Abundance and composition dynamics of soil ammonia-oxidizing archaea in an alpine fir forest on the eastern Tibetan Plateau of China

2012 ◽  
Vol 58 (5) ◽  
pp. 572-580 ◽  
Author(s):  
Ao Wang ◽  
Fu-Zhong Wu ◽  
Wan-Qin Yang ◽  
Zhi-Chao Wu ◽  
Xu-Xi Wang ◽  
...  
Keyword(s):  
Tibetan Plateau ◽  
Soil Temperature ◽  
Coniferous Forest ◽  
Amoa Gene ◽  
Western China ◽  
Gene Copy ◽  
Ammonia Oxidizing Bacteria ◽  
Eastern Tibetan Plateau ◽  
Dominant Group ◽  
Ammonia Oxidizing Archaea

Real-time qPCR and clone library sequencing targeting amoA genes were used to investigate the seasonal dynamics of an ammonia-oxidizing archaea (AOA) community in an alpine fir forest in western China. AOA were detected at all sampling dates, and there were significant variations in archaeal amoA gene copy numbers (7.63 × 105to 8.35 × 108per gram of dry soil) throughout the nongrowing season. Compared with ammonia-oxidizing bacteria (AOB), the AOA displayed a higher abundance on the majority of sampling dates during the freeze–thaw period. All of the AOA sequences fell within soil and sediment lineages and were affiliated with 7 clusters. Compared with the other clusters, cluster 1 was more sensitive to low temperature and was the dominant group in August. In contrast, cluster 3 dominated the AOA community in winter and probably represents a group of cold-adapted archaea. Redundancy analysis (RDA) revealed that the seasonality of the AOA community was mainly attributed to changes in soil temperature and nutrient availability (e.g., dissolved organic nitrogen and carbon). Our results indicate that AOA exist in frozen soils in the alpine coniferous forest ecosystem of the eastern Tibetan Plateau. Moreover, soil temperature may directly and (or) indirectly affect AOA abundance and composition and may further influence the soil N cycle during the winter.

Distribution and genesis of the eastern Tibetan Plateau geothermal belt, western China

2016 ◽  
Vol 76 (1) ◽  
Author(s):  
Xianchun Tang ◽  
Jian Zhang ◽  
Zhonghe Pang ◽  
Shengbiao Hu ◽  
Ying Wu ◽  
...  
Keyword(s):  
Tibetan Plateau ◽  
Western China ◽  
Eastern Tibetan Plateau

scholarly journals Ammonia-oxidizing Archaea (AOA) are Winners to Survive in Oxygen-limited Habitat Compared to Ammonia-oxidizing Bacteria (AOB)

2021 ◽  
Author(s):  
Peigang Dai ◽  
Wenjing Song ◽  
Zhao Che ◽  
Lili Zhang ◽  
Zhaorong Dong
Keyword(s):  
Intertidal Zone ◽  
High Throughput Sequencing ◽  
Ammonia Oxidation ◽  
Illumina Miseq ◽  
Gene Copy ◽  
Ammonia Oxidizing Bacteria ◽  
Niche Specialization ◽  
Ammonia Oxidizing Archaea ◽  
Copy Numbers ◽  
Oxidation Reduction

Abstract Purpose: Both ammonia oxidizing archaea (AOA) and bacteria (AOB) perform the ammonia oxidation together. These two kinds of microbes present a convenient model for studying niche specialization. To date, few surveys concentrated on the influence of oxygen concentration on niche specialization of AOA and AOB in intertidal zones. Methods: Here, high-throughput sequencing by Illumina MiSeq and qPCR were applied to detect the change of abundance, diversity as well as community structure of both AOA and AOB with 0-60 cm sediments depth in the intertidal zone in Qingdao.Results and Conclusion: The AOA/AOB amoA gene copy numbers and AOA/AOB OTU numbers were all increased as sediment depth went deeper, which indicated that AOA were more adaptive to oxygen-limited niches compared to AOB and oxygen indeed led to the niche specialization of AOA and AOB in intertidal sediments. The dominant AOA and AOB were the Nitrosopumilus and Nitrosospira clusters, respectively, which indicated an ecological success in intertidal zone. Oxidation-reduction potential (ORP) was significantly positively correlated with AOB abundance and AOB OTU numbers (P < 0.01). In addition, both TN (P < 0.01) and pH (P < 0.05) were significantly and negatively correlated with AOB abundance. TN was also significantly and negatively correlated with AOB OTU numbers (P < 0.05).

scholarly journals Distinct Responses in Ammonia-Oxidizing Archaea and Bacteria after Addition of Biosolids to an Agricultural Soil

2011 ◽  
Vol 77 (18) ◽  
pp. 6551-6558 ◽  
Author(s):  
John J. Kelly ◽  
Katherine Policht ◽  
Tanya Grancharova ◽  
Lakhwinder S. Hundal
Keyword(s):  
Agricultural Soil ◽  
Terrestrial Ecosystems ◽  
Gene Copy ◽  
Ecological Niches ◽  
Corn Yield ◽  
Ammonia Oxidizing Bacteria ◽  
Ammonia Oxidizing Archaea ◽  
Copy Numbers ◽  
Synthetic Fertilizer ◽  
Gene Copy Numbers

ABSTRACTThe recently discovered ammonia-oxidizing archaea (AOA) have been suggested as contributors to the first step of nitrification in terrestrial ecosystems, a role that was previously assigned exclusively to ammonia-oxidizing bacteria (AOB). The current study assessed the effects of agricultural management, specifically amendment of soil with biosolids or synthetic fertilizer, on nitrification rates and copy numbers of archaeal and bacterial ammonia monooxygenase (amoA) genes. Anaerobically digested biosolids or synthetic fertilizer was applied annually for three consecutive years to field plots used for corn production. Biosolids were applied at two loading rates, a typical agronomic rate (27 Mg hectare−1year−1) and double the agronomic rate (54 Mg hectare−1year−1), while synthetic fertilizer was applied at an agronomic rate typical for the region (291 kg N hectare−1year−1). Both biosolids amendments and synthetic fertilizer increased soil N and corn yield, but only the biosolids amendments resulted in significant increases in nitrification rates and increases in the copy numbers of archaeal and bacterialamoAgenes. In addition, only archaealamoAgene copy numbers increased in response to biosolids applied at the typical agronomic rate and showed a significant correlation with nitrification rates. Finally, copy numbers of archaealamoAgenes were significantly higher than copy numbers of bacterialamoAgenes for all treatments. These results implicate AOA as being primarily responsible for the increased nitrification observed in an agricultural soil amended with biosolids. These results also support the hypothesis that physiological differences between AOA and AOB may enable them to occupy distinct ecological niches.

Ammonia-oxidizing bacteria dynamics affected by plantain under synthetic cattle urine patches

2020 ◽  
Vol 82 ◽  
pp. 97-102
Author(s):  
Priscila Simon ◽  
Cecile De Klein ◽  
Emily Gerard ◽  
Shenjing Shi
Keyword(s):  
White Clover ◽  
Rhizosphere Soil ◽  
Root Exudation ◽  
Amoa Gene ◽  
Time Frame ◽  
Bulk Soil ◽  
Gene Copy ◽  
Ammonia Oxidizing Bacteria ◽  
Real Time Quantitative Pcr ◽  
Copy Numbers

Plantain has been suggested as a nitrous oxide (N2O) and nitrate (NO3-) leaching mitigation option as it may induce biological nitrification inhibition (BNI) via plantain root exudation, which affects the activity of ammonia-oxidizing bacteria. This preliminary study compared the abundance of the ammonia monooxygenase gene (amoA) in soils containing either plantain and white clover, or ryegrass and white clover. Plants were sown in pots and grown in a greenhouse. Two months after sowing, synthetic cattle urine was applied to half the pots, and rhizosphere and bulk soil samples were collected 30 and 90 days after urine application. The abundance of the amoA gene was measured using real time quantitative PCR. The abundance of amoA genes in rhizosphere soil around ryegrass plants and in bulk soil under ryegrass/white clover were higher in pots treated with urine than the no-urine controls. AmoA gene abundance in bulk soil under plantain/white clover was higher in pots treated with urine (P<0.05) but not in rhizosphere soil around plantain plants (P>0.05) compared with the control. Furthermore, amoA gene copy numbers in the rhizosphere soil around plantain plants were lower than for ryegrass plants (P<0.05). However, there was no difference in the abundance of amoA genes in bulk soil of either combination of plant species evaluated (P>0.05). The results suggest that, in the time frame of our experiment, plantain could induce a BNI effect in the rhizosphere soil but not in the bulk soil.

scholarly journals Effects of Zeolite and Biochar Addition on Ammonia-Oxidizing Bacteria and Ammonia-Oxidizing Archaea Communities during Agricultural Waste Composting

2020 ◽  
Vol 12 (16) ◽  
pp. 6336 ◽  
Author(s):  
Xin Wu ◽  
Liheng Ren ◽  
Jiachao Zhang ◽  
Hui Peng
Keyword(s):  
Enzyme Activity ◽  
Ammonia Oxidation ◽  
Agricultural Waste ◽  
Amoa Gene ◽  
Enzyme Linked Immunosorbent Assay ◽  
Ammonia Oxidizing Bacteria ◽  
Ammonia Monooxygenase ◽  
Gene Abundance ◽  
Ammonia Oxidizing Archaea ◽  
The Relationship

The effects of zeolite and biochar addition on ammonia-oxidizing bacteria (AOB) and archaea (AOA) communities during agricultural waste composting were determined in this study. Four treatments were conducted as follows: Treatment A as the control with no additive, Treatment B with 5% of zeolite, Treatment C with 5% of biochar, and Treatment D with 5% of zeolite and 5% biochar, respectively. The AOB and AOA amoA gene abundance as well as the ammonia monooxygenase (AMO) activity were estimated by quantitative PCR and enzyme-linked immunosorbent assay, respectively. The relationship between gene abundance and AMO enzyme activity was determined by regression analysis. Results indicated that the AOB was more abundant than that of AOA throughout the composting process. Addition of biochar and its integrated application with zeolite promoted the AOB community abundance and AMO enzyme activity. Significant positive relationships were obtained between AMO enzyme activity and AOB community abundance (r2 = 0.792; P < 0.01) and AOA community abundance (r2 = 0.772; P < 0.01), indicating that both bacteria and archaea played significant roles in microbial ammonia oxidation during composting. Using biochar and zeolite might promote the nitrification activity by altering the sample properties during agricultural waste composting.

scholarly journals Hydrogeochemical Characteristics and Evolution of Hot Springs in Eastern Tibetan Plateau Geothermal Belt, Western China: Insight from Multivariate Statistical Analysis

Geofluids ◽  
2017 ◽  
Vol 2017 ◽  
pp. 1-11 ◽  
Author(s):  
Zheming Shi ◽  
Fu Liao ◽  
Guangcai Wang ◽  
Qingyu Xu ◽  
Wenqing Mu ◽  
...  
Keyword(s):  
Tibetan Plateau ◽  
Hot Springs ◽  
Water Environment ◽  
Western China ◽  
Eastern Tibetan Plateau ◽  
Energy Potential ◽  
Multivariate Statistical ◽  
Hydrochemical Evolution ◽  
Rock Interaction ◽  
Geological Origin

The eastern Tibetan Plateau geothermal belt is one of the important medium-high temperature geothermal belts in China. However, less work has been done on the hydrochemical characteristic and its geological origin. Understanding the chemical characteristics and the hydrochemical evolution processes is important in evaluating the geothermal energy potential in this area. In the present study, we discussed the hydrochemical properties and their origins of 39 hot springs located in the eastern Tibetan Plateau geothermal belt (Kangding-Litang-Batang geothermal belt). Cluster analysis and factor analysis are employed to character the hydrochemical properties of hot springs in different fault zones and the possible hydrochemical evolution processes of these hot springs. Our study shows that the hot springs can be divided into three groups based on their locations. The hot springs in the first group mainly originate from the volcanic rock and the springs in the second group originate from the metamorphic rock while the springs in the third group originate from the result of mixture of shallow water. Water-rock interaction, cation exchange, and the water environment are the three dominant factors that control the hydrochemical evolution process in the eastern Tibetan Plateau. These results are also in well agreement with the isotopic and chemical analysis.

scholarly journals On the freeze–thaw cycles of shallow soil and connections with environmental factors over the Tibetan Plateau

2021 ◽  
Author(s):  
Ning Li ◽  
Lan Cuo ◽  
Yongxin Zhang
Keyword(s):  
Tibetan Plateau ◽  
Soil Temperature ◽  
Coniferous Forest ◽  
Soil Layer ◽  
Surface Air Temperature ◽  
The Tibetan Plateau ◽  
Near Surface ◽  
Freeze Thaw ◽  
Shallow Soil ◽  
Thaw Cycle

Abstract Changes in the freeze–thaw cycles of shallow soil have important consequences for surface and subsurface hydrology, land–atmosphere energy and moisture interaction, carbon exchange, and ecosystem diversity and productivity. This work examines the shallow soil freeze–thaw cycle on the Tibetan Plateau (TP) using in–situ soil temperature observations in 0–20 cm soil layer during July 1982 – June 2017. The domain and layer averaged beginning frozen day is November 18 and delays by 2.2 days per decade; the ending frozen day is March 9 and advances by 3.2 days per decade; the number of frozen days is 109 and shortens by 5.2 days per decade. Altitude and latitude combined could explain the spatial patterns of annual mean freeze–thaw status well. Stations located near 0–ºC contour line experienced dramatic changes in freeze–thaw cycles as seen from subtropical mountain coniferous forest in the southern TP. Soil completely freezes from surface to 20–cm depth in 15 days while completely thaws in 10 days on average. Near–surface soil displays more pronounced changes than deeper soil. Surface air temperature strongly influences the shallow soil freeze – thaw status but snow exerts limited effects. Different thresholds in freeze–thaw status definition lead to differences in the shallow soil freeze–thaw status and multiple–consecutive–day approach appears to be more robust and reliable. Gridded soil temperature products could resolve the spatial pattern of the observed shallow soil freeze–thaw status to some extent but further improvement is needed.

scholarly journals The eastern Tibetan Plateau geothermal belt, western China: Geology, geophysics, genesis, and hydrothermal system

2017 ◽  
Vol 717 ◽  
pp. 433-448 ◽  
Author(s):  
Xianchun Tang ◽  
Jian Zhang ◽  
Zhonghe Pang ◽  
Shengbiao Hu ◽  
Jiao Tian ◽  
...  
Keyword(s):  
Tibetan Plateau ◽  
Hydrothermal System ◽  
Western China ◽  
Eastern Tibetan Plateau
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