Mitochondrial DNA Polymorphism in Natural Populations of the Drosophila virilis Species Group

Restriction fragment length polymorphism (RFLP) analysis has been used to evaluate mitochondrial DNA (mtDNA) variation in 12 sibling species forming the Drosophila virilis species group. The variation thresholds corresponding to the interspecific and interstrain levels have been determined. The results indicate that interspecific hybridization has significantly contributed to the evolutionary history of the virilis species group.     

Polymorphism for Y-Linked Suppressors of Sex-Ratio in Two Natural Populations of Drosophila Mediopunctata

In several Drosophila species there is a trait known as ``sex-ratio': males carrying certain X chromosomes (called ``SR') produce female biased progenies due to X-Y meiotic drive. In Drosophila mediopunctata this trait has a variable expression due to Y-linked suppressors of sex-ratio expression, among other factors. There are two types of Y chromosomes (suppressor and nonsuppressor) and two types of SR chromosomes (suppressible and unsuppressible). Sex-ratio expression is suppressed in males with the SR(suppressible)/Y(suppressor) genotype, whereas the remaining three genotypes produce female biased progenies. Now we have found that ~10-20% of the Y chromosomes from two natural populations 1500 km apart are suppressors of sex-ratio expression. Preliminary estimates indicate that Y(suppressor) has a meiotic drive advantage of 6% over Y(nonsuppressor). This Y polymorphism for a nonneutral trait is unexpected under current population genetics theory. We propose that this polymorphism is stabilized by an equilibrium between meiotic drive and natural selection, resulting from interactions in the population dynamics of X and Y alleles. Numerical simulations showed that this mechanism may stabilize nonneutral Y polymorphisms such as we have found in D. mediopunctata.     

果蝇nasuta亚群求爱歌的种间识别与进化遗传学研究

果蝇ｎａｓｕｔａ亚群由１４个种、亚种和分类群组成,广泛分布于印度－太平洋区域。本文首次记录了ｎａｓｕｔａ亚群种的求爱歌,测量了脉冲歌时域模式的参数：脉冲串间隔（ＩＢＩ）、脉冲间隔（ＩＰＩ）、脉冲串时间长度（ＰＴＬ）、每个脉冲串的脉冲数（ＰＮ）、脉冲时间长度（ＰＬ）、波动周期时间长度（ＣＬ）。采用计算机声谱分析技术,作出求爱歌信号的三维数字功率谱图,进行频率分析。发现Ｄ．ｐｕｌａｕｎａ和Ｔａｘｏｎ－Ｆ不发出求爱歌声信号,视觉在交配中可能起重要作用。对其余种、亚种和分类群的求爱歌分析表明,ｎａｓｕｔａ亚群种的求爱歌分为脉冲歌和正弦歌。对部分种的正反交Ｆ１求爱歌分析表明,脉冲歌时域参数,如ＩＰＩ平均值为Ｘ染色体连锁或常染色体多基因控制,正弦歌频率偏向母方。根据不同种、亚种和分类群脉冲歌的时域模式构建ｎａｓｕｔａ亚群的系统树,对亚群中不同种、亚种和分类群的亲缘关系进行讨论。     

Chromosomal Polymorphism in Korean Natural Populations of Drosophila immigrans

ABSTRACT To analyze chromosome inversions of Drosophila immigrans , wild flies were captured from large vineyards located in the suburbs of Yecheon and Gyeongsan from October 1999 to 2001. With the egg samples obtained singly at each of the 799 females of D. immigrans , cytological examinations were carried out for the type and frequency of inversions. Two types of different inversions were found only in the second chromosome. The inversions detected were known to be the cosmopolitan inversion "A" and "B". The mean frequency of inversion A was estimated to be 0.074 in Yecheon and 0.066 in Gyeongsan and that of B was to be 0.026 in Yecheon and 0.021 in Gyeongsan, respectively. In the frequency ratio, inversion A was significantly higher than that of B. The present populations of D. immigrans showed subtle differences from other Korean populations in inversion frequencies. To account for the local variations observed in inversion frequencies, several hypotheses are discussed such as founding event or selective force.     

果蝇自然群体同工酶遗传多态的研究

用凝胶电泳技术我们检测了果蝇(D.virilis)4个地方群体6个编码酶的基因位点的遗传变异。发现50％的检测位点是多态的。每个个体杂合位点所占的比例为27.13％。遗传变异量在不同位点上相差是很大的,Est-α,Est-β,Amy位点是高度多态的,Mdh,αGpdh,Acph则几乎是单态的。Mdh在53℃的热稳定性没有差异。对一个给定的位点来说等位基因频率在各地方群体之间是很相似的。测定4个地方群体间的遗传分化,发现地理距离与遗传距离间没有线性相关性。结果表明自然选择和随机过程都可以造成遗传变异,而我们所研究的6个基因位点的变异究竟是自然选择造成的,还是随机过程决定的则有待于进一步的研究。     

Variable Incidence of Spiroplasma Infections in Natural Populations of Drosophila Species

Spiroplasma is widespread as a heritable bacterial symbiont in insects and some other invertebrates, in which it sometimes acts as a male-killer and causes female-biased sex ratios in hosts. Besides Wolbachia, it is the only heritable bacterium known from Drosophila, having been found in 16 of over 200 Drosophila species screened, based on samples of one or few individuals per species. To assess the extent to which Spiroplasma infection varies within and among species of Drosophila, intensive sampling consisting of 50–281 individuals per species was conducted for natural populations of 19 Drosophila species. Infection rates varied among species and among populations of the same species, and 12 of 19 species tested negative for all individuals. Spiroplasma infection never was fixed, and the highest infection rates were 60% in certain populations of D. hydei and 85% in certain populations of D. mojavensis. In infected species, infection rates were similar for males and females, indicating that these Spiroplasma infections do not confer a strong male-killing effect. These findings suggest that Spiroplasma has other effects on hosts that allow it to persist, and that environmental or host variation affects transmission or persistence leading to differences among populations in infection frequencies.     

The period Gene: High Conservation of the Region Coding for Thr–Gly Dipeptides in the Drosophila nasuta Species Subgroup

In this study, the region corresponding to the Thr–Gly region of the period (per) gene in the Drosophila nasuta subgroup of species was sequenced. The results showed that this region was highly conserved in the D. nasuta subgroup. There were only nine variable sites found in this 300-bp-long region, all located in two small regions highly variable among Drosophila species. No length variation was observed either within this subgroup or in the Yunnan (YN) population of D. albomicans. The deduced amino acid sequences were identical for all 14 taxa in the D. nasuta subgroup, and a stretch of alternating Thr–Gly pairs was not observed in this subgroup. A phylogenetic tree was constructed. The clustering of some species was in general agreement with previous works, but it also raised some question on the phylogenetic relationship between the nasuta species. The data did not implicate the Thr–Gly region playing a role in behavioral isolation in this subgroup of Drosophila. Received: 8 February 1999 / Accepted: 22 April 1999     

Male accessory gland secretory proteins in a few members of the Drosophila nasuta subgroup

Male accessory gland secretory proteins in seven members of the Drosophila nasuta subgroup have been analyzed by SDS-PAGE. The study revealed remarkable simplicity in the patterns. The protein fractions, which migrate in three groups, could be categorized as major and minor. The number of major fractions varies from a maximum of eight to a minimum of four. Group I consists of high molecular weight fractions, and group III, low molecular weight fractions. Among different members analyzed, the variation with respect to pattern and the number of fractions are confined largely to group III protein fractions, while group I and II fractions are found to be conserved to a greater extent. These proteins are PAS positive and group III fractions are not sensitive to silver staining. Analysis of these tissue specific proteins in the F₁ and F₂ of interspecific crosses and backcross progeny as well as volume analysis revealed that a 26-kD fraction in D. n. nasuta follows an autosomal pattern of inheritance, while a 55-kD and a 25-kD fraction in D. n. albomicans and a 24-kD fraction in D. n. kepulauana follow an X-linked pattern of inheritance.     

Strong Purifying Selection on the Odysseus Gene in Two Clades of Sibling Species of the Drosophila montium Species Subgroup

The Odysseus (OdsH) gene was duplicated from its ancestral neuron-expressed gene, unc-4, and then evolved very rapidly under strong positive Darwinian selection as a speciation gene causing hybrid-male sterility between closely related species of the Drosophila simulans clade. Has OdsH also experienced similar positive selection between Drosophila sibling species other than those of the simulans clade? We cloned and sequenced OdsH and unc-4 from two clades of the Drosophila montium species subgroup, the Drosophila lini and the Drosophila kikkawai clades. The ratios of Ka/Ks for OdsH were remarkably low between sibling species of these two clades, suggesting that OdsH has been subjected to strong purifying selection in these two clades.     

华东地区黑果蝇自然群体同工酶遗传多态的研究

我们用标准垂直板聚丙烯酰胺凝胶电泳和水平板琼脂糖凝胶电泳技术检测了黑果蝇(D.virilis)在合肥、芜湖、九江、南昌、福州、泉州和常州7个自然群体中Est-α、Est-β、Amy、Acph和α-Gpdh 5个座位的遗传变异,发现Est-α、Est-β和Amy 3个座位是高度多态的,Acph、α-Gpdh两个座位则是单态的。根据这5个座位等位基因的频率,我们计算了群体间的遗传距离。综合何朝珍报道的宁波、杭州、南京和洪泽4个群体的结果和我们的结果,我们作出系统树并发现泉州、福州两群体和其他群体在基因频率的分布和遗传距离方面有显著差异;分析显示这种差异与群体间地理隔离有关。     

Low Genetic Polymorphism in Natural Populations of Crotalaria Longipes

Natural genetic variation present in two populations of the critically endangered legume C. longipes was revealed by random amplified polymorphic DNA (RAPD) analysis. Out of the 30 primers used to test the intra-specific genetic polymorphism (between individuals from isolated populations) only 21 gave amplification. Eight primers produced monomorphic bands and 13 primers produced polymorphism. But the range of percent polymorphism was only 0 to 33 %. There was close similarity between individuals within and between populations. Cluster analysis based on Nei's indices did not reveal any population differentiation and individuals of both populations clustered with each other. These results point to a very low genetic polymorphism in C. longipes populations.     

黑果蝇（D.virilis）自然群体遗传多态研究

利用９种限制性内切酶对Ｄ．ｖｉｒｉｌｉｓ兰州群体作了ｍｔＤＮＡ的ＲＦＬＰ分析,结合其他地区Ｄ．ｖｉｒｉｌｉｓ群体的ｍｔＤＮＡ的ＲＦＬＰ数据,用ＵＰＧＭＡ法构建了聚类图。发现大陆Ｄ．ｖｉｒｉｌｉｓ聚成明显的３支：兰州和青岛群体、华东群体、福建群体,呈一纬度梯度分布。单纯以地理隔离不能解释Ｄ．ｖｉｒｉｌｉｓ自然群体间的遗传差异。温度依赖性的选择可能是纬度梯度分布的维持机制。     

中国特有果蝇 Drosophila curviceps 种亚组在Drosophila immigrans种组中的种系发生地位

果蝇immigrans种组中的curviceps种亚组是1992年新建立的中国特有果蝇类群。该种亚组中的物种主要分布在中国大陆和台湾。目前除了形态学水平的研究外,还没有其他证据支持建立该种亚组的合理性及其起源和种系发生地位。为了在DNA分子水平上探讨果蝇curviceps种亚组在果蝇immigrans种组中的种系发生地位,从而为今后更深入地研究中国特有果蝇,甚至为果蝇亚属的进化遗传学提供理论依据,测定了immigrans种组5个种亚组（nasuta、immigrans、hypocausta、quadrilineata、curviceps)中12个代表物种的rDNA的ITS1和部分Adh基因的序列。其中ITS1序列的长度为513－587bp,共有191个信息位点;Adh基因片段的长度在714－747bp之间,共99个信息位点。考虑到单个分子提供的信息较少,将两个分子的序列综合起来,组成一个较长的复合序列。分别根据ITS1,Adh和两个分子的复合序列排比（Alignment)结果,和最大简约法和邻接法构建分子系统树,其中根据复合序列构建的系统树与形态学研究结果最为一致。分子树显示curviceps种亚组的特种确定单独形成一个分枝,为种亚组级的分类阶元,支持了形态学将其建立为一个新种亚组。根据Kimura距离,估算了复合分子的替换速率约为每百万年1．48％,进而计算出5个种亚组的分 歧年代。结合各物种的地理分布,推测了immigrans种组的进化历史：curviceps种亚组与quadrilineata种亚组的亲缘关系最近,主要分布在中国南部的温带地区。它们之间的分歧时间大约为3．4百万年,是最年轻的两个种亚组。主要分布在苏门答腊及附近的热带地区的hypocausta种亚组的物种是最早分化出来的,与其他种亚组的分歧时间约为9．2百万年。该结果与形态学和生物地理学研究相吻合。值得一提是的,目前归属仍存在争议的物种D.neohypocausta,在分子系统树中与hypocausta种亚组的物种相距较远,而与immiagrasn种亚组的关系较近,但分枝置信度较低（＜50％）。由于还缺乏其他方面的证据,因此D.neohypocausta的归属有待今后的研究来作定论。     

Dynamics and Impacts of Transposable Element Proliferation in the Drosophila nasuta Species Group Radiation

Transposable element (TE) mobilization is a constant threat to genome integrity. Eukaryotic organisms have evolved robust defensive mechanisms to suppress their activity, yet TEs can escape suppression and proliferate, creating strong selective pressure for host defense to adapt. This genomic conflict fuels a never-ending arms race that drives the rapid evolution of TEs and recurrent positive selection of genes involved in host defense; the latter has been shown to contribute to postzygotic hybrid incompatibility. However, how TE proliferation impacts genome and regulatory divergence remains poorly understood. Here, we report the highly complete and contiguous (N50 = 33.8–38.0 Mb) genome assemblies of seven closely related Drosophila species that belong to the nasuta species group—a poorly studied group of flies that radiated in the last 2 My. We constructed a high-quality de novo TE library and gathered germline RNA-seq data, which allowed us to comprehensively annotate and compare TE insertion patterns between the species, and infer the evolutionary forces controlling their spread. We find a strong negative association between TE insertion frequency and expression of genes nearby; this likely reflects survivor bias from reduced fitness impact of TEs inserting near lowly expressed, nonessential genes, with limited TE-induced epigenetic silencing. Phylogenetic analyses of insertions of 147 TE families reveal that 53% of them show recent amplification in at least one species. The most highly amplified TE is a nonautonomous DNA element (Drosophila INterspersed Element; DINE) which has gone through multiple bouts of expansions with thousands of full-length copies littered throughout each genome. Across all TEs, we find that TEs expansions are significantly associated with high expression in the expanded species consistent with suppression escape. Thus, whereas horizontal transfer followed by the invasion of a naïve genome has been highlighted to explain the long-term survival of TEs, our analysis suggests that evasion of host suppression of resident TEs is a major strategy to persist over evolutionary times. Altogether, our results shed light on the heterogenous and context-dependent nature in which TEs affect gene regulation and the dynamics of rampant TE proliferation amidst a recently radiated species group.     

Genetic Variation in Natural Populations of Five Drosophila Species and the Hypothesis of the Selective Neutrality of Protein Polymorphisms

We have studied genetic variation at 30-32 loci coding for enzymes in natural populations of five species of Drosophila. The average proportion of heterozygous loci per individual is 17.7 +/- 0.4%. The average proportion of polymorphic loci per population is 69.2 +/- 2.6% or 49.8 +/- 2.2%, depending on what criterion of polymorphism is used. The following generalizations are advanced: (1) The amount of genetic polymorphism varies considerably from locus to locus. (2) At a given locus, populations of the same species are very similar in the amount and pattern of genetic variation. (3) However, at some loci large differences sometimes occur between local populations of the same species. (4) The amount of variation at a given locus is approximately the same in all five species. (5) When different species are compared, the pattern of the variation is either essentially identical or totally different at a majority of loci. We have tested the hypothesis that protein polymorphisms are selectively neutral by examining four predictions derived from the hypothesis. Our results are at variance with every one of the predictions. We have measured the amount of genetic differentiation, D, between taxa of various degrees of evolutionary divergence. The average value of D is 0.033 for local populations, 0.228 for subspecies, 0.226 for semispecies, 0.538 for sibling species, and 1.214 for morphologically distinguishable species. Our results indicate that a substantial degree of genetic differentiation (22.8 allelic substitutions for every 100 loci) occurs between allopatric populations that have diverged to the point where they might become different species if they were to become sympatric. However, very little additional genetic change is required for the development of complete reproductive isolation. After the speciation process is completed, species continue to diverge genetically from each other.     

Extensive Genetic Polymorphism of Peptidases A, B, C, and D, in Wild Rabbit (Oryctolagus cuniculus) Populations from the Iberian Peninsula

Genetic polymorphism of peptidases A, B, C, andD in the wild rabbit (Oryctolagus cuniculus)was assessed by horizontal starch gel electrophoresis,in a total of 1003 individuals comprising 16 Iberian and 2 French populations and 1 domestic stock.Twenty-five different alleles were detected: 6 in PEPA,4 in PEPB, 8 in PEPC, and 7 in PEPD. The highest valuesof observed heterozygosity averaged over the four loci were obtained for the southwestern Iberianpopulations and a clinal loss of variability in anortheastern direction was detected. A clear separationbetween the two putative subspecies O. c.cuniculus and O. c. algirus was notobtained.