Biofuels and bio-based chemicals from lignocellulose: metabolic engineering strategies in strain development

Interest in developing a sustainable technology for fuels and chemicals has unleashed tremendous creativity in metabolic engineering for strain development over the last few years. This is driven by the exceptionally recalcitrant substrate, lignocellulose, and the necessity to keep the costs down for commodity products. Traditional methods of gene expression and evolutionary engineering are more effectively used with the help of synthetic biology and -omics techniques. Compared to the last biomass research peak during the 1980s oil crisis, a more diverse range of microorganisms are being engineered for a greater variety of products, reflecting the broad applicability and effectiveness of today’s gene technology. We review here several prominent and successful metabolic engineering strategies with emphasis on the following four areas: xylose catabolism, inhibitor tolerance, synthetic microbial consortium, and cellulosic oligomer assimilation.     

Understanding super-enhancers

正Super-enhancers are defined as cluster of enhancers with dense TF binding,which can activate proximal cell-identity gene expression.Here we review the identification,functional significance of super-enhancers,and their relationships with cancer.With the current intense interests in super-enhancers,more super-enhancers will be defined and     

Lithium Dendrites Inhibition via Diffusion Enhancement

The dendritic structure is a disastrous problem of lithium metal batteries as well as other metal rechargeable batteries. The dendritic structures are usually caused by diffusion limitation. Here, a novel strategy is reported to inhibit lithium dendrites based on the understanding of their formation mechanism. An alternating current field perpendicular to the anode is set up, which promotes Li⁺ movement along the anode surface and prevents ions' deposition on the tips from forming dendrites. Furthermore, an external direct current field parallel to the current is employed, which accelerates the transport of Li⁺ in electrolytes to mitigate the concentration gradient nearby the anode and thus inhibits the formation of dendritic structures. A simultaneous employment of these two fields gains five times increase of the lifespan of batteries at the high charging current density of 2 mA cm^?2, confirming the effectiveness of this strategy in protecting the metal anode and inhibiting lithium dendrites. This strategy may have a wide feasibility since it does not change the materials and structures of batteries.     

Identification of new dual FABP4/5 inhibitors based on a naphthalene-1-sulfonamide FABP4 inhibitor

Fatty acid binding protein 4 (FABP4) and fatty acid binding protein 5 (FABP5) are mainly expressed in adipocytes and/or macrophages and play essential roles in energy metabolism and inflammation. When FABP4 function is diminished, FABP5 expression is highly increased possibly as a functional compensation. Dual FABP4/5 inhibitors are expected to provide beneficial synergistic effect on treating diabetes, atherosclerosis, and inflammation-related diseases. Starting from our previously reported selective FABP4 inhibitor 8, structural biology information was used to modulate the selectivity profile and to design potent dual FABP4/5 inhibitors with good selectivity against FABP3. Two compounds A16 and B8 were identified to show inhibitory activities against both FABP4/5 and good selectivity over FABP3, which could also reduce the level of forskolin-stimulated lipolysis in mature 3T3-L1 adipocytes. Compared with compound 8, these two compounds exhibited better anti-inflammatory effects in lipopolysaccharide-stimulated RAW264.7 murine macrophages, with decreased levels of pro-inflammatory cytokines TNFα and MCP-1 and apparently inhibited IKK/NF-κB pathway.     

中国圈养林麝微卫星DNA多样性研究

本文利用13对微卫星标记,对我国3个核心种源地（巴山、秦岭、川西高原）圈养林麝种群进行遗传多样性和遗传结构分析。在167份样品中共检测到142个等位基因（Na）,每个位点等位基因数介于7~16,均值为10.92,平均有效等位基因数（Ne）为6.3730,期望杂合度（He）和观测杂合度（Ho）均值分别为0.8302和0.3897。这些圈养林麝种群遗传多样性水平较高,但较低的观测杂合度表明圈养群体存在近交现象。两两群体间的Fst 值和AMOVA分析结果均表明种群之间分化程度不明显。群体遗传结构分析显示,全部样本聚为3个遗传簇（最佳K值=3）,其主体与3个地理来源相符,但种群间存在基因渗透现象。本研究中的秦岭种群遗传变异最为丰富,可以作为种质改良的基因池。     

人工油松林中不同植物叶片非结构性碳水化合物含量对氮添加的响应

全球氮沉降通过影响树木叶片的生理过程影响森林生态系统的结构与组成,但目前关于氮沉降对森林生态系统中不同植物叶片非结构性碳水化合物(NSC)含量的影响还不十分清楚.本研究选取黄土丘陵区人工油松林中油松、辽东栎、忍冬、绣线菊、黄刺玫、茜草、披针苔草7种主要高等植物,比较了3年氮添加(0、3、6、9 g N·m^-2·a^-1,分别用N₀、N₃、N₆、N₉表示)对7种植物叶片中NSC的影响.结果表明: 不同植物叶片可溶性糖、淀粉含量变异很大,二者变异最高的均为黄刺玫,最低的分别为绣线菊和披针苔草;不同植物可溶性糖、淀粉对氮添加的响应存在明显差异.N₆处理下茜草的可溶性糖和淀粉的变异高于其他物种,N₃和N₉处理下绣线菊的变异高于其他物种,可溶性糖和淀粉含量变异最小的物种在不同氮添加水平下不同.随着氮添加水平的增加,油松和披针苔草的可溶性糖含量持续升高,绣线菊持续降低,辽东栎、忍冬和黄刺玫的可溶性糖含量先降低后增加,在N₆处理达到最小,而茜草的可溶性糖含量呈现较复杂的变化趋势.氮添加对植物叶片中淀粉含量的影响表现为油松、忍冬和披针苔草的淀粉含量持续增加,绣线菊先降低后增加,在N₃处理达到最小,而黄刺玫和茜草则呈现较复杂的变化趋势,辽东栎淀粉含量变化趋势平缓.在氮添加后,土壤pH、有机碳、全氮、全磷与植物叶片NSC含量无相关关系,仅N₀和N₃水平下上述土壤理化指标会显著影响可溶性糖/淀粉.表明林地不同植物叶片中NSC含量对氮添加的响应明显不同,研究全球氮沉降或氮添加对林地生态系统的影响需要考虑不同植物,尤其不同生活型植物的不同响应.     

Development of high‐resolution DNA barcodes for Dioscorea species discrimination and phylogenetic analysis

The genus Dioscorea is widely distributed in tropical and subtropical regions, and is economically important in terms of food supply and pharmaceutical applications. However, DNA barcodes are relatively unsuccessful in discriminating between Dioscorea species, with the highest discrimination rate (23.26%) derived from matK sequences. In this study, we compared genic and intergenic regions of three Dioscorea chloroplast genomes and found that the density of SNPs and indels in intergenic sites was about twice and seven times higher than that of SNPs and indels in the genic regions, respectively. A total of 52 primer pairs covering highly variable regions were designed and seven pairs of primers had 80%–100% PCR success rate. PCR amplicons of 73 Dioscorea individuals and assembled sequences of 47 Dioscorea SRAs were used for estimating intraspecific and interspecific divergence for the seven loci: The rpoB‐trnC locus had the highest interspecific divergence. Automatic barcoding gap discovery (ABGD), Poisson tree processes (PTP), and generalized mixed Yule coalescence (GMYC) analysis were applied for species delimitation based on the seven loci and successfully identified the majority of species, except for species in the Enantiophyllum section. Phylogenetic analysis of 51 Dioscorea individuals (28 species) showed that most individuals belonging to the same species tended to cluster in the same group. Our results suggest that the variable loci derived from comparative analysis of plastid genome sequences could be good DNA barcode candidates for taxonomic analysis and species delimitation.     

发根农杆菌转化怀地黄再生植株

利用发根农杆菌15834菌株感染怀地黄组培苗子叶、叶柄和茎切段,建立了有效的毛状根培养及其植株再生体系。毛状根可直接从受伤的外植体产生,能在无外源激素的1/2MS固体和液体培养基上自主生长,表现出典型的发根特征。用100μmol/L乙酰丁香酮处理对数生长期的农杆菌菌液感染子叶获得了46.7%的最高转化频率;在附加0.2mg/L KT和3.0mg/L 6/BA的1/2 MS培养基上,毛状根能100%形成愈伤组织,51.49%分化出芽;分化芽在1/2 MS培养基上100%生根,形成具有矮化、节间短和根系发达等特征的转化再生植株且移栽后生长旺盛;1个转化毛状根克隆的梓醇含量为0.557mg/g,是鲜地黄梓醇含量的48.5%,是生地鲜重梓醇含量的18%。rolB基因PCR、Southem blot分析、冠瘿碱纸电泳和RT-PCR扩增检测证明农杆菌Ri质粒上的T-DNA整合到怀地黄基因组中并表达。     

High performance liquid chromatographic determination of 1,2-[bis(1,2-benzisoselenazolone-3(2H)-ketone)]-ethane (BBSKE), a novel organoselenium compound, in dog plasma using pre-column derivatization and its application in pharmacokinetic study

A novel HPLC-UV method with pre-column derivatization by using 2-mercaptoethanol was established for determination of 1,2-[bis(1,2-benzisoselenazolone-3(2H)-ketone)]-ethane (BBSKE) in dog plasma. The derivatives were identified by mass spectrometry. The method had a good linear range of 0.05-2 microg/ml (r(2)=0.9995). The lower limit of quantification (LOQ) was 0.05 microg/ml. The precision and accuracy were less than 7%. After dosing of BBSKE (30 mg/kg, p.o. and 0.79 mg/kg, i.v.) in dogs, AUC(0-t) were 5.72+/-2.42 and 1.35+/-0.41 microg h/ml; t(1/2) were 4.6+/-2.1 and 1.7+/-0.6h, respectively. The method was successfully applied to the pharmacokinetic study in dogs.     

矮化香蕉及其野生型GA3ox基因的结构特点和表达分析

香蕉的矮化突变是香蕉无性繁殖后代最常见的表型变异之一,但其变异的分子调控机理目前尚未研究清楚; 而内源赤霉素是影响植物株高的重要激素之一,GA3-氧化酶是赤霉素生物合成后期的关键酶。为探究GA3-氧化酶编码基因对香蕉矮化的分子调控机理,该研究以威廉斯B6矮化突变体及其野生型亲本为材料,通过RT-PCR技术克隆得到矮化香蕉及其野生型亲本GA3ox基因的全长cDNA序列,并对其推测的氨基酸序列进行比对分析,同时利用qRT-PCR技术对GA3ox基因在不同组织中的表达水平差异进行分析。结果表明:(1)矮化香蕉GA3ox-A和野生型香蕉GA3ox-G的ORF长度均为864 bp,均编码287个氨基酸,经序列比对分析发现两条氨基酸序列之间存在5个位点的差异,从而产生具有不同性质的蛋白质。(2)氨基酸序列同源性分析表明,矮化香蕉GA3ox的氨基酸序列与油棕、海枣、椰子的同源性最高。(3)qRT-PCR显示,GA3ox基因在矮化香蕉叶片和茎秆中的表达水平整体上低于野生型,其中GA3ox在野生型茎秆中的表达水平是矮化植株的2.2～32倍。综上推测,GA3ox基因可能对香蕉茎杆的矮化变异具有重要的调控作用。该研究结果为揭示香蕉矮化突变的分子机制与筛选优良矮化香蕉株系奠定了基础。