Adaptation of Drosophila to a novel laboratory environment reveals temporally heterogeneous trajectories of selected alleles

The genomic basis of adaptation to novel environments is a fundamental problem in evolutionary biology that has gained additional importance in the light of the recent global change discussion. Here, we combined laboratory natural selection (experimental evolution) in Drosophila melanogaster with genome‐wide next generation sequencing of DNA pools (Pool‐Seq) to identify alleles that are favourable in a novel laboratory environment and traced their trajectories during the adaptive process. Already after 15 generations, we identified a pronounced genomic response to selection, with almost 5000 single nucleotide polymorphisms (SNP; genome‐wide false discovery rates < 0.005%) deviating from neutral expectation. Importantly, the evolutionary trajectories of the selected alleles were heterogeneous, with the alleles falling into two distinct classes: (i) alleles that continuously rise in frequency; and (ii) alleles that at first increase rapidly but whose frequencies then reach a plateau. Our data thus suggest that the genomic response to selection can involve a large number of selected SNPs that show unexpectedly complex evolutionary trajectories, possibly due to nonadditive effects.     

基于C/S、B/S集成的高校科研型实验室综合信息管理系统的设计与实现

分析高校科学研究型实验室管理的现状,成功开发出基于C/S、B/S结合模式、集成多种实验室管理相关模块的新型实验室集成信息管理系统(Laboratory Information Management Systems,LIMS)。系统以实验室为核心、对人员、仪器、试剂耗材及整体环境进行全方位的综合管理。其应用及推广,对进一步提高科研型实验室管理水平,提高仪器使用效率,合理利用资源具有重要意义。可满足高校研究型实验室集成化信息管理的新需要。     

Clinal variation and laboratory adaptation in the rainforest species Drosophila birchii for stress resistance, wing size, wing shape and development time

Clinal variation has been described in many invertebrates including drosophilids but usually over broad geographical gradients. Here we describe clinal variation in the rainforest species Drosophila birchii from Queensland, Australia, and potential confounding effects of laboratory adaptation. Clinal variation was detected for starvation and development time, but not for size or resistance to temperature extremes. Starvation resistance was higher at southern locations. Wing shape components were not associated with latitude although they did differ among populations. Time in laboratory culture did not influence wing size or heat knockdown resistance, but increased starvation resistance and decreased recovery time following a cold shock. Laboratory culture also increased development time and altered wing shape. The results indicate that clinal patterns can be detected in Drosophila over a relatively narrow geographical area. Laboratory adaptation is unlikely to have confounded the detection of geographical patterns.     

适应性实验室进化技术在微生物育种中的应用进展

适应性实验室进化(Adaptive laboratory evolution,ALE)技术已成为微生物学基础研究和工业微生物育种的强大工具,被广泛用来研究影响菌株表型、性能和稳定性的进化潜力以及快速获取含有有益突变的工业生产菌株。近年来,随着基因组测序技术的进步,关于微生物新陈代谢机理和动力学方面的研究变得更加广泛和深入,这也极大促进了适应性实验室进化技术的快速发展。文中主要介绍了长期、短期适应性实验室进化技术在微生物育种方面的应用实例,并总结归纳了该技术在快速高效构建优良菌株过程中的方式与作用。最后分析了目前ALE技术面临的瓶颈问题及其可能的解决方法,以期能够为该技术的未来发展提供有价值的参考依据。     

Effects of laboratory colonization on Bactrocera dorsalis (Diptera,Tephritidae) mating behaviour: ‘what a difference a year makes’

Laboratory-reared insects are widely known to have significantly reduced genetic diversity in comparison to wild populations; however, subtle behavioural changes between laboratory-adapted and wild or ‘wildish’ (i.e., within one or very few generations of field collected material) populations are less well understood. Quantifying alterations in behaviour, particularly sexual, in laboratory-adapted insects is important for mass-reared insects for use in pest management strategies, especially those that have a sterile insect technique component. We report subtle changes in sexual behaviour between ‘wildish’ Bactrocera dorsalis flies (F1 and F2) from central and southern Thailand and the same colonies 12 months later when at six generations from wild. Mating compatibility tests were undertaken under standardised semi-natural conditions, with number of homo/heterotypic couples and mating location in field cages analysed via compatibility indices. Central and southern populations of Bactrocera dorsalis displayed positive assortative mating in the 2010 trials but mated randomly in the 2011 trials. ‘Wildish’ southern Thailand males mated significantly earlier than central Thailand males in 2010; this difference was considerably reduced in 2011, yet homotypic couples from southern Thailand still formed significantly earlier than all other couple combinations. There was no significant difference in couple location in 2010; however, couple location significantly differed among pair types in 2011 with those involving southern Thailand females occurring significantly more often on the tree relative to those with central Thailand females. Relative participation also changed with time, with more southern Thailand females forming couples relative to central Thailand females in 2010; this difference was considerably decreased by 2011. These results reveal how subtle changes in sexual behaviour, as driven by laboratory rearing conditions, may significantly influence mating behaviour between laboratory-adapted and recently colonised tephritid fruit flies over a relatively short period of time.     

Evolutionary physiology at 30+: Has the promise been fulfilled?

Three decades ago, interactions between evolutionary biology and physiology gave rise to evolutionary physiology. This caused comparative physiologists to improve their research methods by incorporating evolutionary thinking. Simultaneously, evolutionary biologists began focusing more on physiological mechanisms that may help to explain constraints on and trade-offs during microevolutionary processes, as well as macroevolutionary patterns in physiological diversity. Here we argue that evolutionary physiology has yet to reach its full potential, and propose new avenues that may lead to unexpected advances. Viewing physiological adaptations in wild animals as potential solutions to human diseases offers enormous possibilities for biomedicine. New evidence of epigenetic modifications as mechanisms of phenotypic plasticity that regulate physiological traits may also arise in coming years, which may also represent an overlooked enhancer of adaptation via natural selection to explain physiological evolution. Synergistic interactions at these intersections and other areas will lead to a novel understanding of organismal biology.     

Sequential testing scheme for the assessment of the side-effects of plant protection products on the predatory bug Orius laevigatus

This paper describes a number of test methods, to beused in a sequential scheme, for testing the side-effects ofplant protection products on anthocorid bugs. Orius laevigatuswas used as test species. A `worst case' laboratory method wasdeveloped for evaluating the effect on mortality of the nymphsand the reproduction of the adults. An extended laboratory methodgives information on the effect of pesticides on adults undermore natural conditions. A semi-field test is executed in smallplots under field (glasshouse) conditions. Finally a field testsimulates the conditions in a commercial crop. For harmfulchemicals, both a laboratory and a semi-field persistence testwas developed to determine the safety period after which thepredatory bugs can be re-introduced in the greenhouse withoutbeing adversely affected. The total result of this sequentialscheme should indicate whether, and with what restrictions, aparticular pesticide can be implemented in IPM programs in whichO. laevigatus is used for control of western flower thrips(Frankliniella occidentalis). Twenty-two pesticides were testedincluding five fungicides, twelve insecticides and fiveacaricides. The fungicides captan, carbendazim, sulphur, thiram,tolylfluanid and the insecticides or acaricides pymetrozine,pyriproxyfen, tebufenozide and hexythiazox were harmless in the`worst case' laboratory test and thus did not need furthertesting. Imidacloprid, diafenthiuron, lufenuron, tebufenpyrad,abamectin, pyridaben and bifenthrin were harmful in thesemi-field test and should, in the tested concentrations, betternot be used simultaneously with the predatory bug. Theinsecticide dichlorvos was found harmful but short-lived in thepersistence test; it should be used before the introduction ofthe predatory bug O. laevigatus only when a safety period of 7days is respected. Pirimicarb was slightly toxic in thesemi-field test but short-lived. In IPM programs this aphicideshould be used at a low application frequency.     

Convergent evolution of the mating behaviour of founder-flush populations of the housefly

Courtship bouts of six founder-flush populations (two-pair founder-flush) and two nonbottlenecked controls of the housefly were videotaped over the course of 26 generations in order to evaluate the stability of mating behaviour. Limited-choice mate preference tests were conducted periodically to assess levels of homogamic preference. Both founder-flush and control treatments showed significant evolutionary potential in courtship, along with homogamic and heterogamic preferences. The founder-flush populations were significantly differentiated from the controls in courtship repertoire, but all of the populations pursued convergent evolutionary trajectories in adapting to the laboratory, resulting in dissolution of homogamic preferences. The phenotypic shifts in courtship and mate preferences were unrelated to evolutionary trends in overall mating vigour; therefore, the convergence in courtship could not be attributed to either a fitness meltdown due to inbreeding or the purge of deleterious alleles. Only one founder-flush population showed some independence from the selectional pressures for convergence; therefore, the single two-pair founder-flush event was generally inadequate to stimulate stable incipient speciation. This study thus demonstrates how convergent evolution can dissolve founder-flush effects.     

Morphological differentiation in Carduelis finches: Adaptive vs. constraint models

In this study we show that morphological diversification in the avian genus Carduelis (Carduelinae) has to a large extent been conservative. Using multivariate methods, we found only minor deviations from the common (ancestral) body-plan. In particular, variation in bill morphology was found to be more conservative than variation in other parts of the body. We argue that constraint models of population differentiation can successfully account for the variation in bill morphology in this genus, but are less successful in accounting for variation in other traits. This can be interpreted as a result of long-term overall stabilizing selection for a certain bill morphology which is related to the way the birds open seeds. A trait combination that is adaptive on the evolutionary time scale may thus act as a constraint on changes in bill morphology on the microevolutionary scale. We conclude that the most parsimonious explanation for low divergence in bill morphology in this genus is that all species have retained the ancestral bill morphology. This may mean that each species chooses its environment rather than being moulded by it. This argument seems to apply to bill morphology, but other traits studied in this genus appear to have evolved in a less constrained fashion. A new index of morphometric integration is introduced to describe covariance structures.     

Clonal integration in Ranunculus reptans: by‐product or adaptation?

We studied fitness consequences of clonal integration in 27 genotypes of the stoloniferous herb Ranunculus reptans in a spatially heterogeneous light environment. We grew 216 pairs of connected ramets (eight per genotype) with mother ramets in light and daughter ramets in shade. In half of the pairs we severed the stolon connection between the two ramets at the beginning of the experiment. During the experiment, 52.7% of the ramet pairs with originally intact connection physically disintegrated. We detected significant variation among genotypes in this regard. Survival of planted ramets was 13.3% higher for originally connected pairs. Moreover, there was significant variation among genotypes in survival, in the difference in survival between plant parts developing from mother and daughter ramets, and in the effect of integration on this difference. In surviving plants connection between ramets decreased size differences between mother and daughter parts. Variation among genotypes was significant in growth and reproduction and marginally significant in the effect of physiological integration on growth and reproduction. Connected daughter ramets had longer leaves and internodes than daughters in severed pairs indicating that integration stimulated plant foraging in both the vertical and the horizontal plane. Observed effects of integration on fitness components in combination with genetic variation in maintenance and effects of connection indicate that clonal integration in R. reptans has the capability to evolve, and therefore suggest that clonal integration is adaptive. If genetic variation in integration is common, future studies on clonal integration should always use defined genetic material and many clones to allow extrapolation of results to population and wider levels.     

Hormone-mediated suites as adaptations and evolutionary constraints

Hormones mediate the expression of suites of correlated traits and hence may act both to facilitate and constrain adaptive evolution. Selection on one trait within a hormone-mediated suite may, for example, lead to a change in the strength of the hormone signal, causing either beneficial or detrimental changes in correlated traits. Theory and empirical methods for studying correlated trait evolution have been developed by the field of evolutionary quantitative genetics, and here we suggest that their application to the study of hormone-mediated suites may prove fruitful. We present hypotheses for how selection shapes the evolution of hormone-mediated suites and argue that correlational selection, which arises when traits interact in their effects on fitness, may act to alter or conserve the composition of hormone-mediated suites. Next, we advocate using quantitative genetic methods to assess natural covariation among hormone-mediated traits and to measure the strength of natural selection acting on them. Finally, we present illustrative examples from our own work on the evolution of testosterone-mediated suites in male and female dark-eyed juncos. We conclude that future work on hormone-mediated suites, if motivated by quantitative genetic theory, may provide important insights into their dual roles as adaptations and evolutionary constraints.