基于eDNA技术的渭河浮游动物多样性及关键种生态位特征

环境DNA（eDNA）技术作为水生态系统生物多样性监测的新手段,能够从微观角度对生物群落结构特征进行分析.基于渭河干流eDNA浮游动物OTUs分类信息数据及水环境参数,采用多样性指数、非度量多维尺度分析、聚类分析和关联网络分析等方法,探究了浮游动物的多样性和群落结构变化特征,揭示了关键种的生态位分化及其环境适应性.结果表明,浮游动物群落在物种组成、丰度、多样性和空间异质性方面均存在显著差异（P<0.01）.Chao1指数、ACE指数、Shannon指数和Simpson指数的均值分别为22.25、22.38、2.32和0.68,下游生物多样性明显高于上游.群落中的关键种与其他物种间连接度较高,具有高节点度、中心性和模块化特征.关键种（类）的OTUs生态位宽度B_i变化范围为0.38~0.80,中生态位种类占全部关键种（类）的63%,生态位重叠程度总体较高.水环境要素与浮游动物群落结构和生态位变化密切相关,其中总氮和水温是其主要限制因子,对浮游动物群落结构变化具有重要影响.     

丙烯酰胺对斑马鱼各器官的毒性作用及生殖细胞的DNA损伤

在我国,聚丙烯酰胺(PAM)主要应用于石油开采,其长期暴露于环境中可以降解成有毒的丙烯酰胺(AM)。为探究在降解过程中AM的毒性作用,选择斑马鱼作为受试动物,进行AM长期毒性暴露40 d,考察了对斑马鱼的肝脏、脑组织、心脏、腮等器官的影响情况。结果表明:在2.04 mg·L~(-1)、6.12 mg·L~(-1)和18.36 mg·L~(-1)暴露浓度下,形态学观察斑马鱼的鳃丝,鳃小片和鳃细胞有严重的受损现象;随着浓度的升高斑马鱼肝脏、脑组织和心脏中MDA含量、LDH活力的升高,SDH和Na+-K+-ATPase活力的降低,均对其肝脏、脑组织和心脏造成氧化损伤作用,从而影响了斑马鱼体内细胞能量代谢过程。采用彗星试验检测斑马鱼的生殖腺细胞DNA损伤,结果显示暴露于浓度为2.04 mg·L~(-1)~18.36 mg·L~(-1)的AM后,斑马鱼的DNA损伤均表现为显著差异(P0.01)。上述研究结果均确定了AM对斑马鱼的毒性效应并可造成其生殖腺细胞的DNA损伤。     

彗星电泳法测定双酚A对雄性幼龄小鼠脑细胞的DNA损伤

双酚A是一种日常生活中无处不在的环境雌激素,具有生殖和神经毒性,但低剂量长期暴露对发育期青少年的危害性常常被低估或忽视。本研究以4周龄雄性清洁级小鼠为实验对象,以茶油作为溶媒对照,分别以双酚A浓度为0μg·m L-1、0.1μg·m L-1、10μg·m L-1和1 000μg·m L-1的茶油灌胃小鼠8周,然后利用彗星电泳法检测各组小鼠脑细胞的DNA损伤。结果显示,不同浓度双酚A暴露8周后,彗星电泳图像显示小鼠脑细胞DNA出现不同程度的损伤,随着暴露剂量的增加,带有彗尾的脑细胞比率从对照组小鼠的9.5%分别升高到暴露组小鼠的34.5%、36.0%和50.5%,细胞总体的尾部DNA含量、尾长和尾矩也都逐渐增加,而且各双酚A暴露组小鼠与溶媒对照组小鼠脑细胞都具有显著性差异(P0.01),这说明中长期双酚A暴露(包括低浓度环境暴露)会导致雄性幼龄小鼠脑细胞的DNA损伤。     

Characterization of the genes involved in nitrogen cycling in wastewater treatment plants using DNA microarray and most probable number-PCR

To improve nitrogen removal performance of wastewater treatment plants (WWTPs), it is essential to understand the behavior of nitrogen cycling communities, which comprise various microorganisms. This study characterized the quantity and diversity of nitrogen cycling genes in various processes of municipal WWTPs by employing two molecular-based methods:most probable number-polymerase chain reaction (MPN-PCR) and DNA microarray. MPN-PCR analysis revealed that gene quantities were not statistically different among processes, suggesting that conventional activated sludge processes (CAS) are similar to nitrogen removal processes in their ability to retain an adequate population of nitrogen cycling microorganisms. Furthermore, most processes in the WWTPs that were researched shared a pattern:the nirS and the bacterial amoA genes were more abundant than the nirK and archaeal amoA genes, respectively. DNA microarray analysis revealed that several kinds of nitrification and denitrification genes were detected in both CAS and anaerobic-oxic processes (AO), whereas limited genes were detected in nitrogen removal processes. Results of this study suggest that CAS maintains a diverse community of nitrogen cycling microorganisms; moreover, the microbial communities in nitrogen removal processes may be specific.

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Combined use of eDNA metabarcoding and video surveillance for the assessment of fish biodiversity

Monitoring communities of fish is important for the management and sustainability of fisheries and marine ecosystems. Baited remote underwater video systems (BRUVs) are among the most effective nondestructive techniques for sampling bony fishes and elasmobranchs (sharks, rays, and skates). However, BRUVs sample visually conspicuous biota; hence, some taxa are undersampled or not recorded at all. We compared the diversity of fishes characterized using BRUVs with diversity detected via environmental DNA (eDNA) metabarcoding. We sampled seawater and captured BRUVs imagery at 48 locales that included reef and seagrass beds inside and outside a marine reserve (Jurien Bay in Western Australia). Eighty-two fish genera from 13 orders were detected, and the community of fishes described using eDNA and BRUVs combined yielded >30% more generic richness than when either method was used alone. Rather than detecting a homogenous genetic signature, the eDNA assemblages mirrored the BRUVs’ spatial explicitness; differentiation of taxa between seagrass and reef was clear despite the relatively small geographical scale of the study site (∼35 km²). Taxa that were not sampled by one approach, due to limitations and biases intrinsic to the method, were often detected with the other. Therefore, using BRUVs and eDNA in concert provides a more holistic view of vertebrate marine communities across habitats. Both methods are noninvasive, which enhances their potential for widespread implementation in the surveillance of marine ecosystems.     

Degradation of extracellular genomic,plasmid DNA and specific antibiotic resistance genes by chlorination

Extracellular DNA structure damaged by chlorination was characterized. Integrity of extracellular ARG genetic information after chlorination was determined. Typical chlorine doses will likely effectively diminish extracellular DNA and ARGs. Plasmid DNA/ARGs were less readily broken down than genomic DNA. The Bioanalyzer methodology effectively documented damage incurred to DNA. There is a need to improve understanding of the effect of chlorine disinfection on antibiotic resistance genes (ARGs) in order to advance relevant drinking water, wastewater, and reuse treatments. However, few studies have explicitly assessed the physical effects on the DNA. Here we examined the effects of free chlorine (1–20 mg Cl₂/L) on extracellular genomic, plasmid DNA and select ARGs. Chlorination was found to decrease the fluorometric signal of extracellular genomic and plasmid DNA (ranging from 0.005 to 0.05 mg/mL) by 70%, relative to a no-chlorine control. Resulting DNA was further subject to a fragment analysis using a Bioanalyzer, indicating that chlorination resulted in fragmentation. Moreover, chlorine also effectively deactivated both chromosomal- and plasmid-borne ARGs, mecA and tetA, respectively. For concentrations >2 mg Cl₂//L × 30 min, chlorine efficiently reduced the qPCR signal when the initial concentration of ARGs was 10⁵ copies/mL or less. Notably, genomic DNA and mecA gene signals were more readily reduced by chlorine than the plasmid-borne tetA gene (by ~2 fold). Based on the results of qPCR with short (~200 bps) and long amplicons (~1200 bps), chlorination could destroy the integrity of ARGs, which likely reduces the possibility of natural transformation. Overall, our findings strongly illustrate that chlorination could be an effective method for inactivating extracellular chromosomal- and plasmid-borne DNA and ARGs.     

彗星实验检测渤海主要入海河流遗传毒性

利用彗星实验检测渤海区主要入海河流遗传毒性.以虾虎鱼为受试生物,暂养在河口水样中,染毒48h,取外周血细胞,运用彗星实验检测外周血细胞内DNA损伤程度,以尾相(TM)作为DNA损伤程度指标,并据此评估入海河流邻近海域遗传毒性风险.实验结果表明,入海河流中的特征污染物可导致虾虎鱼外周血细胞的DNA损伤,且损伤程度可以通过彗星实验定量分析,同时该试验方法操作简便、快速、灵敏度高,能够反映出多种污染因子的综合致毒能力.因此,通过彗星实验建立实验室检测入海河流遗传毒性方法具有可行行和创新性.     

Biochemical speciation in chromium genotoxicity

The biochemical speciation of chromium compounds in mammalian cells is discussed with respect to uptake, metabolism, DNA binding and damaging. Whereas soluble hexavalent chromium is taken up rapidly and accumulated intracellularly after its reduction, compounds of trivalent chromium penetrate biomembranes about three orders of magnitude slower. Cr(VI) after its uptake is metabolised by electron donating compounds via Cr(V) to Cr(III) compounds. Chromium from various Cr(III) compounds, but not chromate, binds to chromatin in isolated cell nuclei. The DNA‐protein crosslinks and DNA strand breaks observed in rat liver and kidney after chromate administration are also found in vitro, when Cr(III) compounds (but not chromate) interacts with isolated nuclei. In the Chinese Hamster cell HGPRT mutation assay, three out of four tested Cr(III) complexes were found to be mutagenic. In a direct DNA strand break assay with supercoiled bacteriophage PM 2 DNA, neither chromate nor the four Cr(III) compounds tested caused nicks. However, the combined action of chromate plus glutathione as well as the isolated complex of pentavalent chromium, Na₄Cr(glutathione)₄, did cause DNA breaks. Reactive oxygen species are inferred to be the ultimate DNA nicking agents in this assay. In conclusion there appear to be two mechanisms of chromate genotoxicity; one with direct DNA damage caused by Cr(V) species and one via DNA‐protein crosslinks formed with Cr(III), the final reduction state of chromate.     

Model reactions of chromium compounds with mammalian and bacterial cells†

Chromate uptake, reduction, cytotoxicity and mutagenicity were studied with human red blood cells, Chinese hamster ovary (CHO) cells and/or Salmonella typhimurium mutant cells. All cell types rapidly took up chromates whereas chromium(III) salts were excluded under the experimental conditions. Red blood cells reduced and accumulated chromium from chromate. At concentrations above 0.1 mM, chromate inactivated the red cell chromate carrier. Chromate above 0.01 mM inhibited CHO cell proliferation irrespective of the cations present. Chromate and two chromium(III) complexes were mutagenic with Salmonella mutants in the Ames’ assay. A model for chromate metabolism and genotoxicity is proposed.