球等鞭金藻中Δ5去饱和酶基因的克隆与功能鉴定

球等鞭金藻(Isochrysis galbana)是一类单细胞海洋微藻,富含二十二碳六烯酸(DHA,22:6Δ4,7,10,13,16,19)。我们利用RACE的方法从球等鞭金藻cDNA文库中同源克隆到一个大小为1329 bp的cDNA片段,编码442个氨基酸的多肽,分子量约49.9 kD。生物信息学分析表明,其编码产物N端具有细胞色素b5结构域,以及与电子传递有关的三个富含组氨酸的结构域,与Pavlova salinaΔ5去饱和酶同源性最高,达56%,故将该基因命名为IgD5。酿酒酵母功能鉴定实验表明,其编码的蛋白质具有Δ5去饱和酶活性,能够将二高-γ-亚麻酸(DGLA,20:3Δ8,11,14)转化成花生四烯酸(AA,20:4Δ5,8,11,14),转化效率平均为34.6%,最高可达40.3%。     

微生物细胞工厂中多基因表达的控制策略

微生物代谢工程和合成生物学是当今微生物技术领域研究的热点,微生物的生长速度快、容易进行大规模培养;遗传背景清楚、遗传操作简便可靠等性质使其在与人类生活相关的多个领域中起到重要的作用。微生物细胞工厂是指人工设计的能够进行物质生产的微生物代谢体系。许多微生物细胞工厂的构建由于引入多个基因或整条代谢途径,而可能导致代谢失衡、部分代谢中间产物积累等问题,需要使用一定的调控策略加以控制。以下对涉及多个基因作用的微生物细胞工厂中所使用的调控策略,分为若干层次进行了总结和探讨,并对今后多基因控制策略的发展方向进行了预测与展望。     

同源过表达fnr、pncB和fdhF对克雷伯菌产氢代谢的影响

利用代谢工程手段改造克雷伯菌Klebsiella sp.HQ-3产氢途径中相关代谢调控因子及辅酶因子,以构建高效产氢工程菌。利用简并引物,以Klebsiella sp.总DNA为模板,克隆了甲酸-氢裂解酶系统的全局转录调控因子(FNR)fnr基因、编码甲酸脱氢酶(FDH-H)fdhF基因,以及NADH途径中编码烟酸转磷酸核糖激酶(NAPRTase)的pncB基因,构建了3种同源过表达重组菌株HQ-3-fnr、HQ-3-fdhF和HQ-3-pncB,以研究同源过表达产氢代谢调控因子及辅酶因子对克雷伯菌累积产氢、细胞生长、代谢终产物的影响。结果表明,过表达fnr、pncB和fdhF基因的克雷伯工程菌的产氢效率比携带空载体的克雷伯对照菌株分别提高12.26%、11.62%和7.28%;重组菌HQ-3-fnr、HQ-3-fdhF和HQ-3-pncB的葡萄糖利用率较克雷伯对照菌株HQ-3-C明显增加,过表达fnr、fdhF基因使代谢合成甲酸量增多;过表达pncB基因能促进NADH合成,使更多的NADH流入消耗NADH较多的乙醇与琥珀酸代谢路径,使得乙醇和琥珀酸含量增加,而乳酸含量降低。     

Characterization of HSCD5, a novel human stearoyl-CoA desaturase unique to primates

Stearoyl-CoA desaturase (SCD) is an integral membrane protein of the endoplasmic reticulum (ER) that catalyzes the formation of monounsaturated fatty acids from saturated fatty acids. Recent studies suggest that SCD is a key regulator of energy metabolism and has implications in dislipidemia and obesity. Four SCD isoforms (SCD1-4) have been identified in mouse. In human, only one SCD isoform has been characterized so far. Here we report that the previously reported human ACOD4 gene encodes a distinct stearoyl-CoA desaturase, hSCD5. GenBank database mining revealed orthologues of hSCD5 in the primates, but not in the rodents. In transiently transfected 293 cells, hSCD5 co-localized with calnexin on ER membrane. Microsome fractions prepared from hSCD1 and hSCD5 transfected cells displayed similar delta 9 desaturase activity. Quantitative real-time RT-PCR analysis suggested that hSCD5 was abundantly expressed in adult brain and pancreas. These data suggested that hSCD5 plays a role distinct from that of hSCD1 during development and in normal physiological conditions.     

Expression of a ULK1/2 binding-deficient ATG13 variant can partially restore autophagic activity in ATG13-deficient cells

Autophagy describes an intracellular process responsible for the lysosome-dependent degradation of cytosolic components. The ULK1/2 complex comprising the kinase ULK1/2 and the accessory proteins ATG13, RB1CC1, and ATG101 has been identified as a central player in the autophagy network, and it represents the main entry point for autophagy-regulating kinases such as MTOR and AMPK. It is generally accepted that the ULK1 complex is constitutively assembled independent of nutrient supply. Here we report the characterization of the ATG13 region required for the binding of ULK1/2. This binding site is established by an extremely short peptide motif at the C terminus of ATG13. This motif is mandatory for the recruitment of ULK1 into the autophagy-initiating high-molecular mass complex. Expression of a ULK1/2 binding-deficient ATG13 variant in ATG13-deficient cells resulted in diminished but not completely abolished autophagic activity. Collectively, we propose that autophagy can be executed by mechanisms that are dependent or independent of the ULK1/2-ATG13 interaction.     

Systematic analysis of ATG13 domain requirements for autophagy induction

Macroautophagy/autophagy is an evolutionarily conserved cellular process whose induction is regulated by the ULK1 protein kinase complex. The subunit ATG13 functions as an adaptor protein by recruiting ULK1, RB1CC1 and ATG101 to a core ULK1 complex. Furthermore, ATG13 directly binds both phospholipids and members of the Atg8 family. The central involvement of ATG13 in complex formation makes it an attractive target for autophagy regulation. Here, we analyzed known interactions of ATG13 with proteins and lipids for their potential modulation of ULK1 complex formation and autophagy induction. Targeting the ATG101-ATG13 interaction showed the strongest autophagy-inhibitory effect, whereas the inhibition of binding to ULK1 or RB1CC1 had only minor effects, emphasizing that mutations interfering with ULK1 complex assembly do not necessarily result in a blockade of autophagy. Furthermore, inhibition of ATG13 binding to phospholipids or Atg8 proteins had only mild effects on autophagy. Generally, the observed phenotypes were more severe when autophagy was induced by MTORC1/2 inhibition compared to amino acid starvation. Collectively, these data establish the interaction between ATG13 and ATG101 as a promising target in disease-settings where the inhibition of autophagy is desired.     

ATG13

During the past 20 years, autophagy signaling has entered the main stage of the cell biological theater. Autophagy represents an intracellular degradation process that is involved in both the bulk recycling of cytoplasmic components and the selective removal of organelles, protein aggregates, or intracellular pathogens. The understanding of autophagy has been greatly facilitated by the characterization of the molecular machinery governing this process. In yeast, initiation of autophagy is controlled by the Atg1 kinase complex, which is composed of the Ser/Thr kinase Atg1, the adaptor protein Atg13, and the ternary complex of Atg17-Atg31-Atg29. In vertebrates, the orthologous ULK1 kinase complex contains the Ser/Thr kinase ULK1 and the accessory proteins ATG13, RB1CC1, and ATG101. Among these components, Atg1/ULK1 have gained major attention in the past, i.e., for the identification of upstream regulatory kinases, the characterization of downstream substrates controlling the autophagic flux, or as a druggable target for the modulation of autophagy. However, accumulating data indicate that the function of Atg13/ATG13 has been likely underestimated so far. In addition to ensuring proper Atg1/ULK1 recruitment and activity, this adaptor molecule has been implicated in ULK1-independent autophagy processes. Furthermore, recent data have identified additional binding partners of Atg13/ATG13 besides the components of the Atg1/ULK1 complex, e.g., Atg8 family proteins or acidic phospholipids. Therefore, in this review we will center the spotlight on Atg13/ATG13 and summarize the role that Atg13/ATG13 assumes in the autophagy stage play.     

ATG13: Just a companion,or an executor of the autophagic program?

During the past 20 years, autophagy signaling has entered the main stage of the cell biological theater. Autophagy represents an intracellular degradation process that is involved in both the bulk recycling of cytoplasmic components and the selective removal of organelles, protein aggregates, or intracellular pathogens. The understanding of autophagy has been greatly facilitated by the characterization of the molecular machinery governing this process. In yeast, initiation of autophagy is controlled by the Atg1 kinase complex, which is composed of the Ser/Thr kinase Atg1, the adaptor protein Atg13, and the ternary complex of Atg17-Atg31-Atg29. In vertebrates, the orthologous ULK1 kinase complex contains the Ser/Thr kinase ULK1 and the accessory proteins ATG13, RB1CC1, and ATG101. Among these components, Atg1/ULK1 have gained major attention in the past, i.e., for the identification of upstream regulatory kinases, the characterization of downstream substrates controlling the autophagic flux, or as a druggable target for the modulation of autophagy. However, accumulating data indicate that the function of Atg13/ATG13 has been likely underestimated so far. In addition to ensuring proper Atg1/ULK1 recruitment and activity, this adaptor molecule has been implicated in ULK1-independent autophagy processes. Furthermore, recent data have identified additional binding partners of Atg13/ATG13 besides the components of the Atg1/ULK1 complex, e.g., Atg8 family proteins or acidic phospholipids. Therefore, in this review we will center the spotlight on Atg13/ATG13 and summarize the role that Atg13/ATG13 assumes in the autophagy stage play.     

Optimized cultivation of highly-efficient degradation bacterial strains and their degradation ability towards pyrene

Two bacterial strains,Pyl and Py4,have been tamed and isolated through long cultivation with polycyclic aromatic hydrocarbon-pyrene as the single carbon source.It has been proven that they are both highly-efficient pyrene degrading bacteria and both Bacillus sp..The pyrene degradation ability of separated Pyl,Py4 and the consortium of equal Pyl and Py4 was studied in this project.It is shown that pyrene degradation rates were 88% in 10hr by Py1,84% in 14hr by Py4,and 88% in 8hr by the consortium.It was also determined that the best degradation temperatures were 37℃ and pH 7.0 respectively.The influence of different nutrient substrates added in the degradation experiments was also studied.It was shown that sodium salicylate,sodium acetate and yeast exuact had obvious simulative effect,but glucose had no obvious effect.     

Signatures of selection and sex-specific expression variation of a novel duplicate during the evolution of the Drosophila desaturase gene family

The tempo and mode of evolution of loci with a large effect on adaptation and reproductive isolation will influence the rate of evolutionary divergence and speciation. Desaturase loci are involved in key biochemical changes in long-chain fatty acids. In insects, these have been shown to influence adaptation to starvation or desiccation resistance and in some cases act as important pheromones. The desaturase gene family of Drosophila is known to have evolved by gene duplication and diversification, and at least one locus shows rapid evolution of sex-specific expression variation. Here, we examine the evolution of the gene family in species representing the Drosophila phylogeny. We find that the family includes more loci than have been previously described. Most are represented as single-copy loci, but we also find additional examples of duplications in loci which influence pheromone blends. Most loci show patterns of variation associated with purifying selection, but there are strong signatures of diversifying selection in new duplicates. In the case of a new duplicate of desat1 in the obscura group species, we show that strong selection on the coding sequence is associated with the evolution of sex-specific expression variation. It seems likely that both sexual selection and ecological adaptation have influenced the evolution of this gene family in Drosophila.     

Interspecies homology of nodule development genes in Rhizobium and Bradyrhizobium spp.

Abstract DNA fragments representatives of ndv A and ndv B have been used as probes against genomic DNAs from different Rhizobium and Bradyrhizobium species. ndv A and ndv B homologues were found in all species, indicating extensive conservation of these genes. All Rhizobium species show chromosomal localization of ndv A and ndv B homologues.     

用荧光原位杂交技术构建高分辨率的DNA物理图谱

用荧光原位杂交技术构建高分辨率的ＤＮＡ物理图谱钟筱波ＰａｕｌＦ．ＦｒａｎｓｚＪ．ＨａｎｓｄｅＪｏｎｇＰｉｍＺａｂｅｌ（荷兰瓦赫宁根农业大学分子生物学系）ＨｉｇｈＲｅｓｏｌｕｔｉｏｎＰｈｙｓｉｃａｌＭａｐｐｉｎｇｂｙＦｌｕｏｒｅｓｃｅｎｃｅｉｎｓｉｔｕ...     

花群珊瑚对两种微藻的摄食

以花群珊瑚为材料,采用碳清除率测定、PCR分子营养标记和组织学观察的方法,研究花群珊瑚是否摄食亚心形扁藻和球等鞭金藻.结果 表明:花群珊瑚对球等鞭金藻的碳清除率显著高于亚心形扁藻,分别为0.44和0.11 pg·mL-1·polyp-1·h-1.球等鞭金藻烯酰基载体蛋白还原酶基因片段作为分子标记在投喂组珊瑚组织中可扩增...