Achlya bisexualis丙酮酸激酶基因的筛选、克隆及序列分析

从真菌藻状菌纲Achlya bisexualis 的cDNA文库中克隆了糖酵解途径的最后一种酶－丙酮酸激酶的基因,获得这个基因的完整阅读框架,并且对这个基因的全序列进行了测定。使用在线计算机PSORT II程序分析推导的氨基酸序列,发现此基因编码的丙酮酸激酶可能位于Achlya bisexualis的细胞质中,结果表明,在低等真核细胞的糖酵解途径的整个过程可能发生在细胞质中,与Liaud等人^[1]在硅藻细胞中的发现有所不同。     

Copy Number of Ribosomal Operons in Prokaryotes and Its Effect on Phylogenetic Analyses

Different aspects of the presence of multiple copies of ribosomal operons in prokaryotic genomes are reviewed. The structure of prokaryotic ribosomal operons is briefly described. The available data are summarized regarding the copy number of ribosomal genes in various prokaryotic genomes, the degree of polymorphism of their individual copies, and physiological and evolutional aspects of the presence of the multiple copies of ribosomal genes. The review also considers the influence of the presence of multiple copies of ribosomal genes on the results of identification of prokaryotic isolates and of the studies of prokaryotic diversity in environmental samples based on phylogenetic analysis of 16S rRNA gene sequences.     

Identification and characterization of genes involved in the jasmonate biosynthetic and signaling pathways in mulberry （Morus notabilis）

Jasmonate （JA） is an important phytohormone regulating growth, development, and environmental response in plants, particularly defense response against herbivorous insects. Recently, completion of the draft genome of the mulberry （Morus notabilis） in conjunction with genome sequencing of silkworm （Bombyx mori） provides an opportuni-ty to study this unique plant-herbivore interaction. Here, we identified genes involved in JA biosynthetic and signaling pathways in the genome of mulberry for the first time, with the majority of samples showing a tissue-biased expression pattern. The analysis of the representative genes 12-oxophy-todienoic acid reductase （OPRs） and jasmonate ZIM-domain （JAZs） was performed and the results indicated that the mulberry genome contains a relatively smal number of JA biosynthetic and signaling pathway genes. A gene encoding an＆amp;nbsp;important repressor, MnNINJA, was identified as an alternative splicing variant lacking an ethylene-responsive element binding factor-associated amphiphilic repression motif. Having this fundamental information wil facilitate future functional study of JA-related genes pertaining to mulberry-silkworm interactions.     

Conformational studies on the gramicidin A transmembrane channel in lipid micelles and liposomes

The interaction of gramicidin A with lysolecithin micelles and with lecithin liposomes is demonstrated by circular dichroism to result in several metastable conformational states. A stable state can be obtained after extensive heating when the gramicidin A was added dry or in ethanol solution to the phospholipid dispersion but the stable state is readily obtained when gramicidin A is added in a trifluoroethanol solution. The circular dichroism of the stable conformational state is characterized by negative ellipticity below 205 nm and principally by a positive 220 nm band on which is superposed a weak 230 nm band (the latter likely arising from tryptophan side chains). The stable conformational state is considered to be that of the functional transmembrane channel primarily on the basis of extensive studies on its interaction with sodium ions.     

Evolutionary conservation and disease gene association of the human genes composing pseudogenes

Pseudogenes, the 'genomic fossils' present portrayal of evolutionary history of human genome. The human genes configuring pseudogenes are also now coming forth as important resources in the study of human protein evolution. In this communication, we explored evolutionary conservation of the genes forming pseudogenes over the genes lacking any pseudogene and delving deeper, we probed an evolutionary rate difference between the disease genes in the two groups. We illustrated this differential evolutionary pattern by gene expressivity, number of regulatory miRNA targeting per gene, abundance of protein complex forming genes and lesser percentage of protein intrinsic disorderness. Furthermore, pseudogenes are observed to harbor sequence variations, over their entirety, those become degenerative disease-causing mutations though the disease involvement of their progenitors is still unexplored. Here, we unveiled an immense association of disease genes in the genes casting pseudogenes in human. We interpreted the issue by disease associated miRNA targeting, genes containing polymorphisms in miRNA target sites, abundance of genes having disease causing non-synonymous mutations, disease gene specific network properties, presence of genes having repeat regions, affluence of dosage sensitive genes and the presence of intrinsically unstructured protein regions.     

Genetics of lactose utilization in lactic acid bacteria

Abstract: Lactose utilization is the primary function of lactic acid bacteria used in industrial dairy fermentations. The mechanism by which lactose is transported determines largely the pathway for the hydrolysis of the internalized disaccharide and the fate of the glucose and galactose moieties. Biochemical and genetic studies have indicated that lactose can be transported via phosphotransferase systems, transport systems dependent on ATP binding cassette proteins, or secondary transport systems including proton symport and lactose-galactose antiport systems. The genetic determinants for the group translocation and secondary transport systems have been identified in lactic acid bacteria and are reviewed here. In many cases the lactose genes are organized into operons or operon-like structures with a modular organization, in which the genes encoding lactose transport are tightly linked to those for lactose hydrolysis. In addition, in some cases the genes involved in the galactose metabolism are linked to or co-transcribed with the lactose genes, suggesting a common evolutionary pathway. The lactose genes show characteristic configurations and very high sequence identity in some phylogenetically distant lactic acid bacteria such as Leuconostoc and Lactobacillus or Lactococcus and Lactobacillus . The significance of these results for the adaptation of lactic acid bacteria to the industrial milk environment in which lactose is the sole energy source is discussed.     

Operon structure of flagellar genes in Salmonella typhimurium

Summary In Salmonella typhimurium, more than 40 genes have been shown to be involved in flagellar formation and function and almost all of them have been assigned to three regions of the chromosome, termed region I, region II, and region III. In the present study, a large number of transposon-insertion mutants in these flagellar genes were isolated using Tn10 and Mud1. The flaV gene was found to be a strong hot spot for Tn10 insertion. Complementation analysis of the polarity effects exerted by the transposon-insertion mutants defined 13 different flagellar operons; 3 in region I, 4 in region II, and 6 in region III. These results are compared with the reported arrangement of the corresponding genes in Escherichia coli.     

The time-related subcellular distribution of chromium in the rat liver cell after intravenous administration of Na2 51CrO4

After intravenous administration of Na₂ ⁵¹CrO₄ to rats the subcellular distribution of⁵¹Cr was determined at different time intervals after dosage. A time-related compartment shift from the cytosol into the mitochondrial and nuclear fractions was demonstrated. Dialysis studies indicated a firmer binding of⁵¹Cr to the mitochondrial and nuclear fractions than to the cytosol. Indirect evidence is presented that reduction from CrVI to CrIII takes place primarily inside the mitochondria. The hypothesis is put forward that reduction from Cr^VI to Cr^III may take place at any intracellular site where electron donors are available. Electron donors in the different intracellular organelles are discussed.     

Exploring the molecular mechanism of acute heat stress exposure in broiler chickens using gene expression profiling

The process of heat regulation is complex and its exact molecular mechanism is not fully understood. In this study, to investigate the global gene regulation response to acute heat exposure, gene microarrays were exploited to analyze the effects of heat stress on three tissues (brain, liver, leg muscle) of the yellow broiler chicken (Gallus gallus). We detected 166 differentially expressed genes (DEGs) in the brain, 219 in the leg muscle and 317 in the liver. Six of these genes were differentially expressed in all three tissues and were validated by qRT-PCR, and included heat shock protein genes (HSPH1, HSP25), apoptosis-related genes (RB1CC1, BAG3), a cell proliferation and differentiation-related gene (ID1) and the hunger and energy metabolism related gene (PDK). All these genes might be important factors in chickens suffering from heat stress. We constructed gene co-expression networks using the DEGs of the brain, leg muscle and liver and two, four and two gene co-expression modules were identified in these tissues, respectively. Functional enrichment of these gene modules revealed that various functional clusters were related to the effects of heat stress, including those for cytoskeleton, extracellular space, ion binding and energy metabolism. We concluded that these genes and functional clusters might be important factors in chickens under acute heat stress. Further in-depth research on the newly discovered heat-related genes and functional clusters is required to fully understand their molecular functions in thermoregulation.     

Identifying pathways affected by cancer mutations

Mutations in 15 cancers, sourced from the COSMIC Whole Genomes database, and 297 human pathways, arranged into pathway groups based on the processes they orchestrate, and sourced from the KEGG pathway database, have together been used to identify pathways affected by cancer mutations. Genes studied in ≥ 15, and mutated in ≥ 10 samples of a cancer have been considered recurrently mutated, and pathways with recurrently mutated genes have been considered affected in the cancer. Novel doughnut plots have been presented which enable visualization of the extent to which pathways and genes, in each pathway group, are targeted, in each cancer. The ‘organismal systems’ pathway group (including organism-level pathways; e.g., nervous system) is the most targeted, more than even the well-recognized signal transduction, cell-cycle and apoptosis, and DNA repair pathway groups. The important, yet poorly-recognized, role played by the group merits attention. Pathways affected in ≥ 7 cancers yielded insights into processes affected.     

湿地松木质部和针叶松脂合成基因分析

为挖掘湿地松(Pinus elliottii)松脂合成相关的基因,对不同采脂期的木质部和针叶进行高通量转录组测序,与火炬松(Pinus taeda)参考基因组进行比对,共获得了68 211条unigenes,546 356 450条clean reads,平均比对率达90.21%。将不同时期木质部、木质部与针叶间进行两两对比,以P＜0.05,|log₂FoldChange|＞1.0为标准来筛选差异基因,并进行GO和KEGG富集分析。结果表明,参与萜类物质合成的差异基因有133个,其中大部分富集在MEP途径,从差异基因中挑选8个产脂相关的候选基因进行RT-qPCR验证,确定HMGR、DXS、TPS、ABC转运蛋白基因与产脂存在关联性。通过转录组测序与分析,挖掘出133个参与松脂萜类物质合成相关的差异基因,其中萜烯合酶基因(TPS)和ABC转运基因在正调控萜类物质合成中发挥关键作用。     

Survival of transgenic mouse embryos carrying different genetic constructs

The survival of transgenic mouse embryos was studied as a function of the transgene structure. The data obtained indicate that the introduction of a chromosomal DNA fragment providing for the anchoring of interphase chromosomes on the nuclear envelope increases the efficiency of transgenesis in mice threefold due to their increased viability.     

可诱导共刺激分子在BXSB狼疮小鼠肾脏中的表达

目的 观察可诱导共刺激分子(ICOS)在BXSB狼疮小鼠肾脏中的表达,探讨ICOS在狼疮肾炎发病机制中的潜在作用.方法 选取8周龄及16周龄雄性BXSB小鼠各6只,并以8周龄C57BL/6雄性小鼠6只为正常对照,用免疫组织化学及实时荧光定量PCR方法,检测ICOS在小鼠肾脏中的表达水平.结果 正常对照组C57BL/6小鼠肾组织ICOS染色少许肾小管细胞呈浅棕色;8周龄及16周龄BXSB小鼠肾脏组织ICOS强阳性表达,细胞呈深棕色着色,分布于肾小管.8、16周龄BXSB组小鼠肾组织内ICOS mRNA表达水平[(6.43±0.92),(9.48±1.30)]均较正常对照组(4.58±0.63)增加,差异有统计学意义(均P＜0.01);16周龄BXSB组小鼠的ICOS mRNA表达水平较8周龄BXSB组增加,差异有统计学意义(P＜0.05).结论 肾组织ICOS的分布及表达增加可能是BXSB小鼠狼疮肾炎发病的重要机制之一.     

Influence of cadmium on the distribution of the essential trace elements zinc and copper in the liver and kidneys of rats

Cd induced changes of Zn and Cd distribution in the liver and kidneys were studied in relation to Cd metallothionein (MT) synthesis. Wistar male rats were given CdCl₂ by sc injection of .8, 1.5, and 3.0 mg Cd/kg three times a week for three weeks. Cd levels of liver and kidneys increased with the increment of Cd dosage and 80–90% of Cd was found in the cytosol. The MT fractions contained 80–89% cytosolic Cd in the liver and 55–75% Cd in the kidneys. Zn concentrations in the liver increased following Cd administration, But Zn in the kidneys showed only slight increase. There was a distinct decrease of Cu concentration in the liver of the 3.0 mg group. In contrast, Cu concentrations in the kidneys increased about three times in the .8 and 1.5 mg Cd groups, but Cu in the 3.0 mg group showed only 1.5 times increase. The changes of these metal concentrations were observed mainly in the cytosol. Non-MT-Cd in the kidneys was maximum in the 1.5 mg group, but the 3.0 mg group showed significant decrease. In parallel with this decrease of Cd, Cu and Zn in the kidneys showed similar decrease. When the kidneys are injured, Zn and Cu appear to leak from this organ.