DOI: 10.5061/dryad.v6wwpzh0g
title: Data and code for: Feeding, mating, and animal wellbeing: New insights from Phylogenetic Comparative Methods

description: Some species tend to thrive in captivity, while others risk health and
 reproductive problems. This enables the use of Phylogenetic Comparative
 Methods (PCMs) to identify aspects of natural biology that predispose
 species to faring poorly or well. Risk factors can then suggest new ways
 to improve animal care. A steady trickle of studies has applied PCMs to
 animal welfare over the last two decades, Lewis et al. (1) providing the
 latest. Here we contextualise this new work and suggest further research
 it might inspire. Provided here are the data and R code for Figure 1
 provided in a commentary on: (1) Lewis, K., M.O. Parker, L. Proops, and
 S.D. McBride, Risk factors for stereotypic behaviour in captive ungulates.
 Proceedings of the Royal Society B: Biological Sciences, 2022. 289(1983):
 p. 20221311.
description: Data on stereotypic behaviour came from
 Lewis et al. [1]. Values for (sex-specific) relative lifespan and
 species-typical percentage grass in the natural diet came
 from Müller
 et al. [2]. Following Müller et
 al. [2], we calculated
 relative lifespans (sexes pooled) using data from Moorad et al. [3].
 Values for digestive health problems came from Gattiker et al.
 [4]. [1] Lewis, K., M.O. Parker, L.
 Proops, and S.D. McBride, <em>Risk factors for stereotypic behaviour
 in captive ungulates.</em> Proceedings of the Royal Society B:
 Biological Sciences, 2022. <strong>289</strong>(1983): p.
 20221311. [2] Müller, D.W.H., L.B. Lackey,
 W.J. Streich, J. Fickel, J.-M. Hatt, and M. Clauss, <em>Mating
 system, feeding type and ex situ conservation effort determine life
 expectancy in captive ruminants.</em> Proceedings of the Royal
 Society B: Biological Sciences, 2011.
 <strong>278</strong>(1714): p. 2076-2080. [3]
 Moorad, J.A., D.E.L. Promislow, N. Flesness, and R.A. Miller, <em>A
 comparative assessment of univariate longevity measures using zoological
 animal records.</em> Aging Cell, 2012.
 <strong>11</strong>(6): p. 940-948. [4]
 Gattiker, C., I. Espie, A. Kotze, E.P. Lane, D. Codron, and M. Clauss,
 <em>Diet and diet-related disorders in captive ruminants at the
 national zoological gardens of South Africa.</em> Zoo Biology, 2014.
 <strong>33</strong>(5): p. 426-432.
description: Data and code for: Feeding, mating,
 and animal wellbeing: New insights from Phylogenetic Comparative
 Methods Provided here are
 the data and R code for Figure 1 provided in a commentary on: Lewis, K.,
 M.O. Parker, L. Proops, and S.D. McBride, Risk factors for stereotypic
 behaviour in captive ungulates. Proceedings of the Royal Society B:
 Biological Sciences, 2022. 289(1983): p. 20221311. Suitable for use in Excel and/or
 R. Missing values indicated
 with 'NA'.   Metadata: Species: species names as per Upham et al.
 [1] PRA_percent_Gattiker:
 % of animals found to have parakeratosis, rumenitis, and/or ruminal
 acidosis at death from Gattiker et al. [2] Teeth_probs_percent_Gattiker: % of animals
 found to have abnormally worn teeth at death Abn_stomach_contents_percent_Gattiker: % of
 animals found to have abnormal stomach contents at death Poor_BC_percent_Gattiker: % of animals in
 poor body condition at death  SB_reported_Lewis: if stereotypic behaviour
 has been reported (yes v no) from Lewis et al. [3] r_LE_from: the source of relative lifespan
 used in analyses (Müller et al. [4] or Moorad et al. [5])
 r_LE_combo:species-specific relative
 lifespan [from 4 or 5] Percent_grass_Muller: percentage of the
 natural diet that is grass [1] Upham, N.S., J.A. Esselstyn, and W.
 Jetz, Inferring the mammal tree: Species-level sets of phylogenies for
 questions in ecology, evolution, and conservation. PLOS Biology, 2019.
 17(12): p. e3000494. [2]
 Gattiker, C., I. Espie, A. Kotze, E.P. Lane, D. Codron, and M. Clauss,
 Diet and diet-related disorders in captive ruminants at the national
 zoological gardens of South Africa. Zoo Biology, 2014. 33(5): p.
 426-432. [3] Lewis, K.,
 M.O. Parker, L. Proops, and S.D. McBride, Risk factors for stereotypic
 behaviour in captive ungulates. Proceedings of the Royal Society B:
 Biological Sciences, 2022. 289(1983): p. 20221311. [4] Müller, D.W.H., L.B. Lackey, W.J.
 Streich, J. Fickel, J.-M. Hatt, and M. Clauss, Mating system, feeding type
 and ex situ conservation effort determine life expectancy in captive
 ruminants. Proceedings of the Royal Society B: Biological Sciences, 2011.
 278(1714): p. 2076-2080. [5] Moorad, J.A., D.E.L. Promislow, N.
 Flesness, and R.A. Miller, A comparative assessment of univariate
 longevity measures using zoological animal records. Aging Cell, 2012.
 11(6): p. 940-948.