鸡粪好氧堆肥过程中氨氧化古菌群落结构的动态变化

应用聚合酶链式反应-变性梯度凝胶电泳（PCR DGGE）技术,研究了好氧堆肥过程氨氧化古菌（ammonia oxidizing archaea, AOA）的群落结构和多样性变化。结果表明,不同堆肥时期鸡粪好氧堆肥AOA菌群的群落结构发生了明显的变化。与AOA HH 2(GU2258721)亲缘关系较近的b条带(相似性96%)和未培养泉古菌属［uncultured crenarchaeote NM 152(HQ8752251)］的m条带(相似性99%)是堆肥过程一直存在的AOA菌属。条带c、 b、 f、 i和条带m、 k、 l、 n代表的种属分属两个大类。AOA群落的Shannon Weiner指数（H）、 均匀度指数（EH）均表现为第30 d＞第5 d＞第25 d第45 d＞第3 d第12 d＞第1 d第15 d。对AOA种群数据与不同时期堆体温度、 pH、 全氮、 铵态氮、 亚硝态氮和硝态氮等环境因子的冗余分析表明,堆体温度、 全氮、 亚硝态氮和硝态氮对氨氧化古菌群落演替有着显著的影响（P0.05）,AOA的群落结构在堆肥第1 d、 第5 d、 第25 d、 第30 d、 第45 d变化较大。说明这些参数能有效控制鸡粪好氧堆肥过程中AOA的群落结构。     

Lipids of Prokaryotic Origin at the Base of Marine Food Webs

In particular niches of the marine environment, such as abyssal trenches, icy waters and hot vents, the base of the food web is composed of bacteria and archaea that have developed strategies to survive and thrive under the most extreme conditions. Some of these organisms are considered “extremophiles” and modulate the fatty acid composition of their phospholipids to maintain the adequate fluidity of the cellular membrane under cold/hot temperatures, elevated pressure, high/low salinity and pH. Bacterial cells are even able to produce polyunsaturated fatty acids, contrarily to what was considered until the 1990s, helping the regulation of the membrane fluidity triggered by temperature and pressure and providing protection from oxidative stress. In marine ecosystems, bacteria may either act as a sink of carbon, contribute to nutrient recycling to photo-autotrophs or bacterial organic matter may be transferred to other trophic links in aquatic food webs. The present work aims to provide a comprehensive review on lipid production in bacteria and archaea and to discuss how their lipids, of both heterotrophic and chemoautotrophic origin, contribute to marine food webs.     

Methanogenic archaeal communities developed in paddy fields in the Kojima Bay polder, estimated by denaturing gradient gel electrophoresis, real-time PCR and sequencing analyses

Methanogenic archaeal communities inhabiting the paddy field soils in the Kojima Bay polder were investigated using polymerase chain reaction-denaturing gradient gel electrophoresis (PCR-DGGE), real-time PCR and sequencing analyses. Soil samples of the plow and subsoil layers were collected in 2006 from four paddy fields that were reclaimed between 1692 and 1954. The DGGE band patterns of the targeted 16S rRNA genes amplified from the extracted DNA from the samples were different from the patterns from the paddy field soils in diluvial and alluvial areas. The numbers of targeted 16S rRNA genes, which were involved with methanogenic archaeal and other archaeal sequences, were approximately 10⁷–10⁸ and 10⁶ g⁻¹ dry soil in the plow and subsoil layers, respectively. Sequences of methanogenic archaeal 16S rRNA genes belonging to Methanocellales (Rice cluster I), Methanosarcinales and Methanobacteriales were obtained from the major DGGE bands. Whereas sequences in Methanomicrobiales, which were predominant methanogens in the diluvial and alluvial paddy fields, were not recovered. Known halophilic and methylotrophic methanogens, which are characteristic of saline and marine environments, were not detected. These results indicate that distinctive methanogenic archaeal communities have developed in the paddy field soils in the Kojima Bay polder.     

硝化抑制剂对毛竹林土壤N_2O排放和氨氧化微生物的影响

为了探索硝化抑制剂在毛竹生产中的施用技术,通过培养试验研究3,4-二甲基吡唑磷酸盐(DMPP)和双氰胺(DCD)两种硝化抑制剂对毛竹林施用尿素后土壤N2O排放、氮素转化和相关氨氧化细菌(AOB)、氨氧化古菌(AOA)群落结构和丰度的影响。试验设(1)对照(CK)、(2)单施尿素(Urea)、(3)尿素+1%DMPP(DMPP占总N的1%,下同);(4)尿素+1.5%DMPP;(5)尿素+10%DCD;(6)尿素+15%DCD等6个处理,测定N2O的排放动态以及气体排放转折点时的土壤特征指标。结果表明:与单施尿素相比,160 d的时间内两种DMPP用量处理的土壤N2O累积排放减排幅度均为54%,而10%DCD和15%DCD处理的土壤分别减少28%和41%。DMPP和DCD处理50 d和90 d时土壤的NH4+-N含量均显著高于(p0.05)单施尿素处理,而NO3--N含量和表观硝化率则恰好相反,但两种抑制剂间无差异。DMPP处理的AOB群落结构的变化从10 d开始显现,至50 d和90 d时仍保持明显的抑制状态,而DCD处理则至90 d时抑制作用基本消失。单施尿素AOB功能基因(amo A)的丰度均显著高于硝化抑制剂处理(90 d时尿素+10%DCD处理除外);在整个培养期内,尿素和对照土壤的AOA群落结构相似,硝化抑制剂反而增加了AOA功能基因的丰度,表明硝化抑制剂对AOA丰度无明显抑制作用。即两种硝化抑制剂主要通过抑制AOB起作用;调节土壤p H至中性范围,并在1%DMPP施用条件下,硝化抑制剂的抑制效果最显著。     

Weaning methods affect ruminal methanogenic archaea composition and diversity in Holstein calves

The objective of the present study was to examine the effect of different weaning methods on the ruminal methanogenic archaea composition and diversity in Holstein calves.Thirty-six newborn Holstein bull calves were assigned to 1 of 3 treatments:(1)conventional weaning(d 56)and fed a high proportion of solid feed(CWS);(2)conventional weaning(d 56)and fed a high proportion of liquid feed(CWL);(3)early weaning(d 42)and fed with a high proportion of solid feed(EWS).High-throughput sequencing of the methyl coenzyme M reductase(mcr A)gene,which encodes theα-subunit of methyl coenzyme M reductase-the enzyme that catalyzes the final step in methanogenesis was used to determine the composition and diversity of rumen methanogens.No significant difference(P0.05)was observed for operational taxonomic units(OTUs)or richness indices,but diversity indices increased(P0.05)for calves fed high dietary solids.Predominant families across the three treatments were Methanobacteriaceae,Thermoplasmataceae and Methanomassiliicoccaceae.Calves in the EWS treatment had a higher(P0.05)relative abundance of Methanobrevibacter sp.strain AbM4 and Methanosphaera stadtmanae,while calves in the CWL treatment had a higher(P0.05)abundance of Methanosphaera sp.strain SM9.A positive(P0.05)relationship was identified between butyrate and Methanobrevibacter sp.strain AbM4.In conclusion,the composition and diversity of methanogens in the rumen of Holstein calves varied under the different weaning methods.This study identified a positive relationship between butyrate and Methanobrevibacter sp.strain AbM4,potentially reflecting correlations between ruminal fermentation variables and methanogenesis function.These in-depth analyses provide further understanding of weaning methods for intensified production systems.     

模拟氮沉降对贝加尔针茅草原土壤氮转化微生物的影响

草地土壤是温室气体重要的源和汇,认识草地生态系统氮转化过程有助于预测氮循环对未来氮沉降增加的响应与反馈机制。依托于2010年在内蒙古贝加尔针茅草原设置的长期模拟氮沉降增加的氮添加试验,共设置了8个氮添加水平(0、15、30、50、100、150、200、300 kg N·hm~(-2)·a~(-1))。应用荧光定量PCR方法,研究氮转化功能基因丰度对不同氮添加水平的响应。2015年8月取样分析结果表明:固氮微生物(nifH)基因丰度随着氮添加水平的升高,表现为先升高后降低的趋势。低于200 kg N·hm~(-2)·a~(-1)硝酸铵处理有利于固氮菌生长。低氮添加(N15、N30和N50)对氨氧化细菌(AOB-amoA)和氨氧化古菌(AOA-amoA)基因丰度无显著影响。高氮添加(N100、N150、N200和N300)显著提高了AOB基因丰度,降低了AOA基因丰度。高氮添加(N150、N200和N300)显著降低了nirK基因丰度。随着氮添加量的增加,高氮添加促进了AOB主导的氨氧化过程,而反硝化微生物丰度的减少提高了氨氧化产物硝酸盐的积累,继而提高了土壤硝酸盐含量。     

不同酸碱性紫色土的硝化活性及微生物群落组成

为研究紫色土中的硝化作用、总微生物和硝化微生物的群落结构,以重庆永川的酸性紫色土(p H=5.3)和中性紫色土(p H=7.2)以及四川盐亭的石灰性紫色土(p H=8.5)为研究对象,采用稳定性同位素标记技术进行培养实验,并通过Miseq测序对三种紫色土微生物群落结构进行分析。每种土样共设有三种处理,包括~(13)CO_2标记处理、~(12)CO_2对照处理和~(13)CO_2+C_2H_2对照处理。结果表明,中性紫色土(p H=7.2)和石灰性紫色土(p H=8.5)经过56 d的培养后发生了强烈的硝化作用,而酸性紫色土(p H=5.3)中未发生明显的硝化作用,并且硝化作用类型都以自养硝化为主。三种紫色土中都存在着变形菌门(Proteobacteria)、酸杆菌门(Acidobacteria)、厚壁菌门(Firmicutes)、绿弯菌门(Chloroflexi)、放线菌门(Actinobacteria)、拟杆菌门(Bacteroidetes)和芽单胞菌门(Gemmatimonadetes),其中变形菌门在三种紫色土中都大约占有20%的比例。中性紫色土和石灰性紫色土各处理中硝化螺旋菌门(Nitrospirae)百分比大于酸性紫色土各处理。三种紫色土各处理中的氨氧化细菌(Ammonia-oxidizing bacteria,AOB)主要以亚硝化螺菌属(Nitrosospira)为主,亚硝酸氧化细菌(Nitrite-oxidizing bacteria,NOB)主要以硝化螺菌属(Nitrospira)为主。且NOB/AOB的值在三种紫色土各处理中最高可达到13,这意味着全程氨氧化细菌(Comammox)可能在紫色土的硝化作用中占据重要贡献。     

Effects of Silver Nanoparticles on Soil Ammonia-Oxidizing Microorganisms Under Temperatures of 25 and 5℃

The excellent bactericidal performance of silver nanoparticles (Ag NPs) has led to their wide applications, resulting in increasing concerns about their potential environmental impacts. This study evaluated the influences of different concentrations of Ag NPs (0, 1, 10, and 100 μg g^-1 dry soil) on the ammonia-oxidizing microorganisms in soil at cultivation temperatures of 25 and 5℃ for 37 d. The results showed that 1 μg g^-1 dry soil of Ag NPs had no acute effects on the ammonia-oxidizing microorganisms. However, 10 and 100 μg g^-1 dry soil of Ag NPs levels were found to significantly inhibit the activities of soil nitrification, with a decrease of 69.89% and 94.55%, respectively, at 25℃ and 61.65% and 83.79%, respectively, at 5℃ compared to the control (0 μg g^-1 dry soil of Ag NPs). These levels of Ag NPs also obviously decreased soil urease activity from about 380.47 ±0.07 (at 5℃) and 529.76 ±13.44 (at 25℃) mg N g^-1 dry soil d^-1 to 61.70 ±2.97 and 68.29 ±8.22 mg N g^-1 dry soil d^-1, respectively, after 37 d of cultivation. Quantitative polymerase chain reaction showed the abundance of ammonia-oxidizing archaea and bacteria. For the same exposure time, the effects of Ag NPs on the activities of ammonia-oxidizing microorganisms and urease decreased with decreasing temperature. The threshold concentration of Ag NPs that induced negative effects on ammonia-oxidizing microorganisms was higher at 5℃ than at 25℃. Therefore, the temperature has a major impact on the toxicity of Ag NPs to ammonia-oxidizing microorganisms and on the urease activity, with toxicity being reduced with decreasing temperature.     

土壤亚硝酸气体(HONO)排放过程及其驱动机制

气态亚硝酸(HONO)是大气中氢氧自由基(OH·)的重要来源,直接影响到大气氧化能力和空气质量。通过比较外场测定和模型计算的HONO浓度,发现白天时存在未知的大气HONO来源。研究表明,土壤可以向大气中排放HONO。其机理可能是土壤亚硝态氮和氢离子的化学平衡作用;或土壤夜间吸附和白天解吸附的动态物理化学过程;或氨氧化细菌等微生物的直接排放;也可能是硝化过程中产生的羟胺,在土壤颗粒物等表面的化学反应。因此,土壤HONO排放通量与土壤亚硝态氮浓度、pH、氨氧化细菌丰度、土壤矿物、土壤湿度及C/N值等相关。目前对于土壤HONO排放的研究尚在起步阶段,国内亦少见相关成果报道。本文综述了土壤HONO排放的研究背景、探讨了土壤HONO排放的机理及影响因素,以期为减少氮素损失、提高氮肥利用率、评估氮肥的环境效应及城市空气质量等提供理论依据和科学指导。     

转cry1Ab和epsps基因玉米C0030.3.5对土壤古菌丰度和多样性的影响

为探讨转基因玉米的生态安全问题,2015年分别于玉米拔节期、抽雄期、乳熟期和完熟期采集土壤样品,并采用荧光定量PCR(Quantitative real-time PCR,q PCR)和末端限制性片段长度多态性分析(Terminal restriction fragment length polymorphism,TRFLP)技术,研究了转cry1Ab和epsps基因玉米C0030.3.5种植对土壤古菌丰度和多样性的影响。结果表明:转cry1Ab和epsps基因玉米C0030.3.5(TM)和受体玉米DBN318(PM)的根际土和非根际土古菌数量为1.41×10~9~4.04×10~9copies·g~(-1)土,随生长时期的推进均呈现先升高后降低的变化趋势,同一生长时期和土壤样品采集区域,2种玉米古菌16S rRNA基因丰度间无显著差异。T-RFLP分析共获得15种不同长度的T-RFs,其中89 bp和184 bp片段为优势种群,同一生长时期和土壤样品采集区域每种优势种群在TM和PM间均无显著差异。土壤古菌Shannon指数除PM非根际土呈现先降低后升高的变化趋势外,其他均表现为先降低后升高再降低;TM和PM根际土古菌Evenness指数的变化趋势均为先降低后升高,而非根际土古菌Evenness指数表现为先降低后升高再降低。同一生长时期和土壤样品采集区域TM和PM的Shannon指数间及Evenness指数间差异均不显著。冗余分析(Redundancy analysis,RDA)显示土壤总氮和硝态氮含量对古菌群落结构有显著影响。主成分分析(Principal component analysis,PCA)表明,TM和PM土壤古菌群落在根际土和非根际土中均未发生明显分离,说明TM和PM土壤古菌群落组成无显著差异。上述结果表明:转cry1Ab和epsps基因玉米C0030.3.5土壤古菌丰度和群落结构组成与受体玉米DBN318无显著差异,古菌丰度和多样性主要受生长时期的影响,受土壤样品采集区域的影响不显著,土壤总氮和硝态氮是调控土壤古菌群落变化的关键因子。