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Author |
Beaugrand, J.P |
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Title |
Relative importance of initial individual differences, agonistic experience, and assessment accuracy during hierarchy formation: a simulation study |
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Journal Article |
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Year |
1997 |
Publication |
Behavioural Processes |
Abbreviated Journal |
Behav. Process. |
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Volume |
41 |
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Pages |
177-192 |
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Keywords |
Dominance; Hierarchy formation; RHP; Agonistic experience; Assessment; Self-organization; Simulation |
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Abstract |
This simulation study explores some conditions leading to transitivity within dominance orders. Combinations of three parameters were varied to study their consequences upon hierarchy formation and upon the degree of linearity of resultant structures. The factors studied were: (1) the importance of initial resource holding potentials (RHPs); (2) changes brought in RHPs by successive victories and defeats; and (3) accuracy of RHP assessment made by opponents. Results show that initial differences in RHP always lead to perfectly transitive chains whose rank order reflects the importance of initial differences. Even when simulated animals make important errors while assessing each other during round robin tournaments, emerging dominance structures are perfectly linear and ranks obtained in the structure are highly correlated with initial values in RHPs. Moreover, accumulated experiences of victory and/or defeat alone always lead to perfectly linear hierarchies. Their combination with initial individual differences in RHP led to the same conclusion. Even when assessment was far from being perfect, not only perfect chains were formed but initial values in RHPs significantly influenced rank order when the contribution of victory and defeat to RHP was relatively unimportant. The higher the importance of victory and defeat to RHP as compared to that of initial RHP values, the lower was the correlation between initial RHP values and the ranks order reached by individuals in the resultant hierarchies. In general also, the lower the variation within initial RHPs, the lower was the correlation between initial RHPs and ranks in the hierarchy. At a given level of initial RHP dispersion, increasing the contribution of victory and defeat to RHP diminished the correlation between initial RHP values and obtained ranks. In addition, inaccurate assessment reduced the overall correlation, especially when dispersion of initial RHP values was low and the contribution of victory and defeat relatively unimportant. These results shed some light on the controversy about the respective roles of initial individual attributes and that of patterns of resolution in the formation of animal hierarchies. We present the emergence of social order within closed systems as those simulated here as a case of self-organization. |
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Equine Behaviour @ team @ |
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4290 |
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Author |
Beaugrand, J.P. |
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Title |
Relative importance of initial individual differences, victory and defeat experiences, and assessment accuracy during hierarchy formation: A simulation study |
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Miscellaneous |
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Year |
1997 |
Publication |
Cogprints |
Abbreviated Journal |
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41 |
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177-192 |
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Keywords |
Dominance; Hierarchy formation; RHP; agonistic experience; Assessment; Self-organization; Simulation |
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Abstract |
This simulation study explores some conditions leading to transitivity within dominance orders. Combinations of three parameters were varied to study their consequences upon hierarchy formation and upon the degree of linearity of resultant structures. The factors studied were (i) the importance of initial Resource Holding Potentials (RHPs) , (ii) changes brought in RHPs by successive victories and defeats, and (iii) accuracy of RHP assessment made by opponents. Results show that initial differences in RHP always lead to perfectly transitive chains whose rank order reflects the importance of initial differences. Even when simulated animals make important errors while assessing each other during round robin tournaments, emerging dominance structures are perfectly linear and ranks obtained in the structure are highly correlated with initial values in RHPs. Moreover, accumulated experiences of victory and/or defeat alone always lead to perfectly linear hierarchies. Their combination with initial individual differences in RHP led to the same conclusion. Even when assessment was far from being perfect, not only perfect chains were formed but initial values in RHPs significantly influenced rank order when the contribution of victory and defeat to RHP was relatively unimportant. The higher the importance of victory and defeat to RHP as compared to that of initial RHP values, the lower was the correlation between initial RHP values and the ranks order reached by individuals in the resultant hierarchies. In general also, the lower the variation within initial RHPs, the lower was the correlation between initial RHPs and ranks in the hierarchy. At a given level of initial RHP dispersion, increasing the contribution of victory and defeat to RHP diminished the correlation between initial RHP values and obtained ranks. In addition, inaccurate assessment reduced the overall correlation, especially when dispersion of initial RHP values was low and the contribution of victory and defeat was high. These results shed some light on the controversy about the respective roles of initial individual attributes and that of patterns of resolution in the formation of animal hierarchies. We present the emergence of social order within closed systems as those simulated here as a case of self-organization. |
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Equine Behaviour @ team @ cogprints:1965 |
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4291 |
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Author |
Bücheler, T.; Sieg, J.H. |
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Title |
Understanding Science 2.0: Crowdsourcing and Open Innovation in the Scientific Method |
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Journal Article |
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Year |
2011 |
Publication |
Procedia Computer Science |
Abbreviated Journal |
Proceedings of the 2nd European Future Technologies Conference and Exhibition 2011 (FET 11) |
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7 |
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327-329 |
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Crowdsourcing; Open Innovation; Simulation; Agent-Based Modeling; Science 2.0; Citizen Science |
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The innovation process is currently undergoing significant change in many industries. The World Wide Web has created a virtual world of collective intelligence and helped large groups of people connect and collaborate in the innovation process [1]. Von Hippel [2], for instance, states that a large number of users of a given technology will come up with innovative ideas. This process, originating in business, is now also being observed in science. Discussions around “Citizen Science” [3] and “Science 2.0” [4] suggest the same effects are relevant for fundamental research practices. “Crowdsourcing” [5] and “Open Innovation” [6] as well as other names for those paradigms, like Peer Production, Wikinomics, Swarm Intelligence etc., have become buzzwords in recent years. However, serious academic research efforts have also been started in many disciplines. In essence, these buzzwords all describe a form of collective intelligence that is enabled by new technologies, particularly internet connectivity. The focus of most current research on this topic is in the for-profit domain, i.e. organizations willing (and able) to pay large sums to source innovation externally, for instance through innovation contests. Our research is testing the applicability of Crowdsourcing and some techniques from Open Innovation to the scientific method and basic science in a non-profit environment (e.g., a traditional research university). If the tools are found to be useful, this may significantly change how some research tasks are conducted: While large, apriori unknown crowds of “irrational agents” (i.e. humans) are used to support scientists (and teams thereof) in several research tasks through the internet, the usefulness and robustness of these interactions as well as scientifically important factors like quality and validity of research results are tested in a systematic manner. The research is highly interdisciplinary and is done in collaboration with scientists from sociology, psychology, management science, economics, computer science, and artificial intelligence. After a pre-study, extensive data collection has been conducted and the data is currently being analyzed. The paper presents ideas and hypotheses and opens the discussion for further input. |
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1877-0509 |
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Equine Behaviour @ team @ |
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6434 |
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Author |
Church, R.M. |
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Title |
Quantitative models of animal learning and cognition |
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Journal Article |
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Year |
1997 |
Publication |
Journal of Experimental Psychology. Animal Behavior Processes |
Abbreviated Journal |
J Exp Psychol Anim Behav Process |
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23 |
Issue |
4 |
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379-389 |
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Animals; *Behavior, Animal; *Cognition; Computer Simulation; *Learning; *Models, Psychological; *Models, Theoretical |
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This article reviews the prerequisites for quantitative models of animal learning and cognition, describes the types of models, provides a rationale for the development of such quantitative models, describes criteria for their evaluation, and makes recommendations for the next generation of quantitative models. A modular approach to the development of models is described in which a procedure is considered as a generator of stimuli and a model is considered as a generator of responses. The goal is to develop models that, in combination with many different procedures, produce sequences of times of occurrence of events (stimuli and responses) that are indistinguishable from those produced by the animal under many experimental procedures and data analysis techniques. |
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Department of Psychology, Brown University, Providence, Rhode Island 02912, USA. russell_church@brown.edu |
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0097-7403 |
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PMID:9335132 |
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Equine Behaviour @ team @ |
Serial |
2778 |
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Author |
Clayton, H.M.; Lanovaz, J.L.; Schamhardt, H.C.; van Wessum, R. |
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Title |
The effects of a rider's mass on ground reaction forces and fetlock kinematics at the trot |
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Journal Article |
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Year |
1999 |
Publication |
Equine Veterinary Journal. Supplement |
Abbreviated Journal |
Equine Vet J Suppl |
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30 |
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218-221 |
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Animals; Body Weight; Computer Simulation; Gait/*physiology; Horses/*physiology; Physical Conditioning, Animal/*physiology; Stress, Mechanical; Weight-Bearing/*physiology |
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Ground reaction force (GRF) measurements are often normalised to body mass to facilitate inter-individual comparisons. The objective of this study was to explore the effect of a rider on the GRFs and fetlock joint kinematics of trotting horses. The subjects were 5 dressage-trained horses and 3 experienced dressage riders. Ground reaction force measurements and sagittal view videotapes were recorded as the horses trotted at the same velocity in hand (3.49 +/- 0.52 m/s) and with a rider (3.49 +/- 0.46 m/s). Data were time-normalised to stance duration. Ground reaction force measurements were expressed in absolute terms and normalised to the system mass (horse or horse plus rider). All the horses showed changes in the same direction when comparing the ridden condition with the in-hand condition. There was an increase in the absolute peak vertical GRFs of the fore- and hindlimbs with a rider. However, the mass-normalised peak vertical GRFs were lower for the ridden condition, with the peak occurring later in the forelimbs and earlier in the hindlimbs compared with the inhand condition. Maximal fetlock angle and its time of occurrence were similar for the 2 conditions, but the fore fetlock joint was more extended during the later part of the stance phase in ridden horses. The presence of a rider appeared to affect the GRFs and fetlock joint kinematics differently in the fore- and hindlimbs, and the ridden horse did not seem to be equivalent to a proportionately larger horse. This should be considered when normalising for body mass in studies comparing horses in hand and ridden horses. |
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Department of Large Animal Clinical Sciences, College of Veterinary Medicine, Michigan State University, East Lansing 48824-1314, USA |
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PMID:10659255 |
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Equine Behaviour @ team @ |
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3733 |
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Author |
Gulotta, M.; Gilmanshin, R.; Buscher, T.C.; Callender, R.H.; Dyer, R.B. |
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Title |
Core formation in apomyoglobin: probing the upper reaches of the folding energy landscape |
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Journal Article |
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Year |
2001 |
Publication |
Biochemistry |
Abbreviated Journal |
Biochemistry |
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Volume |
40 |
Issue |
17 |
Pages |
5137-5143 |
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Keywords |
Animals; Apoproteins/*chemistry; Computer Simulation; Horses; Hydrogen-Ion Concentration; Kinetics; Models, Molecular; Myoglobin/*chemistry; *Protein Folding; Protein Structure, Secondary; Protein Structure, Tertiary; Spectrometry, Fluorescence/instrumentation/methods; Thermodynamics; Tryptophan/chemistry |
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An acid-destabilized form of apomyoglobin, the so-called E state, consists of a set of heterogeneous structures that are all characterized by a stable hydrophobic core composed of 30-40 residues at the intersection of the A, G, and H helices of the protein, with little other secondary structure and no other tertiary structure. Relaxation kinetics studies were carried out to characterize the dynamics of core melting and formation in this protein. The unfolding and/or refolding response is induced by a laser-induced temperature jump between the folded and unfolded forms of E, and structural changes are monitored using the infrared amide I' absorbance at 1648-1651 cm(-1) that reports on the formation of solvent-protected, native-like helix in the core and by fluorescence emission changes from apomyoglobin's Trp14, a measure of burial of the indole group of this residue. The fluorescence kinetics data are monoexponential with a relaxation time of 14 micros. However, infrared kinetics data are best fit to a biexponential function with relaxation times of 14 and 59 micros. These relaxation times are very fast, close to the limits placed on folding reactions by diffusion. The 14 micros relaxation time is weakly temperature dependent and thus represents a pathway that is energetically downhill. The appearance of this relaxation time in both the fluorescence and infrared measurements indicates that this folding event proceeds by a concomitant formation of compact secondary and tertiary structures. The 59 micros relaxation time is much more strongly temperature dependent and has no fluorescence counterpart, indicating an activated process with a large energy barrier wherein nonspecific hydrophobic interactions between helix A and the G and H helices cause some helix burial but Trp14 remains solvent exposed. These results are best fit by a multiple-pathway kinetic model when U collapses to form the various folded core structures of E. Thus, the results suggest very robust dynamics for core formation involving multiple folding pathways and provide significant insight into the primary processes of protein folding. |
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Department of Biochemistry, Albert Einstein College of Medicine, Bronx, New York 10461, USA |
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0006-2960 |
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PMID:11318635 |
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Call Number |
Equine Behaviour @ team @ |
Serial |
3789 |
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Author |
Hagen, S.J.; Eaton, W.A. |
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Title |
Two-state expansion and collapse of a polypeptide |
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Journal Article |
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Year |
2000 |
Publication |
Journal of Molecular Biology |
Abbreviated Journal |
J Mol Biol |
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Volume |
301 |
Issue |
4 |
Pages |
1019-1027 |
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Keywords |
Animals; Computer Simulation; Cytochrome c Group/*chemistry/*metabolism; Horses; Kinetics; Lasers; Models, Chemical; Peptides/*chemistry/*metabolism; Protein Conformation; Protein Denaturation; *Protein Folding; Spectrometry, Fluorescence; Temperature; Thermodynamics |
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The initial phase of folding for many proteins is presumed to be the collapse of the polypeptide chain from expanded to compact, but still denatured, conformations. Theory and simulations suggest that this collapse may be a two-state transition, characterized by barrier-crossing kinetics, while the collapse of homopolymers is continuous and multi-phasic. We have used a laser temperature-jump with fluorescence spectroscopy to measure the complete time-course of the collapse of denatured cytochrome c with nanosecond time resolution. We find the process to be exponential in time and thermally activated, with an apparent activation energy approximately 9 k(B)T (after correction for solvent viscosity). These results indicate that polypeptide collapse is kinetically a two-state transition. Because of the observed free energy barrier, the time scale of polypeptide collapse is dramatically slower than is predicted by Langevin models for homopolymer collapse. |
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Laboratory of Chemical Physics, NIDDK, National Institutes of Health, Building 5, Bethesda, MD, 20892-0520, USA |
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0022-2836 |
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PMID:10966803 |
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Equine Behaviour @ team @ |
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3790 |
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Author |
Polverini, E.; Cugini, G.; Annoni, F.; Abbruzzetti, S.; Viappiani, C.; Gensch, T. |
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Molten globule formation in apomyoglobin monitored by the fluorescent probe Nile Red |
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Journal Article |
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Year |
2006 |
Publication |
Biochemistry |
Abbreviated Journal |
Biochemistry |
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45 |
Issue |
16 |
Pages |
5111-5121 |
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Keywords |
Animals; Apoproteins/*chemistry/*metabolism; Binding Sites; Computer Simulation; Fluorescent Dyes/analysis; Horses; Hydrogen-Ion Concentration; Models, Molecular; Myoglobin/*chemistry/*metabolism; Oxazines/*analysis/chemistry; Protein Binding; Protein Folding; Protein Structure, Tertiary |
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The interaction of nile red (NR) with apomyoglobin (ApoMb) in the native (pH 7) and molten globule (pH 4) states was investigated using experimental and computational methods. NR binds to hydrophobic locations in ApoMb with higher affinity (K(d) = 25 +/- 5 microM) in the native state than in the molten globule state (K(d) = 52 +/- 5 microM). In the molten globule state, NR is located in a more hydrophobic environment. The dye does not bind to the holoprotein, suggesting that the binding site is located at the heme pocket. In addition to monitoring steady-state properties, the fluorescence emission of NR is capable of tracking submillisecond, time-resolved structural rearrangements of the protein, induced by a nanosecond pH jump. Molecular dynamics simulations were run on ApoMb at neutral pH and at pH 4. The structure obtained for the molten globule state is consistent with the experimentally available structural data. The docking of NR with the crystal structure shows that the ligand binds into the binding pocket of the heme group, with an orientation bringing the planar ring system of NR to overlap with the position of two of the heme porphyrin rings in Mb. The docking of NR with the ApoMb structure at pH 4 shows that the dye binds to the heme pocket with a slightly less favorable binding energy, in keeping with the experimental K(d) value. Under these conditions, NR is positioned in a different orientation, reaching a more hydrophobic environment in agreement with the spectroscopic data. |
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Dipartimento di Fisica, Universita degli Studi di Parma, Viale G. P. Usberti 7/A, 43100 Parma, Italy |
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0006-2960 |
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PMID:16618100 |
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Equine Behaviour @ team @ |
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3763 |
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Author |
Sinha, A. |
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Title |
Knowledge acquired and decisions made: triadic interactions during allogrooming in wild bonnet macaques, Macaca radiata |
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Journal Article |
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Year |
1998 |
Publication |
Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences |
Abbreviated Journal |
Philos Trans R Soc Lond B Biol Sci |
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Volume |
353 |
Issue |
1368 |
Pages |
619-631 |
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Keywords |
Aggression; Animals; Cognition; Computer Simulation; Decision Making; Evolution; Female; Grooming; Logistic Models; Macaca radiata/*psychology; *Social Behavior; Social Dominance |
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Abstract |
The pressures of developing and maintaining intricate social relationships may have led to the evolution of enhanced cognitive abilities in many nonhuman primates. Knowledge of the dominance ranks and social relationships of other individuals, in particular, is important in evaluating one's position in the rank hierarchy and affiliative networks. Triadic interactions offer an excellent opportunity to examine whether decisions are taken by individuals on the basis of such knowledge. Allogrooming supplants among wild female bonnet macaques (macaca radiata) usually involved the subordinate female of a grooming dyad retreating at the approach of a female dominant to both members of the dyad. In a few exceptional cases, however, the dominant member of the dyad retreated; simple non-cognitive hypotheses involving dyadic rank differences and agonistic relationships failed to explain this phenomenon. Instead, retreat by the dominant individual was positively correlated with the social attractiveness of her subordinate companion (as measured by the duration of grooming received by the latter from other females in the troop). This suggests that not only does an individual evaluate relationships among other females, but does so on the basis of the amount of grooming received by them. Similarly, the frequency of approaches received by any female was correlated with her social attractiveness when she was the dominant member of the dyad, but not when she was the subordinate. This indicated that approaching females might be aware of the relative dominance ranks of the two allogrooming individuals. In logistic regression analyses, the probability of any individual retreating was found to be influenced more by her knowledge of her rank difference with both the other interactants, rather than by their absolute ranks. Moreover, information about social attractiveness appeared to be used in terms of correlated dominance ranks. The nature of knowledge acquired by bonnet macaque females may thus be egotistical in that other individuals are evaluated relative to oneself, integrative in that information about all other interactants is used simultaneously, and hierarchical in the ability to preferentially use certain categories of knowledge for the storage of related information from other domains. |
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National Centre for Biological Sciences, TIFR Centre, Bangalore, India |
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0962-8436 |
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PMID:9602536 |
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no |
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Equine Behaviour @ team @ |
Serial |
4362 |
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Author |
Viscido, S.V.; Miller, M.; Wethey, D.S. |
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Title |
The response of a selfish herd to an attack from outside the group perimeter |
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Journal Article |
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Year |
2001 |
Publication |
Journal of theoretical biology |
Abbreviated Journal |
J. Theor. Biol. |
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Volume |
208 |
Issue |
3 |
Pages |
315-328 |
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Animals; *Behavior, Animal; *Computer Simulation; Models, Biological; *Movement; Predatory Behavior |
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Abstract |
According to the selfish herd hypothesis, animals can decrease predation risk by moving toward one another if the predator can appear anywhere and will attack the nearest target. Previous studies have shown that aggregations can form using simple movement rules designed to decrease each animal's Domain of Danger. However, if the predator attacks from outside the group's perimeter, these simple movement rules might not lead to aggregation. To test whether simple selfish movement rules would decrease predation risk for those situations when the predator attacks from outside the flock perimeter, we constructed a computer model that allowed flocks of 75 simulated fiddler crabs to react to one another, and to a predator attacking from 7 m away. We attacked simulated crab flocks with predators of different sizes and attack speeds, and computed relative predation risk after 120 time steps. Final trajectories showed flight toward the center of the flock, but curving away from the predator. Path curvature depended on the predator's size and approach speed. The average crab experienced a greater decrease in predation risk when the predator was small or slow moving. Regardless of the predator's size and speed, however, predation risk always decreased as long as crabs took their flock-mates into account. We conclude that, even when flight away from an external predator occurs, the selfish avoidance of danger can lead to aggregation. |
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Department of Biological Sciences, University of South Carolina, Columbia, SC 29208, U.S.A. viscido@u.washington.edu |
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English |
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0022-5193 |
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PMID:11207093 |
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refbase @ user @ |
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555 |
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