Communities of ammonia oxidizers at different stages of Spartina alterniflora invasion in salt marshes of Yangtze River estuary

Xia, Fei; Zeleke, Jemaneh; Sheng, Qiang; Wu, Jihua; Quan, Zhe‐Xue

doi:10.1007/s12275-015-4660-0

Cited by 20 publications

(4 citation statements)

References 66 publications

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“…The amoA gene obtained in the present study and other five pyrosequencing studies (sediments from Changjiang Estuary and Hangzhou Bay, soils from Minami-Daito Island and Ny-Ålesund) ( Hayashi et al, 2015 ; Tago et al, 2015 ; Xia et al, 2015 ; Zhang et al, 2015 , 2016 ) were trimmed as reported above. The remaining high-quality sequences were clustered into 280 OTUs (for AOA) and 201 OTUs (for AOB) at 97% similarity levels.…”

Section: Discussionmentioning

confidence: 99%

“… UPGMA clustering of AOA (A) and AOB (B) community compositions in previous studies and in the present study. RSB- ∗ , CJE- ∗ , HZB- ∗ , MD- ∗ , and NA- ∗ indicate sequences from this study, Changjiang Estuary ( Xia et al, 2015 ), Hangzhou Bay ( Zhang et al, 2015 , 2016 ), Minami-Daito Island ( Hayashi et al, 2015 ) and Ny-Ålesund ( Tago et al, 2015 ), respectively. …”

Section: Discussionmentioning

confidence: 99%

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Ammonia-Oxidizing Archaea and Bacteria Differentially Contribute to Ammonia Oxidation in Sediments from Adjacent Waters of Rushan Bay, China

Zhen

et al. 2018

Front. Microbiol.

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Ammonia oxidation plays a significant role in the nitrogen cycle in marine sediments. Ammonia-oxidizing archaea (AOA) and bacteria (AOB) are the key contributors to ammonia oxidation, and their relative contribution to this process is one of the most important issues related to the nitrogen cycle in the ocean. In this study, the differential contributions of AOA and AOB to ammonia oxidation in surface sediments from adjacent waters of Rushan Bay were studied based on the ammonia monooxygenase (amoA) gene. Molecular biology techniques were used to analyze ammonia oxidizers’ community characteristics, and potential nitrification incubation was applied to understand the ammonia oxidizers’ community activity. The objective was to determine the community structure and activity of AOA and AOB in surface sediments from adjacent waters of Rushan Bay and to discuss the different contributions of AOA and AOB to ammonia oxidation during summer and winter seasons in the studied area. Pyrosequencing analysis revealed that the diversity of AOA was higher than that of AOB. The majority of AOA and AOB clustered into Nitrosopumilus and Nitrosospira, respectively, indicating that the Nitrosopumilus group and Nitrosospira groups may be more adaptable in studied sediments. The AOA community was closely correlated to temperature, salinity and ammonium concentration, whereas the AOB community showed a stronger correlation with temperature, chlorophyll-a content (chla) and nitrite concentration. qPCR results showed that both the abundance and the transcript abundance of AOA was consistently greater than that of AOB. AOA and AOB differentially contributed to ammonia oxidation in different seasons. AOB occupied the dominant position in mediating ammonia oxidation during summer, while AOA might play a dominant role in ammonia oxidation during winter.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Ammonia-Oxidizing Archaea and Bacteria Differentially Contribute to Ammonia Oxidation in Sediments from Adjacent Waters of Rushan Bay, China

Zhen

et al. 2018

Front. Microbiol.

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“…For the high-throughput sequencing data analyses, data processing was similar to that reported by Xia et al (2015) and Zeleke et al (2013a). Briefly, short or lowquality sequences were removed by visualizing the quality of the postsequencing data with MOTHUR software, ver.…”

Section: Data Processing and Statistical Analysismentioning

confidence: 99%

Distribution of comammox and canonical ammonia‐oxidizing bacteria in tidal flat sediments of the Yangtze River estuary at different depths over four seasons

Jiang

Xia

Zhu

et al. 2019

J of Applied Microbiology

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Aims To investigate the distribution of complete ammonia oxidizers (comammox) and canonical ammonia‐oxidizing bacteria (AOB) in tidal flat sediments of the Yangtze River estuary at different depths over four seasons. Methods and Results A two‐step PCR with highly degenerate primers (THDP‐PCR), coupled with Illumina Miseq‐based sequencing, was used to analyse the distribution of comammox and AOB in tidal flat sediments. The proportion of comammox compared with that of AOB was relatively high in spring. The intermediate sediments (1–5 cm) had higher proportions of comammox than those on the surface (0–1 cm) and lower sediments (5–10 cm). Diversity indices confirmed a higher diversity of comammox in the lower sediments (5–10 cm). The proportion of comammox clade A.1 was much higher than that of comammox clade A.2 in all seasons. Redundancy analysis demonstrated that comammox clade A.1 was negatively correlated with total carbon and ammonium concentrations, whereas the opposite was observed in AOB. Conclusions Results revealed the specific distribution of comammox and AOB in tidal flat sediments of the Yangtze River estuary. Significance and Impact of the Study This study will contribute to the understanding of nitrification by comammox and AOB in tidal flat sediments.

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“…Root exudates are predicted to significantly alter the microbial community by affecting pH values (Xia et al, 2015). Soil pH is the strongest factor contributing to soil microbial community differences (Xiao et al, 2017;Liang et al, 2019).…”

Section: Figurementioning

confidence: 99%

Grazing disturbance significantly decreased soil organic carbon contents of alpine grasslands on the Tibetan Plateau

Yang

Zhang²,

et al. 2023

Front. Environ. Sci.

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Ecological security barriers on the Tibetan Plateau are threatened by climate change and human activities, such as grassland degradation and reduction of carbon fixation capacity. Understanding the influence of grazing on soil organic carbon (SOC) content and its regulating factors is important for improving the ecological barrier function of alpine grasslands. In this meta-analysis, we analysed the effects of grazing on SOC. The results indicate that grazing disturbance significantly reduced the SOC content by 13.93%, with an effect size of −0.15 ± 0.04 (p < 0.001). The effect of light grazing was not significant. The reduction range gradually increased with increasing grazing intensity. The effect of grazing activity on SOC content was driven mainly by pH and total nitrogen through a structural equation model. Future nitrogen deposition scenarios would significantly increase alpine meadow SOC on the Tibetan Plateau.

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Communities of ammonia oxidizers at different stages of Spartina alterniflora invasion in salt marshes of Yangtze River estuary

Cited by 20 publications

References 66 publications

Ammonia-Oxidizing Archaea and Bacteria Differentially Contribute to Ammonia Oxidation in Sediments from Adjacent Waters of Rushan Bay, China

Ammonia-Oxidizing Archaea and Bacteria Differentially Contribute to Ammonia Oxidation in Sediments from Adjacent Waters of Rushan Bay, China

Distribution of comammox and canonical ammonia‐oxidizing bacteria in tidal flat sediments of the Yangtze River estuary at different depths over four seasons

Grazing disturbance significantly decreased soil organic carbon contents of alpine grasslands on the Tibetan Plateau

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