Immunogens Modeling a Fusion-Intermediate Conformation of gp41 Elicit Antibodies to the Membrane Proximal External Region of the HIV Envelope Glycoprotein

The membrane proximal external region (MPER) of the gp41 subunit of the HIV-1 envelope glycoprotein (Env) contains determinants for broadly neutralizing antibodies and has remained an important focus of vaccine design. However, creating an immunogen that elicits broadly neutralizing antibodies to this region has proven difficult in part due to the relative inaccessibility of the MPER in the native conformation of Env. Here, we describe the antigenicity and immunogenicity of a panel of oligomeric gp41 immunogens designed to model a fusion-intermediate conformation of Env in order to enhance MPER exposure in a relevant conformation. The immunogens contain segments of the gp41 N- and C-heptad repeats to mimic a trapped intermediate, followed by the MPER, with variations that include different N-heptad lengths, insertion of extra epitopes, and varying C-termini. These well-characterized immunogens were evaluated in two different immunization protocols involving gp41 and gp140 proteins, gp41 and gp160 DNA primes, and different immunization schedules and adjuvants. We found that the immunogens designed to reduce extension of helical structure into the MPER elicited the highest MPER antibody binding titers, but these antibodies lacked neutralizing activity. The gp41 protein immunogens also elicited higher MPER titers than the gp140 protein immunogen. In prime-boost studies, the best MPER responses were seen in the groups that received DNA priming with gp41 vectors followed by gp41 protein boosts. Finally, although titers to the entire protein immunogen were similar in the two immunization protocols, MPER-specific titers differed, suggesting that the immunization route, schedule, dose, or adjuvant may differentially influence MPER immunogenicity. These findings inform the design of future MPER immunogens and immunization protocols.     

Metagenomic analysis for the microbial consortium of anaerobic CO oxidizers

Metagenomics analysis has been applied to identify the dominant anaerobic microbial consortium of the carbon monoxide (CO) oxidizers in anaerobic sludge. Reads from the hypervariable V6 region in the bacterial 16s rDNA were aligned and finally clustered into operational taxonomic units (OTUs). The OTUs from different stages in anaerobic CO condition were classified. Alphaproteobacteria, clostridia, betaproteobacteria and actinobacteria were the most abundant groups, while alphaproteobacteria, betaproteobacteria and actinobacteria were variable groups. CO consumption and production efficiency of the microbial consortium were studied. Semi-continuous trials showed that these anaerobic CO oxidizers formed a stable microbial community, and the CO conversion rate was at over 84%, with the highest CO consumption activity of 28.9 mmol CO/g VSS●day and methane production activity at 7.6 mmol CH₄/g VSS●day during six cycles.     

Molecular phylogenetic relationships of China Seas groupers based on cytochrome <Emphasis Type="Italic">b</Emphasis> gene fragment sequences

The classification and evolutionary relationships are important issues in the study of the groupers. Cytochrome b gene fragment of twenty-eight grouper species within six genera of subfamily Epinephelinae was amplified using PCR techniques and the sequences were analyzed to derive the phylogenetic relationships of the groupers from the China Seas. Genetic information indexes, including Kimura-2 parameter genetic distance and T _S/T _V ratios, were generated by using a variety of biology softwares. With Niphon spinosus, Pagrus major and Pagrus auriga as the designated outgroups, phylogenetic trees, which invoke additional homologous sequences of other Epinephelus fishes from GenBank, were constructed based on the neighbor-joining (NJ), maximum-parsimony (MP), maximum-likelihood (ML) and minimum-evolution (ME) methods. Several conclusions were drawn from the DNA sequences analysis: (1) genus Plectropomus, which was early diverged, is the most primitive group in the subfamily Epinephelinae; (2) genus Variola is more closely related to genus Cephalopolis than the other four genera; (3) genus Cephalopolis is a monophyletic group and more primitive than genus Epinephelus; (4) Promicrops lanceolatus and Cromileptes altivelis should be included in genus Epinephelus; (5) there exist two sister groups in genus Epinephelus.     

虎源H5N1亚型高致病性禽流感病毒人工感染家猫的病理学研究

经SPF鸡胚增殖的虎源高致病性禽流感病毒A/Tiger/Harbin/01/2002(H5N1)株,其对MDCK细胞的TCID50为10-7.36/0.05 mL,经气管接种途径人工感染家猫,对感染致死的家猫和对照组家猫心、肝、脾、肺、肾、脑等脏器进行组织病理学观察和免疫组织化学染色,同时采集咽拭子和各脏器乳剂上清液进行RT-PCR检测,对耐过家猫与对照组家猫进行HI抗体测定。结果表明:剖检感染的死亡家猫以肺脏的损害最为明显,肺叶上有大片暗红色实变灶,呈多病灶融合性肺损伤。组织学光镜观察,病毒对家猫的损害主要见于肺脏,呈融合性炎性病变,浸润的主要为单核细胞,肺泡腔内可见较多量巨噬细胞浸润及少量蛋白样浆液渗出。免疫组织化学染色发现在支气管上皮细胞、少数肺泡上皮细胞和单核细胞胞浆中可见到该病毒的抗原阳性染色颗粒。RT-PCR检测结果在咽拭子以及肺、肾、心、脑组织中均扩出与理论值一致的464bp核酸条带,耐过家猫血清H5N1亚型流感病毒HI抗体效价为1∶32。     

转基因植物环境安全评价策略

构建完善的转基因植物环境安全评价技术体系是保障转基因生物产业健康发展的重要组成部分。本文综述了转基因植物环境安全评价技术发展历程与趋势,归纳了转基因植物环境安全评价的思路与内容。转基因植物环境安全评价应分为潜在风险分析、风险假设验证、风险特征描述等3个步骤,并采用逐层评价模式;安全评价应贯穿转基因植物新品种研发与产业化全程,包括应用前预测、研发中筛选、推广前评价、推广后监测。此外,基于科学性和个案分析原则,本文对复合性状、非生物胁迫抗性等新型转基因植物环境安全评价策略进行了探讨。     

QTL analysis of cotton fiber length in advanced backcross populations derived from a cross between <Emphasis Type="Italic">Gossypium hirsutum</Emphasis> and <Emphasis Type="Italic">G. mustelinum</Emphasis>

Key message

QTLs for fiber length mapped in three generations of advanced backcross populations derived from crossing Gossypium hirsutum and Gossypium mustelinum showed opportunities to improve elite cottons by introgression from wild relatives.

Abstract

The molecular basis of cotton fiber length in crosses between Gossypium hirsutum and Gossypium mustelinum was dissected using 21 BC₃F₂ and 12 corresponding BC₃F_2:3 and BC₃F_2:4 families. Sixty-five quantitative trait loci (QTLs) were detected by one-way analysis of variance. The QTL numbers detected for upper-half mean length (UHM), fiber uniformity index (UI), and short fiber content (SFC) were 19, 20, and 26 respectively. Twenty-three of the 65 QTLs could be detected at least twice near adjacent markers in the same family or near the same markers across different families/generations, and 32 QTLs were detected in both one-way variance analyses and mixed model-based composite interval mapping. G. mustelinum alleles increased UHM and UI and decreased SFC for five, one, and one QTLs, respectively. In addition to the main-effect QTLs, 17 epistatic QTLs were detected which helped to elucidate the genetic basis of cotton fiber length. Significant among-family genotypic effects were detected at 18, 16, and 16 loci for UHM, UI, and SFC, respectively. Six, two, and two loci showed genotype?×?family interaction for UHM, UI and SFC, respectively, illustrating complexities that might be faced in introgression of exotic germplasm into cultivated cotton. Co-location of many QTLs for UHM, UI, and SFC accounted for correlations among these traits, and selection of these QTLs may improve the three traits simultaneously. The simple sequence repeat (SSR) markers associated with G. mustelinum QTLs will assist breeders in transferring and maintaining valuable traits from this exotic source during cultivar development.

     

OsAGAP, an ARF-GAP from rice, regulates root development mediated by auxin in Arabidopsis

Arf (ADP-ribosylation factor) proteins, which mediate vesicular transport, have little or no intrinsic GTPase activity. They rely on the action of GTPase-activating proteins (GAPs) and guanine nucleotide exchange factors (GEFs) for their function. In the present study the OsAGAP gene in rice, which encoded a protein with predicted structure similar to ArfGAP, was identified. The purified OsAGAP-GST fusion protein was able to stimulate the GTPase activity of rice Arf. Furthermore, OsAGAP can rescue the defect of vesicular transport in the yeast gcs1 delta glo3 delta double-mutant cells. Transgenic Arabidopsis with OsAGAP constitutively expression showed reduced apical dominance, shorter primary roots, increasing number of longer adventitious roots. Many of the phenotypes can be phenocopied by treatment of exogenous indoleacetic acid level (IAA) in wild-type plants. Determination of whole-plant IAA level showed that there is a sharp increase of free IAA in OsAGAP transgenic Arabidopsis seedlings. In addition, removal of the 4-day-old shoot apex could inhibit the adventitious root formation in the transgenic seedlings. These results suggest OsAGAP, an ARF-GAP of rice, maybe involved in the mediation of plant root development by regulating auxin level.     

抗菌免疫核糖核酸组份的分离及其活性测定

<正> 抗菌免疫核糖核酸(iRNA)已用于条件致病菌感染的临床治疗,并对其免疫活性做了全面的研究。现已证实iRNA能够诱导特异性抗体的产生和传递特异性的细胞免疫,并能诱生干扰素和白细胞间素Ⅰ、Ⅱ等淋巴因子和单核因子。但制备的iRNA是含有多种RNA种类的混合物,为明确各组份的免疫学功能,我们对iRNA进行了分离,并测定不同组份的免疫活性。     

Genome-scale dynamic modeling of the competition between Rhodoferax and Geobacter in anoxic subsurface environments

The advent of rapid complete genome sequencing, and the potential to capture this information in genome-scale metabolic models, provide the possibility of comprehensively modeling microbial community interactions. For example, Rhodoferax and Geobacter species are acetate-oxidizing Fe(III)-reducers that compete in anoxic subsurface environments and this competition may have an influence on the in situ bioremediation of uranium-contaminated groundwater. Therefore, genome-scale models of Geobacter sulfurreducens and Rhodoferax ferrireducens were used to evaluate how Geobacter and Rhodoferax species might compete under diverse conditions found in a uranium-contaminated aquifer in Rifle, CO. The model predicted that at the low rates of acetate flux expected under natural conditions at the site, Rhodoferax will outcompete Geobacter as long as sufficient ammonium is available. The model also predicted that when high concentrations of acetate are added during in situ bioremediation, Geobacter species would predominate, consistent with field-scale observations. This can be attributed to the higher expected growth yields of Rhodoferax and the ability of Geobacter to fix nitrogen. The modeling predicted relative proportions of Geobacter and Rhodoferax in geochemically distinct zones of the Rifle site that were comparable to those that were previously documented with molecular techniques. The model also predicted that under nitrogen fixation, higher carbon and electron fluxes would be diverted toward respiration rather than biomass formation in Geobacter, providing a potential explanation for enhanced in situ U(VI) reduction in low-ammonium zones. These results show that genome-scale modeling can be a useful tool for predicting microbial interactions in subsurface environments and shows promise for designing bioremediation strategies.     

基于稳定同位素技术的塔里木河下游不同林龄胡杨的水分利用来源

水分是制约很多陆地生态系统植物生长和繁殖的重要因素, 在干旱地区尤为明显。利用稳定同位素技术探究塔里木河下游不同林龄胡杨(Populus euphratica)的水分来源情况, 了解生态输水背景下荒漠河岸林的水分利用循环与利用策略, 可为生态输水提供科学依据, 同时也可对同类地区的生态恢复提供借鉴。本研究通过测定塔里木河下游胡杨茎干水和各潜在水源(土壤水、地下水)的稳定氢氧同位素值(δD、δ¹⁸O), 应用多源线性混合模型(IsoSource)分析了各潜在水源对不同林龄胡杨的贡献比例, 并结合3种林龄胡杨不同土壤深度含水量的变化, 分析了胡杨的主要吸水层位。结果表明: (1)不同林龄胡杨样地的不同深度区间上的土壤水δ¹⁸O值存在显著差异(P < 0.05): 胡杨幼龄木、成熟木、过熟木木质部δ¹⁸O分别为-7.83 ± 0.07‰、-8.53 ± 0.11‰、-9.36 ± 0.21‰; 而δD值不存在显著差异(P > 0.05)。可据此来推断胡杨的主要吸水层位。(2)总体上, 三种林龄胡杨土壤水δ¹⁸O值随土壤深度增加而减小, 并趋于接近地下水的δ¹⁸O值。其中, 0-60 cm土壤水受蒸发影响比较大, 其同位素组成经历了强烈的蒸发分馏过程, 土壤含水量极少, 土壤水δ¹⁸O值偏正。(3)不同林龄胡杨所利用的水分来源不同: 胡杨幼龄木对于地表80 cm以下的土壤水以及地下水均有一定程度的利用, 对80-140 cm、140-220 cm和220-340 cm的土壤水平均利用比率依次为16.2%、21.4%和24.6%, 对地下水平均利用比率为24.5%; 成熟木主要利用220-340 cm的土壤水及地下水, 平均利用比率分别为36.9%和42.3%; 过熟木主要利用140-340 cm的土壤水及地下水, 平均利用比率分别为32.8%和49.3%。