Comparative allometric investigations on the skulls of wild cavies (Cavia aperea) versus domesticated guinea pigs (C. aperea f. porcellus) with comments on the domestication of this species

Bivariate allometric calculations were performed to quantitatively compare skulls of wild cavies with domesticated guinea pigs. Descendents of wild caught Cavia aperea from eastern regions of the species’ distribution area were used, as well as unselected domesticated breeds of guinea pigs differing in outer appearance. The individuals of both groups were kept under similar environmental conditions. Altogether 19 parameters on the skulls and the body weights were used for the analyses. These parameters were studied in relation to greatest skull length and to body size. As a general result the diverse parameters are in most cases significantly different between both groups which is interpreted as a special result of unconsciously selected and genetically determined intraspecific changes concomitant with domestication. The skull does not change in total under the domestication process but in a mosaic manner. However, for the mosaic changes of the diverse parameters in relation to skull length a different picture is valid as related to body weight. This is caused by the fact that the skull of guinea pigs is around 5% shorter independent of the body size, a common effect of domestication also described for other species. Thus, skull length is not an appropriate parameter for body size with respect to such intraspecific investigations, although normally used for the characterization of species in interspecific comparisons of museum materials.Altogether in relation to body weight most of the parameters describing the fascial portion of the skull are shorter in the guinea pig, especially the palatine, the diastema and the mandible but also the nasalia and frontalia lengths as well as the breadth of the rostrum and the zygomaticum are smaller. Most of the occipital skull measures are additionally smaller in the guinea pigs. This is clearly the case for the length and the breadth of the braincase and for the tympanic bulla. The braincase volume is 16.2% smaller, a value only slightly different when compared with the degree of brain size decrease due to domestication as reported for this species in other investigations.     

The behavioral endocrinology of domestication: A comparison between the domestic guinea pig (Cavia aperea f. porcellus) and its wild ancestor, the cavy (Cavia aperea)

In this study spontaneous behavior and endocrine parameters were compared between the domestic guinea pig (Cavia aperea f. porcellus) and its wild ancestor, the cavy (Cavia aperea), to elucidate the process of domestication in this species. In 120 h of observation time the behavior of five groups of wild and seven groups of domestic guinea pigs, each consisting of one adult male and two adult females, was analyzed quantitatively. To assess the activities of the pituitary-adrenocortical (PAC), the pituitary-gonadal (PG), and the sympathetic-adrenomedullary (SAM) systems, serum cortisol, testosterone, epinephrine, and norepinephrine concentrations, as well as adrenal tyrosine hydroxylase activities, were determined in males of both forms. The following significant differences between wild cavies and domestic guinea pigs were found: the domesticated animals displayed less aggressive but more sociopositive and more male courtship behavior than their wild ancestors. In addition, they were distinctly less attentive to their physical environment than the wild cavies. The basal activity of the SAM system, as well as the reactivity of the SAM and the PAC systems, was distinctly reduced in the domesticated animals. In contrast, the basal activity of the PAC system did not differ between both forms. The activity of the PG system was significantly higher in males of the domestic guinea pig than in male wild cavies. Thus, in guinea pigs the process of domestication has led to typical behavioral traits-reduced aggressiveness, increased social tolerance-which have also been found in comparisons between wild and domestic forms of other species. The decreased reactivity of the organism's stress axes can be regarded as a physiological mechanism which helps domesticated animals to adjust to man-made housing conditions.     

A Comparison of Brain Gene Expression Levels in Domesticated and Wild Animals

Domestication has led to similar changes in morphology and behavior in several animal species, raising the question whether similarities between different domestication events also exist at the molecular level. We used mRNA sequencing to analyze genome-wide gene expression patterns in brain frontal cortex in three pairs of domesticated and wild species (dogs and wolves, pigs and wild boars, and domesticated and wild rabbits). We compared the expression differences with those between domesticated guinea pigs and a distant wild relative (Cavia aperea) as well as between two lines of rats selected for tameness or aggression towards humans. There were few gene expression differences between domesticated and wild dogs, pigs, and rabbits (30–75 genes (less than 1%) of expressed genes were differentially expressed), while guinea pigs and C. aperea differed more strongly. Almost no overlap was found between the genes with differential expression in the different domestication events. In addition, joint analyses of all domesticated and wild samples provided only suggestive evidence for the existence of a small group of genes that changed their expression in a similar fashion in different domesticated species. The most extreme of these shared expression changes include up-regulation in domesticates of SOX6 and PROM1, two modulators of brain development. There was almost no overlap between gene expression in domesticated animals and the tame and aggressive rats. However, two of the genes with the strongest expression differences between the rats (DLL3 and DHDH) were located in a genomic region associated with tameness and aggression, suggesting a role in influencing tameness. In summary, the majority of brain gene expression changes in domesticated animals are specific to the given domestication event, suggesting that the causative variants of behavioral domestication traits may likewise be different.     

Ancient and modern steps during the domestication of guinea pigs (Cavia porcellus L.)

To test whether there are differences between living lineages of domestic guinea pigs Cavia porcellus , we studied 118 specimens from six breeds collected along six Andean countries as well as 15 from the wild cavy species ( Cavia tschudii ). The mean weight and body length of 15 adult wild cavies (295±31 g, 242±8.3 mm) were significantly smaller than 25 creole guinea pigs from Bolivia and Chile (639±157 g, 287±23.7 mm, respectively). Eighteen laboratory/pet guinea pigs (including the English Pirbright breed) were also smaller (900±173 g, 308±21 mm) than 25 improved ones from Peru (Tamborada breed, 1241±75.4 g, 317±12 mm) and Ecuador (Auqui breed, 1138±65.5 g, 307±8 mm). Similar size increases appeared in the first axis of a principal component analysis of six skeletal measurements, recovering 84% of total variation. Phylogenetic and haplotype analyses of complete cytochrome b gene sequences consistently joined all 22 domestic individuals (13 shared unambiguous substitutions, 100% bootstrap in 1000 replicates), probably from a single first ancient domestication in the western Andes. Six laboratory/pet sequences were also joined within a common branch (six shared substitutions, 96% bootstrap), probably from a documented European second phase. By contrast, those from improved Auqui joined a northern creole subgroup (one shared substitution, 84% bootstrap), and those from Nativa and improved Tamborada clustered together and with a southern creole subgroup (four shared substitutions, 86% bootstrap); this suggests at least two independent modern events during a more complex third phase, producing two improved guinea pigs selected for size and meat. Cavia tschudii sequences showed some unexpected geographic variation.     

Age at maturity in cavies and guinea-pigs (Cavia aperea and Cavia aperea f. porcellus): influence of social factors

Age at maturity, a particularly important parameter in the life history of small mammals, contributes greatly to fitness. Social influences on age at maturity have been demonstrated for altricial rodents, in particular, mice. Nothing is known about such effects in precocial small mammals. Wild cavies Cavia aperea are born in a highly precocial state and mature early in life, briefly after weaning. We investigated whether the wild cavy C. aperea and the domestic guinea-pig Cavia aperea f. porcellus reach maturity earlier in the presence of adults of the opposite sex. Juvenile females kept in pairs without males showed first vaginal opening (=oestrus) when 59 days old in cavies and at about 40 days in the guinea-pig. However, in the company of adult males, cavy females kept in pairs reached maturity when about 30 days old, and guinea-pig females when 26 days old. Most cavy females experienced successful pregnancy following first vaginal opening. In cavies, female mass at birth and at first oestrus was not correlated with age at first oestrus. In guinea-pigs, birth mass predicted age at maturity only when a male was present. The growth rate from birth to first oestrus related to age at first oestrus. In the wild cavy, the presence of a male appeared to influence maturation more between days 25 and 30 than earlier in life. Male C. aperea matured and had fully descended testes when about 65–70 days old. All male cavies produced abundant motile sperm from day 75. First successful copulations occurred at about the same age. Surprisingly, the priming effect of the presence of an adult male on female maturation proved stronger in these highly precocial caviomorphs than in altricial rodents investigated so far.     

Is a wild mammal kept and reared in captivity still a wild animal?

This study compared domestic guinea pigs (Cavia aperea f. porcellus; DGP) and two different populations of the wild cavy (Cavia aperea), its ancestor, to examine whether rearing of wild mammals in captivity affects their behavior and physiological stress responses. One population of wild cavies consisted of wild-trapped animals and their first laboratory-reared offspring (WGP-1). The animals of the other population were reared in captivity for about 30 generations (WGP-30). The spontaneous behavior of each of six groups of WGP-1 and WGP-30 and nine groups of DGP, each consisting of one adult male and two adult females, was analyzed quantitatively. Blood samples of the males were taken to determine cortisol, epinephrine, and norepinephrine concentrations. In addition, the exploratory behavior of 60-day-old male WGP-1, WGP-30, and DGP was investigated in an exploration apparatus. The domesticated animals displayed significantly less aggression, but significantly more sociopositive and male courtship behavior than their wild ancestors. In addition, DGP were much less attentive to their physical environment. Surprisingly, no behavioral difference was found between WGP-1 and WGP-30. Basal cortisol concentrations did not differ between wild and domestic guinea pigs. Catecholamine concentrations, however, as well as the challenge values of cortisol, were distinctly reduced in the DGP. WGP-1 and WGP-30 did not differ with respect to their endocrine stress responses. In the exploration apparatus both forms of wild cavies were much more explorative than the domestic animals. These data suggest that the long-term breeding and rearing of wild guinea pigs in captivity do not result in significant changes in behavior and hormonal stress responses. It appears to take much longer periods of time and artificial selection by humans to bring about characters of domestication in wild animals.     

Progressive und regressive Hirngrößienveränderungen bei Equiden

Progressive and regressive changes of brain size within Equidae From Hyracotherium to Equus brain size increased eightfold independently from body size. In domestication brain size is reduced; within mammals the amount of reduction depends on cephalization. Species with high cephalization show much more reductions than those with low cephalization. Among the ancestors of domesticated mammals wild horses have the highest cephalization level; reduction of brain size of more than 30% in domesticated horses could be expected. The size of the brain case of domesticated horses is only 14 % smaller than in wild Przewalski horses. We think that populations of the wild Przewalski horses have been crossbreeds between wild and domesticated animals. There is no difference in size of the brain case capacity and the brain weight between the Przewalski horses from zoological gardens and domesticated horses. This may be due to further crossbreeding between Zoo-Przewalski horses and domesticated horses and to artificial selection.     

The effect of domestication on brain size and composition in the mink (Mustela vison)

The sizes of total brain, the five fundamental brain parts, and certain telencephalic structures were measured in wild mink ( Mustela vison energumenos ) and ranch mink of a Dark Standard strain of the same species. By means of intraspecific allometric methods for analysing the relationship between brain weight and body weight (net carcass weight), the volumes of the brain parts were compared in both groups. In general, total brain, as well as all the parts measured, were smaller in size in ranch mink independent of body size, age, and sex, indicating that domestication has led to a decrease in size. There were differences in the amount of decrease in various brain parts. These are discussed in connection with domestication time, with comparable results obtained in other species, and with regard to the functional importance of the brain parts.     

Alterations in Norepinephrine and Dopamine Content in Selected Brain Areas of Guinea Pigs Adapted to Simulated High Altitude

Abstract: The alterations in brain content of norepinephrine (NE) and dopamine (DA) were studied in guinea pigs adapted to simulated high altitude (hypobaric hypoxia) equivalent to 5500 meters. The animals were adapted for 46 days over a period of 82 days to a pressure of 375 mm Hg. The animals were then killed and the following brain parts dissected: cerebellum, neocortex, caudate head/basal forebrain, diencephalons/rhinencephalon, and brain stem. NE and DA content were analyzed by high pressure liquid chromatography with electrochemical detection by a technique described. Results showed a significant increase of NE and DA in neocortex; a significant increase of DA but not NE in caudate/basal forebrain, and a significant decrease of NE and not DA in diencephalons/rhinencephalon.     

Animal Housing and Welfare: Effects of Housing Conditions on Body Weight and Cortisol in a Medium-Sized Rodent (Cavia aperea)

Rodents are the most abundant experimental nonhuman animals and are commonly studied under standard laboratory housing conditions. As housing conditions affect animals' physiology and behavior, this study investigated the effects of indoor and outdoor housing conditions on body weight and cortisol level of wild cavies, Cavia aperea. The changing housing condition strongly influenced both parameters, which are commonly used as indicators for animal welfare. The transfer from outdoor to indoor enclosures resulted in a body-weight loss of about 8%. In contrast, animals kept indoors showed a substantial weight gain of about 12% when they were transferred outdoors. These effects were reversible. To substantiate a connection between body-weight changes and the health states of the animals, blood basal cortisol concentrations were measured. Animals kept outdoors had significantly lower cortisol levels than did animals kept indoors. These results imply that indoor conditions have a direct effect on the animals' states. The physiological and metabolic consequences as well as potential welfare aspects should be taken into account when planning experimental work, especially on nondomestic animals.     

磷酸化的p44/42MAPK在成年猫端脑和间脑内的分布

为研究丝裂原激活的蛋白激酶（p44/42mitogen-activated protein kinase,缩写为p44/42MAPK)在正常动物脑内的功能,用免疫组织化学方法对正常家猫端脑和间脑内,磷酸化p44/42MAPK的分布进行了研究,结果表明在正常猫端脑和间脑内,磷酸化p44/42MAPK的存在范围比较广泛,嗅球,岛叶,梨状皮质,外侧隔区,海马锥体细胞层,下丘脑腹内侧核及弓状核内均有较多的阳性神经元,杏仁核存在中等量的阳性神经元,另外,新皮质Ⅱ层,内侧隔区,齿状回,纹状体,后脑室旁核和外侧缰核,下丘脑室旁核有散在分布的阳性神经元,外侧膝状体和丘脑腹后核有许多胶质细胞呈免疫阳性染色。咱束内有浓密的阳性纤维。本研究结果表明p44/42MAPK存在于与嗅觉,情绪,内分泌和记忆活动等功能有关的脑区和核团,提示其参与这些功能过程,本文还提示p44/42MAPK既与神经细胞,也与神经胶质细胞的信号转导有关。     

Trends in Biomass Fractionation in Wheat and Barley from Wild Ancestors to Modern Cultivars

Abstract: We tested the hypothesis that cultivar selection during the process of domestication in cereal plants led to a change in dry mass allocation, e.g., less root mass and more leaf mass or more leaf area per unit leaf mass. We divided 24 varieties of diploid, tetraploid and hexaploid winter wheat and two-rowed winter barley into three categories of domestication levels (wild species, old landraces and modern cultivars) and compared the patterns of dry matter fractionation at the time of anthesis under standardized outdoor growth conditions. In both cereals, total biomass per individual increased significantly with domestication level but, to our surprise, we found no significant change in dry matter investment between domestication levels: neither the dry mass fraction of leaves increased, nor was there a trend of reduced investment in stems and roots, contrary to what we expected. Specific leaf area (SLA) and leaf area ratio (LAR) of modern wheat and barley cultivars were significantly lower compared to wild varieties. Major differences in both cereals were of a purely morphological nature, namely a decrease in the number of stems and ears from wild species to domesticated varieties, along with more synchronous tiller development and therefore similar tiller size. Fertilizer increased total biomass in all domestication levels in both cereals, but influenced the dry matter fractionation only in barley. Tissue nitrogen concentration was unresponsive to both domestication and fertilization. The expected shift in functional traits, conventionally considered to determine plant growth, was not found. Indeed, dry matter fractionation among the major plant biomass components seems to be very conservative.     

A First Generation Comparative Chromosome Map between Guinea Pig (Cavia porcellus) and Humans

The domesticated guinea pig, Cavia porcellus (Hystricomorpha, Rodentia), is an important laboratory species and a model for a number of human diseases. Nevertheless, genomic tools for this species are lacking; even its karyotype is poorly characterized. The guinea pig belongs to Hystricomorpha, a widespread and important group of rodents; so far the chromosomes of guinea pigs have not been compared with that of other hystricomorph species or with any other mammals. We generated full sets of chromosome-specific painting probes for the guinea pig by flow sorting and microdissection, and for the first time, mapped the chromosomal homologies between guinea pig and human by reciprocal chromosome painting. Our data demonstrate that the guinea pig karyotype has undergone extensive rearrangements: 78 synteny-conserved human autosomal segments were delimited in the guinea pig genome. The high rate of genome evolution in the guinea pig may explain why the HSA7/16 and HSA16/19 associations presumed ancestral for eutherians and the three syntenic associations (HSA1/10, 3/19, and 9/11) considered ancestral for rodents were not found in C. porcellus. The comparative chromosome map presented here is a starting point for further development of physical and genetic maps of the guinea pig as well as an aid for genome assembly assignment to specific chromosomes. Furthermore, the comparative mapping will allow a transfer of gene map data from other species. The probes developed here provide a genomic toolkit, which will make the guinea pig a key species to unravel the evolutionary biology of the Hystricomorph rodents.     

A genome-wide scan for signatures of directional selection in domesticated pigs

Background

Animal domestication involved drastic phenotypic changes driven by strong artificial selection and also resulted in new populations of breeds, established by humans. This study aims to identify genes that show evidence of recent artificial selection during pig domestication.

Results

Whole-genome resequencing of 30 individual pigs from domesticated breeds, Landrace and Yorkshire, and 10 Asian wild boars at ~16-fold coverage was performed resulting in over 4.3 million SNPs for 19,990 genes. We constructed a comprehensive genome map of directional selection by detecting selective sweeps using an F_ST-based approach that detects directional selection in lineages leading to the domesticated breeds and using a haplotype-based test that detects ongoing selective sweeps within the breeds. We show that candidate genes under selection are significantly enriched for loci implicated in quantitative traits important to pig reproduction and production. The candidate gene with the strongest signals of directional selection belongs to group III of the metabolomics glutamate receptors, known to affect brain functions associated with eating behavior, suggesting that loci under strong selection include loci involved in behaviorial traits in domesticated pigs including tameness.

Conclusions

We show that a significant proportion of selection signatures coincide with loci that were previously inferred to affect phenotypic variation in pigs. We further identify functional enrichment related to behavior, such as signal transduction and neuronal activities, for those targets of selection during domestication in pigs.

Electronic supplementary material

The online version of this article (doi:10.1186/s12864-015-1330-x) contains supplementary material, which is available to authorized users.     

A Dysfunctional Sense of Smell: The Irreversibility of Olfactory Evolution in Free-Living Pigs

Artificial selection began to override natural selection in domesticated wild boar and other species about 10,000 years ago. The intentional selection of a desired phenotypic trait is a complex process, and comes along with unexpected or even unwanted changes in other traits, because of epistatic gene effects, and ontogenetic constraints. The loss of brain mass in domestic ungulates is related to selection for reduced reaction to external stimuli. Evolutionary losses in body structures and genes were once considered mostly irreversible, in keeping with Dollo’s law. Here we studied the biochemical and the histological functioning of the free-living pigs (FLPs) olfactory system, to see if and to what extent does FLPs regain a full sense of smell, as compared to the domestic pigs and wild boar Sus scrofa. In our samples both wild boars and FLPs have significantly larger brain per unit mass than domestic pigs, and FLPs’ brains are not significantly smaller than wild boar’s. Similarly, both wild boars and FLPs have significantly higher cell density than domestic pigs in the olfactory mucosa. Yet, at the functional level, olfactory marker protein and neuropeptide Y, both of which are important to the correct functioning of the sense of smell, are fully expressed only in wild boar. These results suggest that FLPs reacquired structural, but not the biochemical capability in their olfactory system.     

Genetic mapping of a new race specific resistance allele effective to Puccinia hordei at the Rph9/Rph12locus on chromosome 5HL in barley

Background

Tea is one of the most popular beverages in the world. Many species in the Thea section of the Camellia genus can be processed for drinking and have been domesticated. However, few investigations have focused on the genetic consequence of domestication and geographic origin of landraces on tea plants using credible wild and planted populations of a single species. Here, C. taliensis provides us with a unique opportunity to explore these issues.

Results

Fourteen nuclear microsatellite loci were employed to determine the genetic diversity and domestication origin of C. taliensis, which were represented by 587 individuals from 25 wild, planted and recently domesticated populations. C. taliensis showed a moderate high level of overall genetic diversity. The greater reduction of genetic diversity and stronger genetic drift were detected in the wild group than in the recently domesticated group, indicating the loss of genetic diversity of wild populations due to overexploitation and habitat fragmentation. Instead of the endangered wild trees, recently domesticated individuals were used to compare with the planted trees for detecting the genetic consequence of domestication. A little and non-significant reduction in genetic diversity was found during domestication. The long life cycle, selection for leaf traits and gene flow between populations will delay the emergence of bottleneck in planted trees. Both phylogenetic and assignment analyses suggested that planted trees may have been domesticated from the adjacent central forest of western Yunnan and dispersed artificially to distant places.

Conclusions

This study contributes to the knowledge about levels and distribution of genetic diversity of C. taliensis and provides new insights into genetic consequence of domestication and geographic origin of planted trees of this species. As an endemic tea source plant, wild, planted and recently domesticated C. taliensis trees should all be protected for their unique genetic characteristics, which are valuable for tea breeding.     

Multiple origins of the determinate growth habit in domesticated common bean (Phaseolus vulgaris)

Background and Aims

The actual number of domestications of a crop is one of the key questions in domestication studies. Answers to this question have generally been based on relationships between wild progenitors and domesticated descendants determined with anonymous molecular markers. In this study, this question was investigated by determining the number of instances a domestication phenotype had been selected in a crop species. One of the traits that appeared during domestication of common bean (Phaseolus vulgaris) is determinacy, in which stems end with a terminal inflorescence. It has been shown earlier that a homologue of the arabidopsis TFL1 gene – PvTFL1y – controls determinacy in a naturally occurring variation of common bean.

Methods

Sequence variation was analysed for PvTFL1y in a sample of 46 wild and domesticated accessions that included determinate and indeterminate accessions.

Key Results

Indeterminate types – wild and domesticated – showed only synonymous nucleotide substitutions. Determinate types – observed only among domesticated accessions – showed, in addition to synonymous substitutions, non-synonymous substitutions, indels, a putative intron-splicing failure, a retrotransposon insertion and a deletion of the entire locus. The retrotransposon insertion was observed in 70 % of determinate cultivars, in the Americas and elsewhere. Other determinate mutants had a more restricted distribution in the Americas only, either in the Andean or in the Mesoamerican gene pool of common bean.

Conclusions

Although each of the determinacy haplotypes probably does not represent distinct domestication events, they are consistent with the multiple (seven) domestication pattern in the genus Phaseolus. The predominance of determinacy in the Andean gene pool may reflect domestication of common bean prior to maize introduction in the Andes.     

Visual Cues Given by Humans Are Not Sufficient for Asian Elephants (Elephas maximus) to Find Hidden Food

Recent research suggests that domesticated species – due to artificial selection by humans for specific, preferred behavioral traits – are better than wild animals at responding to visual cues given by humans about the location of hidden food. \Although this seems to be supported by studies on a range of domesticated (including dogs, goats and horses) and wild (including wolves and chimpanzees) animals, there is also evidence that exposure to humans positively influences the ability of both wild and domesticated animals to follow these same cues. Here, we test the performance of Asian elephants (Elephas maximus) on an object choice task that provides them with visual-only cues given by humans about the location of hidden food. Captive elephants are interesting candidates for investigating how both domestication and human exposure may impact cue-following as they represent a non-domesticated species with almost constant human interaction. As a group, the elephants (n = 7) in our study were unable to follow pointing, body orientation or a combination of both as honest signals of food location. They were, however, able to follow vocal commands with which they were already familiar in a novel context, suggesting the elephants are able to follow cues if they are sufficiently salient. Although the elephants’ inability to follow the visual cues provides partial support for the domestication hypothesis, an alternative explanation is that elephants may rely more heavily on other sensory modalities, specifically olfaction and audition. Further research will be needed to rule out this alternative explanation.     

BIOACOUSTICS OF DOMESTICATION: ALARM AND COURTSHIP CALLS OF WILD AND DOMESTIC CAVIES

ABSTRACT

Comparisons of wild (Cavia aperea) and domestic (C. porcellus) cavies promote an understanding of the physiological and behavioral effects of domestication. The richness and peculiarities of Cavia acoustic repertoires encourage the use of this model for testing how domestication alters repertoires and the physical structure of calls. We present a comparison between alarm and courtship calls of domestic and two populations of wild cavies from different geographic regions, one of them with a short-term captivity history of 25 generations. We found significant differences between domestic and wild cavies in both calls, particularly in temporal parameters, and only spectral differences between two wild populations in alarm calls. There were also differences in the frequency of emission of calls: alarm calls were more frequent in the wild and courtship calls were more frequent in the domestic species. Our results suggest that domestication has influenced the temporal parameters of both alarm and courtship calls of C. porcellus, but not the spectral parameters that, instead, may be influenced by environment or population factors.