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Author |
Pierce, M.M.; Nall, B.T. |
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Title |
Coupled kinetic traps in cytochrome c folding: His-heme misligation and proline isomerization |
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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 |
298 |
Issue |
5 |
Pages |
955-969 |
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Keywords |
Amino Acid Sequence; Amino Acid Substitution/genetics; Binding Sites; Cytochrome c Group/*chemistry/genetics/*metabolism; *Cytochromes c; Enzyme Stability/drug effects; Fluorescence; Guanidine/pharmacology; Heme/*metabolism; Histidine/genetics/*metabolism; Hydrogen-Ion Concentration; Isomerism; Kinetics; Models, Molecular; Molecular Sequence Data; Mutation/genetics; Proline/*chemistry/metabolism; Protein Conformation/drug effects; Protein Denaturation/drug effects; *Protein Folding; Protein Renaturation; Saccharomyces cerevisiae/enzymology/genetics; Sequence Alignment; Thermodynamics |
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The effect of His-heme misligation on folding has been investigated for a triple mutant of yeast iso-2 cytochrome c (N26H,H33N,H39K iso-2). The variant contains a single misligating His residue at position 26, a location at which His residues are found in several cytochrome c homologues, including horse, tuna, and yeast iso-1. The amplitude for fast phase folding exhibits a strong initial pH dependence. For GdnHCl unfolded protein at an initial pH<5, the observed refolding at final pH 6 is dominated by a fast phase (tau(2f)=20 ms, alpha(2f)=90 %) that represents folding in the absence of misligation. For unfolded protein at initial pH 6, folding at final pH 6 occurs in a fast phase of reduced amplitude (alpha(2f) approximately 20 %) but the same rate (tau(2f)=20 ms), and in two slower phases (tau(m)=6-8 seconds, alpha(m) approximately 45 %; and tau(1b)=16-20 seconds, alpha(1b) approximately 35 %). Double jump experiments show that the initial pH dependence of the folding amplitudes results from a slow pH-dependent equilibrium between fast and slow folding species present in the unfolded protein. The slow equilibrium arises from coupling of the His protonation equilibrium to His-heme misligation and proline isomerization. Specifically, Pro25 is predominantly in trans in the unligated low-pH unfolded protein, but is constrained in a non-native cis isomerization state by His26-heme misligation near neutral pH. Refolding from the misligated unfolded form proceeds slowly due to the large energetic barrier required for proline isomerization and displacement of the misligated His26-heme ligand. |
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Center for Biomolecular Structure, Department of Biochemistry, University of Texas Health Science Center, 7703 Floyd Curl Drive, San Antonio, TX 78229-3900, USA |
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0022-2836 |
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PMID:10801361 |
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refbase @ user @ |
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3853 |
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Author |
Abbruzzetti, S.; Viappiani, C.; Small, J.R.; Libertini, L.J.; Small, E.W. |
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Title |
Kinetics of histidine deligation from the heme in GuHCl-unfolded Fe(III) cytochrome C studied by a laser-induced pH-jump technique |
Type |
Journal Article |
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Year |
2001 |
Publication |
Journal of the American Chemical Society |
Abbreviated Journal |
J Am Chem Soc |
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Volume |
123 |
Issue |
27 |
Pages |
6649-6653 |
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Keywords |
Animals; *Bacterial Proteins; Cytochrome c Group/*chemistry; Guanidine/*chemistry; Heme/*chemistry; Histidine/*chemistry; Horses; Hydrogen-Ion Concentration; Kinetics; *Lasers; Ligands; Protein Folding |
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We have developed an instrumental setup that uses transient absorption to monitor protein folding/unfolding processes following a laser-induced, ultrafast release of protons from o-nitrobenzaldehyde. The resulting increase in [H(+)], which can be more than 100 microM, is complete within a few nanoseconds. The increase in [H(+)] lowers the pH of the solution from neutrality to approximately 4 at the highest laser pulse energy used. Protein structural rearrangements can be followed by transient absorption, with kinetic monitoring over a broad time range (approximately 10 ns to 500 ms). Using this pH-jump/transient absorption technique, we have examined the dissociation kinetics of non-native axial heme ligands (either histidine His26 or His33) in GuHCl-unfolded Fe(III) cytochrome c (cyt c). Deligation of the non-native ligands following the acidic pH-jump occurs as a biexponential process with different pre-exponential factors. The pre-exponential factors markedly depend on the extent of the pH-jump, as expected from differences in the pK(a) values of His26 and His33. The two lifetimes were found to depend on temperature but were not functions of either the magnitude of the pH-jump or the pre-pulse pH of the solution. The activation energies of the deligation processes support the suggestion that GuHCl-unfolded cyt c structures with non-native histidine axial ligands represent kinetic traps in unfolding. |
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Dipartimento di Fisica, Universita di Parma, Istituto Nazionale per la Fisica della Materia, 43100 Parma, Italy |
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0002-7863 |
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PMID:11439052 |
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Equine Behaviour @ team @ |
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3788 |
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Author |
Suzuki, Y.; Toquenaga, Y. |
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Title |
Effects of information and group structure on evolution of altruism: analysis of two-score model by covariance and contextual analyses |
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Journal Article |
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Year |
2005 |
Publication |
Journal of theoretical biology |
Abbreviated Journal |
J. Theor. Biol. |
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232 |
Issue |
2 |
Pages |
191-201 |
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*Altruism; Analysis of Variance; *Communication; Cooperative Behavior; *Evolution; Game Theory; *Group Structure; Humans; Models, Genetic; Models, Psychological; Selection (Genetics); Trust |
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An altruistic individual has to gamble on cooperation to a stranger because it does not know whether the stranger is trustworthy before direct interaction. Nowak and Sigmund (Nature 393 (1998a) 573; J. Theor. Biol. 194 (1998b) 561) presented a new theoretical framework of indirect reciprocal altruism by image scoring game where all individuals are informed about a partner's behavior from its image score without direct interaction. Interestingly, in a simplified version of the image scoring game, the evolutionarily stability condition for altruism became a similar form of Hamilton's rule, i.e. inequality that the probability of getting correct information is more than the ratio of cost to benefit. Since the Hamilton's rule was derived by evolutionarily stable analysis, the evolutionary meaning of the probability of getting correct information has not been clearly examined in terms of kin and group selection. In this study, we applied covariance analysis to the two-score model for deriving the Hamilton's rule. We confirmed that the probability of getting correct information was proportional to the bias of altruistic interactions caused by using information about a partner's image score. The Hamilton's rule was dependent on the number of game bouts even though the information reduced the risk of cooperation to selfish one at the first encounter. In addition, we incorporated group structure to the two-score model to examine whether the probability of getting correct information affect selection for altruism by group selection. We calculated a Hamilton's rule of group selection by contextual analysis. Group selection is very effective when either the probability of getting correct information or that of future interaction, or both are low. The two Hamilton's rules derived by covariance and contextual analyses demonstrated the effects of information and group structure on the evolution of altruism. We inferred that information about a partner's behavior and group structure can produce flexible pathways for the evolution of altruism. |
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Integrative Environmental Sciences, Graduate School of Life and Environmental Sciences, University of Tsukuba, 1-1-1, Ten-Nou-Dai, Tsukuba, Ibaraki 305-8572, Japan. yukari@pe.ies.life.tsukuba.ac.jp |
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0022-5193 |
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PMID:15530489 |
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refbase @ user @ |
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556 |
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Paz-y-Miño C. G.; Bond, A.B.; Kamil, A.C.; Balda, R.P. |
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Title |
Pinyon jays use transitive inference to predict social dominance |
Type |
Journal Article |
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Year |
2004 |
Publication |
Nature |
Abbreviated Journal |
Nature |
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Volume |
430 |
Issue |
7001 |
Pages |
778-781 |
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Animals; Cognition/*physiology; Group Structure; Male; *Social Dominance; Songbirds/*physiology |
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Living in large, stable social groups is often considered to favour the evolution of enhanced cognitive abilities, such as recognizing group members, tracking their social status and inferring relationships among them. An individual's place in the social order can be learned through direct interactions with others, but conflicts can be time-consuming and even injurious. Because the number of possible pairwise interactions increases rapidly with group size, members of large social groups will benefit if they can make judgments about relationships on the basis of indirect evidence. Transitive reasoning should therefore be particularly important for social individuals, allowing assessment of relationships from observations of interactions among others. Although a variety of studies have suggested that transitive inference may be used in social settings, the phenomenon has not been demonstrated under controlled conditions in animals. Here we show that highly social pinyon jays (Gymnorhinus cyanocephalus) draw sophisticated inferences about their own dominance status relative to that of strangers that they have observed interacting with known individuals. These results directly demonstrate that animals use transitive inference in social settings and imply that such cognitive capabilities are widespread among social species. |
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Center for Avian Cognition, School of Biological Sciences, University of Nebraska, Lincoln, Nebraska 68588, USA |
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1476-4687 |
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PMID:15306809 |
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refbase @ user @; Equine Behaviour @ team @ room B 3.029 |
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352 |
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Author |
Shettleworth, S.J. |
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Title |
Cognitive science: rank inferred by reason |
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Journal Article |
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2004 |
Publication |
Nature |
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Nature |
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430 |
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7001 |
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732-733 |
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Animals; Cognition/*physiology; Group Structure; Male; *Social Dominance; Songbirds/*physiology |
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1476-4687 |
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PMID:15306792 |
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refbase @ user @ |
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365 |
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Author |
Conradt, L.; Roper, T.J. |
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Title |
Group decision-making in animals |
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Journal Article |
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Year |
2003 |
Publication |
Nature |
Abbreviated Journal |
Nature |
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421 |
Issue |
6919 |
Pages |
155-158 |
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Keywords |
Animals; Behavior, Animal/*physiology; *Decision Making; Democracy; Group Processes; *Models, Biological; Population Density; Social Behavior |
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Groups of animals often need to make communal decisions, for example about which activities to perform, when to perform them and which direction to travel in; however, little is known about how they do so. Here, we model the fitness consequences of two possible decision-making mechanisms: 'despotism' and 'democracy'. We show that under most conditions, the costs to subordinate group members, and to the group as a whole, are considerably higher for despotic than for democratic decisions. Even when the despot is the most experienced group member, it only pays other members to accept its decision when group size is small and the difference in information is large. Democratic decisions are more beneficial primarily because they tend to produce less extreme decisions, rather than because each individual has an influence on the decision per se. Our model suggests that democracy should be widespread and makes quantitative, testable predictions about group decision-making in non-humans. |
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School of Biological Sciences, University of Sussex, Brighton BN1 9QG, UK. l.conradt@sussex.ac.uk |
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0028-0836 |
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PMID:12520299 |
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Equine Behaviour @ team @ |
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5136 |
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Valone, T.J. |
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Group foraging, public information, and patch estimation |
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1989 |
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Oikos |
Abbreviated Journal |
Oikos |
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56 |
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3 |
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357-363 |
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Techniques; Mathematical techniques; Nutrition; Feeding behaviour; Behaviour; Social behaviour^, Comprehensive Zoology; Mathematical model; Resource patch estimation by group members; use of public information; Foraging; Group behaviour |
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Public information is information about the quality of a patch that can be obtained by observing the foraging success of other individuals in that patch. I examine the influence of the use of public information on patch departure and foraging efficiency of group members. When groups depart a patch with the first individual to leave, the use of public information can prevent the underutilization of resource patches. |
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Equine Behaviour @ team @ |
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4274 |
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Flauger, B.; Krueger, K. |
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Aggressionslevel und Platzangebot bei Pferden (Equus caballus) [ Aggression level and enclosure size in horses (Equus caballus)] |
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Journal Article |
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Year |
2013 |
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Pferdeheilkunde |
Abbreviated Journal |
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29 |
Issue |
4 |
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495-504 |
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Aggression / Verletzungsgefahr / Sozialverhalten / Gruppenhaltung / Pferdehaltung / Eingliederung von Pferden [aggression / injury risk / social behaviour / group housing / horse management / introduction of horses] |
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Viele Pferdebesitzer bevorzugen aus Angst vor aggressiven Interaktionen und Verletzungsgefahr der Tiere untereinander die Einzelhaltung, obwohl von Tierschutzorganisationen die Gruppenhaltung für Pferde empfohlen wird. In dieser Studie beobachteten wir während des alltäglichen Soziallebens als auch bei der Eingliederung von neuen Gruppenmitgliedern das Sozialverhalten, insbesondere das Aggressionsverhalten, von elf Gruppen domestizierter Pferde (Equus caballus) verschiedener Größe und Zusammensetzung. Während des alltäglichen Soziallebens hatten die Gruppe und der Paddock-Typ (Gras / kein Gras) keinen Einfluss auf die Verhaltensweisen, wohingegen die Paddockgröße unter 10000 m2 einen signifikanten Einfluss auf die submissiven Verhaltensweisen (GzLM; n=56; t=-2.061, P=0.044) und einen nicht signifikanten Einfluss auf die aggressiven Verhaltensweisen (GzLM; n=56; t=-1.782, P=0.081) hatte. Allerdings verringerten sich sowohl die aggressiven als auch die submissiven Verhaltensweisen mit steigendem Platzangebot bis zu 10000 m2 (Spearman rank Korrelation; n=56; aggressive Verhaltensweisen: r = -0.313, P = 0.019; submissive Verhaltensweisen: r = -0.328, P = 0.014). Während den Eingliederungen reduzierten sich die Aggressionen pro Stunde mit der Vergrößerung des Platzangebotes (Spearman rank Korrelation; n=28; r=-0.402, P=0.034). Dies zeigte sich noch deutlicher, wenn Beobachtungen mit einem Platzangebot von über 10000 m2 ausgeschlos- sen wurden (Spearman rank Korrelation; n=23; r=-0.549, P=0.007). Während des alltäglichen Soziallebens näherte sich der Aggressionslevel der Nulllinie an, wenn das Platzangebot pro Pferd mehr als 331 m2 betrug. Deshalb empfehlen wir zur Reduzierung des Aggressionslevels und des Verletzungsrisikos von sozial gehaltenen Pferdegruppen ein Platzangebot von mindestens 331 m2 pro Pferd.
[Even though animal welfare organisations propose group housing for horse welfare, many owners stable horses individually for fear of aggressive interactions and injury risks. In the present study we observed social behaviour, and especially aggressiveness, in eleven domestic horse groups (Equus caballus) of different size and composition, in basic social situations and when new group members were introduced. During basic social situations, the group and the type of paddock (grass / no grass) had no effect on any of the behaviours, where- as the enclosure size below 10,000 m2 had a significant effect on submissive behaviour (GzLM; n=56; t=-2.061, P=0.044) and an insignificant effect on aggressive behaviour (GzLM; n=56; t=-1.782, P=0.081). However, aggressive and submissive behaviour dimi- nished with the increase of enclosure sizes up to 10,000 m2 (Spearman rank correlation; n = 56; aggressive behaviour: r = -0.313, P=0.019; submissive behaviour: r=-0.328, P=0.014). During introductions, aggression levels per hour decreased with any increase of enclosure size (Spearman rank correlation; n=28; r=-0.402, P=0.034) and even more when enclosure sizes above 10,000 m2 were excluded (Spearman rank correlation; n=23; r=-0.549, P=0.007). During basic social situations the aggression level approached zero when the space allowance was more than 331 m2 per horse. We therefore recommend keeping horse groups in an enclosure with at least 331 m2 per horse to reduce aggression and injuries.] |
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Equine Behaviour @ team @ |
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5714 |
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Fürst, A.; Knubben, J.; Kurtz, A.; Auer, J.; Stauffacher, M. |
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Pferde in Gruppenhaltung: Eine Betrachtung aus tierärztlicher Sicht unter besonderer Berücksichtigung des Verletzungsrisikos [Group housing of horses: veterinary considerations with a focus on the prevention of bite and kick injuries] |
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2006 |
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Pferdeheilkunde |
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22 |
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3 |
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254-258 |
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Verhalten, Gruppenhaltung, Prävention, Schlagverletzungen, Bissverletzungen, Tierschutz [Behaviour, group housing, prevention, bite injuries, kick injuries, animal protection] |
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Mit der zunehmenden Bedeutung der Gruppenhaltung von Pferden ist die Tierärzteschaft gefordert mitzuhelfen, das Verletzungsrisiko in
Gruppenhaltungssystemen zu verringern. Dem Vermeiden von Schlag- und Bissverletzungen kommt hierbei eine zentrale Bedeutung zu. Präventive
Maßnahmen konzentrieren sich im Wesentlichen auf die Gruppenzusammensetzung und Eingliederung neuer Pferde sowie auf die
Gestaltung der Haltungssysteme. Die Raumaufteilung und die Fütterungstechnik müssen equidentypisches Verhalten (Lokomotion, langandauernde
Futteraufnahme und schadensfreie soziale Interaktionen) erlauben. Es gilt, Kenntnisse über Zusammenhänge zwischen Haltung,
Fütterung, Nutzung, Verhalten und Gesundheit an Pferdehalter und Stallbaufirmen weiterzugeben.
[Although group housing of horses has become common practice, the risk of equine injury is substantial. The veterinary community is challenged
to reduce this risk, particularly with regard to injuries caused by kicking and biting. Preventive measures should focus on the disposition
of horses within the group, the introduction of new horses to the group and the design of the housing facility. Feeding methods as
well as the structure of the environment should meet the physiological requirements for horses; there should be adequate space for exercise,
extended foraging and the possibility of benign social interactions. Veterinarians need to educate horse owners and builders of equine
facilities about the husbandry, feeding, use, behaviour and health of horses.] |
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Equine Behaviour @ team @ |
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5756 |
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Author |
Dyer, J.R.G.; Johansson, A.; Helbing, D.; Couzin, I.D.; Krause, J. |
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Leadership, consensus decision making and collective behaviour in humans |
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Journal Article |
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2009 |
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Philosophical Transactions of the Royal Society B: Biological Sciences |
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Phil. Trans. Biol. Sci. |
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364 |
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1518 |
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781-789 |
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* leadership * consensus decision making * collective behaviour * human group |
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This paper reviews the literature on leadership in vertebrate groups, including recent work on human groups, before presenting the results of three new experiments looking at leadership and decision making in small and large human groups. In experiment 1, we find that both group size and the presence of uninformed individuals can affect the speed with which small human groups (eight people) decide between two opposing directional preferences and the likelihood of the group splitting. In experiment 2, we show that the spatial positioning of informed individuals within small human groups (10 people) can affect the speed and accuracy of group motion. We find that having a mixture of leaders positioned in the centre and on the edge of a group increases the speed and accuracy with which the group reaches their target. In experiment 3, we use large human crowds (100 and 200 people) to demonstrate that the trends observed from earlier work using small human groups can be applied to larger crowds. We find that only a small minority of informed individuals is needed to guide a large uninformed group. These studies build upon important theoretical and empirical work on leadership and decision making in animal groups. |
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Equine Behaviour @ team @ |
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5122 |
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