西沙群岛草海桐的抗逆生物学特性

热带珊瑚岛由于光照强、季节性干旱明显、土壤贫瘠、保水能力差而少有植物生长。草海桐(Scaevola sericea)是一种典型的热带滨海植物,是西沙群岛珊瑚岛植被中的主要建群种,在海岛和海岸带防风固沙及植被生态恢复等方面发挥着重要作用。该研究对西沙群岛自然环境下草海桐的形态解剖学特征、抗氧化能力、抗逆性物质含量及营养元素含量等进行了研究。结果表明:草海桐具有阳生性植物特征,叶片及上表皮厚、气孔密度小、导管直径及水力导管直径大,有利于其适应珊瑚岛干旱环境; 其体内的超氧化物歧化酶和过氧化氢酶活性与其他受胁迫植物相比较要高,脱落酸含量也较高,表明草海桐对珊瑚岛环境具有较强的适应性及抗逆性; 其根际土壤养分含量偏低,但植物体内营养元素含量却较高,表明草海桐对土壤养分的利用效率高。这说明草海桐能够很好地适应干旱、贫瘠的珊瑚砂环境,具有较强的抗逆及适应能力。     

The non-coding RNA composition of the mitotic chromosome by 5′-tag sequencing

Mitotic chromosomes are one of the most commonly recognized sub-cellular structures in eukaryotic cells. Yet basic information necessary to understand their structure and assembly, such as their composition, is still lacking. Recent proteomic studies have begun to fill this void, identifying hundreds of RNA-binding proteins bound to mitotic chromosomes. However, by contrast, there are only two RNA species (U3 snRNA and rRNA) that are known to be associated with the mitotic chromosome, suggesting that there are many mitotic chromosome-associated RNAs (mCARs) not yet identified. Here, using a targeted protocol based on 5′-tag sequencing to profile the mammalian mCAR population, we report the identification of 1279 mCARs, the majority of which are ncRNAs, including lncRNAs that exhibit greater conservation across 60 vertebrate species than the entire population of lncRNAs. There is also a significant enrichment of snoRNAs and specific SINE RNAs. Finally, ∼40% of the mCARs are presently unannotated, many of which are as abundant as the annotated mCARs, suggesting that there are also many novel ncRNAs in the mCARs. Overall, the mCARs identified here, together with the previous proteomic and genomic data, constitute the first comprehensive catalogue of the molecular composition of the eukaryotic mitotic chromosomes.     

A revolutionary tool: CRISPR technology plays an important role in construction of intelligentized gene circuits

With the development of synthetic biology, synthetic gene circuits have shown great applied potential in medicine, biology, and as commodity chemicals. An ultimate challenge in the construction of gene circuits is the lack of effective, programmable, secure and sequence‐specific gene editing tools. The clustered regularly interspaced short palindromic repeat (CRISPR) system, a CRISPR‐associated RNA‐guided endonuclease Cas9 (CRISPR‐associated protein 9)‐targeted genome editing tool, has recently been applied in engineering gene circuits for its unique properties‐operability, high efficiency and programmability. The traditional single‐targeted therapy cannot effectively distinguish tumour cells from normal cells, and gene therapy for single targets has poor anti‐tumour effects, which severely limits the application of gene therapy. Currently, the design of gene circuits using tumour‐specific targets based on CRISPR/Cas systems provides a new way for precision cancer therapy. Hence, the application of intelligentized gene circuits based on CRISPR technology effectively guarantees the safety, efficiency and specificity of cancer therapy. Here, we assessed the use of synthetic gene circuits and if the CRISPR system could be used, especially artificial switch‐inducible Cas9, to more effectively target and treat tumour cells. Moreover, we also discussed recent advances, prospectives and underlying challenges in CRISPR‐based gene circuit development.     

Core-shell Au nanoparticle formation with DNA-polymer hybrid coatings using aqueous ATRP

We report here a direct surface-grafting approach to forming DNA-containing polymer shells outside of Au nanoparticles using aqueous atom transfer radical polymerization (ATRP). In this approach, DNA molecules were immobilized on Au particles to introduce ATRP initiators on the surface. The same DNA molecules also acted as particle stabilizers through electrostatic repulsion and allowed particles to stay suspended in water. The immobilized ATRP initiators prompted polymer chain growth under certain conditions to form thick polymer shells outside of the particles. The formation of DNA-polymer hybrids outside of Au nanoparticles was characterized using absorption spectroscopy, dynamic light scattering (DLS), transmission electron microscopy (TEM), and gel electrophoresis. The presence of thick polymer shells improved particle stability in high ionic strength media, whereas particles with the DNA coating only aggregated. A visible color difference between these two particle solutions was clearly observed, providing the basis for DNA sensing in homogeneous solutions.     

西江颗粒直链藻种群生态特征

西江肇庆段是珠江干流汇入珠三角河网水域的咽喉通道,结合长期定点连续采样和空间季节性调查,重点对2009年西江干流肇庆段的颗粒直链藻(Aulacoseira granulata)的种群生态学特征进行系统分析。结果显示:全年中,颗粒直链藻在总种群中所占百分比均值为25.37%,与总种群丰度存在极显著正相关关系,这表明颗粒直链藻是西江浮游植物群落的重要优势种。调查期间发现了颗粒直链藻的4种形态,包括原变种(var.granulata)、极狭变种(var.angustissima)、弯曲变种(var.curvata)和极狭变种螺旋变型(var.angustissima f.spiralis)。其中,原变种占有绝对优势地位,其相对百分组成的年均值为91.47%,推测为原变种的形态结构比其它3种形态更容易适应外界环境变化,进而形成优势群体。颗粒直链藻总密度的周年变化呈现明显的双峰型,两个峰值分别出现在8月和11月,主要得益于适宜的水温、相对稳定的水体和较高的营养盐水平,这些均有助于颗粒直链藻的生长繁殖。第一个高峰之前,颗粒直链藻总密度未出现明显的波动,这很可能是由于水体径流量增大导致的稀释作用和频繁降雨导致的水体剧烈波动对颗粒直链藻增长的负作用掩盖了水温上升所带来的益处。从空间分布来看,颗粒直链藻总丰度的最大值一般出现在S1、S5和S6站点,这与营养盐最大值的空间分布格局是一致的。     

ApoAⅠ促进THP-1源性泡沫细胞ApoE分泌的研究

目的通过建立动脉粥样硬化损伤部位细胞模型,观察ApoAI对THP—l源性泡沫细胞ApoE分泌的影响,探讨ApoAI与ApoE之间是否存在相互关系以及这种关系对动脉粥样硬化的影响。方法采用聚乙二醇-6000（PEG-6000）沉淀法制备人血浆HDL,再利用凝胶过滤柱层析法分离ApoA I;佛波酯（PMA）诱导THP-1单核细胞分化为巨噬细胞,氧化型低密度脂蛋白（oxidized low density lipoprotein,OXLDL）使分化后THP-1细胞荷脂,建立动脉粥样硬化细胞模型;ELISA检测不同浓度ApoAI（0,5,10,15,25ug／m1）及不同孵育时间（0．3,6,12,24h）,THP—1源性泡沫细胞ApoE的分泌;RT—PCR检测细胞ApoEmRNA的表达情况。结果ApoAI增加THP-1源性泡沫细胞ApoE的分泌量;且ApoE蛋白质的分泌随着ApoAI孵育时间增加而增加,在24hApoE的分泌量达最大;在剂量试验中,ApoE的分泌量随着ApoAI剂量的增加有增加趋势,ApoAI浓度为25μmol／L时,ApoE分泌量最大;而却oE基因的表达不受ApoAI的影响。结论-定浓度的ApoAI促进THP-1源性泡沫细胞ApoE的分泌,且具有时间及剂量依赖性。而在基因水平上,ApoAI对ApoEmRNA表达没有影响。     

变性梯度凝胶电泳在环境微生物生态学中的应用

PCR-变性梯度凝胶电泳(PCR-DGGE)具有可靠性强、重复性好、方便快捷等优点,已被广泛应用于环境生态学中微生物群落多样性、动态性分析和功能细菌的跟踪。本文综述了PCR-DGGE技术的基本原理,不同DNA提取方法的比较,不同PCR方式的比较及其在环境生态学中研究微生物群落多样性、环境中微生物群落变化的动态监测、硝化菌-反硝化菌和硫酸还原菌(SRB)的动态分析和监测等领域中的应用,并对该技术自身存在的局限性和应用前景进行了评价。     

DNA barcoding reveals the temporal community composition of drifting fish eggs in the lower Hongshui River,China

Determining the temporal community composition of fish eggs in particular regions and understanding the reproductive times of regional fish taxa are key aspects of the management and regulation of regional fish stocks. However, it is extremely difficult to accurately identify fish eggs due to the absence of diagnostic morphological characters. We sampled fish eggs in the lower Hongshuihe River (an upper mainstem of the Pearl River) between May and September 2020. We then used DNA barcoding to determine the species composition of the egg pool and to predict the spawning periods of the identified species. A total of 641 eggs and 17 larvae were chosen for molecular identification; 397 eggs and 17 larvae yielded high‐quality barcoding sequences. The high failure rate (~38%) was most likely due to long‐term storage in low concentrations of ethanol prior to molecular analysis. We successfully classified 392 eggs into 10 species and 13 larvae into four species using public databases. Most of the species identified in the egg pool were small and/or benthic, and migratory species were rare. This may partially reflect the adverse effects of hydropower cascade development in this river section. We also found that spawning periods tended to be species‐specific. Our study provides a reference for the conservation and management of regional fishery stocks.     

Assessment of Seasonal Influenza A Virus-Specific CD4 T-Cell Responses to 2009 Pandemic H1N1 Swine-Origin Influenza A Virus

Very limited evidence has been reported to show human adaptive immune responses to the 2009 pandemic H1N1 swine-origin influenza A virus (S-OIV). We studied 17 S-OIV peptides homologous to immunodominant CD4 T epitopes from hemagglutinin (HA), neuraminidase (NA), nuclear protein (NP), M1 matrix protein (MP), and PB1 of a seasonal H1N1 strain. We concluded that 15 of these 17 S-OIV peptides would induce responses of seasonal influenza virus-specific T cells. Of these, seven S-OIV sequences were identical to seasonal influenza virus sequences, while eight had at least one amino acid that was not conserved. T cells recognizing epitopes derived from these S-OIV antigens could be detected ex vivo. Most of these T cells expressed memory markers, although none of the donors had been exposed to S-OIV. Functional analysis revealed that specific amino acid differences in the sequences of these S-OIV peptides would not affect or partially affect memory T-cell responses. These findings suggest that without protective antibody responses, individuals vaccinated against seasonal influenza A may still benefit from preexisting cross-reactive memory CD4 T cells reducing their susceptibility to S-OIV infection.The outbreak of H1N1 swine-origin influenza A virus (S-OIV) in April 2009 has raised a new threat to public health (5, 6). This novel virus (with A/California/04/09 H1N1 as a prototypic strain) not only replicated more efficiently but also caused more severe pathological lesions in the lungs of infected mice, ferrets, and nonhuman primates than a currently circulating human H1N1 virus (9). Similarly, human patients with influenza-like illness who tested negative for S-OIV had a milder clinical course than those who tested positive (13). Another major concern is the lack of immune protection against S-OIV in the human population. Initial serum analysis indicated that cross-reactive antibodies to this novel viral strain were detected in only one-third of people over 60 years of age, while humoral immune responses in the population under 60 years of age were rarely detected (3, 8). In addition, vaccination with recent seasonal influenza vaccines induced little or no cross-reactive antibody responses to S-OIV in any age group (3, 8).Only a few studies address whether preexisting seasonal influenza A virus-specific memory T cells cross-react with antigenic peptides derived from S-OIV (7). In the absence of preexisting cross-reactive neutralizing antibodies, it is likely that T-cell-mediated cellular immunity contributes to viral clearance and reduces the severity of symptoms, although virus-specific T cells cannot directly prevent the establishment of infection (10). Greenbaum and colleagues recently compared published T-cell epitopes for seasonal influenza viruses with S-OIV antigens (Ags) using a computational approach (7). Several seasonal H1N1 epitopes were found to be identical to S-OIV sequences. This implies that seasonal flu-specific memory T cells circulating in the peripheral blood of vaccinated and/or previously infected individuals are able to recognize their S-OIV homologues.The first objective of this study was to determine the extent of cross-reactivity of seasonal H1N1 influenza A virus-specific CD4 T cells with S-OIV epitopes, especially those less conserved peptide sequences. We chose 17 immunodominant DR4-restricted T-cell epitopes derived from a seasonal H1N1 strain, compared the binding of these epitopes and their S-OIV homologous peptides to DR4, tested the ability of S-OIV peptides to drive seasonal influenza virus-specific T-cell proliferation in vitro, and estimated the frequency of S-OIV cross-reactive T cells in the periphery of noninfected donors. We found that most homologous S-OIV peptides were able to activate seasonal H1N1 virus-specific CD4 T cells. The second objective was to compare the antigen dosage requirement to activate those T cells. By assessing the alternations in the functional avidities (of T cells to the cognate peptide and S-OIV homologue) due to amino acid differences in S-OIV peptides, we showed how those cross-reactive CD4 T cells differentially responded to the antigenic peptides derived from seasonal H1N1 virus or S-OIV. This study leads to the conclusion that previous exposure to seasonal H1N1 viral antigens will generate considerable levels of memory CD4 T cells cross-reactive with S-OIV.     

Immune selection of hot-spot beta 2-microglobulin gene mutations, HLA-A2 allospecificity loss, and antigen-processing machinery component down-regulation in melanoma cells derived from recurrent metastases following immunotherapy

Scanty information is available about the mechanisms underlying HLA class I Ag abnormalities in malignant cells exposed to strong T cell-mediated selective pressure. In this study, we have characterized the molecular defects underlying HLA class I Ag loss in five melanoma cell lines derived from recurrent metastases following initial clinical responses to T cell-based immunotherapy. Point mutations in the translation initiation codon (ATG-->ATA) and in codon 31 (TCA-->TGA) of the beta(2)-microglobulin (beta(2)m) gene were identified in the melanoma cell lines 1074MEL and 1174MEL, respectively. A hot-spot CT dinucleotide deletion within codon 13-15 was found in the melanoma cell lines 1106MEL, 1180MEL, and 1259MEL. Reconstitution of beta(2)m expression restored HLA class I Ag expression in the five melanoma cell lines; however, the HLA-A and HLA-B,-C gene products were differentially expressed by 1074MEL, 1106MEL, and 1259MEL cells. In addition, in 1259MEL cells, the Ag-processing machinery components calnexin, calreticulin, and low m.w. polypeptide 10 are down-regulated, and HLA-A2 Ags are selectively lost because of a single cytosine deletion in the HLA-A2 gene exon 4. Our results in conjunction with those in the literature suggest the emergence of a preferential beta(2)m gene mutation in melanoma cells following strong T cell-mediated immune selection. Furthermore, the presence of multiple HLA class I Ag defects within a tumor cell population may reflect the accumulation of multiple escape mechanisms developed by melanoma cells to avoid distinct sequential T cell-mediated selective events.