.R. Golledge, Jen-Yun Chou, Irene Camerlink, Péter Pongrácz, Maria Camila Ceballos, Alexandra L. Whittaker and I. Anna S. Olsson<p>As the article is a short Opinion Paper, it has no abstract, but it aims to highlight the inherent challenges to ethics review of animal (welfare) science research, especially the differences between different countries and jurisdictions which ...Animal behaviour , Animal welfare, Open science, Veterinary scienceHervé Acloque2023-05-05 13:27:22 View
01 Sep 2022
article picture

Detecting dairy cows' lying behaviour using noisy 3D ultrawide band positioning data

A novel method to monitor lying behaviour of dairy cows by combining noisy spatial positioning data, time-series segmentation based on statistical changepoints and machine learning classification algorithm

Recommended by based on reviews by Kareemah Chopra and John Fredy Ramirez Agudelo

Using on-farm sensors in dairy farming is known to help decision makings and farmer objectives in the monitoring and potential improvement of animal behaviour, health and production performance. However, in indoor positioning systems, data interpretation is complicated by the inaccuracy and noise in the time series, missing data caused not only by sensor failure or the harsh and changing farm environments in which they operate, but also by the animals' specific physiology itself. Thus, working with spatial data has proven challenging mainly due to their enormous heteroscedasticity, which depends on multiple factors such as the cow, the time of the day, the behaviour, factors interfering with the sensor system, etc., for which we cannot account mathematically. Applying purely black-box approaches generally results in insufficient robustness, interpretability and generalisability. 

With this work, Adriaens et al. (2022) developed a relatively simple and new methodology to monitor the lying behaviour of dairy cows by using noisy spatial positioning data, while combining time-series segmentation based on statistical changepoints and a machine learning classification algorithm. The two-step methodology identifies lying behaviour using an ultra-wide band indoor positioning system. Getting-up or lying-down events were indicated by the accelerometers. Overall classification and lying behaviour prediction performance was above 91% in independent test sets, with a very high consistency across cow-days. The robustness of the algorithm was demonstrated by the fact that both the cow identity-based split and the time-based split performed equally well. 

The article represents an original contribution for advancing the state of the art in the automated quantification of lying behaviour in dairy cows, aiming to monitor health or animal welfare issues. Future research must be considered however to validate the performance of the model when using different position-measuring technologies, in other farm settings and over a longer period of time.

 

Reference

Adriaens I, Ouweltjes W, Pastell M, Ellen E, Kamphuis C. 2022. Detecting dairy cows' lying behaviour using noisy 3D ultra-wide band positioning data. Zenodo, 6627251, ver. 3 peer-reviewed and recommended by Peer Community in Animal Science. https://doi.org/10.5281/zenodo.6627251 

 

 

Detecting dairy cows' lying behaviour using noisy 3D ultrawide band positioning dataI. Adriaens, W. Ouweltjes, M. Pastell, E. Ellen, C. Kamphuis<p>In precision livestock farming, technology-based solutions are used to monitor and manage<br>livestock and support decisions based on on-farm available data. In this study, we developed<br>a methodology to monitor the lying behaviour of dairy c...Animal behaviour , Mathematical modelling, Precision livestock farmingEliel Gonzalez-Garcia2022-02-28 18:19:37 View