施肥方式对干旱半干旱地区土壤氨氧化微生物数量和群落的影响

氨氧化是硝化作用的限速步骤,也是评估土壤氮循环和提高氮肥利用效率的重要指标。以内蒙古农牧业科学院旱作实验站长期定位实验为基础,通过实时荧光定量PCR和末端限制性片段长度多态性分析,研究了5种施肥方式（单施氮肥、单施有机肥、氮磷钾配施、有机无机配施和不施肥）对土壤氨氧化古菌（AOA）和氨氧化细菌（AOB）群落丰度、结构和活性的影响。结果表明：单施氮肥、氮磷钾肥配施以及有机无机肥配施均能显著提高AOB的丰度以及土壤硝化潜势。Nitrosospiria cluster 3a.1是不施肥土壤中主要的AOB种群,而施用氮肥后优势种群转变为Nitrosospiria cluster 3a.2。Nitrosospiria cluster 3b的比例在施用有机肥处理土壤中显著升高。在干旱半干旱地区,土壤pH和含水量是解释AOB群落结构变化的关键环境因子。AOA的丰度在单独施用氮肥处理中显著升高,但不同施肥方式对AOA的群落结构没有显著影响。     

长期施肥对灰漠土生物群落和酶活性的影响

长期定位试验表明:施肥对灰漠土生物类群、酶活性有一定影响,同时生物类群和酶活性也改变了土壤生态环境.(1) 施肥对灰漠土动物个体及类群数的影响显著,长期单施化肥对土壤动物优势度作用较大,化肥配施有机肥丰富了土壤动物组成,化肥配施秸秆有利于增加土壤动物的丰度,尤其是疣跳科和等节跳科动物个体数量增加近10倍,长期不施肥土壤动物均匀性较高,但优势类群数较低;(2)灰漠土微生物组成以细菌为主,特殊微生物生理类群是以固氮菌和氨化细菌数量居多.长期单施化肥不利于土壤微生物生长,几种菌类数量均较低,化肥配施有机物料增加了土壤微生物类群数量,比对照增加15%～44%,长期不施肥土壤微生物数量高于单施化肥处理.(3) 灰漠土自身过氧化氢酶含量较高,蔗糖酶次之.土壤4种酶活性中除过氧化氢酶与土壤养分之间呈负相关以外,其余3种酶活性与土壤速效养分均呈正相关或显著正相关.长期单施化肥土壤脲酶、磷酸酶活性降低,长期不施肥土壤脲酶、磷酸酶活性高于单施化肥处理,化肥配施有机肥或秸秆的土壤脲酶、蔗糖酶、磷酸酶活性比长期不施肥增加了24%～31%.因此,化肥配施有机物料增加了土壤酶活性,加速了土壤熟化,改变了土壤生态环境.     

长期施肥条件下菜田土壤微生物特征变化

对蔬菜地长期施肥土壤的8个主要处理进行了分析,探求不同培肥方式对土壤微生物生态特征的影响。结果表明：有机无机肥配施较单施无机肥可显著增加土壤细菌和放线菌的数量,提高土壤真菌的多样性;有机肥和低浓度氮肥配施处理的土壤细菌数量、真菌群落的多样性和均匀性显著高于其他处理;单施高浓度的氮肥显著降低土壤细菌的数量,真菌群落的多样性和均匀性也明显低于对照。     

小麦-甘薯轮作长期增施有机肥对碱性土壤固氮菌群落结构及多样性的影响

生物固氮为农业生态系统提供天然的氮素来源,探究长期增施有机肥对土壤固氮菌群落的影响,为合理增施有机肥和维持土壤固氮微生物群落多样性提供科学依据。选取小麦-甘薯轮作中连续37a不施肥对照(CK)、单施化肥(NPK)、化肥+有机肥(NPKM)处理的甘薯季碱性土壤样品为研究对象。采用Illumina MiSeq高通量测序技术,研究土壤固氮菌群落的组成、多样性及其与土壤特性的关系。结果表明:与对照和单施化肥相比,长期增施有机肥降低土壤固氮菌群落丰富度和多样性,且丰富度与土壤pH显著正相关,与有机碳、全氮和有效养分(硝态氮、有效磷和速效钾)显著负相关。主坐标分析表明长期施肥显著改变土壤固氮菌群落结构,与对照相比,增施有机肥比单施化肥对固氮菌群落结构的影响更大。冗余分析表明土壤有机碳和速效钾是影响固氮菌群落结构改变最主要的因素。长期增施有机肥显著降低变形菌门、蓝藻菌门、Beta-变形菌和固氮弧菌属的相对丰度,显著增加硝化螺旋菌门、酸杆菌门和硝化螺菌属的相对丰度,这与土壤pH、有机碳和有效养分显著相关。因此,在碱性土壤上长期增施有机肥对固氮菌群落结构的改变更大,对群落多样性的抑制作用更强。     

长期施肥土壤微生物群落的剖面变化及其与土壤性质的关系

摘要:【目的】认识不同施肥模式对土壤微生物群落的长期影响及其与土壤理化属性的联系。【方法】利用新一代高通量测序技术,研究绿洲农田20年单施化肥(N 300 kg/hm2、P2O5 150 kg/hm2与K2O 60 kg/hm2)与化肥配施秸秆(同量的N与P肥配施5.4 t秸秆)对土壤剖面(0－300 cm)微生物群落结构的影响。【结果】放线菌与α-变形菌为土壤表层(0－20 cm)的优势类群。随土壤剖面深度的增加,放线菌相对丰度减少,而变形菌,特别是γ-变形菌与β-变形菌相对丰度增加,逐渐成为深层(20－300 cm)土壤中的优势类群。长期施肥对整个土壤剖面的微生物群落结构均有显著影响,并且明显提高了0－40 cm土层中氨氧化古菌的相对丰度。此外,农田管理模式如灌溉可能是氨氧化细菌在土壤垂直剖面的重要驱动因素。统计分析表明土壤全氮含量对表层土壤中微生物群落结构的影响最大,而有机碳含量则是影响深层土壤微生物群落的最重要因子。【结论】长期施肥改变了土壤剖面碳源与氮源的可利用量,导致了施肥处理间土壤微生物群落结构的差异,特别在剖面深层更为明显。     

长期施肥土壤微生物群落的剖面变化及其与土壤性质的关系

【目的】认识不同施肥模式对土壤微生物群落的长期影响及其与土壤理化属性的联系。【方法】利用新一代高通量测序技术,研究绿洲农田20年单施化肥(N 300 kg/hm2、P2O5150 kg/hm2与K2O 60 kg/hm2)与化肥配施秸秆(同量的N与P肥配施5.4 t秸秆)对土壤剖面(0-300 cm)微生物群落结构的影响。【结果】放线菌与α-变形菌为土壤表层(0-20 cm)的优势类群。随土壤剖面深度的增加,放线菌相对丰度减少,而变形菌,特别是γ-变形菌与β-变形菌相对丰度增加,逐渐成为深层(20-300 cm)土壤中的优势类群。长期施肥对整个土壤剖面的微生物群落结构均有显著影响,并且明显提高了0-40 cm土层中氨氧化古菌的相对丰度。此外,农田管理模式如灌溉可能是氨氧化细菌在土壤垂直剖面的重要驱动因素。统计分析表明土壤全氮含量对表层土壤中微生物群落结构的影响最大,而有机碳含量则是影响深层土壤微生物群落的最重要因子。【结论】长期施肥改变了土壤剖面碳源与氮源的可利用量,导致了施肥处理间土壤微生物群落结构的差异,特别在剖面深层更为明显。     

长期不同施肥制度对水稻土氨氧化微生物数量和群落结构的影响

由氨氧化微生物驱动的氨氧化过程是硝化作用的限速步骤,在土壤氮素循环过程中扮演着重要角色.以湖南省宁乡县长达30 a定位试验水稻土壤为研究对象,采用荧光定量PCR和Illumina MiSeq高通量测序分析方法,以amoA基因为靶标,研究了4种施肥制度[不施肥(CK)、化肥(CF)、70%化肥+30%有机肥(CFM₁)和40%化肥+60%有机肥(CFM₂)]水稻土壤氨氧化微生物的数量和群落结构变化.结果表明: 不同施肥处理氨氧化古菌(AOA)和氨氧化细菌(AOB) amoA基因拷贝数分别为3.09×10⁷～8.37×10⁷和1.04×10⁷～7.03×10⁷ copies·g^-1干土.施肥显著提高了AOA和AOB数量,但处理CFM₂中AOB数量与CK差异不显著.有机肥配施比例对AOB群落α多样性指数的影响强于AOA,处理CFM₁中AOA群落的多样性指数(Shannon)和AOB群落的丰富度指数(ACE和Chao1)均显著高于CK.奇古菌门和泉古菌门是AOA群落的优势门类群,占AOA amoA基因总序列的83.4%;亚硝化螺菌属、environmental_samples_norank、Bacteria_unclassified和Nitrosomonadales_unclassified是AOB群落的优势属类群,占AOB amoA基因总序列的97.8%.维恩分析结果显示,有机肥配施比例对AOB群落操作分类单元(OTU)数量的影响强于AOA,但对各处理共有AOA和AOB amoA基因序列条数的影响均较小.冗余分析结果显示,不同施肥处理AOB群落结构差异强于AOA,且所有土壤理化性质均与AOA和AOB群落结构存在显著相关关系.综上可知:有机肥配施比例显著改变了AOA和AOB数量、多样性和群落结构,配施30%有机肥时,AOA群落的Shannon指数最高,AOB群落数量、ACE和Chao1指数均最高.研究结果可为进一步探讨农业系统中氨氧化微生物对不同施肥制度的响应机制及其在氮素转化中的作用提供科学依据.     

长期施肥对农田黑土r-K策略菌群的影响

直接参与土壤养分代谢周转过程的土壤微生物群落是土壤肥力质量的重要衡量指标。本文研究了长期施肥对农田黑土细菌和真菌r-K策略菌群(生态生理功能)的影响。结果表明:施肥处理菌群生长的均匀度和丰富度有所降低,细菌和真菌生态生理指数(EP)降低幅度分别为0.019～0.106和0.023～0.185。各处理K策略菌数量均大于相应的r策略菌。施肥能增加土壤r策略细菌数量,但不利于r策略真菌生长。与CK相比,r-K策略细菌和K策略真菌数量在单施中量有机肥处理中增幅最大;有机肥与化肥配施处理r-K策略细菌和K策略真菌数量高于单施同种化肥处理。在K策略菌占优势下,施用化肥有利于r策略菌比率提高,而有机肥与化肥配施倾向于使K策略菌比率增加。相关性分析表明,K策略菌群与土壤N素呈极显著正相关(P<0.01),可能是影响土壤N素循环的关键菌群。     

配施磷细菌肥对复垦土壤细菌多样性及磷有效性的影响

为了解磷细菌肥对复垦土壤微生物群落结构变化特征和磷有效性的影响,本研究以连续配施磷细菌肥5年的定位试验为背景,利用16S rDNA基因序列测序方法对土壤细菌群落多样性进行分析,探讨土壤细菌群落与土壤Olsen-P、碱性磷酸酶的关系.试验共设对照、单施化肥、有机肥、有机肥化肥、化肥磷细菌肥、有机肥磷细菌肥和有机肥化肥磷细菌肥7个处理.结果表明: 复垦土壤中放线菌门和变形菌门菌群的相对丰度最大,分别为21.6％～32.2％和13.8％～28.9％.有机肥化肥磷细菌肥处理的OTU数和Chao1指数分别为809和26190,均属最高.磷细菌肥处理能提高土壤中放线菌门和变形菌门菌群的相对丰度,降低土壤中酸杆菌门、热袍菌门和硝化螺旋菌门菌群的相对丰度,对诺卡氏菌属、屈挠杆菌属有一定的促进作用.有机肥化肥磷细菌肥处理能够提高复垦土壤Olsen-P及碱性磷酸酶活性.复垦土壤变形菌门与Olsen-P、碱性磷酸酶的相关系数最高(0.900、0.955),在一定程度上可以作为土壤磷有效性的灵敏性指标.     

长期施肥对红壤微生物生物量碳氮和微生物碳源利用的影响

采集湖南省祁阳县红壤长期定位施肥19年的土壤样品,分析长期不同施肥红壤的微生物生物量碳、氮和微生物碳源利用率,以揭示长期施肥对红壤微生物学性状的影响.结果表明：施肥19年后,有机肥单施或与化肥配合施用均显著提高土壤微生物生物量碳、氮和微生物碳源利用率.单施有机肥的土壤微生物生物量碳、氮含量分别为231和81 mg·kg^-1,化肥有机肥配施分别为148和73 mg·kg^-1,均显著高于化肥配施秸秆、不施肥和单施化肥;施用有机肥和化肥配施秸秆的土壤微生物生物量氮占全氮的比例平均为6.0%,显著高于单施化肥和不施肥.Biolog-ECO分析中,平均吸光值(AWCD)的大小为：化肥有机肥配施、单施有机肥>对照>单施化肥、化肥配施秸秆.单施有机肥或与化肥有机肥配施增加了红壤微生物对碳水化合物、羧酸、氨基酸、聚合物、酚类和胺类的碳源利用率;化肥配施有机肥的红壤微生物对聚合物类碳源利用率最高,化肥配施秸秆的红壤微生物对碳水化合物类碳源的利用率最高.表明施用有机肥能显著提高红壤的微生物生物量碳、氮和微生物碳源利用率,提高红壤肥力,保持作物高产.     

长期施肥对土壤氨氧化微生物的影响

长期施肥可改变土壤碳氮等养分供应,进而影响微生物数量与群落组成。本研究基于棕壤长期定位实验站,分析不同施肥方式下(不施肥,CK;低量无机氮肥,N₂;高量无机氮肥,N₄;有机无机氮肥配施,M₂N₂)土壤氨氧化古菌(AOA)和细菌(AOB)的变化,为土壤氮素转化的微生物学机制和培肥土壤提供依据。结果表明:不同施肥方式下,土壤AOA与AOB的数量比值为2.28～61.95。与CK相比,施肥后土壤AOA数量降低了1.6%～13.6%。N₄处理AOB数量随土壤深度增加呈先降低后升高的趋势,其他处理则相反。土壤AOB群落Shannon多样性指数、均匀度指数和Simpson指数均高于AOA。M₂N₂处理0～20 cm土层土壤AOB多样性增加,但AOA多样性降低。土壤AOB主要因土壤深度发生聚类,AOB和AOA均未因施肥方式发生聚类。综上,长期施肥改变了土壤AOA和AOB的构成状况,AOA对环境变化较为敏感,AOB较为丰富和稳定。     

生物炭与炭基肥对采煤塌陷复垦区土壤硝化和反硝化微生物群落的影响

作为一种新型土壤改良剂,生物炭对土壤微生物群落的影响已有报道,但在采煤塌陷复垦区土壤氮循环微生物群落对生物炭添加的响应鲜有报道。以生物炭和炭基肥为添加材料,以淮北地区塌陷复垦土为供试土壤,通过室外盆栽试验,采用荧光定量PCR(qPCR)和末端限制性片段长度多态性(T-RFLP)技术,研究不同生物炭处理的土壤硝化和反硝化微生物的菌群变化。试验共设5个处理:对照(CK)、常规化肥(CF)、炭基肥(BF)、2%生物炭配施化肥(LB)和4%生物炭配施化肥(HB)。结果表明: 与CK处理相比,各施肥处理均显著提高了土壤氨氧化古菌(AOA)、氨氧化细菌(AOB)、反硝化细菌nirK和nirS基因丰度。与CF处理相比,生物炭和炭基肥处理显著提高了AOB和nirK基因丰度,增幅分别达到42.9%～82.1%和33.5%～62.7%。冗余分析表明,土壤有机碳、pH、NH₄⁺-N和速效钾是显著影响AOB群落结构的主要因子,而土壤有机碳、pH和NO₃^--N含量是影响nirK型反硝化细菌群落结构的关键因子。因此,施用生物炭与炭基肥能改良采煤塌陷复垦区土壤质量,提高硝化和反硝化微生物丰度,并改变AOB和nirK型反硝化细菌群落结构。     

Abundance and composition of ammonia-oxidizing bacteria and ammonia-oxidizing archaea communities of an alkaline sandy loam

The abundance and composition of soil ammonia-oxidizing bacteria (AOB) and ammonia-oxidizing archaea (AOA) communities under different long-term (17 years) fertilization practices were investigated using real-time polymerase chain reaction and denaturing gradient gel electrophoresis (DGGE). A sandy loam with pH (H(2)O) ranging from 8.3 to 8.7 was sampled in years 2006 and 2007, including seven fertilization treatments of control without fertilizers (CK), those with combinations of fertilizer nitrogen (N), phosphorus (P) and potassium (K): NP, NK, PK and NPK, half chemical fertilizers NPK plus half organic manure (1/2OMN) and organic manure (OM). The highest bacterial amoA gene copy numbers were found in those treatments receiving N fertilizer. The archaeal amoA gene copy numbers ranging from 1.54 x 10(7) to 4.25 x 10(7) per gram of dry soil were significantly higher than those of bacterial amoA genes, ranging from 1.24 x 10(5) to 2.79 x 10(6) per gram of dry soil, which indicated a potential role of AOA in nitrification. Ammonia-oxidizing bacteria abundance had significant correlations with soil pH and potential nitrification rates. Denaturing gradient gel electrophoresis patterns revealed that the fertilization resulted in an obvious change of the AOB community, while no significant change of the AOA community was observed among different treatments. Phylogenetic analysis showed a dominance of Nitrosospira-like sequences, while three bands were affiliated with the Nitrosomonas genus. All AOA sequences fell within cluster S (soil origin) and cluster M (marine and sediment origin). These results suggest that long-term fertilization had a significant impact on AOB abundance and composition, while minimal on AOA in the alkaline soil.     

Higher Abundance of Ammonia Oxidizing Archaea than Ammonia Oxidizing Bacteria and Their Communities in Tibetan Alpine Meadow Soils under Long-term Nitrogen Fertilization

Increasing usage of nitrogen fertilizer for food production has resulted in severely environmental problems of nutrients enrichment. This study aimed to examine the response of ammonia-oxidizing bacteria (AOB) and ammonia-oxidizing archaea (AOA) to a long-term nitrogen fertilization in Tibetan alpine meadow. The abundance and composition of both AOB and AOA were assessed using quantitative real-time PCR, cloning and sequencing techniques based on amoA gene under different fertilization gradient (0, 30, 60, 90, and 120 g m^?2 year^?1). Our results showed that, abundances of AOA amoA genes (ranging from 1.48 × 10⁹ to 2.00 × 10⁹ copies per gram of dry soil) were significantly higher than those of AOB amoA genes (1.25 × 10⁷ to 2.62 × 10⁸ copies per gram of dry soil) under fertilization scenario. The abundance of AOB amoA genes increased with increasing nitrogen fertilization, whereas fertilization had little effect on AOA abundance. Sequences of clone libraries of the different treatments revealed that AOB communities were dominated by representatives of Cluster 4, constituting 48.94–64.44% in each clone library. Sequences of Clusters 9, 1 and 2 were prevalent in soils under higher fertilization. All archaeal amoA sequences recovered were affiliated with the soil/sediment clade and marine sediment clade, and no significant difference was observed on the community structure among different fertilization treatments. Variations in the AOB community structure and abundance were linked to ammonium-N and soil pH induced by different fertilization treatments. These results showed that the abundance and structure of the AOB community respond to the fertilization gradient, not AOA.     

Quantitative analyses of the abundance and composition of ammonia-oxidizing bacteria and ammonia-oxidizing archaea of a Chinese upland red soil under long-term fertilization practices

The abundance and composition of soil ammonia-oxidizing bacteria (AOB) and ammonia-oxidizing archaea (AOA) were investigated by using quantitative real-time polymerase chain reaction, cloning and sequencing approaches based on amoA genes. The soil, classified as agri-udic ferrosols with pH (H(2)O) ranging from 3.7 to 6.0, was sampled in summer and winter from long-term field experimental plots which had received 16 years continuous fertilization treatments, including fallow (CK0), control without fertilizers (CK) and those with combinations of fertilizer nitrogen (N), phosphorus (P) and potassium (K): N, NP, NK, PK, NPK and NPK plus organic manure (OM). Population sizes of AOB and AOA changed greatly in response to the different fertilization treatments. The NPK + OM treatment had the highest copy numbers of AOB and AOA amoA genes among the treatments that received mineral fertilizers, whereas the lowest copy numbers were recorded in the N treatment. Ammonia-oxidizing archaea were more abundant than AOB in all the corresponding treatments, with AOA to AOB ratios ranging from 1.02 to 12.36. Significant positive correlations were observed among the population sizes of AOB and AOA, soil pH and potential nitrification rates, indicating that both AOB and AOA played an important role in ammonia oxidation in the soil. Phylogenetic analyses of the amoA gene fragments showed that all AOB sequences from different treatments were affiliated with Nitrosospira or Nitrosospira-like species and grouped into cluster 3, and little difference in AOB community composition was recorded among different treatments. All AOA sequences fell within cluster S (soil origin) and cluster M (marine and sediment origin). Cluster M dominated exclusively in the N, NP, NK and PK treatments, indicating a pronounced difference in the community composition of AOA in response to the long-term fertilization treatments. These findings could be fundamental to improve our understanding of the importance of both AOB and AOA in the cycling of nitrogen and other nutrients in terrestrial ecosystems.     

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 alpha 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.     

长期不同施肥措施下岩溶水稻土可培养细菌群落变化及其主要影响因素

【背景】施肥是目前提高作物产量的较优策略,不同的施肥措施在不同程度上影响土壤肥力和微生物群落结构。【目的】探究岩溶水稻土理化性质变化与细菌群落变化的对应关系,进而反映不同施肥措施对土壤可培养细菌群落的影响。最后选出最优施肥方案,为后续的合理施肥工作提供依据。【方法】对岩溶水稻土进行不施肥、常规施肥、常规施肥加绿肥3种施肥处理,通过对土壤理化性质、可培养细菌群落丰度及多样性变化的研究,探究在不同施肥措施下对岩溶水稻土壤细菌群落的影响。【结果】对比不施肥处理,常规施肥处理下土壤pH值和有机碳含量下降,结合大量研究结果证明,无机肥或氮肥的长期过量施加使土壤pH值下降,常规施肥加绿肥有利于有机碳的积累。分离纯化共得到164株菌,分别来自Actinobacteria、Bacteroidetes、Firmicutes和Proteobacteria。属水平上常规施肥配施绿肥较常规施肥组优势菌属Sphingomonas、Lysobacter的相对丰度增加。细菌群落多样性增加,出现Paenibacillus、Streptomyces和Pseudomonas等特有功能菌属。优势菌属Sphingopyxis、Lysobacter、Paenibacillus、Bosea、Streptomyces、Pseudomonas和Bacillus与TN存在显著正相关,在常规施肥加绿肥处理土壤中增加。【结论】常规施肥加绿肥处理下,固氮、溶磷等功能菌丰度增加,增加土壤肥力,保持土壤养分的可利用性,对作物的增产起重要作用。岩溶水稻土常规施肥配施绿肥处理的效果优于不施肥和常规施肥处理。     

Impacts of organic and inorganic fertilizers on nitrification in a cold climate soil are linked to the bacterial ammonia oxidizer community

The microbiology underpinning soil nitrogen cycling in northeast China remains poorly understood. These agricultural systems are typified by widely contrasting temperature, ranging from −40 to 38°C. In a long-term site in this region, the impacts of mineral and organic fertilizer amendments on potential nitrification rate (PNR) were determined. PNR was found to be suppressed by long-term mineral fertilizer treatment but enhanced by manure treatment. The abundance and structure of ammonia-oxidizing bacterial (AOB) and archaeal (AOA) communities were assessed using quantitative polymerase chain reaction and denaturing gradient gel electrophoresis techniques. The abundance of AOA was reduced by all fertilizer treatments, while the opposite response was measured for AOB, leading to a six- to 60-fold reduction in AOA/AOB ratio. The community structure of AOA exhibited little variation across fertilization treatments, whereas the structure of the AOB community was highly responsive. PNR was correlated with community structure of AOB rather than that of AOA. Variation in the community structure of AOB was linked to soil pH, total carbon, and nitrogen contents induced by different long-term fertilization regimes. The results suggest that manure amendment establishes conditions which select for an AOB community type which recovers mineral fertilizer-suppressed soil nitrification.