Biosystematics and genetic relationships of Solea aegyptiaca and S. senegalensis

The isoenzymes from seven populations of Solea senegalensis or aegyptiaca were compared et 24–30 loci, six of which display significant differences in their allelic frequencies. In addition, these populations were compared to six other Soleidae species, namely Solea vulgaris, S. impar, S. lascaris, S. lutea, Michrochirus azevia, and M. variegatus. It was shown that S. senegalensis and S. aegyptiaca can be separated into two distinct genetic groups. Their high genetic similarity in comparison with the other species of Soleidae studied suggests that they have a common origin. The systematic status (species or semispecies) of these taxa could not, however, be elucidated. The high degree of genetic polymorphism observed in the regions where the two taxe are found together suggests that there still is some gene flow between them. However, this could be due to selection.     

Deep proteogenomics; high throughput gene validation by multidimensional liquid chromatography and mass spectrometry of proteins from the fungal wheat pathogen Stagonospora nodorum

Background  

Stagonospora nodorum, a fungal ascomycete in the class dothideomycetes, is a damaging pathogen of wheat. It is a model for necrotrophic fungi that cause necrotic symptoms via the interaction of multiple effector proteins with cultivar-specific receptors. A draft genome sequence and annotation was published in 2007. A second-pass gene prediction using a training set of 795 fully EST-supported genes predicted a total of 10762 version 2 nuclear-encoded genes, with an additional 5354 less reliable version 1 genes also retained.     

Mycosporins from Ascochyta pisi, Cladosporium herbarum and Septoria nodorum

The chemical structure of the mycosporin isolated from Ascochyta pisi, Cladosporium herbarum and Septoria nodorum was established as mycosporin-2 glucoside.     

Intraspecific and interspecific genetic variation in Drosophila

Utilizing the technique of DNA-DNA hybridization, we have characterized the degree of genetic variability in single-copy DNA both within and between several species of Drosophila. The results of intraspecific variation studies indicate considerable variation both for levels of nucleotide heterozygosity (estimated to be over 2%) as well as for insertions-deletions. Interspecific studies confirm this great deal of variability and further establish an extreme heterogeneity within Drosophila genomes for rates of divergence. This heterogeneity is much more extreme than that seen between exons and introns. The degree of single-copy DNA divergence generally supports phylogenetic affinities deduced from more traditional methods. However, exceptions occur where single-copy DNA divergence is not correlated with other properties such as degree of chromosomal differentiation, morphology, or ability to form interspecific hybrids. We argue that single-copy DNA divergence as measured by DNA-DNA hybridization is an accurate indicator of phylogenetic relationships and therefore sheds light on the evolution of other biological properties. Many, if not most, evolutionary tests require an accurate phylogeny of the group being studied and DNA, because of the high information content inherent within the molecule, offers the best hope of deriving true phylogenies.     

珍稀濒危飘带兜兰叶绿体全基因组种内变异研究(附录)

飘带兜兰(Paphiopedilum parishii)分布范围狭窄,仅在中国、缅甸、泰国以及老挝有少量分布。近年来,因生境破坏和人为滥采而导致飘带兜兰野生种群极度缩减。为开发种内多态性的分子标记用于保护生物学研究,该研究对飘带兜兰4个野生个体经测序、组装、注释获得的叶绿体基因组序列,与已公布的飘带兜兰2个个体的叶绿体全基因组序列进行比对,分析飘带兜兰叶绿体基因组的种内差异。结果表明:(1)飘带兜兰叶绿体基因组具有典型被子植物叶绿体基因组环状四分体结构,基因组长度为154 403～154 809 bp,共编码129个基因,包括78个蛋白质编码基因、39个tRNA基因、8个rRNA基因,以及4个假基因。(2)在飘带兜兰6个个体叶绿体基因组中检测到103～107个SSRs(simple sequence repeats)位点,其中21个SSR位点具有多态性。此外,在6个个体叶绿体基因组中还检测到60个长序列重复,包括17～21个正向重复、18～29个反向重复、9～16个回文重复、4～9个互补重复。(3)通过比较6个个体叶绿体基因组序列的核苷酸多样性,共发现70处变异,包括10个SNPs(single nucleotide polymorphism)、60个插入缺失(InDels)。其中,有3个SNP位点发生了非同义替换,导致编码功能基因的氨基酸发生改变; 19个插入缺失多态性较高,具有开发为分子标记的潜力。(4)通过计算核苷酸多样性值(P_i)共发现8个有变异的区域,P_i值为0～0.006 32,其中变异度较大的是rps3-rpl22、trnL-UAC-rpl32、rpoB-trnC-GCA以及ycf4,这些高变区可开发为分子标记用于评估飘带兜兰遗传多样性。(5)系统发生分析结果表明,飘带兜兰6个个体叶绿体基因组序列聚在一起,与长瓣兜兰互为姐妹群。综上表明,飘带兜兰叶绿体基因组的SSRs、长序列重复、SNPs、InDels以及核苷酸序列呈现了足够的种内多样性,可开发成分子标记用于该种的系统演化及保护生物学研究。     

Studies on preservation of schistosomula of Schistosoma mansoni and S. mattheei

Schistosomula were not damaged by exposure for 1 hr at room temperature to the cryoprotectant dimethylsulphoxide (DMSO) providing that concentrations greater than 10% were not used. Rapid dilution to remove the DMSO was less harmful to the organisms than was slow dilution. Schistosomula were not damaged by thermal shock (cooling in the absence of freezing) but were damaged by conditions produced by freezing. Although the freezing damage rendered schistosomula noninfective they retained flame cell activity and certain contractile properties in the oral sucker, gut, and musculature. The least damage was produced by slow cooling (at approximately 0.3 °C/min) and fast warming (approximately 300 °C/min). Schistosomula remained infective following freezing and slow cooling to −20 °C in DMSO (10%) and storage for 2 hr at this temperature but were damaged at temperatures below −26 °C and at −20 °C for longer time periods.     

Intraspecific variation ofDrosophila buzzatii larval breeding success onOpuntia: A yeast-plant-insect relationship

The cactophilic species,Drosophila buzzatii, normally breeds in decaying pockets ofOpuntia cladodes, in which there is a complex interaction with the microbial flora, especially yeast species. Isofemale lines were used to estimate genetic variation among larvae reared on their natural feeding substrate. Four naturally occurring cactophilic yeast species isolated from the same Tunisian oasis as theDrosophila population were used. Two fitness components were studied for each line, viability and developmental time. Genetic variations amongD. buzzatii lines were observed for both traits. A significant yeast species x isofemale line interaction for viability was also evidenced, suggesting the occurrence of specialized genotypes for the utilization of breeding substrates. This genetic heterogeneity in the natural population may favor a better adaptation to the patchily distribution of yeasts.     

Intraspecific morphological variation with biometry of Distephanus speculum (Silicoflagellata)

Living specimens of Distephanus speculum (Silicoflagellata) were collected in waters of <150 m depth in the Pacific Sector of the Southern Ocean (57°31.6′S, 150°02.9′E), South of Tasman Island, and a biometric study has been conducted. The skeleton of D. speculum has a simple morphology, which can be readily expressed quantitatively. Using a new methodology, repeated measurements were obtained and converted to numerical indices. The circumference of the basal rings was the most useful character for subdivision into groups, and using this parameter we recognized two populations in the 620 studied specimens: (1) 500 individuals were placed in Group A, with a basal ring circumference of 53 to 67 µm, and a difference in length of spine axes from 2 to 6 μm; and (2) 120 individuals were placed in Group B (basal ring circumference 80 to 105 µm, difference in length of spine axes 3 to 6 µm). The circumference of the basal ring in Group B is approximately 10 µm smaller than in Distephanus speculum giganteus [Bukry, D., 1979. Comments on opal phytoliths and stratigraphy of Neogene Silicoflagellates and Coccoliths at Deep Sea Drilling Project Site 397 off Northwest Africa. Initial report of the DSDP, Washington, 49:977–1009.], and Distephanus boliviensis [Bukry, D., 1976a. Silicoflagellate and coccolith stratigraphy, Norwegian–Greenland Sea. Initial Report of DSDP LEG 38. Initial report of the DSDP, Washington, 38:843–855.; Bukry, D., 1976b. Silicoflagellate and coccolith stratigraphy, southeastern Pacific Ocean, Deep Sea Drilling Project Leg 34. Initial report of the DSDP, Washington, 34:715–735].     

Intraspecific genetic variation and competition interact to influence niche expansion

Theory and empirical evidence show that intraspecific competition can drive selection favouring the use of novel resources (i.e. niche expansion). The evolutionary response to such selection depends on genetic variation for resource use. However, while genetic variation might facilitate niche expansion, genetically diverse groups may also experience weaker competition, reducing density-dependent selection on resource use. Therefore, genetic variation for fitness on different resources could directly facilitate, or indirectly retard, niche expansion. To test these alternatives, we factorially manipulated both the degree of genetic variation and population density in flour beetles (Tribolium castaneum) exposed to both novel and familiar food resources. Using stable carbon isotope analysis, we measured temporal change and individual variation in beetle diet across eight generations. Intraspecific competition and genetic variation acted on different components of niche evolution: competition facilitated niche expansion, while genetic variation increased individual variation in niche use. In addition, genetic variation and competition together facilitated niche expansion, but all these impacts were temporally variable. Thus, we show that the interaction between genetic variation and competition can also determine niche evolution at different time scales.     

铁基纳米酶对鼠伤寒沙门菌生物被膜的影响

运用结晶紫染色定量法、生物被膜形态观察、生物被膜干重称量法、活菌定量计数法和细菌内活性氧检测法,评估氧化铁纳米酶和硫化铁纳米酶对鼠伤寒沙门菌生物被膜的影响及其机制.结果显示:鼠伤寒沙门菌S025株与这两类铁基纳米酶共孵育48h后,其生物被膜结晶紫染色吸光度值(A)、生物被膜厚度、生物被膜干重和活菌数量与未处理组相比均显著下降,活性氧水平显著上升,其中硫化铁纳米酶效果优于四氧化三铁纳米酶;在生物被膜形成后,加入铁基纳米酶处理0.5h、2h和12h,生物被膜结晶紫染色A值、生物被膜厚度、生物被膜干重和活菌数量与未处理组相比均显著下降,活性氧水平显著上升,硫化铁纳米酶效果同样优于四氧化三铁纳米酶.以上结果表明,铁基纳米酶通过调控鼠伤寒沙门菌胞内活性氧水平,不仅可以预防该菌的生物被膜形成,而且可以破坏已形成的生物被膜,本研究将有助于预防和治疗鼠伤寒沙门菌生物被膜引起的相关疾病.     

Site-specific integration of plasmid pSAM2 in Streptomyces lividans and S. ambofaciens

Summary Streptomyces ambofaciens strain ATCC23877 contains the 11.1 kb plasmid pSAM2 stably integrated into its chromosome. This plasmidic sequence is able to loop out and to be transferred at high frequency to S. lividans where it is found simultaneously as both free and integrated plasmid. When a UV derivative of strain ATCC23877 (strain ATCC15154) is used, the resident copy of pSAM2 can be transferred to S. lividans, but only the integrated form is found in this strain. In both cases, the integration occurs at a unique chromosomal region through the same plasmidic integration site as that in strain ATCC23877. The resident copy of strain ATCC15154 can also be transferred at low frequency to S. ambofaciens DSM40697 (devoid of any pSAM2 sequence). In this case, as several copies of pSAM2 are integrated, the integration pattern is complicated. Integration of a complete pSAM2 sequence in this strain occurs in a region that hybridizes with the integration zones of S. lividans and of S. ambofaciens strain ATCC23877. Comparison of the cloned integration zone of S. lividans before and after the integration event showed that the restriction pattern of the resident pSAM2 in strain ATCC15154 is similar to that of the free form of pSAM2 found naturally in another UV derivative of strain ATCC23877 (strain JI3212).     

锐药竹的种子性状及分子遗传变异

锐药竹( Oxytenanthera abyssinica)是非洲竹区最重要的竹种,对当地民众生活、生产和环保具有重要作用,也是保护当地环境的重要组成成分。然而,对这样重要的竹种,非洲内、外均少见其遗传研究报道。该研究对采自埃塞俄比亚的同一居群锐药竹少见的开花结实种子,采用“林木种子检验规程”国家标准,测定种子的主要性状,并对其遗传品质进行了分析。结果表明：锐药竹的种子长度为18.2 mm,宽度为3.3 mm,千粒重为117.5 g,室内发芽率为66.5％。性状变异与其他竹类相近,变异不大。将这批种子育苗15000多株,随机选择39株,典型选择25个叶片大的植株,共64个单株,采集叶样,运用扩增片段长度多态性( AFLP )分子标记技术进行遗传多样性检测。筛选E-ACA/M-CAA等8对引物对样品经行扩增,电泳分离,利用GeneScan 3.1软件共统计到1728条谱带,计算出其多态位点百分率90.28％,Nei’ s基因多样性指数0.2463,Shannon多样性指数0.3623,为遗传多样性大的类型;采用单匹配相似系数法对样品谱带进行UPGMA聚类,取SM＝0.76,可将分析样品聚为3类,结合表型进一步进行种质挖掘研究。该研究结果为其生物多样性保育及选育优良品种提供了科学依据。     

番茄对不同养分水平下南美蟛蜞菊和蟛蜞菊化感作用的响应

外来入侵植物分泌的化感物质能够影响本地植物的生长生理特性,养分水平对入侵植物的化感潜力有重要影响。该文通过将番茄植株分别与同种番茄、南美蟛蜞菊、蟛蜞菊植株相邻原位种植,以15%、25%、50%、75%的Hoagland培养液模拟不同养分水平开展温室控制实验,探究在不同养分水平下入侵植物南美蟛蜞菊及其亲缘植物蟛蜞菊的化感作用对本地植物番茄叶绿素荧光参数及生物量的影响。结果表明:(1)番茄在75%养分水平下的叶绿素荧光参数和生物量显著优于其余3个养分水平。(2)随着养分水平降低,番茄叶片的PSⅡ最大光化学效率(F_v/F_m)、PSⅡ实际光合量子产量[Y(Ⅱ)]、光化学淬灭系数(qp)及植株的总生物量显著减少,非光化学淬灭系数(NPQ)和植株根系生物量的分配比例增加。(3)在25% Hoagland培养液处理下,与南美蟛蜞菊混植番茄的F_v/F_m、Y(Ⅱ)、qp和总生物量显著低于与蟛蜞菊混植番茄,NPQ和根系生物量的分配比例显著高于与蟛蜞菊混植番茄。综上结果说明南美蟛蜞菊和蟛蜞菊可能通过根系分泌化感物质抑制番茄的生长发育,且南美蟛蜞菊的化感作用强于蟛蜞菊,而增加栽培基质中的养分水平可以显著降低南美蟛蜞菊和蟛蜞菊对番茄的化感胁迫作用。     

Mutagenic relevance of rat hepatocyte nuclei in the activation and inactivation of xenobiotica cyclophosphamide and epichlorohydrin activity on the yeasts S. pombe and S. cerevisiae

The influence on the mutagenicity of cyclophosphamide (Cy) and epichlorohydrin (ECH), of liver nuclei and hepatic post-mitochondrial (S9) preparations from phenobarbital-treated rats, was examined. The study was conducted in vitro, with 2 yeasts, Schisosaccharomyces pombe (P₁ strain) which allows the detection of forward mutations, and Saccharomyces cerevisiae (D₅ strain), in which the induction of different genetic effects, such as mitotic recombination, can be evaluated. The results indicated that the nuclear fraction has a qualitative capacity for biotransformation of compounds, overlapping that of S9. From a quantitative point of view, the Cy-activating capacity of the nuclear fraction was twice as high as that of S9 whereas the two fractions showed a similar ECH-inactivating ability. The present study strengthens the hypothesis of the relevance of nuclei as a site of metabolic activation and inactivation of exogenous compounds.     

Strong regeneration ability from rhizome fragments in two invasive clonal plants (Solidagocanadensis and S. gigantea)

The two rhizomatous perennials Solidago canadensis and S. gigantea belong to the most widespread alien plants in Europe. Anecdotal observations suggest that they disperse also by rhizome fragments. For testing their resprouting ability, rhizome fragments of different sizes from both species were buried at four different soil depths (0, 5, 10 and 20 cm, respectively) in a common garden. Rhizome fragments of S. canadensis ranged 3–6 cm in length, those of S. gigantea 5–20 cm in length. Resprouting plants were harvested after 3 months and growth related traits measured to assess their vitality. Resprouting rate in S. gigantea was far higher than in S. canadensis (85 and 19%, respectively). In S. gigantea, fragments of all sizes resprouted from all soil depths whereas none rhizome of S. canadensis emerged from 20 cm burial depth. In S. gigantea, size related traits showed significant interactions between fragment size and burial depth, but not relative shoot growth rate. At all burial depths, vitality of plants emerging from small rhizomes was lower than plants emerging from large rhizomes. Effects of rhizome size became stronger with increasing burial depth. The results show that both species are able to resprout from buried rhizome fragments, and that succesful regeneration is more likely to occur in S. gigantea. Managing these species should avoid any activities promoting rhizome fragmentation and dispersal of fragments.     

Spiro-naphthyridinone piperidines as inhibitors of S. aureus and E. coli enoyl-ACP reductase (FabI)

Spiropiperidine naphthyridinone inhibitors of Staphylococcus aureus and Escherichia coli FabI have been prepared. Compounds 14a and 14c were identified as having sub-nanomolar E. coli FabI activity and are among the most potent FabI inhibitors yet described. The structural model of 14a bound to E. coli FabI is shown.     

镉在南美蟛蜞菊、蟛蜞菊及其杂交种中的迁移和分布特征

为了解植物对镉的吸收和迁移特性,用200μmol/L镉处理蟛蜞菊(Sphagneticola calendulacea)、南美蟛蜞菊(S.trilobata)及其杂交种,研究了其对镉的吸收、迁移与分布的差异.结果表明,随着镉处理时间的延长,3种植物茎和叶中的镉含量逐渐上升,叶片的镉含量逐渐与茎相当,而根部的镉含量一直是...