Abundance and community structure of ammonia-oxidizing microorganisms in reservoir sediment and adjacent soils

Wang, Xiaoyan; Wang, Cui; Bao, Linlin; Xie, Shuguang

doi:10.1007/s00253-013-5174-5

Cited by 52 publications

(35 citation statements)

References 53 publications

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“…Most of the AOB amoA OTUs belongs to cluster three (63 OTUs, 61 %), which the most dominant cluster. The dominance of Nitrosospira was already reported in earlier studies showing that Nitrosospira was the majority species in soil ecosystems (Chen et al 2011;Xu et al 2012;Wang et al 2013) including riparian or agricultural soil sampled from the watershed of the Miyun reservoir. Furthermore, the dominance of Nitrosospira were also verified in Cu-or Zn-contaminated soil by Mertens et al (2009) andLiu et al (2014).…”

Section: Genetic Profiling Of Bacterial and Archaeal Amoa Genessupporting

confidence: 68%

Multiple Factors Affect Diversity and Abundance of Ammonia-Oxidizing Microorganisms in Iron Mine Soil

Xing

Chen

et al. 2015

Arch Environ Contam Toxicol

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Ammonia oxidation by microorganisms is a critical process in the nitrogen cycle. In this study, four soil samples collected from a desert zone in an iron-exploration area and others from farmland and planted forest soil in an iron mine surrounding area. We analyzed the abundance and diversity of ammonia-oxidizing archaea (AOA) and ammonia-oxidizing bacteria (AOB) in iron-mining area near the Miyun reservoir using ammonia monooxygenase. A subunit gene (amoA) as molecular biomarker. Quantitative polymerase chain reaction was applied to explore the relationships between the abundance of AOA and AOB and soil physicochemical parameters. The results showed that AOA were more abundant than AOB and may play a more dominant role in the ammonia-oxidizing process in the whole region. PCR-denaturing gradient gel electrophoresis was used to analyze the structural changes of AOA and AOB. The results showed that AOB were much more diverse than AOA. Nitrosospira cluster three constitute the majority of AOB, and AOA were dominated by group 1.1b in the soil. Redundancy analysis was performed to explore the physicochemical parameters potentially important to AOA and AOB. Soil characteristics (i.e. water, ammonia, organic carbon, total nitrogen, available phosphorus, and soil type) were proposed to potentially contribute to the distributions of AOB, whereas Cd was also closely correlated to the distributions of AOB. The community of AOA correlated with ammonium and water contents. These results highlight the importance of multiple drivers in microbial niche formation as well as their affect on ammonia oxidizer composition, both which have significant consequences for ecosystem nitrogen functioning.

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Section: Genetic Profiling Of Bacterial and Archaeal Amoa Genessupporting

confidence: 68%

Multiple Factors Affect Diversity and Abundance of Ammonia-Oxidizing Microorganisms in Iron Mine Soil

Xing

Chen

et al. 2015

Arch Environ Contam Toxicol

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“…Microorganisms from archaeal class Thaumarchaeota can play an important role in ammonia oxidation in the environment (Jung et al 2014;Wang et al 2014). So far, the dominance of Thaumarchaeota in lake sediment archaeal community has rarely been reported.…”

Section: Bacterial and Archaeal Diversities In Lake Sedimentmentioning

confidence: 99%

“…2014b; Wang et al 2014). Compared to Bacteria, the diversity and community structure of Archaea in lake sediments have received much less attention.…”

Section: Introductionmentioning

confidence: 99%

Distribution of sediment bacterial and archaeal communities in plateau freshwater lakes

Zhang

Yang

Zhao³

et al. 2014

Appl Microbiol Biotechnol

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244

105

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Both Bacteria and Archaea might be involved in various biogeochemical processes in lacustrine sediment ecosystems. However, the factors governing the intra-lake distribution of sediment bacterial and archaeal communities in various freshwater lakes remain unclear. The present study investigated the sediment bacterial and archaeal communities in 13 freshwater lakes on the Yunnan Plateau. Quantitative PCR assay showed a large variation in bacterial and archaeal abundances. Illumina MiSeq sequencing illustrated high bacterial and archaeal diversities. Bacterial abundance was regulated by sediment total organic carbon and total nitrogen, and water depth, while nitrate nitrogen was an important determinant of bacterial diversity. Proteobacteria, Acidobacteria, Actinobacteria, Bacteroidetes, Chlorobi, Chloroflexi, Cyanobacteria, Firmicutes, Gemmatimonadetes, Nitrospirae, Planctomycetes, and Verrucomicrobia were the major components of sediment bacterial communities. Proteobacteria was the largest phylum, but its major classes and their proportions varied greatly among different lakes, affected by sediment nitrate nitrogen. In addition, both Euryarchaeota and Crenarchaeota were important members in sediment archaeal communities, while unclassified Archaea usually showed the dominance.

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“…The specific primer sets Arch-amoAF/Arch-amoAR and AmoA-1F/ AmoA-2R were applied for quantitative PCR (qPCR) assay of the archaeal and bacterial amoA genes, and construction of AOA and AOB clone libraries, following the previously reported conditions Wang et al 2014a). One-way analysis of variance (ANOVA) followed by Student-Newman-Keuls test was used to check the quantitative differences (P<0.05) in the abundance of AOA or AOB amoA gene among different soils.…”

Section: Molecular Analysesmentioning

confidence: 99%

“…such as moisture (Vasileiadis et al 2012), pH (Nicol et al 2008), carbon-and nitrogen-related fertility (Wang et al 2014c;Wessen et al 2010;Wertz et al 2012), climate (Yao et al 2013), and pesticide (Wan et al 2014a, b). Moreover, it has been well-documented that land use type can also affect the distribution of soil ammonia-oxidizing microorganisms Meyer et al 2014;Qin et al 2013;Wang et al 2014a;Zhao et al 2015). Multiple environmental factors may collectively regulate the distribution of AOA and AOB in soil ecosystems (Jiang et al 2014;Yao et al 2013), and no single factor can discriminate between AOA and AOB (Prosser and Nicol 2012).…”

Section: Introductionmentioning

confidence: 99%

Distribution of ammonia-oxidizing archaea and bacteria in plateau soils across different land use types

Zhang

Dai

Wang

et al. 2015

Appl Microbiol Biotechnol

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Ammonia oxidation is known to be performed by both ammonia-oxidizing archaea (AOA) and bacteria (AOB), although their relative significance to nitrification process in soil ecosystems remains controversial. The distribution of AOA and AOB in plateau soils with different land use types and the influential factors remains unclear. The present study investigated the abundance and structure of AOA and AOB communities in upland soils adjacent to Erhai Lake in the Yunnan Plateau (China). Quantitative PCR assays indicated a large variation in the community size of AOA and AOB communities, with the numerical dominance of AOA over AOB in most of soils. Clone library analysis illustrated a marked shift in the structure of soil AOA and AOB communities. A high abundance of Nitrososphaera- and Nitrosotalea-like AOA was observed, while Nitrosospira-like species predominated in AOB. AOA and AOB abundance was positively influenced by total nitrogen and moisture content, respectively. Moreover, moisture content might be a key determinant of AOA community composition, while C/N and nitrate nitrogen played an important role in shaping AOB community composition. However, further efforts will be necessary in order to elucidate the links between soil AOA and AOB and land use.

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Abundance and community structure of ammonia-oxidizing microorganisms in reservoir sediment and adjacent soils

Cited by 52 publications

References 53 publications

Multiple Factors Affect Diversity and Abundance of Ammonia-Oxidizing Microorganisms in Iron Mine Soil

Multiple Factors Affect Diversity and Abundance of Ammonia-Oxidizing Microorganisms in Iron Mine Soil

Distribution of sediment bacterial and archaeal communities in plateau freshwater lakes

Distribution of ammonia-oxidizing archaea and bacteria in plateau soils across different land use types

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