溶藻细菌FS1的溶藻效果与机制初探

近年来,由水体富营养化引发的蓝藻水华频繁暴发,对水体生态系统平衡产生了重大影响,给人类健康也带来严重威胁。生物法除藻具有高效性、环境友好等优点,因此,如果能获得具有较高溶藻效率的溶藻细菌,选择生物法除藻更为理想。从菏泽一富营养化池塘分离得到1株溶藻细菌FS1,经16S rDNA测序分析鉴定为芽胞杆菌属。实验以铜绿微囊藻为研究对象,采用血球计数板法计算反应前后藻细胞的浓度,对不同生长阶段溶藻细菌FS1的溶藻效果进行了探究。停滞期、对数期、稳定期和衰亡期的除藻率分别为7.1%、24.3%、57.0%和45.5%,结果表明,处于稳定期的FS1对铜绿微囊藻的去除效果最佳。细菌溶藻方式的研究结果表明,溶藻细菌是通过分泌溶藻物质间接溶解藻细胞。     

The performance of fine‐grained and coarse‐grained elastic network models and its dependence on various factors

In a recent work we developed a method for deriving accurate simplified models that capture the essentials of conventional all‐atom NMA and identified two best simplified models: ssNMA and eANM, both of which have a significantly higher correlation with NMA in mean square fluctuation calculations than existing elastic network models such as ANM and ANMr2, a variant of ANM that uses the inverse of the squared separation distances as spring constants. Here, we examine closely how the performance of these elastic network models depends on various factors, namely, the presence of hydrogen atoms in the model, the quality of input structures, and the effect of crystal packing. The study reveals the strengths and limitations of these models. Our results indicate that ssNMA and eANM are the best fine‐grained elastic network models but their performance is sensitive to the quality of input structures. When the quality of input structures is poor, ANMr2 is a good alternative for computing mean‐square fluctuations while ANM model is a good alternative for obtaining normal modes. Proteins 2015; 83:1273–1283. © 2015 Wiley Periodicals, Inc.     

以提高教学质量为目标开展“普通植物病理学”课程考试改革

为进一步提高教学质量,培养高素质人才,高校应加大课程考试改革的力度。本文针对“普通植物病理学”课程考试中存在的主要问题,结合课程教学的特点,坚持理论联系实际,积极探索了贯穿于课程教学全过程,能够促进学生提高能力和素质的多元化的综合考核模式。     

Ecology of pollination in a tropical Venezuelan savanna

Pollination modes ecology of a total of 164 plant species was evaluated according to habitats and plant life forms in the Venezuelan Central Plain. Frequency distribution of nine pollination modes showed that, at the community level bee pollination (38.6%) was dominant. Butterfly (13.9%), fly (12.7%), and wasp (10.8%) pollination were the second most frequent. Moth (6.2%) and wind (10.4%) pollination occurred with similar frequency, and the least common were bird (3.1%), beetle (2.3%) and bat (1.9%) pollination. There was a significant interaction effect indicating that pollination mode was affected by the type of habitat. Bee pollination was the most common pollination mode in all habitats with butterfly, fly and wasp pollination being secondary for forest and forest-savanna transition; and butterfly, wasp, wind and fly pollination being secondary for savanna. Wind, butterfly and fly pollination were found in disturbed areas as secondary pollination modes. Pollination modes were significantly associated and affected by life forms. Bee pollination was dominant in all life forms with wasp, butterfly and fly pollination being the secondary for trees, shrubs, and lianas; and butterfly and wind pollination being the secondary for herbaceous species. The number of pollination modes (richness) among life forms ranged between four and nine for epiphytes and perennial herbs respectively. The highest values of diversity indexes among life forms were found in trees and shrubs. The richness and diversity indices of pollination modes were statistically higher for more structured habitats, forest and forest-savanna transition, than herbaceous habitats, savanna and disturbed areas, which is associated with the highest values of diversity indexes in trees and shrubs. Equitability was higher for forest and disturbed areas than forest-savanna transition and savanna. The results of comparative richness, equitability, diversity indices, and the frequency distribution of pollination modes of 19 samples from tropical and temperate communities indicated that richness of pollination modes may be different between tropical and temperate communities. The proportion of each pollination mode suggests four grouping: (1) rain forests and their strata, (2) grassland savanna, and associated disturbed areas, (3) temperate communities, and (4) the most heterogeneous group, contained mostly neotropical communities, including the four habitats of the Venezuelan Central Plain. The frequency of pollination modes, richness, diversity and equitability of communities, habitats, successional stages, and vegetation strata varies with respect to geography, vegetation structure, and plant species richness.     

Incubation regimes of cold-climate reptiles: the thermal consequences of nest-site choice, viviparity and maternal basking

Cold-climate reptiles show three kinds of adaptation to provide warmer incubation regimes for their developing embryos: maternal selection of hot nest sites; prolonged uterine retention of eggs; and increased maternal basking during pregnancy. These traits may evolve sequentially as an oviparous lineage invades colder climates. To compare the thermal consequences of these adaptations, I measured microhabitat temperatures of potential nest sites and actual nests of oviparous scincid lizards ( Bassiana duperreyi ), and body temperatures of pregnant and non-pregnant viviparous scincid lizards ( Eulamprus heatwolei ). These comparisons were made at a site where both species occur, but close to the upper elevational limit for oviparous reptiles in south-eastern Australia. Viviparity and maternal basking effort had less effect on mean incubation temperature than did maternal nest-site selection. Eggs retained in utero experienced bimodal rather than unimodal diel thermal distributions, but similar mean incubation temperatures. Often the published literature emphasizes the ability of heliothermic (basking) reptiles to maintain high body temperatures despite unfavourable ambient weather conditions; this putative ability is central to many hypotheses on selective forces for the evolution of viviparity. In cold climates, however, opportunities for maternal thermoregulation to elevate mean body temperatures (and thus, incubation temperatures) above ambient levels may be severely limited. Hence, at least over the broad elevational range in which oviparous and viviparous species live in sympatry, maternal selection of 'hot' nests may be as effective as is viviparity in providing favourable incubation regimes.  © 2004 The Linnean Society of London, Biological Journal of the Linnean Society , 2004, 83 , 145–155.     

秦岭山地典型次生林木本植物幼苗更新特征

采用样方法调查了秦岭山地5种典型次生林--油松林、锐齿栎林、红桦林、云杉林和华山松林幼苗的更新特征.结果表明: 不同次生林木本植物幼苗物种分化明显,除锐齿栎林和华山松林外,其余次生林幼苗物种相似性系数均较低;油松林和锐齿栎林木本植物幼苗数量、物种丰富度指数、Simpson优势度指数及均匀度指数均较高,红桦林均最低;云杉林和华山松林幼苗数量及物种多样性指数基本一致.不同次生林幼苗和幼树所占比例存在明显差异,除红桦林幼树数量的比例较大外,其余林分幼苗的比例较大,为云杉林＞油松林＞锐齿栎林＞华山松林.不同林分幼苗萌生比例差异明显,为华山松林＞云杉林＞红桦林＞锐齿栎林＞油松林.锐齿栎林和油松林乔木幼苗比例最高,分别占木本幼苗总种数的68%和51.4%,群落处于演替中期,持续更新能力较强;云杉林、华山松林乔木幼苗比例分别为40%和15%,处于演替后期,更新能力较差;而红桦林中幼苗很难发育成幼树,持续更新能力欠缺.     

发育生物学探究式教学探讨

发育生物学是目前生物科学中发展较迅速、应用前景较广阔的学科之一。目前作为本科生的重要专业选修课程, 其授课内容的前沿化对传统的教学模式提出了挑战。文章主要讨论了发育生物学的教学现状, 详细阐述了首都师范大学引用英文原文文献特别是诺贝尔奖获奖者经典文献进行教学的情况, 总结了学生在课堂上做报告以及课下参与网络讨论的模式相结合的优势, 并就如何进一步有效地提高教学质量提出了一些建议。     

Investigating the structural dynamics of the PIEZO1 channel activation and inactivation by coarse‐grained modeling

The PIEZO channels, a family of mechanosensitive channels in vertebrates, feature a fast activation by mechanical stimuli (eg, membrane tension) followed by a slower inactivation. Although a medium‐resolution structure of the trimeric form of PIEZO1 was solved by cryo‐electron microscopy (cryo‐EM), key structural changes responsible for the channel activation and inactivation are still unknown. Toward decrypting the structural mechanism of the PIEZO1 activation and inactivation, we performed systematic coarse‐grained modeling using an elastic network model and related modeling/analysis tools (ie, normal mode analysis, flexibility and hotspot analysis, correlation analysis, and cryo‐EM‐based hybrid modeling and flexible fitting). We identified four key motional modes that may drive the tension‐induced activation and inactivation, with fast and slow relaxation time, respectively. These modes allosterically couple the lateral and vertical motions of the peripheral domains to the opening and closing of the intra‐cellular vestibule, enabling external mechanical forces to trigger, and regulate the activation/inactivation transitions. We also calculated domain‐specific flexibility profiles, and predicted hotspot residues at key domain‐domain interfaces and hinges. Our results offer unprecedented structural and dynamic information, which is consistent with the literature on mutational and functional studies of the PIEZO channels, and will guide future studies of this important family of mechanosensitive channels.     

Predicting binding modes of reversible peptide‐based inhibitors of falcipain‐2 consistent with structure–activity relationships

Falcipain‐2 (FP‐2) is a major hemoglobinase of Plasmodium falciparum, considered an important drug target for the development of antimalarials. A previous study reported a novel series of 20 reversible peptide‐based inhibitors of FP‐2. However, the lack of tridimensional structures of the complexes hinders further optimization strategies to enhance the inhibitory activity of the compounds. Here we report the prediction of the binding modes of the aforementioned inhibitors to FP‐2. A computational approach combining previous knowledge on the determinants of binding to the enzyme, docking, and postdocking refinement steps, is employed. The latter steps comprise molecular dynamics simulations and free energy calculations. Remarkably, this approach leads to the identification of near‐native ligand conformations when applied to a validation set of protein‐ligand structures. Overall, we proposed substrate‐like binding modes of the studied compounds fulfilling the structural requirements for FP‐2 binding and yielding free energy values that correlated well with the experimental data. Proteins 2017; 85:1666–1683. © 2017 Wiley Periodicals, Inc.