Responses of soil bacterial and fungal communities to reciprocal transfers of soil between adjacent coniferous forest and meadow vegetation in the Cascade Mountains of Oregon

Little information exists on the responses of soil fungal and bacterial communities in high elevation coniferous forest/open meadow ecosystems of the northwest United States of America to treatments that impact vegetation and soil conditions. An experiment was conducted in which soil cores were reciprocally transplanted between immediately adjacent forests and meadows at two high elevation (∼1,600 m) sites (Carpenter and Lookout) in the H.J. Andrews Experimental Forest located in the Cascade Mountains of Oregon. Half of the cores were placed in PVC pipe (closed) to prevent new root colonization, whereas the other cores were placed in mesh bags (open) to allow recolonization by fine roots. A duplicate set of open and closed soil cores was not transferred between sites and was incubated in place. After 2 year, soil cores were removed and changes in fungal and bacterial biomasses determined using light microscopy, and changes in microbial community composition determined by PLFA analysis, and by length heterogeneity PCR of the internal transcribed spacer region of fungal ribosomal DNA. At both sites soil microbial community structures had responded to treatments after 2 year of incubation. At Carpenter, both fungal and bacterial community structures of forest soil changed significantly in response to transfer from forest to meadow, with the shift in fungal community structure being accompanied by a significant decrease in the PLFA biomarker of fungal biomass,18:2ω6,9. At Lookout, both fungal and bacterial community structures of forest soil changed significantly in response to open versus closed core treatments, with the shift in the fungal community being accompanied by a significant decrease in the 18:2ω6,9 content of closed cores, and the shift in the bacterial community structure being accompanied by a significant increase in bacterial biomass of closed cores. At both sites, fungal community structures of meadow soils changed differently between open and closed cores in response to transfer to forest, and were accompanied by increases in the18:2ω6,9 content of open cores. Although there were no significant treatment effects on the bacterial community structure of meadow soil at either site, bacterial biomass was significantly higher in closed versus open cores regardless of transfer.     

Low Nitrification Rates in Acid Scots Pine Forest Soils Are Due to pH-Related Factors

In a previous study, ammonia-oxidizing bacteria (AOB)-like sequences were detected in the fragmentation layer of acid Scots pine (Pinus sylvestris L.) forest soils (pH 2.9–3.4) with high nitrification rates (>11.0 μg g⁻¹ dry soil week⁻¹), but were not detected in soils with low nitrification rates (<0.5 μg g⁻¹ dry soil week⁻¹). In the present study, we investigated whether this low nitrification rate has a biotic cause (complete absence of AOB) or an abiotic cause (unfavorable environmental conditions). Therefore, two soils strongly differing in net nitrification were compared: one soil with a low nitrification rate (location Schoorl) and another soil with a high nitrification rate (location Wekerom) were subjected to liming and/or ammonium amendment treatments. Nitrification was assessed by analysis of dynamics in NH₄ ⁺-N and NO₃ ⁻-N concentrations, whereas the presence and composition of AOB communities were assessed by polymerase chain reaction–denaturing gradient gel electrophoresis and sequencing of the ammonia monooxygenase (amoA) gene. Liming, rather than ammonium amendment, stimulated the growth of AOB and their nitrifying activity in Schoorl soil. The retrieved amoA sequences from limed (without and with N amendment) Schoorl and Wekerom soils exclusively belong to Nitrosospira cluster 2. Our study suggests that low nitrification rates in acidic Scots pine forest soils are due to pH-related factors. Nitrosospira cluster 2 detected in these soils is presumably a urease-positive cluster type of AOB.     

长白山阔叶红松林土壤氮转化过程对长期施氮和降水变化的响应

土壤氮循环是森林生态系统主要的生物地球化学过程之一,具有重要的环境效应.本研究以长白山阔叶红松林为对象,通过人工氮添加和透明V型板截雨模拟氮沉降(NF)、降水减少(RR)以及两者交互作用(RF),分析了土壤硝化作用、反硝化作用,以及硝化功能微生物(氨氧化古菌AOA和氨氧化细菌AOB)、反硝化功能微生物(nirK、nirS和nosZ)和固氮功能微生物(nifH)对NF、RR及RF作用的响应.结果表明: 土壤硝化作用与土壤NH₄⁺-N、反硝化作用与土壤NO₃^--N含量呈显著正相关关系;土壤硝化作用和反硝化作用未因3种处理而发生显著变化,反硝化作用表现出明显的季节性动态变化;长期RR处理抑制了长白山阔叶红松林土壤净硝化作用,NF和RF处理则促进了其净硝化作用;nifH和nosZ菌群具有较强的抗胁迫能力,其多样性不易受氮水变化影响,干旱条件下nirK群落组成更容易受氮沉降影响;AOA对干旱具有较高敏感性,AOB对NF和RF处理具有较高敏感性.3种处理可不同程度影响土壤净硝化作用,并改变AOB、AOA和nirK基因反硝化微生物多样性,进而可能影响森林土壤含氮气体释放并改变森林生态系统服务.     

Nanosilver inhibits nitrification and reduces ammonia‐oxidising bacterial but not archaeal amoA gene abundance in estuarine sediments

Silver nanoparticles (AgNPs) enter estuaries via wastewater treatment effluents, where they can inhibit microorganisms, because of their antimicrobial properties. Ammonia‐oxidising bacteria (AOB) and archaea (AOA) are involved in the first step of nitrification and are important to ecosystem function, especially where effluent discharge results in high nitrogen inputs. Here, we investigated the effect of a pulse addition of AgNPs on AOB and AOA ammonia monooxygenase (amoA) gene abundances and benthic nitrification potential rates (NPR) in low‐salinity and mesohaline estuarine sediments. Whilst exposure to 0.5 mg L^?1 AgNPs had no significant effect on amoA gene abundances or NPR, 50 mg L^?1 AgNPs significantly decreased AOB amoA gene abundance (up to 76% over 14 days), and significantly decreased NPR by 20‐fold in low‐salinity sediments and by twofold in mesohaline sediments, after one day. AgNP behaviour differed between sites, whereby greater aggregation occurred in mesohaline waters (possibly due to higher salinity), which may have reduced toxicity. In conclusion, AgNPs have the potential to reduce ammonia oxidation in estuarine sediments, particularly where AgNPs accumulate over time and reach high concentrations. This could lead to long‐term risks to nitrification, especially in polyhaline estuaries where ammonia‐oxidation is largely driven by AOB.     

Rapid and dissimilar response of ammonia oxidizing archaea and bacteria to nitrogen and water amendment in two temperate forest soils

Biochemical processes relevant to soil nitrogen (N) cycling are performed by soil microorganisms affiliated with diverse phylogenetic groups. For example, the oxidation of ammonia, representing the first step of nitrification, can be performed by ammonia oxidizing bacteria (AOB) and, as recently reported, also by ammonia oxidizing archaea (AOA). However, the contribution to ammonia oxidation of the phylogenetically separated AOA versus AOB and their respective responsiveness to environmental factors are still poorly understood. The present study aims at comparing the capacity of AOA and AOB to momentarily respond to N input and increased soil moisture in two contrasting forest soils. Soils from the pristine Rothwald forest and the managed Schottenwald forest were amended with either NH(4)(+)-N or NO(3)(-)-N and were incubated at 40% and 70% water-filled pore space (WFPS) for four days. Nitrification rates were measured and AOA and AOB abundance and community composition were determined via quantitative PCR (qPCR) and terminal restriction length fragment polymorphism (T-RFLP) analysis of bacterial and archaeal amoA genes. Our study reports rapid and distinct changes in AOA and AOB abundances in the two forest soils in response to N input and increased soil moisture but no significant effects on net nitrification rates. Functional microbial communities differed significantly in the two soils and responded specifically to the treatments during the short-term incubation. In the Rothwald soil the abundance and community composition of AOA were affected by the water content, whereas AOB communities responded to N amendment. In the Schottenwald soil, by contrast, AOA responded to N addition. These results suggest that AOA and AOB may be selectively influenced by soil and management factors.     

Net nitrogen mineralization and net nitrification along a tropical forest-to-pasture chronosequence

Soil inorganic nitrogen pools, net mineralization and net nitrification rates were compared during the dry season along a chronosequence of upland (terra firme) forest, 3-, 9- and 20-year-old pastures in the western Brazilian Amazon Basin state of Rondônia to investigate the influence of forest conversion to pasture on soil nitrogen cycles. Surface soil (0 to 10 cm) from forest had larger extractable inorganic nitrogen pools than pasture soils. In the forest, NO ₃ ^– pools equaled or exceeded NH ₄ ⁺ pools, while pasture inorganic N pools consisted almost exclusively of NH ₄ ⁺ . Rates of net N mineralization and net nitrification in seven -day laboratory incubations were higher in the seven - day forest than in the pastures. Net N mineralization rates did not differ significantly among different-aged pastures, but net nitrification rates were significantly lower in the 20-year-old pasture. Higher net N mineralization and net nitrification rates were measured in laboratory and in situ incubations of sieved soil, compared with in situ incubations of intact soil cores. Rates calculated in seven-day incubations were higher than determined by longer incubations. Sieving may increase N mineralization and/or decrease N immobilization compared with intact cores. We concluded that 7-day laboratory incubation of sieved soil was the most useful index for comparing N availability across the chronosequence of forest and pasture sites. High net nitrification rates in forest soils suggest a potential for NO ₃ ^– losses either through leaching or gaseous emissions.     

Transferring soils from high- to low-elevation forests increases nitrogen cycling rates: climate change implications

We assessed the potential impact of global warming resulting from a doubling of preindustrial atmospheric CO₂ on soil net N transformations by transferring intact soil cores (0–15 cm) from a high-elevation old-growth forest to a forest about 800 m lower in elevation in the central Oregon Cascade Mountains, USA. The lower elevation site had mean annual air and soil (10-cm mineral soil depth) temperatures about 2.4 and 3.9 °C higher than the high-elevation site, respectively. Annual rates of soil net N mineralization and nitrification more than doubled in soil transferred to the low-elevation site (17.2–36.0 kg N ha^–1 and 5.0–10.7 kg NO₃^––N ha^–1, respectively). Leaching of inorganic N from the surface soil (in the absence of plant uptake) also increased. The reciprocal treatment (transferring soil cores from the low- to the high-elevation site) resulted in decreases of about 70, 80, and 65% in annual rates of net N mineralization, nitrification, and inorganic N leaching, respectively. Laboratory incubations of soils under conditions of similar temperature and soil water potential suggest that the quality of soil organic matter is higher at the high-elevation site. Similar in situ rates of soil net N transformations between the two sites occurred because the lower temperature counteracts the effects of greater substrate quantity and quality at the high elevation site. Our results support the hypothesis that high-elevation, old-growth forest soils in the central Cascades have higher C and N storage than their low-elevation analogues primarily because low temperatures limit net C and N mineralization rates at higher elevations.     

Control of Nitrification by Tree Species in a Common-Garden Experiment

We studied the effect of tree species on nitrification in five young plantations and an old native beech coppice forest at the Breuil experimental site in central France. The potential net nitrification (PNN) of soil was high in beech, Corsican pine, and Douglas fir plantations (high nitrifying stands denoted H) and low in spruce and Nordmann fir plantations as well as in native forest stands (low nitrifying stands denoted L). We hypothesized that tree species would stimulate or inhibit nitrification in transplanted soil cores within a few years after the cores were transplanted between stands. We first initiated a transplant experiment where soil cores were exchanged between all stands. The PNN remained high in soil cores from H transferred to H and low in soil cores from L transferred to L. The PNN increased considerably after 16 months in soil cores transferred from L to H, whereas the transfer of soil cores from H to L decreased the PNN only slightly after 28 months. In a second transplant experiment, forest floor material was exchanged between the Douglas fir (H) and the native forest (L) stand. Six months later, the forest floor from the native forest had increased the PNN of the Douglas fir soil considerably, whereas the forest floor from Douglas fir did not affect the PNN of the soil in the native forest stand. It was concluded that beech, Corsican pine, and Douglas fir rapidly stimulate soil nitrification by either activation of suppressed nitrifier communities and/or colonization by new nitrifier communities. Conversely, the slow and irregular reduction of nitrification in spruce, Nordmann fir, and native forest was probably due to the low and heterogeneously distributed flux of inhibiting substances per volume of soil. Our experiments suggest that the inhibition of nitrification is not tightly connected to forest floor leachates, but that the forest floor both reflects and maintains the major ongoing processes. In the long term, humus build up and the production of inhibiting substances may completely block the nitrification activity.     

Potential impacts of climate change on nitrogen transformations and greenhouse gas fluxes in forests: a soil transfer study

Relatively little research has been conducted on how climate change may affect the structure and function of arid to semiarid ecosystems of the American Southwest. Along the slopes of the San Francisco Peaks of Arizona, USA, I transferred intact soil cores from a spruce‐fir to a ponderosa pine forest 730 m lower in elevation to assess the potential impacts of climate change on soil N cycling and trace gas fluxes. The low‐elevation site has a mean annual soil temperature about 2.5°C higher than the high‐elevation site. Net rates of N transformations and trace gas fluxes were measured in high‐elevation soil cores incubated in situ and soil cores transferred to the low‐elevation site. Over a 13‐month period, volumetric soil water content was similar in transferred soil cores relative to soil cores incubated in situ. Net N mineralization and nitrification increased over 80% in transferred soil cores compared with in situ soil cores. Soil transfer significantly increased net CO₂ efflux (120%) and net CH₄ consumption (90%) relative to fluxes of these gases from soil cores incubated in situ. Soil net N₂O fluxes were relatively low and were not generally altered by soil transfer. Although the soil microbial biomass as a whole decreased in transferred soil cores compared with in situ soil cores after the incubation period, active bacterial biomass increased. Transferring soil cores from the low‐elevation to the high‐elevation site (i.e. simulated global cooling) commonly, but not consistently, resulted in the opposite effects on soil pools and processes. In general, soil containment (root trenching) did not significantly affect soil measurements. My results suggest that small increases in mean annual temperature can have large impacts on soil N cycling, soil–atmosphere trace gas exchanges, and soil microbial communities even in ecosystems where water availability is a major limiting resource.     

长期施用猪粪对红壤完全氨氧化菌基因丰度的影响

完全氨氧化菌(comammox Nitrospira)的发现对硝化微生物的研究提出了新的挑战。大量研究表明完全氨氧化菌在陆地生态系统中广泛分布,但其在农田土壤中的分布规律及其对长期施用粪肥的响应尚不清楚。研究了长期施用猪粪对农田红壤完全氨氧化菌、氨氧化古菌(AOA)和氨氧化细菌(AOB)功能基因(amoA)丰度的影响,及其与土壤净硝化速率的关系。结果表明：与不施肥的对照处理相比,猪粪施用显著提高土壤有机质和养分含量,且随着猪粪的施用量增加而增加。同时,施用中量和高量猪粪显著提升土壤净硝化速率,增幅分别达到317%和416%。所有处理中,完全氨氧化菌丰度以进化枝A为主,进化枝B丰度极低,大多为非特异性扩增产物,但进化枝A的amoA丰度均低于氨氧化古菌和氨氧化细菌。长期施用高量猪粪显著提升进化枝A的amoA基因丰度,表明存在喜好富营养环境的完全氨氧化菌,而有效磷是最主要的影响因子。相关性分析表明,进化枝A的amoA丰度与净硝化速率呈显著正相关(P<0.01),而氨氧化古菌和氨氧化细菌则没有,表明进化枝A可能在长期施用粪肥的农田红壤硝化过程中发挥重要功能。综上所述,长期施用粪肥显著提高...     

Recovery of Soil Ammonia Oxidation After Long-Term Zinc Exposure Is Not Related to the Richness of the Bacterial Nitrifying Community

A soil sterilization–reinoculation approach was used to manipulate soil microbial diversity and to assess the effect of the diversity of the ammonia-oxidizing bacteria (AOB) on the recovery of the nitrifying community to metal stress (zinc). Gamma-irradiated soil was inoculated with 13 different combinations of up to 22 different soils collected worldwide to create varying degrees of AOB diversity. Two months after inoculation, AOB amoA DGGE based diversity (weighted richness) varied more than 10-fold among the 13 treatments, the largest value observed where the number of inocula had been largest. Subsequently, the 13 treatments were either or not amended with ZnCl₂. Initially, Zn amendment completely inhibited nitrification. After 6 months of Zn exposure, recovery of the potential nitrification activity in the Zn amended soils ranged from <10 % to >100 % of the potential nitrification activity in the corresponding non-amended soils. This recovery was neither related to DGGE-based indices of AOB diversity nor to the AOB abundance assessed 2 months after inoculation (p?>?0.05). However, recovery was significantly related (r?=?0.75) to the potential nitrification rate before Zn amendment and only weakly to the number of soil inocula used in the treatments (r?=?0.46). The lack of clear effects of AOB diversity on recovery may be related to an inherently sufficient diversity and functional redundancy of AOB communities in soil. Our data indicate that potential microbial activity can be a significant factor in recovery.     

Seasonal patterns of ammonium and nitrate uptake in nine temperate forest ecosystems

Summary Seasonal patterns of net N mineralization and nitrification in the 0–10 cm mineral soil of 9 temperate forest sites were analyzed using approximately monthlyin situ soil incubations. Measured nitrification rates in incubated soils were found to be good estimates of nitrification in surrounding forest soils. Monthly net N mineralization rates and pools of ammonium-N in soil fluctuated during the growing season at all sites. Nitrate-N pools in soil were generally smaller than ammonium-N pools and monthly nitrification rates were less variable than net N mineralization rates. Nitrate supplied most of the N taken up annually by vegetation at 8 of the 9 sites. Furthermore, despite the large fluctuations in ammonium-N pools and monthly net N mineralization, nitrate was taken up at relatively uniform rates during the growing season at most sites.     

Links between ammonia oxidizer community structure, abundance, and nitrification potential in acidic soils

Ammonia oxidation is the first and rate-limiting step of nitrification and is performed by both ammonia-oxidizing archaea (AOA) and bacteria (AOB). However, the environmental drivers controlling the abundance, composition, and activity of AOA and AOB communities are not well characterized, and the relative importance of these two groups in soil nitrification is still debated. Chinese tea orchard soils provide an excellent system for investigating the long-term effects of low pH and nitrogen fertilization strategies. AOA and AOB abundance and community composition were therefore investigated in tea soils and adjacent pine forest soils, using quantitative PCR (qPCR), terminal restriction fragment length polymorphism (T-RFLP) and sequence analysis of respective ammonia monooxygenase (amoA) genes. There was strong evidence that soil pH was an important factor controlling AOB but not AOA abundance, and the ratio of AOA to AOB amoA gene abundance increased with decreasing soil pH in the tea orchard soils. In contrast, T-RFLP analysis suggested that soil pH was a key explanatory variable for both AOA and AOB community structure, but a significant relationship between community abundance and nitrification potential was observed only for AOA. High potential nitrification rates indicated that nitrification was mainly driven by AOA in these acidic soils. Dominant AOA amoA sequences in the highly acidic tea soils were all placed within a specific clade, and one AOA genotype appears to be well adapted to growth in highly acidic soils. Specific AOA and AOB populations dominated in soils at particular pH values and N content, suggesting adaptation to specific niches.     

Original Articles: Differential Influence of Plant Species on Soil Nitrogen Transformations Within Moist Meadow Alpine Tundra

Plant species can influence nitrogen (N) cycling indirectly through the feedbacks of litter quality and quantity on soil N transformation rates. The goal of this research was to focus on small-scale (within-community) variation in soil N cycling associated with two community dominants of the moist meadow alpine tundra. Within this community, the small-scale patchiness of the two most abundant species (Acomastylis rossii and Deschampsia caespitosa) provides natural variation in species cover within a relatively similar microclimate, thus enabling estimation of the effects of plant species on soil N transformation rates. Monthly rates of soil N transformations were dependent on small-scale variation in both soil microclimate and species cover. The relative importance of species cover compared with soil microclimate increased for months 2 and 3 of the 3-month growing season. Growing-season net N mineralization rates were over ten times greater and nitrification rates were four times greater in Deschampsia patches than in Acomastylis patches. Variability in litter quality [carbon:nitrogen (C:N) and phenolic:N], litter quantity (aboveground and fine-root production), and soil quality (C:N) was associated with three principal components. Variability between the species in litter quality and fine-root production explained 31% of the variation in net N mineralization rates and 36% of net nitrification rates. Site variability across the landscape in aboveground production and soil C:N explained 33% of the variation in net N mineralization rates and 21% of net nitrification rates. Within the moist meadow community, the high spatial variability in soil N transformation rates was associated with differences in the dominant species' litter quality and fine-root production. Deschampsia-dominated patches consistently had greater soil N transformation rates than did Acomastylis-dominated patches across the landscape, despite site variability in soil moisture, soil C:N, and aboveground production. Plant species appear to be an important control of soil N transformation in the alpine tundra, and consequently may influence plant community structure and ecosystem function.     

Community composition of ammonia-oxidizing bacteria and archaea in soils under stands of red alder and Douglas fir in Oregon

This study determined nitrification activity and nitrifier community composition in soils under stands of red alder (Alnus rubra) and Douglas fir (Pseudotsuga menziesii) at two sites in Oregon. The H.J. Andrews Experimental Forest, located in the Cascade Mountains of Oregon, has low net N mineralization and gross nitrification rates. Cascade Head Experimental Forest, in the Coast Range, has higher net N mineralization and nitrification rates and soil pH is lower. Communities of putative bacterial [ammonia-oxidizing bacteria (AOB)] and archaeal [ammonia-oxidizing archaea (AOA)] ammonia oxidizers were examined by targeting the gene amoA, which codes for subunit A of ammonia monooxygenase. Nitrification potential was significantly higher in red alder compared with Douglas-fir soil and greater at Cascade Head than H.J. Andrews. Ammonia-oxidizing bacteria amoA genes were amplified from all soils, but AOA amoA genes could only be amplified at Cascade Head. Gene copy numbers of AOB and AOA amoA were similar at Cascade Head regardless of tree type (2.3-6.0 x 10(6)amoA gene copies g(-1) of soil). DNA sequences of amoA revealed that AOB were members of Nitrosospira clusters 1, 2 and 4. Ammonia-oxidizing bacteria community composition, determined by terminal restriction fragment length polymorphism (T-RFLP) profiles, varied among sites and between tree types. Many of the AOA amoA sequences clustered with environmental clones previously obtained from soil; however, several sequences were more similar to clones previously recovered from marine and estuarine sediments. As with AOB, the AOA community composition differed between red alder and Douglas-fir soils.     

毛竹林和阔叶林凋落物互置对土壤氮矿化的影响及微生物贡献

凋落物输入方式的改变导致凋落物数量和质量发生变化,进而对森林土壤氮矿化产生影响。选择未被入侵的次生阔叶林和毛竹入侵后形成的毛竹纯林为对象,对地表凋落物进行保留、去除与置换处理,采用室内培养法同时添加抗生素(链霉素和放线菌酮)分析真菌和细菌在土壤氮素矿化中的贡献。结果表明：(1)去除凋落物处理使阔叶林土壤净氨化速率增加27.0%,净硝化速率降低11.4%;毛竹林土壤净氨化速率增加23.4%。(2)置换凋落物处理使阔叶林土壤净氨化速率增加43.8%,净硝化速率降低33.5%;毛竹林土壤净硝化速率增加73.1%。(3)添加抗生素后,凋落物置换处理与对照相比,置换凋落物后阔叶林土壤真菌和细菌在净氨化中发挥主要作用;真菌在两种林分土壤净硝化中发挥主要作用,细菌在阔叶林土壤净硝化中发挥主要作用。(4)结合测定的凋落物化学性质可知,置换凋落物后引起真菌和细菌在土壤氮素矿化中贡献发生变化,是由于输入凋落物中木质素和纤维素含量的变化。综上,凋落物去除和置换改变了土壤氮素矿化速率,置换凋落物后改变了真菌和细菌对土壤氮素矿化的贡献。解析凋落物质量在土壤氮素矿化中的作用及微生物群落的相对贡献,有助于阐明毛竹入...     

Community Structure of Ammonia-Oxidizing Bacteria under Long-Term Application of Mineral Fertilizer and Organic Manure in a Sandy Loam Soil

The effects of mineral fertilizer (NPK) and organic manure on the community structure of soil ammonia-oxidizing bacteria (AOB) was investigated in a long-term (16-year) fertilizer experiment. The experiment included seven treatments: organic manure, half organic manure N plus half fertilizer N, fertilizer NPK, fertilizer NP, fertilizer NK, fertilizer PK, and the control (without fertilization). N fertilization greatly increased soil nitrification potential, and mineral N fertilizer had a greater impact than organic manure, while N deficiency treatment (PK) had no significant effect. AOB community structure was analyzed by PCR-denaturing gradient gel electrophoresis (PCR-DGGE) of the amoA gene, which encodes the α subunit of ammonia monooxygenase. DGGE profiles showed that the AOB community was more diverse in N-fertilized treatments than in the PK-fertilized treatment or the control, while one dominant band observed in the control could not be detected in any of the fertilized treatments. Phylogenetic analysis showed that the DGGE bands derived from N-fertilized treatments belonged to Nitrosospira cluster 3, indicating that N fertilization resulted in the dominance of Nitrosospira cluster 3 in soil. These results demonstrate that long-term application of N fertilizers could result in increased soil nitrification potential and the AOB community shifts in soil. Our results also showed the different effects of mineral fertilizer N versus organic manure N; the effects of P and K on the soil AOB community; and the importance of balanced fertilization with N, P, and K in promoting nitrification functions in arable soils.     

N2O emission rates in a California meadow soil are influenced by fertilizer level, soil moisture and the community structure of ammonia-oxidizing bacteria

The response of nitrous oxide (N₂O) emission rates and β‐proteobacterial ammonia‐oxidizing (AOB) communities to manipulations of temperature, soil moisture and nitrogenous fertilizer concentration were studied for 16–20 weeks in a multifactorial laboratory experiment using a California meadow soil. Interactions among these three environmental factors influenced the N₂O emission rates, and two patterns of N₂O emission rates due to nitrification (NitN₂O) were observed. First, in soils receiving low or moderate amounts of fertilizer, the rates decreased sharply in response to increasing soil moisture and temperature. Second, in soils receiving high amounts of fertilizer, the rates were influenced by an interaction between soil moisture and temperature, such that at 20 °C increasing soil moisture resulted in an increase in the rates, and at 30 °C the highest rate was observed at moderate soil moisture. We used path analysis to identify the interrelationships that best explain these two patterns. Path analysis revealed that in the high fertilizer (HF) treatment, the major path by which ammonia influenced NitN₂O rates was indirect through an influence on the abundance of one particular phylogenetic group (AOB ‘cluster 10’). In contrast, in the low and moderate fertilizer treatments soil moisture influenced the rates both directly (the major path) and indirectly through AOB community structure. Although terminal restriction fragment length polymorphism (T‐RFLP) analysis revealed shifts in the community structure of AOB in all treatments, the shifts at HF concentrations were particularly striking, with dominance by three different phylogenetic groups under different combinations of the three environmental factors. The high emission rates observed at the lowest soil moistures suggest that bacterial nitrifiers may use denitrification as a stress response.     

三江平原典型小叶章湿地土壤氮素净矿化与硝化作用

2004年6月—2005年7月,利用PVC顶盖原位培育法研究了三江平原典型草甸小叶章湿地和沼泽化草甸小叶章湿地土壤(0~15cm)无机氮库、净矿化/硝化速率动态、影响因素及年净矿化/硝化量.结果表明:两种湿地土壤的无机氮均呈明显的动态变化特征,其NH4 -N、NO3-N含量均表现为典型草甸小叶章湿地>沼泽化草甸小叶章湿地.两种湿地土壤的净矿化/硝化速率均呈明显的波动变化,生物固持作用、反硝化作用以及雨季较多降水是导致净矿化/硝化速率出现负值的主要原因.温度、降水、土壤有机质含量、C/N和pH是引起二者土壤无机氮库、净矿化/硝化速率存在明显差异的重要原因.典型草甸小叶章湿地的年净矿化量(19.41kg·hm-2)、年净硝化量(4.27kg·hm-2)以及净硝化量占净矿化量的百分比(22.00%)明显高于沼泽化草甸小叶章湿地(5.51kg·hm-2、0.28kg·hm-2和5.08%),说明前者的氮有效性以及维持可利用氮的能力明显高于后者.     

Use of Aliphatic n-Alkynes To Discriminate Soil Nitrification Activities of Ammonia-Oxidizing Thaumarchaea and Bacteria

Ammonia (NH₃)-oxidizing bacteria (AOB) and thaumarchaea (AOA) co-occupy most soils, yet no short-term growth-independent method exists to determine their relative contributions to nitrification in situ. Microbial monooxygenases differ in their vulnerability to inactivation by aliphatic n-alkynes, and we found that NH₃ oxidation by the marine thaumarchaeon Nitrosopumilus maritimus was unaffected during a 24-h exposure to ≤20 μM concentrations of 1-alkynes C₈ and C₉. In contrast, NH₃ oxidation by two AOB (Nitrosomonas europaea and Nitrosospira multiformis) was quickly and irreversibly inactivated by 1 μM C₈ (octyne). Evidence that nitrification carried out by soilborne AOA was also insensitive to octyne was obtained. In incubations (21 or 28 days) of two different whole soils, both acetylene and octyne effectively prevented NH₄⁺-stimulated increases in AOB population densities, but octyne did not prevent increases in AOA population densities that were prevented by acetylene. Furthermore, octyne-resistant, NH₄⁺-stimulated net nitrification rates of 2 and 7 μg N/g soil/day persisted throughout the incubation of the two soils. Other evidence that octyne-resistant nitrification was due to AOA included (i) a positive correlation of octyne-resistant nitrification in soil slurries of cropped and noncropped soils with allylthiourea-resistant activity (100 μM) and (ii) the finding that the fraction of octyne-resistant nitrification in soil slurries correlated with the fraction of nitrification that recovered from irreversible acetylene inactivation in the presence of bacterial protein synthesis inhibitors and with the octyne-resistant fraction of NH₄⁺-saturated net nitrification measured in whole soils. Octyne can be useful in short-term assays to discriminate AOA and AOB contributions to soil nitrification.