Refinement Database

Database on Refinement of Housing, Husbandry, Care, and Use of Animals in Research

This database, created in 2000, is updated every four months with newly published scientific articles, books, and other publications related to improving or safeguarding the welfare of animals used in research.

Tips for using the database:

  • This landing page displays all of the publications in the database.
  • Use the drop-down menus to filter these publications by Animal Type, Setting, and/or Topic.
  • Clicking on a parent category (e.g., Rodent) will include publications relating to all the items in that category (e.g., Chinchilla, Gerbil, Guinea Pig, etc.).
  • You may also add a keyword to further narrow your search.
  • Please note that at this time, only publications dated 2010 or later (with some exceptions) can be filtered by Animal Type and Topic, and only publications dated 2020 or later (with some exceptions) can be filtered by Setting. Most publications older than 2010 can only be searched by keyword. 
Rácz, A., Allan, B., Dwyer, T. et al. 2021. Identification of individual zebrafish (Danio rerio): A refined protocol for VIE tagging whilst considering animal welfare and the principles of the 3Rs. Animals 11(3), 616.

In aquatic ecology, studies have commonly employed a tagging technique known as visible implant elastomer (VIE). This method has not been widely adopted by the zebrafish research community and also lacks refinement with regard to...

Bista, D., Lama, S. T., Weerman, J. et al. 2021. Improved trapping and handling of an arboreal, montane mammal: Red panda Ailurus fulgens. Animals 11(4), 921.

It is sometimes essential to have an animal in the hand to study some of their ecological and biological characteristics. However, capturing a solitary, cryptic, elusive arboreal species such as the red panda in the...

Burn, C. C., Mazlan, N. H. B., Chancellor, N. et al. 2021. The pen is milder than the blade: Identification marking mice using ink on the tail appears more humane than ear-punching even with local anaesthetic. Animals 11(6), 1664.

Identification marking mice commonly involves ear-punching with or without anaesthetic, or tail-marking with ink. To identify which is most humane, we marked weanling male BALB/c mice using ear-punching (EP), ear-punching with anaesthetic EMLATM cream (EP+A)...

Labitt, R. N., Oxford, E. M., Davis, A. K. et al. 2021. A validated smartphone-based electrocardiogram reveals severe bradyarrhythmias during immobilizing restraint in mice of both sexes and four strains. JAALAS 60(2), 201-212.

Mouse handling and restraint affect behavior, physiology, and animal welfare, yet little information is available on how various mouse restraint methods affect cardiovascular parameters. We validated the use of a smartphone-based ECG sys- tem in...

Huber, N., Mahr, K., Tóth, Z. et al. 2021. The stressed bird in the hand: Influence of sampling design on the physiological stress response in a free-living songbird. Physiology & Behavior 238, 113488.

Despite the widely used application of standardized capture-handling protocols to collect blood and assess the physiological stress response, the actual sampling design (e.g., timing and the number of blood samples) often differs between studies, and...

Houser, L. A., Ramsey, C., de Carvalho, F. M. et al. 2021. Improved training and semen collection outcomes using the closed box chair for macaques. Animals 11(8), 2384.

Collaborative semen collection in monkeys is a valuable tool in research, animal collection management, and conservation efforts. To obtain samples, monkeys are often restrained in open restraint chairs (ORC) with the “pole and collar” technique...

Holdsworth, S. E., Kells, N. J., Chidgey, K. L. et al. 2021. Characterisation of the behavioural effects of a thoracic squeeze in healthy newborn piglets. Animals 11(8), 2465.

Firmly squeezing the chests of newborn foals and calves that are showing abnormal behaviours after birth causes them to enter a less-responsive state, characterised by lying down with eyes closed and no limb movements. Once...

Bergvall, U. A., Morellet, N., Kjellander, P. et al. 2021. Settle down! Ranging behaviour responses of roe deer to different capture and release methods. Animals 11(11), 3299.

The fitting of tracking devices to wild animals requires capture and handling which causes stress and can potentially cause injury, behavioural modifications that can affect animal welfare and the output of research. We evaluated post...

Lange, A., Waiblinger, S., van Hasselt, R. et al. 2021. Effects of restraint on heifers during gentle human-animal interactions. Applied Animal Behaviour Science 243, 105445.

Gentle human-animal interactions can induce positive emotions in cattle and enhance their welfare. We investigated whether a change in the animals’ perceived control over the situation influences their perception of the interactions. We compared the...

Falendysz, E. A., Calhoun, D. M., Smith, C. A. et al. 2020. Outside the box: Working with wildlife in biocontainment. ILAR Journal 61(1), 72-85.

Research with captive wildlife in Animal Biosafety Level 2 (ABSL2) and 3 (ABSL3) facilities is becoming increasingly necessary as emerging and re-emerging diseases involving wildlife have increasing impacts on human, animal, and environmental health. Utilizing...

Redaelli, V., Bosi, A., Luzi, F. et al. 2021. Neuroinflammation, body temperature and behavioural changes in CD1 male mice undergoing acute restraint stress: An exploratory study. PLOS ONE 16(11), e0259938.

Background: Animal models used to study pathologies requiring rehabilitation therapy, such as cardiovascular and neurologic disorders or oncologic disease, must be as refined and translationally relevant as possible. Sometimes, however, experimental procedures such as those...

Robstad, C. A., Lodberg-Holm, H. K., Mayer, M. et al. 2021. The impact of bio-logging on body weight change of the Eurasian beaver. PLOS ONE 16(12), e0261453.

Bio-logging is a common method to collect ecological data on wild animals, but might also induce stress, reduce body condition, and alter behavior. Eurasian beavers (Castor fiber) are a semi-aquatic and nocturnal species that are...

Moody, C. M., Mason, G. J., Dewey, C. E. et al. 2020. Getting a grip: Cats respond negatively to scruffing and clips. Veterinary Record 186(12), 385.

Use of scruffing and scruffing tools (eg, clipnosis clips) to immobilise cats is contentious, and cat handling guidelines vary in recommendations regarding these techniques. The current study examined whether cats show negative responses to the...

Waiblinger, S., Hajek, F., Lambacher, B. et al. 2020. Effects of the method of restraint for shearing on behaviour and heart rate variability in alpacas. Applied Animal Behaviour Science 223, 104918.

Alpacas are increasingly kept in Europe for different purposes including fibre production. Yearly shearing is necessary to harvest fibre and for welfare reasons. Different methods of restraint are used during shearing, which may affect the...

Hanzen, C., Lucas, M. C., OʼBrien, G. et al. 2020. Surgical implantation of radio tags in three eel species (Anguilla spp.) in South Africa. Journal of Fish Biology 96(3), 847-852.

Studies have reported poor survival of surgically tagged freshwater fishes in warm African waters. This study aimed to assess the applicability of using radio telemetry (and surgical implantation of tags) for Anguilla spp. Nineteen yellow...

Keeping, J. A., Reeve‐Arnold, K. E., Burns, N. M. et al. 2020. Computer‐aided photo‐identification of a rare stingray, Megatrygon microps. Journal of Fish Biology 96(3), 815-819.

A protocol for photo‐identification of individual Megatrygon microps has been defined. One hundred and four identification photographs were taken between 2005 and 2019. Spot patterns on the dorsal surface were used to identify individuals. Unique...

Skov, C., Hansen, J. H., Baktoft, H. et al. 2020. A field evaluation of long‐term effects of PIT tagging. Journal of Fish Biology 96(4), 1055-1059.

Passive integrated transponder (PIT)‐tagging is commonly used in behavioural studies of fish, although long‐term evaluations of effects from tagging under natural conditions are scarce. We PIT‐tagged common bream Abramis brama, European perch Perca fluviatilis, pike...

Young, T., Whiteside, T., Locklear, J. 2020. What is your tattoo ink telling you? Laboratory Animal Science Professional 8(2) (March/April), 62-65.

Tattooing traumatizes the skin, which can result in microbial infections with the severity ranging from minor to life-threating septicemia. Additionally, the metals in colored tattoo ink are known to cause dermal inflammation in some people...

Ludwig, J. L. 2020. Is that a rat in your pocket? A novel pocket method for rat restraint. Laboratory Animal Science Professional 8(1) (January/February), 48-49.

At the University of Illinois at Urbana- Champaign (UIUC), we routinely teach novice research personnel how to appropriately handle, restrain, and perform basic experimental techniques on rats. Barriers to teaching include fear of animal bites...

Zemanova, M. A. 2020. Towards more compassionate wildlife research through the 3Rs principles: Moving from invasive to noninvasive methods. Wildlife Biology 2020(1), no page numbers.

Research in ecology and wildlife biology remains crucial for increasing our knowledge and improving species management and conservation in the midst of the current biodiversity crisis. However, obtaining information on population status often involves invasive...

Latham, A., Davidson, B., Warburton, B. et al 2020. Efficacy and animal welfare impacts of novel capture methods for two species of invasive wild mammals in New Zealand. Animals 10(1), 44.

All capture methods impose animal welfare impacts, but these impacts are rarely quantified or reported. We present data from two wildlife capture studies that trialled new methods for capturing Bennett’s wallabies (Notamacropus rufogriseus) and red...

Kennedy, R. J., Evans, D., Allen, M. 2020. Long-term retention of dummy acoustic transmitters in adult brown trout. Journal of Fish Biology 97(4), 1281–1284.

A group of 36 1+ age class Salmo trutta were surgically implanted with dummy acoustic tags and monitored for 370 days. In total 13 tags were expelled throughout the experiment with an overall tag loss...

Lewis, R., Dawson, S., Rayment, W. 2020. Estimating population parameters of broadnose sevengill sharks (Notorynchus cepedianus) using photo identification capture-recapture. Fish Biology 97(4), 987–995.

Capture-recapture methods are now widely used for quantifying abundance and movements of elasmobranchs. This method requires that individuals in the population are uniquely identifiable and has been employed in studies that use baited underwater video...

Jang, D.-H., Kwon, K.-S., Kim, J.-K. et al. 2020. Dog identification method based on muzzle pattern image. Applied Sciences 10(24), 8994.

Currently, invasive and external radio frequency identification (RFID) devices and pet tags are widely used for dog identification. However, social problems such as abandoning and losing dogs are constantly increasing. A more effective alternative to...

Lefebvre, E., Granon, S., Chauveau, F. 2020. Social context increases ultrasonic vocalizations during restraint in adult mice. Animal Cognition 23(2), 351–359.

Adult mice emit many ultrasonic vocalizations (USVs) during social interaction tasks, but only a few studies have yet reported USVs in stressed adult mice. Our aim was to study which experimental conditions favor USV emission...