Genetic heterogeneity among the founders of laboratory populations of Drosophila IV. Scutellar chaetae in different environments

The incidence of flies with more than four seutellar chaetae (additional chaetae) has been followed for up to 3 years in 4 lines at 15°C, 20°C, 25°C and 27.5°C derived from each of 3 strains, initially set up from single inseminated females of Drosophila melanogaster, collected in the wild single the same locality at the same time. Within each set of temperature lines, the incidence of additional chaetae was highest in one strain, intermediate in another strain, and lowest in the third. This shows that the differences between lines can be at least partly attributed to differences between the founder females of the three strains, although some divergence occurred between lines within strains in some cases. With respect to quantitative traits, the results indicate that in situations where new habitats are occupied by a small number of colonists, the nature of the founder female is possibly of greater importance than the different environments of the new habitats.Some of this work was supported by the Australian Research Grants Committee.     

Genetic heterogeneity and accelerated responses to directional selection in Drosophila

Summary Strains set up from single inseminated founder females of D. melanogaster from the same population have been previously shown to differ genetically for the incidence of flies with more than four scutellar chaetae (additional chaetae). Therefore the base population is polymorphic for this trait. This was exploited by carrying out directional selection in lines derived from those strains initially having a high mean chaeta number. This led to far more rapid responses to selection than were obtained in lines derived from strains with lower means, such that in one line a continuous accelerated response was observed for the first 12 generations of selection. A correlated response was found for sternopleural chaeta number at generation 19 of selection, showing that at least some genes may affect both traits.     

SELECTION, PREDICTION AND RESPONSE

1. The biometric approach to selection experiments has been outlined, and found to be rather deficient because it is based on excessively restrictive models which cannot take into account the complex architectures of quantitative traits as are being revealed today. 2. The nature of polygenes is discussed in detail from the theoretical point of view. In out breeding species, some form of the balanced polygenic complex is likely, showing polymorphism for the constituent genes. Although polymorphism is implicit in the argument, definitive evidence for poiymorphisms has only just appeared. 3. There is no evidence that polygenes differ from any other gene. 4. Several artificial selection experiments are described, in particular in Drosophila. By means of appropriate breeding techniques after obtaining responses to selection, genetic activity controlling quantitative traits can be located to chromosomes, and even specific loci found. Such few studies as have been carried out reveal, in general, the types of genetic architecture predicted on theoretical grounds. 5. Selection for behavioural traits is considered briefly and it appears that no new principles are needed, except that careful environmental control and objective measurement present problems. 6. The results of selection for quantitative traits in micro-organisms reveal similarities to results in higher organisms in the few cases where definitive work has been carried out. 7. Work on the simulation of models by computers has not greatly advanced selection experiment theory, mainly because, with few exceptions, linkage has been ignored. 8. The existing theory on which selection experiments are based is inadequate for several reasons. It cannot predict the rate of response to selection nor the ultimate limits to selection, the nature of correlated responses to selection, nor the nature of gene segregation underlying the observed variability. 9. Strains set up from single inseminated founder females from the same population of Drosophila have been shown to differ genetically for several quantitative traits. Therefore the base population is polymorphic for genes controlling these traits. This was exploited by carrying out directional selection on lines derived from those strains showing a high incidence of scutellar chaetae. This led to far more rapid responses to selection than lines derived from strains where the incidence of scutellar chaetae was lower. 10. Ultimately, one can envisage the selection experiment as it is known today being partly replaced by the manipulation of located genes controlling quantitative traits into certain combinations.     

Persistence of chromosomal polymorphism in various strains of Drosophila ananassae

Strains of Drosophila ananassae, each descended from a single inseminated female collected in nature, were maintained in laboratory cultures for 10 to nearly 50 generations. The chromosomal analysis of these strains was made immediately after their capture and chromosomal inversions were detected. The same strains were re-examined and it was found that all the strains remained polymorphic during the course of time. Although some of the strains did not show the same chromosomes which were ascertained at the original examination, they failed to become homozygous in all the chromosomes. Some old strains maintained for more than 100 generations but not established by the author were also examined and showed a persistence of inversion polymorphism.The strains were maintained by transferring between 20 and 40 flies to fresh food bottles in each generation and with this breeding system the strains should have become homozygous with respect to most of the unfixed genetic variants which they contained originally. But the strains remained chromosomally polymorphic, which shows that the inversion heterozygotes exhibit heterosis.     

Genetic heterogeneity in natural populations of Drosophila melanogaster for ability to withstand dessication

Summary Strains set up from single inseminated females of D. melanogaster derived from two wild populations have been shown to differ in their ability to withstand dessication, as measured by mortalities after 16 hours in a dry environment, thus there are genes segregating in wild populations for ability to withstand dessication. A more detailed study on strains from one of the wild populations, showed that strains with high wet and dry weights lose water by dessication relatively less rapidly and have lower mortalities, than strains with lower wet and dry weights.Variability within and between five inbred strains was studied with results as above. Heritabilities for wet weight, dry weight, and mortality were 0.40, 0.41 and 0.60 respectively, showing the likelihood that the traits would be amenable to further genetic analysis.The relevance of the results are discussed in relation to stress to high temperatures, and the ecology of the species in general.The competent technical assistance of Miss Clare Escott is gratefully acknowledged. Financial support from the Australian Institute of Nuclear Science and Engineering and the Australian Research Grants Committee, is gratefully acknowledged.     

Ether resistance in Drosophila melanogaster

Summary Strains set up from single inseminated females of D. melanogaster from the wild differ in their resistance to the anaesthetics, ether and chloroform. The main differences between four selected extreme strains could be explained by additive genes, which in the case of ether resistance were located to regions of chromosomes 2 and 3. The lack of correspondence between ether and chloroform resistance between strains indicates that although the type of genetic architecture controlling the traits is similar, the actual genes differ, which is reasonable in view of their differing chemical structures. Quite high heritabilities were found for resistance to ether based on five inbred strains. No significant associations between resistance to ether and body weight, developmental rate or longevity were found.It is clear that resistance to both anaesthetics would be amenable to more detailed genetic analyses. It is pointed out that the general conclusions reached from such studies will have implications with respect to the effect of chemicals such as insecticides, not naturally present in nature.     

Testing alternative methods for purging genetic load using the housefly (Musca domestica L.)

When a population faces long-term inbreeding, artificial selection, in principle, can enhance natural selection processes for purging the exposed genetic load. However, strong purge pressures might actually decrease fitness through the inadvertent fixation of deleterious alleles and allelic combinations. We tested lines of the housefly (Musca domestica L.) for the effectiveness of artificial selection to promote the adaptation to small population size. Specifically, replicate populations were held at average census sizes of 54 for nine generations or 30 for 14 generations while being subjected to artificial selection pressure for increased fitness in overall mating propensity (i.e., the proportion of virgin male–female pairs initiating copulation within 30 min), while also undergoing selection to create differences among lines in multivariate components of courtship performance. In the 14-generation experiment, a subset of the lines were derived from a founder-flush population (i.e., derived from three male–female pairs). In both experiments, we also maintained parallel non-selection lines to assess the potential for natural purging through serial inbreeding alone. Sub-populations derived from a stock newly derived from the wild responded to artificial selection for increased mating propensity, but only in the short-term, with eventual rebounds back to the original levels. Serial inbreeding in these lines simply reduced mating propensity. In sub-populations derived from the same base population, but 36 generations later, both artificial selection and serial inbreeding increased mating propensity, but mainly to restore the level found upon establishment in the laboratory. Founder-flush lines responded as well as the non-bottlenecked controls, so we base our major conclusions on the comparisons between fresh-caught and long-term laboratory stocks. We suggest that the effectiveness of the alternative purge protocols depended upon the amount of genetic load already exposed, such that prolonged periods of relaxed or altered selection pressures of the laboratory rendered a population more responsive to purging protocols.     

Polygenes and polymorphism

Summary Single inseminated founder females in D. melanogaster derived from the same population have led to genetically discrete strains for three quantitative traits, namely scutellar chaeta number, mating speed and duration of copulation. The base population from which the females were derived can therefore be argued to be polymorphic for these traits. Although polymorphisms for genes (or polygenes) for quantitative traits are expected to be ubiquitous in outbreeding species on theoretical grounds, this has not previously been generally demonstrated.     

Copy number control and compatibility of nuclear plasmids in Dictyostelium discoideum

Copy number of the endogenous nuclear plasmids of Dictyostelium discoideum is a plasmid-specific trait. Copy number is stable over time, is constant relative to ploidy level, is independent of host cell genetic background, and is independent of the presence of a second unrelated plasmid in the same nucleus. Unrelated plasmids are compatible with one another within a single nucleus. Pairwise combinations of Ddp1, Ddp2, and Ddp5 were stably maintained over many generations in the absence of selection. In contrast, one of the D. discoideum plasmids (Ddp2) was incompatible with a recombinant plasmid derived from it (p7d2). In the absence of selection for retention of p7d2, transformants contain either one or the other but not both plasmids. The plasmids are stably maintained in host cells with differing genetic backgrounds, although plasmid-free colonies were detected at a frequency of about 1-2% in populations of some strains after 50 generations growth following a previous cloning.     

QUANTITATIVE GENETICS OF BRYOZOAN PHENOTYPIC EVOLUTION. I. RATE TESTS FOR RANDOM CHANGE VERSUS SELECTION IN DIFFERENTIATION OF LIVING SPECIES

The possible roles of random genetic change and natural selection in bryozoan speciation were analyzed using quantitative genetic methods on breeding data for traits of skeletal morphology in two closely related species of the cheilostome Stylopoma. The hypothesis that morphologic differences between the species are caused entirely by mutation and genetic drift could not be rejected for reasonable rates of mutation maintained for as few as 10³ to 10⁴ generations. Divergence times this short or shorter are consistent with the abrupt appearances of many invertebrate species in the fossil record, commonly followed by millions of years of morphologic stasis. To produce these differences over 10³ generations or fewer, directional selection acting alone would require unrealistically high levels of minimum selective mortality throughout divergence. Thus, selection is unnecessary to explain the divergence of these species, except as a means of accelerating the effects of random genetic change on shorter time scales (directional selection), or decelerating them over longer ones (stabilizing selection). These results are consistent with a variety of models of phenotypic evolution involving random shifts between multiple adaptive peaks. Similar results were obtained by substituting trait heritabilities and genetic covariances reconstructed by partitioning within- and among-colony phenotypic variance in place of the values based on breeding data. Quantitative genetic analysis of speciation in fossil bryozoan lineages is thus justified.     

Egg lengths inDrosophila melanogaster and correlated responses to selection

Egg lengths were studied inDrosophila using three lines, namely a high line, where selection for increased egg length was carried out, a low line where selection for decreased egg length was carried out, and a control line. Selection was more effective in the low than the high line. Adult fly weight assayed in the 18th and 19th generations of selection responded similarly to egg length. Sternopleural chaetae number, however, responded more in the high than in the low line. In the high line the response occurred earlier than for egg length. This rather surprising result can probably be explained by assuming that the genetic architectures controlling chaetae number and egg length differ.     

Contrasting patterns of gene diversity between microsatellites and mitochondrial SNPs in farm and wild Atlantic salmon

Levels of genetic variability at 12 microsatellite loci and 19 single nucleotide polymorphisms in mitochondrial DNA were studied in four farm strains and four wild populations of Atlantic salmon. Within populations, the farm strains showed significantly lower allelic richness and expected heterozygosity than wild populations at the 12 microsatellite loci, but a significantly higher genetic variability with respect to observed number of haplotypes and haplotype diversity in mtDNA. Significant differences in allele- and haplotype-frequencies were observed between farm strains and wild populations, as well as between different farm strains and between different wild populations. The large genetic differentiation at mitochondrial DNA between wild populations (F_ST = 0.24), suggests that the farm strains attained a high mitochondrial genetic variability when created from different wild populations seven generations ago. A large proportion of this variability remains despite an expected lower effective population size for mitochondrial than nuclear DNA. This is best explained by the particular mating schemes in the breeding programmes, with 2–4 females per male. Our observations suggest that for some genetic polymorphisms farm populations might currently hold equal or higher genetic variability than wild populations, but lower overall genetic variability. In the short-term, genetic interactions between escaped farm salmon and wild salmon might increase genetic variability in wild populations, for some, but not most, genetic polymorphisms. In the long term, further losses of genetic variability in farm populations are expected for all genetic polymorphisms, and genetic variability in wild populations will be reduced if escapes of farm salmon continue.     

SPONTANEOUS MUTATION ACCUMULATION IN MULTIPLE STRAINS OF THE GREEN ALGA,CHLAMYDOMONAS REINHARDTII

Estimates of mutational parameters, such as the average fitness effect of a new mutation and the rate at which new genetic variation for fitness is created by mutation, are important for the understanding of many biological processes. However, the causes of interspecific variation in mutational parameters and the extent to which they vary within species remain largely unknown. We maintained multiple strains of the unicellular eukaryote Chlamydomonas reinhardtii, for approximately 1000 generations under relaxed selection by transferring a single cell every ～10 generations. Mean fitness of the lines tended to decline with generations of mutation accumulation whereas mutational variance increased. We did not find any evidence for differences among strains in any of the mutational parameters estimated. The overall change in mean fitness per cell division and rate of input of mutational variance per cell division were more similar to values observed in multicellular organisms than to those in other single‐celled microbes. However, after taking into account differences in genome size among species, estimates from multicellular organisms and microbes, including our new estimates from C. reinhardtii, become substantially more similar. Thus, we suggest that variation in genome size is an important determinant of interspecific variation in mutational parameters.     

Does multiple paternity influence offspring disease resistance?

It has been suggested that polyandry allows females to increase offspring genetic diversity and reduce the prevalence and susceptibility of their offspring to infectious diseases. We tested this hypothesis in wild‐derived house mice (Mus musculus) by experimentally infecting the offspring from 15 single‐ and 15 multiple‐sired litters with two different strains of a mouse pathogen (Salmonella Typhimurium) and compared their ability to control infection. We found a high variation in individual infection resistance (measured with pathogen loads) and significant differences among families, suggesting genetic effects on Salmonella resistance, but we found no difference in prevalence or infection resistance between single‐ vs. multiple‐sired litters. We found a significant sex difference in infection resistance, but surprisingly, males were more resistant to infection than females. Also, infection resistance was correlated with weight loss during infection, although only for females, indicating that susceptibility to infection had more harmful health consequences for females than for males. To our knowledge, our findings provide the first evidence for sex‐dependent resistance to Salmonella infection in house mice. Our results do not support the hypothesis that multiple‐sired litters are more likely to survive infection than single‐sired litters; however, as we explain, additional studies are required before ruling out this hypothesis.     

Artificial insemination in Callithrix jacchus using fresh or cryopreserved sperm

Assisted reproductive techniques are needed urgently to facilitate the captive breeding of many New World primate species which are endangered in the wild and to assist the effective genetic management of small colonies. A protocol was devised for artificial insemination in the common marmoset, Callithrix jacchus, using ejaculated sperm obtained by vaginal washing after copulation. A double insemination protocol was employed, with the first insemination taking place the day before ovulation was expected to occur and the second 48 h later. All six females inseminated with fresh ejaculated sperm became pregnant, delivering a total of 16 offspring at term. The gestation lengths and litter sizes were not statistically different from those observed in pregnancies following natural mating. The insemination protocol was adapted for use with cryopreserved ejaculated sperm by including an additional insemination on the day of expected ovulation, to take into account differences in the capacitation time of frozen–thawed sperm compared to fresh sperm. Three out of six females inseminated according to this triple insemination schedule, conceived, although one female subsequently resorbed twin foetuses approximately 100 days later. The remaining two pregnant females delivered four babies at term, one singleton and one set of triplets. In the final group, six females were inseminated with low doses of cryopreserved epididymal sperm using the same triple insemination protocol used for frozen–thawed ejaculated sperm. One female conceived, delivering triplets.     

A correction for allele frequency estimates derived from isofemale lines

Isofemale lines are commonly used inDrosophila and other genera for the purpose of assaying genetic variation. Isofemale lines can be kept in the laboratory for many generations before genetic work is carried out, and permit the confirmation of newly discovered alleles. A problem not realized by many workers is that the commonly used estimate of allele frequency from these lines is biased. This estimation bias occurs at all times after the first laboratory generation, regardless of whether single individuals or pooled samples are used in each well of an electrophoretic gel. This bias can potentially affect the estimation of population genetic parameters, and in the case of rare allele analysis it can cause gross overestimates of gene flow. This paper provides a correction for allele frequency estimates derived from isofemale lines for any time after the lines are established in the laboratory. When pooled samples are used, this estimator performs better than the standard estimator at all times after the first generation. The estimator is also insensitive to multiple inseminations. After the lines have drifted oneN _e generations, multiple inseminations actually make the new estimator perform better than it does in singly inseminated females. Simulations show that estimates made using either estimator after the lines have drifted to fixation have a much greater error associated with their use than do those estimates made earlier in time using the correction. In general it is better to use corrected estimates of gene frequency soon after lines are established than to use uncorrected estimates made after the first laboratory generation. This work was supported by an NSERC fellowship to A.D.L.     

A pair of closely linked genes controlling high scutellar chaeta number in Drosophila

Summary 1. A line selected for high scutellar chaeta number reached a mean of about 16 chaetae in females and 13.5 in males at the 69th generation of selection following an accelerated response to selection which commenced at generation 65 and added five chaetae. 2. The accelerated response can probably be explained in terms of two recessive high chaeta number genes 1.05 cM apart, and which are located between po and vg on chromosome II. The gene closest to vg was found to be scabrous, sca, which causes rough eyes when homozygous and has a pleiotropic effect on scutellar chaeta number. The gene was found in one of the strains used in setting up the selection lines. 3. The results are discussed in relation to other theories of control of the scutellar chaeta system.     

Artificial selection for increased dispersal results in lower fitness

Dispersal often covaries with other traits, and this covariation was shown to have a genetic basis. Here, we wanted to explore to what extent genetic constraints and correlational selection can explain patterns of covariation between dispersal and key life‐history traits—lifespan and reproduction. A prediction from the fitness‐associated dispersal hypothesis was that lower genetic quality is associated with higher dispersal propensity as driven by the benefits of genetic mixing. We wanted to contrast it with a prediction from a different model that individuals putting more emphasis on current rather than future reproduction disperse more, as they are expected to be more risk‐prone and exploratory. However, if dispersal has inherent costs, this will also result in a negative genetic correlation between higher rates of dispersal and some aspects of performance. To explore this issue, we used the dioecious nematode Caenorhabditis remanei and selected for increased and decreased dispersal propensity for 10 generations, followed by five generations of relaxed selection. Dispersal propensity responded to selection, and females from high‐dispersal lines dispersed more than females from low‐dispersal lines. Females selected for increased dispersal propensity produced fewer offspring and were more likely to die from matricide, which is associated with a low physiological condition in Caenorhabditis nematodes. There was no evidence for differences in age‐specific reproductive effort between high‐ and low‐dispersal females. Rather, reproductive output of high‐dispersal females was consistently reduced. We argue that our data provide support for the fitness‐associated dispersal hypothesis.     

The genetics of resistance to long-term exposure to CO2 in Drosophila melanogaster; an environmental stress leading to anoxia

Summary Genetic heterogeneity in populations of D. melanogaster has been described for resistance to long-term exposure to CO₂ (4 to 5 hours). Crosses between inbred strains, and between strains set up from single inseminated females collected in the wild show the importance of additive genes. Genetic activity for resistance and sensitivity was found on the X, 2 and 3 chromosomes.The mechanism of resistance was shown to be an anoxia effect since the effect of an N₂ atmosphere was the same as that of CO₂. A study of 18 strains collected in the wild revealed a positive correlation between metabolic rate as measured by O₂ uptake and mortality under CO₂, and negative correlations were found between body weight, and both mortality under CO₂ and metabolic rate. These results are consistent with an anoxia effect. A further variable correlated with body weight is resistance to desiccation. Thus the anoxia effect is correlated with factors determining the distribution of the species in the wild.     

Population genomics of wild and laboratory zebrafish (Danio rerio)

Understanding a wider range of genotype–phenotype associations can be achieved through ecological and evolutionary studies of traditional laboratory models. Here, we conducted the first large‐scale geographic analysis of genetic variation within and among wild zebrafish (Danio rerio) populations occurring in Nepal, India, and Bangladesh, and we genetically compared wild populations to several commonly used lab strains. We examined genetic variation at 1832 polymorphic EST‐based single nucleotide polymorphisms (SNPs) and the cytb mitochondrial gene in 13 wild populations and three lab strains. Natural populations were subdivided into three major mitochondrial DNA clades with an average among‐clade sequence divergence of 5.8%. SNPs revealed five major evolutionarily and genetically distinct groups with an overall F_ST of 0.170 (95% CI 0.105–0.254). These genetic groups corresponded to discrete geographic regions and appear to reflect isolation in refugia during past climate cycles. We detected 71 significantly divergent outlier loci (3.4%) and nine loci (0.5%) with significantly low F_ST values. Valleys of reduced heterozygosity, consistent with selective sweeps, surrounded six of the 71 outliers (8.5%). The lab strains formed two additional groups that were genetically distinct from all wild populations. An additional subset of outlier loci was consistent with domestication selection within lab strains. Substantial genetic variation that exists in zebrafish as a whole is missing from lab strains that we analysed. A combination of laboratory and field studies that incorporates genetic variation from divergent wild populations along with the wealth of molecular information available for this model organism provides an opportunity to advance our understanding of genetic influences on phenotypic variation for a vertebrate species.