Domesticated Origin Research Articles

Temminck's Gallus giganteus; a gigantic obstacle to Darwin's theory of domesticated fowl origin?

In 1813, based on the single foot of a large chicken, Temminck named a ‘new' species of junglefowl, Gallus giganteus. He considered this ‘species’ the ancestor of several large domesticated chicken breeds and believed it was one of six wild ancestral species of domestic fowl. Temminck's hypothesis was rejected by Blyth who thought Red Junglefowl G. gallus was the sole ancestor. The arrival into Britain of several very large Asian chicken breeds in the mid-19th century led to speculation that Temminck's G. giganteus may have been their wild ancestor. Darwin, who had initially agreed with Blyth, noted several peculiarities in the Cochin, a large Asian breed, which he concluded might not have been achieved by selective breeding, and questioned whether G. giganteus was involved in their ancestry. Temminck's giant junglefowl appeared to be a significant hurdle for Darwin in his effort to prove a single ancestral origin for domestic chickens.‘My very decided opinion, that we may seek in vain for wild types of G. giganteus' (letter from Blyth to Darwin, 1856).‘We have not such good evidence with fowls as with pigeons, of all breeds having descended from a single primitive stock' (Darwin 1868: 239).

Production and verification of the first Atlantic salmon (Salmo salar L.) clonal lines

BackgroundIn several fish species homozygous and heterozygous clonal lines have been produced using gynogenetic and androgenetic techniques. These lines are standardized and can be reproduced over generations. In rainbow trout such lines have existed for decades and has become important research tools in genome studies as well as in studies of commercially important traits. The Atlantic salmon is one of the best studied fish species globally, but all experiments are done on fish of wild or domesticated origin and access to standardized immortal fish lines would be of great benefit. Here, we describe the protocols developed to produce mitotic gynogenes, and from these the first clonal lines in Atlantic salmon.ResultsAtlantic salmon eggs fertilized with UV irradiated sperm combined with a pressure shock applied at 4700–4800 minC at 8 °C gave all homozygous (doubled haploid) gynogenetic progeny with high survival. From the six first maturing females, five all homozygous clonal lines were produced by meiotic gynogenesis and were verified as clonal and identical to their mother with microsatellite markers.ConclusionsWe have now produced the first documented cloned Atlantic salmon lines. This work demonstrates the potential for production of further Atlantic salmon clonal lines, potentially with distinct characteristics. Such lines will provide an important resource for further elucidation of phenotypic and genetic traits in this globally important species.

Discrimination of wild and domestic deer musk using isotope ratio mass spectrometry.

Musk is the dried secretion of the musk pod (sac) of adult male musk deer, and has been used as perfume and traditional medicine for thousands of years. Steroid was regarded as 1 of the most important active compounds in musk. In order to protect the wild musk deer, musk deer farming has been carried out in China, India, and Nepal. However, it is hard to differentiate the 2 origins of musk by morphological identification. No other method has been reported so far for the discrimination of wild and domestic deer musk. The establishment of a reliable discrimination method has become an urgent work. In the present study, 6 batches of wild deer musk and 14 batches of domestic deer musk were collected. Analysis of steroid components in musk was carried out with GC-MS/MS. Androgen, progestin, estrogen, and sterol were detected in those samples. Large diversity was observed in the concentrations of steroids in musk. No obvious difference could be observed in steroid concentrations between wild and domestic deer musk by principal component analysis and cluster analysis. Furthermore, the δ13 C values of steroids were determined by gas chromatography/combustion coupled with isotopic ratio mass spectrometry. There were significant differences (P<.01) in steroid δ13 C values between wild origin musk and domesticated origin musk. Isotopic ratio mass spectrometry can be used to discriminate wild and domestic deer musk.

Haplotype diversity in mitochondrial DNA reveals the multiple origins of Tibetan horse.

The Tibetan horse is a species endemic to the Tibetan plateau, with considerable economic value in the region. However, we currently have little genetic evidence to verify whether the breed originated in Tibet or if it entered the area via an ancient migratory route. In the present study, we analyzed the hypervariable segment I sequences of mitochondrial DNA (mtDNA) in 2,050 horses, including 290 individuals from five Tibetan populations and 1,760 from other areas across Asia. Network analysis revealed multiple maternal lineages in the Tibetan horse. Component analysis of sub-lineage F3 indicated that it decreased in frequency from east to west, a trend reflected both southward and northward from Inner Mongolia. Analysis of population genetics showed that the Deqen horse of eastern Tibet was more closely related to the Ningqiang horse of northern China than to other Tibetan horses or the Yunnan horse. These results indicated that the Tibetan horse migrated first from Central Asia to Mongolia, moved south to eastern Tibet (near Deqen), then finally westward to other regions of Tibet. We also identified a novel lineage K that mainly comprises Tibetan and Yunnan horses, suggesting autochthonous domesticated origin for some Tibetan horse breeds from local wild horses. In conclusion, our study demonstrated that modern Tibetan horse breeds originated from the introgression of local wild horses with exotic domesticated populations outside China.

Genetic Analysis of East Asian Grape Cultivars Suggests Hybridization with Wild Vitis.

Koshu is a grape cultivar native to Japan and is one of the country’s most important cultivars for wine making. Koshu and other oriental grape cultivars are widely believed to belong to the European domesticated grape species Vitis vinifera. To verify the domesticated origin of Koshu and four other cultivars widely grown in China and Japan, we genotyped 48 ancestry informative single nucleotide polymorphisms (SNPs) and estimated wild and domesticated ancestry proportions. Our principal components analysis (PCA) based ancestry estimation revealed that Koshu is 70% V. vinifera, and that the remaining 30% of its ancestry is most likely derived from wild East Asian Vitis species. Partial sequencing of chloroplast DNA suggests that Koshu’s maternal line is derived from the Chinese wild species V. davidii or a closely related species. Our results suggest that many traditional East Asian grape cultivars such as Koshu were generated from hybridization events with wild grape species.

A standardized method for quantifying unidirectional genetic introgression.

Genetic introgression of domesticated to wild conspecifics is of great concern to the genetic integrity and viability of the wild populations. Therefore, we need tools that can be used for monitoring unidirectional gene flow from domesticated to wild populations. A challenge to quantitation of unidirectional gene flow is that both the donor and the recipient population may be genetically substructured and that the subpopulations are subjected to genetic drift and may exchange migrants between one another. We develop a standardized method for quantifying and monitoring domesticated to wild gene flow and demonstrate its usefulness to farm and wild Atlantic salmon as a model species. The challenge of having several wild and farm populations was circumvented by in silico generating one analytical center point for farm and wild salmon, respectively. Distributions for the probability that an individual is wild were generated from individual-based analyses of observed wild and farm genotypes using STRUCTURE. We show that estimates of proportions of the genome being of domesticated origin in a particular wild population can be obtained without having a historical reference sample for the same population. The main advantages of the method presented are the standardized way in which genetic processes within and between populations are taken into account, and the individual-based analyses giving estimates for each individual independent of other individuals. The method makes use of established software, and as long as genetic markers showing generic genetic differences between domesticated and wild populations are available, it can be applied to all species with unidirectional gene flow. Results from our method are easy to interpret and understand, and will serve as a powerful tool for management, especially because there is no need for a specific historical wild reference sample.

The impact of pre‐ and post‐natal contexts on immunity, glucocorticoids and oxidative stress resistance in wild and domesticated grey partridges

Summary Genetic background, prenatal and post‐natal early‐life conditions influence the development of interconnected physiological systems and thereby shape the phenotype. Certain combinations of genotypes and pre‐ and post‐natal conditions may provide higher fitness in a specific environmental context. Here, we investigated how grey partridges Perdix perdix of two strains (wild and domesticated) cope physiologically with pre‐ and post‐natal predictable vs. unpredictable food supply. Food unpredictability occurs frequently in wild environments and requires physiological and behavioural adjustments. Well‐orchestrated and efficient physiological systems are presumably more vital in a wild environment as compared to captivity. We thus predicted that wild‐strain grey partridges have a stronger immunity, glucocorticoid (GC) stress response and oxidative stress resistance (OSR) than domesticated birds, which have undergone adaptations to captivity. We also predicted that wild‐strain birds react more strongly to environmental stimuli and, when faced with harsh prenatal conditions, are better able to prepare their offspring for similarly poor post‐natal conditions than birds of domesticated origin. We found that wild‐strain offspring were physiologically better prepared for stressful situations as compared to the domesticated strain. They had a high GC stress response and a high OSR when kept under predictable food supply. Wild‐strain parents reacted to prenatal unpredictable food supply by lowering their offspring's GC stress response, which potentially lowered GC‐induced oxidative pressure. No such pattern was evident in the domesticated birds. Irrespective of strain and prenatal feeding scheme, post‐natal unpredictable food supply boosted immune indices, and GC stress response was negatively related to antibody response in females and to mitochondrial superoxide production. Wild‐strain grey partridge showed fitness‐relevant physiological advantages and appeared to prepare their offspring for the prospective environment. Negative relationships between GC stress response, immunity and oxidative indices imply a pivotal role of an organism's oxidative balance and support the importance of considering multiple physiological systems simultaneously.

A comparative study of Turkish and Israeli populations of Didymella rabiei, the ascochyta blight pathogen of chickpea

The Fertile Crescent is the centre of domestication of chickpea (Cicer arietinum) and also the place of origin of its pathogens. Agrosystems provide different environments to natural eco‐systems, thus imposing different types of selection on pathogens. Here, the genetic structure and in vitro temperature growth response of the chickpea pathogen Didymella rabiei from domesticated chickpea (59 isolates from Turkey and 31 from Israel) and wild Cicer spp. (three isolates from Turkish C. pinnatifidum and 35 from Israeli C. judaicum) were studied. Six sequence‐tagged microsatellite site (STMS) primer pairs were used to determine the genetic structure of the 128 D. rabiei isolates. Turkish isolates exhibited the highest genetic diversity (H = 0·69). Turkish and Israeli D. rabiei from domesticated chickpea were genetically closer to each other than isolates from the wild Cicer spp. Analysis of molecular variance showed that 54% of the genetic variation resided between isolates from wild and domesticated origins. EF1‐α sequences distinguished between D. rabiei isolates from domesticated and wild Cicer spp. by four polymorphic sites. Nevertheless, a certain degree of mixing between isolates from wild and domesticated origin was demonstrated using the Bayesian algorithm as well as with principal coordinates analysis. Isolates sampled from domesticated chickpea from both countries were better adapted to temperatures typical of Levantine spring and had a significantly larger colony area at 25°C than at 15°C (typical Levantine winter temperature). These observations were in accordance to the heritability values of the temperature growth response.

Population-specific gene expression responses to hybridization between farm and wild Atlantic salmon.

Because of intrinsic differences in their genetic architectures, wild populations invaded by domesticated individuals could experience population-specific consequences following introgression by genetic material of domesticated origin. Expression levels of 16 000 transcripts were quantified by microarrays in liver tissue from farm, wild, and farm-wild backcross (i.e. F1 farm-wild hybrid × wild; total n = 50) Atlantic salmon (Salmo salar) raised under common environmental conditions. The wild populations and farm strain originated from three North American rivers in eastern Canada (Stewiacke, Tusket, and Saint John rivers, respectively). Analysis of variance revealed 177 transcripts with different expression levels among the five strains compared. Five times more of these transcripts were differentiated between farmed parents and Tusket backcrosses (n = 53) than between Stewiacke backcrosses and their farmed parents (n = 11). Altered biological processes in backcrosses also differed between populations both in number and in the type of processes impacted (metabolism vs immunity). Over-dominant gene expression regulation in backcrosses varied considerably between populations (23% in Stewiacke vs 44% in Tusket). Hence, the consequences of introgression of farm genetic material on gene expression depended on population-specific genetic architectures. These results support the need to evaluate impacts of farm-wild genetic interactions at the population scale.

Canine coloration: dark domesticated dogs and the bright side for wild wolves

Canine coloration: dark domesticated dogs and the bright side for wild wolves

Genetic differences in internal transcribed spacer 1 between Dermanyssus gallinae from wild birds and domestic chickens

We investigated the presence of the poultry red mite or the chicken mite, Dermanyssus gallinae De Geer, Acari: Dermanyssidae, in wild bird populations in four different geographical regions of Sweden. The mites identified as D. gallinae were compared genetically with D. gallinae from egg-producing poultry farms in the same regions. The small subunit (SSU) gene, the 5.8S ribosomal RNA (rRNA) gene and the two internal transcribed spacers (ITS) of the rRNA genes were used in the genetic analysis. All D. gallinae mites had identical SSU rRNA, 5.8S rRNA and ITS2 sequences independent of their origin. By contrast, we identified significant differences in the ITS1 sequences. Based on the differences in the ITS1 sequences, the mites could be divided into two genotypes, of wild and domesticated origin, with no variation within the groups. These results imply that wild bird populations are of low importance, if any, as natural reservoirs of D. gallinae in these four geographical regions of Sweden.

Different Ecological Affinities and Aggressiveness Patterns Among Didymella rabiei Isolates from Sympatric Domesticated Chickpea and Wild Cicer judaicum

Domesticated chickpea (Cicer arietinum) and its wild relative C. judaicum grow in sympatric distribution in Israel and both are susceptible to Ascochyta blight caused by Didymella rabiei. C. arietinum was grown for millennia in drier and hotter Levantine spring conditions while C. judaicum grows in the wetter and milder winters. Accordingly, it is possible that D. rabiei isolates originated from C. arietinum are adjusted to the less favorable spring conditions. Here, 60 isolates from both origins were tested in vitro for their hyphal growth at 15 and 25 degrees C. Isolates from C. arietinum had a significantly larger colony area at 25 degrees C than at 15 degrees C (P < 0.001) while no such differences were detected between isolates from C. judaicum. D. rabiei isolates from wild and domesticated origins were used to inoculate nine C. judaicum accessions and two domesticated chickpea cultivars and their aggressiveness patterns were determined using five measures. On domesticated chickpea, isolates from domesticated origin were significantly more aggressive in four out of the five aggressiveness measures than isolates from wild origin. On C. judaicum, isolates from wild origin were generally more aggressive than isolates from domesticated origin. The results suggest that the habitat segregation between wild and domesticated Cicer influences the pathogens ecological affinities and their aggressiveness patterns.

Investigation on dynamic changes of photosynthetic characteristics of 10 wheat ( Triticum aestivum L.) genotypes during two vegetative-growth stages at water deficits

Drought is a worldwide problem, seriously influencing plant (crop) productivity. Wheat is a stable food for 35% of the world population, and moreover, about 60% of land area on the globe belongs to arid and semiarid zone. Wheat drought resistance is a multi-gene controlling quantitative character and wheat final production in field is realized mainly by physiological regulation under the condition of multi-environmental factor interaction. Exploring drought resistance physiological mechanisms for different wheat genotypes is of importance to finding new drought resistance gene resources and conventional breeding, and the basis for wheat drought resistance biotechnological breeding and platform. Photosynthesis is the main component for physiological machinery of wheat assimilates conversion and wheat production. Investigation on photosynthetic characteristics of different wheat genotypes at soil water deficits also has other implications for refine physiological regulation of photosynthesis in fields and field management of crops in arid and semiarid areas. By pot-cultivating experiments, investigation of photosynthesis for 10 wheat genotypes at seedling stage and tillering stage at soil water deficits (75%FC, 55%FC and 45%FC, respectively) was conducted. The main results were as followed: developmental stages influenced wheat photosynthesis greatly and tillering stage played more roles; there were significant difference in the main photosynthetic parameters, photosynthesis rate (Photo), stomatal conductance (Cond) and transpiration rate (Tr), among 10 wheat genotypes; general photosynthesis and drought resistance in different wheat genotypes was related much to their domesticated origin soil water environment and selected generations and there was a photosynthetic threshold effect in terms of different wheat genotypes at soil water deficits.

Survival of sea‐water‐adapted trout, Salmo trutta L. ranched in a Danish fjord

The effect of seawater adaptation on the survival of coastally released post‐smolt trout, Salmo trutta L., was investigated by release: (1) directly (with no adaptation); (2) after retention in net pens in the sea for 29–131 days (delayed release); (3) after feeding with a high‐salt diet (12–13.5% NaCl) for 4 weeks; and (4) after a combination of (2) and (3). In total, 17 640 trout (age = 1+, 1.5 and 2+ years; mean fork lengths = 18.2–25.6 cm) were released in 14 batches in the summer or autumn months of 1986–1989. All fish were of domesticated origin and Carlin tagged. Survival and instantaneous mortality rates (total and fishing mortality) were estimated from reported recaptures. Mortality rates were estimated for: (1) the post‐smolt period; (2) the period until the legal size of capture (40 cm) was attained; and (3) for larger sea‐trout. Release with a delay of 4 weeks gave an increased survival rate. A longer adaptation period did not increase survival. On average, survival was increased by 36%. Survival was not increased by high‐salt diets. Until attainment of the legal size for capture, survival was 9.6% higher on average, with extremes as low as 1.7% and as high as 38% in individual batches.