流域水碳过程耦合模拟——WaSSI-C模型的率定与检验

在复杂的气候变化条件下, 利用水碳耦合模型进行生态水文学研究成为主要的研究手段和途径。该文以杂谷脑河上游流域为例, 在确定生态水文模型WaSSI-C模拟尺度的基础上, 探讨水碳耦合模型在中国西南湿润地区的适用性。杂古脑河上游流域位于岷江上游, 隶属于长江流域。在分析和讨论了模型结构和机理的基础上, 分别对模型蒸散和融雪计算进行了补充改进, 以提高模型的适用性。将1988-1996年作为模型的率定期, 1997-2006年作为模型的验证期, 分别在率定期和验证期利用实测的径流数据和中分辨率成像光谱仪数据的总初级生产力、蒸散(ET)数据, 对模拟结果进行对比验证。并利用决定系数(R²)和Nash-Sutcliffe效率系数(NS)两个指标对模拟效果进行评价。流域总径流率定期和验证期对比验证的R²分别为0.86和0.78; NS分别为0.82和0.67。总生态系统生产力和ET验证期的R²分别为0.89和0.78。可见模型模拟结果的两个评价指标都处于较为理想的区间内, 说明WaSSI-C模型在研究区内具有较好的适用性。并对模型的蒸散计算方法进行了讨论, 在此基础上提出了模型中存在的问题和改进的方向。     

16S rRNA基因高通量测序方法检测奶牛场常用干草表面微生物群落结构及多样性

【目的】随着中国奶牛业的发展,干草需求量与日俱增。作为天然牧草,干草可以成为家畜传播病原体的载体。以干草表面附着物为研究对象,了解干草中细菌群落结构以及致病菌属特征。【方法】对来自6个不同奶牛场饲草舍的干草样本,应用Illumina Mi Seq高通量测序技术测定干草表面附着物细菌的16S r RNA基因V3-V4变异区序列,分析不同干草样本细菌群落组成。【结果】干草样本中的细菌在97%的相似水平下共得到OTU个数为15 416,涵盖了29门87纲144目219科323属的细菌。微生物多样性分析表明,干草样本具有很高的细菌多样性,不同样本多样性存在差异。对干草样本菌群中丰度较高的14种病原菌属进行分析,发现相较于人工种植牧草制备的干草,天然牧草制备的干草中病原菌属丰度较高。【结论】研究解析了干草样本中微生物的多样性、丰度及主要病原菌属的特征,对奶牛场疾病防控有一定指导意义。     

中国"三江并流"纵谷地蚤类丰富度与区系沿纬度梯度的水平分布格局

为探讨横断山区蚤类物种丰富度与区系沿纬度梯度变化的基本规律以及影响它们分布的主要生态因子,作者就云南西部横断山区21o-28oN的8个纬度梯度带目前所知分布的9科45属153种(亚种)蚤类的水平分布资料进行了综合整理和统计分析。结果表明:(1)这一区域蚤类科、属、种丰富度,特有种丰富度和特有度,以及东洋界和古北界区系成分物种丰富度沿纬度梯度的变化,都呈现了随纬度增加先增高后降低的单峰分布格局,最大峰值出现在25o-27oN之间,研究认为,形成物种密度高峰的主要因素是两大区系分界线和交错区的边缘效应;(2)东洋和古北两大区系成分构成比的水平分布格局截然不同,前者随纬度的增加递减,后者则随纬度的增加呈递增的趋势,两区系成分过渡或交错区的跨度在23o-29oN之间,并在25o-27oN形成交汇和分异的中心;(3)聚类分析结果表明,横断山8个纬度梯度带的蚤类总体上归为3个主要地域区系类型,反映出纬度、地理气候环境等因素对蚤类区系及物种分布的影响,以及蚤类区系和物种组成沿纬度梯度的水平分布格局与地理和气候环境的统一性;(4)蚤类的属、种β多样性沿纬度梯度的水平分布基本呈现双峰格局,峰值反映出蚤类的组成及分布在不同纬度梯度、气候带之间的过渡与转变,说明β多样性的水平分布格局与纬度梯度的气候、环境变化程度的关系密切,以及过渡区的边缘效应对两区系物种丰富度高峰的形成具有重要影响;(5)横断山区蚤类物种丰富度与区系的水平分布与垂直分布的规律和格局基本相同,显示了具有同源性的水平地带性与垂直地带性对蚤类空间分布格局所产生的类似影响,证实了横断山区蚤类物种丰富度与区系的水平分布格局理应出现近似于它们垂直分布的一般规律与格局的推论;(6)横断山25o-27oN的区域形成了两大区系物种交汇和分异的中心,由于边缘效应和复杂的地理景观,这里蚤类科、属、种、特有种都具有较高多样性,据此作者推断,这里可能是我国横断山区多物种保存、分布和分化的核心区。     

Mth10b, a unique member of the Sac10b family, does not bind nucleic acid

The Sac10b protein family is regarded as a group of nucleic acid-binding proteins that are highly conserved and widely distributed within archaea. All reported members of this family are basic proteins that exist as homodimers in solution and bind to DNA and/or RNA without apparent sequence specificity in vitro. Here, we reported a unique member of the family, Mth10b from Methanobacterium thermoautotrophicum ΔH, whose amino acid sequence shares high homology with other Sac10b family proteins. However, unlike those proteins, Mth10b is an acidic protein; its potential isoelectric point is only 4.56, which is inconsistent with the characteristics of a nucleic acid-binding protein. In this study, Mth10b was expressed in Escherichia coli and purified using a three-column chromatography purification procedure. Biochemical characterization indicated that Mth10b should be similar to typical Sac10b family proteins with respect to its secondary and tertiary structure and in its preferred oligomeric forms. However, an electrophoretic mobility shift analysis (EMSA) showed that neither DNA nor RNA bound to Mth10b in vitro, indicating that either Mth10b likely has a physiological function that is distinct from those of other Sac10b family members or nucleic acid-binding ability may not be a fundamental factor to the actual function of the Sac10b family.     

重复基因的进化－－回顾与进展

基因重复是普遍存在的生物学现象, 是基因组和遗传系统多样化的重要推动力量, 在生物进化过程中发挥着极其重要的作用。基因重复有何利弊, 基因发生重复后, 2个重复子拷贝的保留在基因功能方面是否存在偏好性, 子拷贝在表达和进化速率上如何分化, 以及重复基因为什么会被保留下来一直是进化生物学领域研究的热点问题之一。该文对以上重复基因研究的热点问题进行了介绍, 并对重复基因的进化机制和理论模型及其近年来的一些主要研究进展进行了综述。     

Evolutionary history of mammalian transposons determined by genome-wide defragmentation

The constant bombardment of mammalian genomes by transposable elements (TEs) has resulted in TEs comprising at least 45% of the human genome. Because of their great age and abundance, TEs are important in comparative phylogenomics. However, estimates of TE age were previously based on divergence from derived consensus sequences or phylogenetic analysis, which can be unreliable, especially for older more diverged elements. Therefore, a novel genome-wide analysis of TE organization and fragmentation was performed to estimate TE age independently of sequence composition and divergence or the assumption of a constant molecular clock. Analysis of TEs in the human genome revealed approximately 600,000 examples where TEs have transposed into and fragmented other TEs, covering >40% of all TEs or approximately 542 Mbp of genomic sequence. The relative age of these TEs over evolutionary time is implicit in their organization, because newer TEs have necessarily transposed into older TEs that were already present. A matrix of the number of times that each TE has transposed into every other TE was constructed, and a novel objective function was developed that derived the chronological order and relative ages of human TEs spanning >100 million years. This method has been used to infer the relative ages across all four major TE classes, including the oldest, most diverged elements. Analysis of DNA transposons over the history of the human genome has revealed the early activity of some MER2 transposons, and the relatively recent activity of MER1 transposons during primate lineages. The TEs from six additional mammalian genomes were defragmented and analyzed. Pairwise comparison of the independent chronological orders of TEs in these mammalian genomes revealed species phylogeny, the fact that transposons shared between genomes are older than species-specific transposons, and a subset of TEs that were potentially active during periods of speciation.     

Factor interactions with the simian virus 40 early pre-mRNA influence branch site selection and alternative splicing.

To study the interaction of splicing factors with the simian virus 40 early-region pre-RNA, which can be alternatively spliced to produce large T and small t mRNAs, we used an in vitro RNase protection assay that defines the 5' boundaries of factor-RNA interactions. Protection products reflecting factor interactions with the large T and small t 5' splice sites and with the multiple lariat branch site region were characterized. All protection products were detected very early in the splicing reaction, before the appearance of spliced RNAs. However, protection of the large T 5' splice site was detected well before small t 5' splice site and branch site protection products, which appeared simultaneously. Oligonucleotide-targeted degradation of small nuclear RNAs (snRNAs) revealed that protection of the branch site region, which occurred at multiple sites, required intact U2 snRNA and was enhanced by U1 snRNA, while protection of the large T and small t 5' splice sites required both U1 and U2 snRNAs. Analysis of several pre-RNAs containing mutations in the branch site region suggests that factor interactions involving the multiple copies of the branch site consensus determine the selection of branch points, which is an important factor in the selection of alternative splicing pathways.     

转录调节因子σ~(38)介导铜绿假单胞菌绿脓菌素合成代谢调控

【目的】为了进一步鉴定铜绿假单胞菌转录调控因子σ~(38)对2个拷贝吩嗪合成基因簇(phz A1-G1和phz A2-G2)的具体调控方式并推定介导绿脓菌素合成代谢的可能调控机制。【方法】根据铜绿假单胞菌基因组信息,利用同源重组原理构建rpo S基因缺失突变株Δrpo S以及克隆全长rpo S基因作互补分析;再以单一吩嗪基因簇缺失突变株Δphz1和Δphz2为出发菌株,分别构建rpo S缺失突变株Δrpo Sphz1和rpo S插入突变株Δrpo Sphz2,测定并比较野生株及相关突变株的绿脓菌素合成量,初步推定σ~(38)因子对2个不同吩嗪基因簇表达的调控方式。【结果】在GA培养基中,突变株Δrpo S的绿脓菌素合成量比野生株显著增加;互补分析证实,σ~(38)可使突变株Δrpo S的绿脓菌素降低并接近野生株PAO1水平;与对照株Δphz1相比,突变株Δrpo Sphz1的绿脓菌素合成量因σ~(38)因子缺失而显著减少;而与对照株Δphz2相比,突变株Δrpo Sphz2的绿脓菌素合成量因σ~(38)因子缺失显著增加。【结论】转录调控因子σ~(38)对铜绿假单胞菌绿脓菌素的合成代谢的确具一定的负调控作用;结合已报道的研究结果,初步推定:σ~(38)因子通过负调控吩嗪基因簇phz1,正调控吩嗪基因簇phz2的表达实现对绿脓菌素合成代谢的调控。     

单头亚菊的组织培养与快速繁殖

以单头亚菊茎段为外植体对其进行组织培养,MS为基本培养基,设置不同激素浓度配比。对实验结果进行观察分析,筛选出合适的配方。启动培养基为Ms＋0．5mg·L-16-BA＋0．01mg·L-1NAA。继代培养基MS＋O．75mg·L-1。6-BA＋0．01mg·L。NAA,可获得较高的增殖率。不定根最适诱导培养基为1／2MS＋O．15mg·L—IBA,生根率达87％以上,组培苗移栽成活率达98％。