scholarly journals Latitudinal Distribution of Ammonia-Oxidizing Bacteria and Archaea in the Agricultural Soils of Eastern China

2014 ◽  
Vol 80 (18) ◽  
pp. 5593-5602 ◽  
Author(s):  
Hongchen Jiang ◽  
Liuqin Huang ◽  
Ye Deng ◽  
Shang Wang ◽  
Yu Zhou ◽  
...  
Keyword(s):  
Community Structure ◽  
Soil Nutrients ◽  
Environmental Conditions ◽  
Latitudinal Gradient ◽  
Agricultural Soils ◽  
Eastern China ◽  
Climatic Conditions ◽  
Mean Annual Temperature ◽  
Ammonia Oxidizing Bacteria ◽  
Content Type

ABSTRACTThe response of soil ammonia-oxidizing bacterial (AOB) and archaeal (AOA) communities to individual environmental variables (e.g., pH, temperature, and carbon- and nitrogen-related soil nutrients) has been extensively studied, but how these environmental conditions collectively shape AOB and AOA distributions in unmanaged agricultural soils across a large latitudinal gradient remains poorly known. In this study, the AOB and AOA community structure and diversity in 26 agricultural soils collected from eastern China were investigated by using quantitative PCR and bar-coded 454 pyrosequencing of theamoAgene that encodes the alpha subunit of ammonia monooxygenase. The sampling locations span over a 17° latitude gradient and cover a range of climatic conditions. TheNitrosospiraandNitrososphaerawere the dominant clusters of AOB and AOA, respectively; but the subcluster-level composition ofNitrosospira-related AOB andNitrososphaera-related AOA varied across the latitudinal gradient. Variance partitioning analysis showed that geography and climatic conditions (e.g., mean annual temperature and precipitation), as well as carbon-/nitrogen-related soil nutrients, contributed more to the AOB and AOA community variations (∼50% in total) than soil pH (∼10% in total). These results are important in furthering our understanding of environmental conditions influencing AOB and AOA community structure across a range of environmental gradients.

scholarly journals Emergent Rarity Properties in Carabid Communities From Chinese Steppes With Different Climatic Conditions

2021 ◽  
Vol 9 ◽  
Author(s):  
Noelline Tsafack ◽  
Paulo A. V. Borges ◽  
Yingzhong Xie ◽  
Xinpu Wang ◽  
Simone Fattorini
Keyword(s):  
Community Structure ◽  
Environmental Conditions ◽  
Large Scale ◽  
Species Abundance ◽  
Climatic Conditions ◽  
Carabid Beetles ◽  
Model Parameters ◽  
Desert Steppe ◽  
Best Fit ◽  
Scale Of Analysis

Species abundance distributions (SADs) are increasingly used to investigate how species community structure changes in response to environmental variations. SAD models depict the relative abundance of species recorded in a community and express fundamental aspects of the community structure, namely patterns of commonness and rarity. However, the influence of differences in environmental conditions on SAD characteristics is still poorly understood. In this study we used SAD models of carabid beetles (Coleoptera: Carabidae) in three grassland ecosystems (desert, typical, and meadow steppes) in China. These ecosystems are characterized by different aridity conditions, thus offering an opportunity to investigate how SADs are influenced by differences in environmental conditions (mainly aridity and vegetation cover, and hence productivity). We used various SAD models, including the meta-community zero sum multinomial (mZSM), the lognormal (PLN) and Fisher’s logseries (LS), and uni- and multimodal gambin models. Analyses were done at the level of steppe type (coarse scale) and for different sectors within the same steppe (fine scale). We found that the mZSM model provided, in general, the best fit at both analysis scales. Model parameters were influenced by the scale of analysis. Moreover, the LS was the best fit in desert steppe SAD. If abundances are rarefied to the smallest sample, results are similar to those without rarefaction, but differences in models estimates become more evident. Gambin unimodal provided the best fit with the lowest α-value observed in desert steppe and higher values in typical and meadow steppes, with results which were strongly affected by the scale of analysis and the use of rarefaction. Our results indicate that all investigated communities are adequately modeled by two similar distributions, the mZSM and the LS, at both scales of analyses. This indicates (1) that all communities are characterized by a relatively small number of species, most of which are rare, and (2) that the meta-communities at the large scale maintain the basic SAD shape of the local communities. The gambin multimodal models produced exaggerated α-values, which indicates that they overfit simple communities. Overall, Fisher’s α, mZSM θ, and gambin α-values were substantially lower in the desert steppe and higher in the typical and meadow steppes, which implies a decreasing influence of environmental harshness (aridity) from the desert steppe to the typical and meadow steppes.

scholarly journals Transcriptomic Response of Nitrosomonas europaea Transitioned from Ammonia- to Oxygen-Limited Steady-State Growth

mSystems ◽  
2020 ◽  
Vol 5 (1) ◽  
Author(s):  
Christopher J. Sedlacek ◽  
Andrew T. Giguere ◽  
Michael D. Dobie ◽  
Brett L. Mellbye ◽  
Rebecca V. Ferrell ◽  
...  
Keyword(s):  
Nitric Oxide ◽  
Nitrous Oxide ◽  
Agricultural Soils ◽  
Nitrosomonas Europaea ◽  
Oxygen Limitation ◽  
Ammonia Oxidizing Bacteria ◽  
Content Type ◽  
Nitrifier Denitrification ◽  
Nitrous Oxide Production ◽  
Effect Of Oxygen

ABSTRACT Ammonia-oxidizing microorganisms perform the first step of nitrification, the oxidation of ammonia to nitrite. The bacterium Nitrosomonas europaea is the best-characterized ammonia oxidizer to date. Exposure to hypoxic conditions has a profound effect on the physiology of N. europaea, e.g., by inducing nitrifier denitrification, resulting in increased nitric and nitrous oxide production. This metabolic shift is of major significance in agricultural soils, as it contributes to fertilizer loss and global climate change. Previous studies investigating the effect of oxygen limitation on N. europaea have focused on the transcriptional regulation of genes involved in nitrification and nitrifier denitrification. Here, we combine steady-state cultivation with whole-genome transcriptomics to investigate the overall effect of oxygen limitation on N. europaea. Under oxygen-limited conditions, growth yield was reduced and ammonia-to-nitrite conversion was not stoichiometric, suggesting the production of nitrogenous gases. However, the transcription of the principal nitric oxide reductase (cNOR) did not change significantly during oxygen-limited growth, while the transcription of the nitrite reductase-encoding gene (nirK) was significantly lower. In contrast, both heme-copper-containing cytochrome c oxidases encoded by N. europaea were upregulated during oxygen-limited growth. Particularly striking was the significant increase in transcription of the B-type heme-copper oxidase, proposed to function as a nitric oxide reductase (sNOR) in ammonia-oxidizing bacteria. In the context of previous physiological studies, as well as the evolutionary placement of N. europaea’s sNOR with regard to other heme-copper oxidases, these results suggest sNOR may function as a high-affinity terminal oxidase in N. europaea and other ammonia-oxidizing bacteria. IMPORTANCE Nitrification is a ubiquitous microbially mediated process in the environment and an essential process in engineered systems such as wastewater and drinking water treatment plants. However, nitrification also contributes to fertilizer loss from agricultural environments, increasing the eutrophication of downstream aquatic ecosystems, and produces the greenhouse gas nitrous oxide. As ammonia-oxidizing bacteria are the most dominant ammonia-oxidizing microbes in fertilized agricultural soils, understanding their responses to a variety of environmental conditions is essential for curbing the negative environmental effects of nitrification. Notably, oxygen limitation has been reported to significantly increase nitric oxide and nitrous oxide production during nitrification. Here, we investigate the physiology of the best-characterized ammonia-oxidizing bacterium, Nitrosomonas europaea, growing under oxygen-limited conditions.

Dissolved oxygen and temperature best predict deep-sea fish community structure in the Gulf of California with climate change implications

2020 ◽  
Vol 637 ◽  
pp. 159-180
Author(s):  
ND Gallo ◽  
M Beckwith ◽  
CL Wei ◽  
LA Levin ◽  
L Kuhnz ◽  
...  
Keyword(s):  
Climate Change ◽  
Community Structure ◽  
Community Composition ◽  
Environmental Conditions ◽  
Deep Sea ◽  
Gulf Of California ◽  
Fish Community ◽  
Demersal Fish ◽  
Fish Community Structure ◽  
Explained Variance

Natural gradient systems can be used to examine the vulnerability of deep-sea communities to climate change. The Gulf of California presents an ideal system for examining relationships between faunal patterns and environmental conditions of deep-sea communities because deep-sea conditions change from warm and oxygen-rich in the north to cold and severely hypoxic in the south. The Monterey Bay Aquarium Research Institute (MBARI) remotely operated vehicle (ROV) ‘Doc Ricketts’ was used to conduct seafloor video transects at depths of ~200-1400 m in the northern, central, and southern Gulf. The community composition, density, and diversity of demersal fish assemblages were compared to environmental conditions. We tested the hypothesis that climate-relevant variables (temperature, oxygen, and primary production) have more explanatory power than static variables (latitude, depth, and benthic substrate) in explaining variation in fish community structure. Temperature best explained variance in density, while oxygen best explained variance in diversity and community composition. Both density and diversity declined with decreasing oxygen, but diversity declined at a higher oxygen threshold (~7 µmol kg-1). Remarkably, high-density fish communities were observed living under suboxic conditions (<5 µmol kg-1). Using an Earth systems global climate model forced under an RCP8.5 scenario, we found that by 2081-2100, the entire Gulf of California seafloor is expected to experience a mean temperature increase of 1.08 ± 1.07°C and modest deoxygenation. The projected changes in temperature and oxygen are expected to be accompanied by reduced diversity and related changes in deep-sea demersal fish communities.

scholarly journals Higher Sensitivity of Soil Microbial Network Than Community Structure under Acid Rain

2021 ◽  
Vol 9 (1) ◽  
pp. 118
Author(s):  
Ziqiang Liu ◽  
Hui Wei ◽  
Jiaen Zhang ◽  
Muhammad Saleem ◽  
Yanan He ◽  
...  
Keyword(s):  
Community Structure ◽  
Acid Rain ◽  
Natural Soil ◽  
Available Phosphorus ◽  
Global Changes ◽  
N2o Emissions ◽  
Ammonia Oxidizing Bacteria ◽  
Soil Core ◽  
N Cycle ◽  
Microbial Network

Acid rain (AR), as a global environmental threat, has profoundly adverse effects on natural soil ecosystems. Microorganisms involved in the nitrogen (N) cycle regulate the global N balance and climate stabilization, but little is known whether and how AR influences the structure and complexity of these microbial communities. Herein, we conducted an intact soil core experiment by manipulating the acidity of simulated rain (pH 7.5 (control, CK) vs. pH 4.0 (AR)) in subtropical agricultural soil, to reveal the differences in the structure and complexity of soil nitrifying and denitrifying microbiota using Illumina amplicon sequencing of functional genes (amoA, nirS, and nosZ). Networks of ammonia-oxidizing archaea (AOA) and nirS-carrying denitrifiers in AR treatment were less complex with fewer nodes and lower connectivity, while network of nosZ-carrying denitrifiers in AR treatment had higher complexity and connectivity relative to CK. Supporting this, AR reduced the abundance of keystone taxa in networks of AOA and nirS-carrying denitrifiers, but increased the abundance of keystone taxa in nosZ-carrying denitrifiers network. However, AR did not alter the community structure of AOA, ammonia-oxidizing bacteria (AOB), nirS-, and nosZ-carrying denitrifiers. Moreover, AR did not change soil N2O emissions during the experimental period. AOB community structure significantly correlated with content of soil available phosphorus (P), while the community structures of nirS- and nosZ-carrying denitrifiers both correlated with soil pH and available P content. Soil N2O emission was mainly driven by the nirS-carrying denitrifiers. Our results present new perspective on the impacts of AR on soil N-cycle microbial network complexity and keystone taxa in the context of global changes.

scholarly journals Ammonia-oxidizing archaea are integral to nitrogen cycling in a highly fertile agricultural soil

2021 ◽  
Vol 1 (1) ◽  
Author(s):  
Laibin Huang ◽  
Seemanti Chakrabarti ◽  
Jennifer Cooper ◽  
Ana Perez ◽  
Sophia M. John ◽  
...  
Keyword(s):  
Nitrogen Cycle ◽  
Agricultural Soil ◽  
Agricultural Soils ◽  
Ammonia Oxidizing Bacteria ◽  
Central Process ◽  
Soil Nitrification ◽  
Plant Nitrogen ◽  
Ammonia Oxidizing Archaea ◽  
Activity Measurements ◽  
Nitrite Oxidizing Bacteria

AbstractNitrification is a central process in the global nitrogen cycle, carried out by a complex network of ammonia-oxidizing archaea (AOA), ammonia-oxidizing bacteria (AOB), complete ammonia-oxidizing (comammox) bacteria, and nitrite-oxidizing bacteria (NOB). Nitrification is responsible for significant nitrogen leaching and N2O emissions and thought to impede plant nitrogen use efficiency in agricultural systems. However, the actual contribution of each nitrifier group to net rates and N2O emissions remain poorly understood. We hypothesized that highly fertile agricultural soils with high organic matter mineralization rates could allow a detailed characterization of N cycling in these soils. Using a combination of molecular and activity measurements, we show that in a mixed AOA, AOB, and comammox community, AOA outnumbered low diversity assemblages of AOB and comammox 50- to 430-fold, and strongly dominated net nitrification activities with low N2O yields between 0.18 and 0.41 ng N2O–N per µg NOx–N in cropped, fallow, as well as native soil. Nitrification rates were not significantly different in plant-covered and fallow plots. Mass balance calculations indicated that plants relied heavily on nitrate, and not ammonium as primary nitrogen source in these soils. Together, these results imply AOA as integral part of the nitrogen cycle in a highly fertile agricultural soil.

scholarly journals Spatial and Temporal Characteristics of Environmental Air Quality and Its Relationship with Seasonal Climatic Conditions in Eastern China during 2015–2018

2021 ◽  
Vol 18 (9) ◽  
pp. 4524
Author(s):  
Zhiyuan Wang ◽  
Xiaoyi Shi ◽  
Chunhua Pan ◽  
Sisi Wang
Keyword(s):  
Particulate Matter ◽  
Air Quality ◽  
Air Pollutants ◽  
Large Scale ◽  
Asian Summer Monsoon ◽  
Eastern China ◽  
Climatic Conditions ◽  
Uniform Structure ◽  
Concentration Limit ◽  
Environmental Air

Exploring the relationship between environmental air quality (EAQ) and climatic conditions on a large scale can help better understand the main distribution characteristics and the mechanisms of EAQ in China, which is significant for the implementation of policies of joint prevention and control of regional air pollution. In this study, we used the concentrations of six conventional air pollutants, i.e., carbon monoxide (CO), sulfur dioxide (SO2), nitrogen dioxide (NO2), fine particulate matter (PM2.5), coarse particulate matter (PM10), and ozone (O3), derived from about 1300 monitoring sites in eastern China (EC) from January 2015 to December 2018. Exploiting the grading concentration limit (GB3095-2012) of various pollutants in China, we also calculated the monthly average air quality index (AQI) in EC. The results show that, generally, the EAQ has improved in all seasons in EC from 2015 to 2018. In particular, the concentrations of conventional air pollutants, such as CO, SO2, and NO2, have been decreasing year by year. However, the concentrations of particulate matter, such as PM2.5 and PM10, have changed little, and the O3 concentration increased from 2015 to 2018. Empirical mode decomposition (EOF) was used to analyze the major patterns of AQI in EC. The first mode (EOF1) was characterized by a uniform structure in AQI over EC. These phenomena are due to the precipitation variability associated with the East Asian summer monsoon (EASM), referred to as the “summer–winter” pattern. The second EOF mode (EOF2) showed that the AQI over EC is a north–south dipole pattern, which is bound by the Qinling Mountains and Huaihe River (about 35° N). The EOF2 is mainly caused by seasonal variations of the mixed concentration of PM2.5 and O3. Associated with EOF2, the Mongolia–Siberian High influences the AQI variation over northern EC by dominating the low-level winds (10 m and 850 hPa) in autumn and winter, and precipitation affects the AQI variation over southern EC in spring and summer.

Are seed mass and seedling size and shape related to altitude? Evidence in Gymnocalycium monvillei (Cactaceae)

Botany ◽  
2015 ◽  
Vol 93 (8) ◽  
pp. 529-533 ◽  
Author(s):  
Karen Bauk ◽  
Reyes Pérez-Sánchez ◽  
Sebastián R. Zeballos ◽  
M. Laura Las Peñas ◽  
Joel Flores ◽  
...  
Keyword(s):  
Negative Relationship ◽  
Seed Mass ◽  
Climatic Conditions ◽  
Mean Annual Temperature ◽  
Altitudinal Distribution ◽  
Seedling Morphology ◽  
Seedling Size ◽  
Size And Shape ◽  
Seedling Traits ◽  
Species Response

Several studies reported a negative relationship between altitude and seed mass. In cactus species, seed mass has been also related to seedling morphology (size and shape). Here we studied Gymnocalycium monvillei (Lem.) Pfeiff. ex Britton & Rose, a cactus species with a wide altitudinal distribution, with the main aim of analyzing how altitude affects seed mass and seedling size (height and width) and shape (globose or columnar). We collected seeds from five sites along the entire altitudinal distribution of the species in the Córdoba Mountains (sites were located between 878 and 2230 m a.s.l.), encompassing a marked climatic gradient (6 °C of mean annual temperature difference between the extreme sites). Seed mass and seedling traits were measured in the laboratory. Seedling height increased with altitude, whereas seed mass was not related to this parameter. Seedlings became more globose (reduced surface/volume ratio) with decreasing altitude. Variation in seedling shape along the altitudinal gradient may be related to the contrasting climatic conditions to which seedlings are exposed, and could account for the wide altitudinal distribution of G. monvillei. Our results highlight the importance of seedling traits in the species’ response to climatic change.

Carbon stocks in Tasmanian soils

Soil Research ◽  
2012 ◽  
Vol 50 (2) ◽  
pp. 83 ◽  
Author(s):  
W. E. Cotching
Keyword(s):  
Management Practices ◽  
Agricultural Soils ◽  
C Sequestration ◽  
Mean Annual Temperature ◽  
Soil C ◽  
C Stocks ◽  
Initial Soil ◽  
If Current ◽  
Intensive Cropping ◽  
The Difference

Soil carbon (C) stocks were calculated for Tasmanian soil orders to 0.3 and 1.0 m depth from existing datasets. Tasmanian soils have C stocks of 49–117 Mg C/ha in the upper 0.3 m, with Ferrosols having the largest soil C stocks. Mean soil C stocks in agricultural soils were significantly lower under intensive cropping than under irrigated pasture. The range in soil C within soil orders indicates that it is critical to determine initial soil C stocks at individual sites and farms for C accounting and trading purposes, because the initial soil C content will determine if current or changed management practices are likely to result in soil C sequestration or emission. The distribution of C within the profile was significantly different between agricultural and forested land, with agricultural soils having two-thirds of their soil C in the upper 0.3 m, compared with half for forested soils. The difference in this proportion between agricultural and forested land was largest in Dermosols (0.72 v. 0.47). The total amount of soil C in a soil to 1.0 m depth may not change with a change in land use, but the distribution can and any change in soil C deeper in the profile might affect how soil C can be managed for sequestration. Tasmanian soil C stocks are significantly greater than those in mainland states of Australia, reflecting the lower mean annual temperature and higher precipitation in Tasmania, which result in less oxidation of soil organic matter.

Field survey on frost damage to roof tiles under climatic conditions

2016 ◽  
Vol 34 (2) ◽  
pp. 135-149 ◽  
Author(s):  
Chiemi Iba ◽  
Ayumi Ueda ◽  
Shuichi Hokoi
Keyword(s):  
Field Survey ◽  
Winter Season ◽  
Frost Damage ◽  
Climatic Conditions ◽  
Weather Data ◽  
Measured Temperature ◽  
Content Type ◽  
Roof Tile ◽  
Deterioration Process ◽  
The Impact

Purpose – Frost damage is well-known as the main cause of roof tile deterioration. The purpose of this paper is to develop an analytical model for predicting the deterioration process under certain climatic conditions. This paper describes the results of a field survey conducted to acquire fundamental information useful to this aim. Design/methodology/approach – A field survey of roof tile damage by freezing was conducted in an old temple precinct in Kyoto, Japan. Using detailed observations and photographic recordings, the damage progress was clarified. To examine the impact of climatic conditions upon the damage characteristics, weather data and roof tile temperatures were measured and logged in the winter season. Findings – The deterioration process was observed under the climatic conditions associated with the measured temperature of the roof tiles. In particular, it was revealed that the orientation has a significant influence on increasing or decreasing the risk of frost damage. For certain distinctive forms of damage, the deterioration mechanisms were estimated from the viewpoint of the moisture flow and temperature distribution in the tile. Originality/value – This study contributes to the elucidation of the mechanism behind frost damage to roof tiles. The findings will guide the construction of a numerical model for frost damage prediction.

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