scholarly journals Changes in the Microbial Community Diversity of Oil Exploitation

Genes ◽  
2019 ◽  
Vol 10 (8) ◽  
pp. 556 ◽  
Author(s):  
Jingjing Liu ◽  
Jing Wu ◽  
Jiawei Lin ◽  
Jian Zhao ◽  
Tianyi Xu ◽  
...  
Keyword(s):  
Community Structure ◽  
Microbial Community ◽  
Environmental Factors ◽  
Oil Recovery ◽  
Microbial Community Structure ◽  
Storage Tank ◽  
Oil Production ◽  
Operational Taxonomic Unit ◽  
Community Diversity ◽  
Microbial Resources

To systematically evaluate the ecological changes of an active offshore petroleum production system, the variation of microbial communities at several sites (virgin field, wellhead, storage tank) of an oil production facility in east China was investigated by sequencing the V3 to V4 regions of 16S ribosomal ribonucleic acid (rRNA) of microorganisms. In general, a decrease of microbial community richness and diversity in petroleum mining was observed, as measured by operational taxonomic unit (OTU) numbers, α (Chao1 and Shannon indices), and β (principal coordinate analysis) diversity. Microbial community structure was strongly affected by environmental factors at the phylum and genus levels. At the phylum level, virgin field and wellhead were dominated by Proteobacteria, while the storage tank had higher presence of Firmicutes (29.3–66.9%). Specifically, the wellhead displayed a lower presentence of Proteobacteria (48.6–53.4.0%) and a higher presence of Firmicutes (24.4–29.6%) than the virgin field. At the genus level, the predominant genera were Ochrobactrum and Acinetobacter in the virgin field, Lactococcus and Pseudomonas in the wellhead, and Prauseria and Bacillus in the storage tank. Our study revealed that the microbial community structure was strongly affected by the surrounding environmental factors, such as temperature, oxygen content, salinity, and pH, which could be altered because of the oil production. It was observed that the various microbiomes produced surfactants, transforming the biohazard and degrading hydro-carbon. Altering the microbiome growth condition by appropriate human intervention and taking advantage of natural microbial resources can further enhance oil recovery technology.

scholarly journals Interaction between typical sulfonamides and bacterial diversity in drinking water

2018 ◽  
Vol 16 (6) ◽  
pp. 914-920 ◽  
Author(s):  
Qing Wu ◽  
Shuqun Li ◽  
Xiaofei Zhao ◽  
Xinhua Zhao
Keyword(s):  
Drinking Water ◽  
Community Structure ◽  
Microbial Community ◽  
Bacterial Community ◽  
Bacterial Diversity ◽  
Microbial Community Structure ◽  
Antibiotic Use ◽  
Community Diversity ◽  
Wide Range ◽  
Growth Of Bacteria

Abstract The abuse of antibiotics is becoming more serious as antibiotic use has increased. The sulfa antibiotics, sulfamerazine (SM1) and sulfamethoxazole (SMZ), are frequently detected in a wide range of environments. The interaction between SM1/SMZ and bacterial diversity in drinking water was investigated in this study. The results showed that after treatment with SM1 or SMZ at four different concentrations, the microbial community structure of the drinking water changed statistically significantly compared to the blank sample. At the genus level, the proportions of the different bacteria in drinking water may affect the degradation of the SM1/SMZ. The growth of bacteria in drinking water can be inhibited after the addition of SM1/SMZ, and bacterial community diversity in drinking water declined in this study. Furthermore, the resistance gene sul2 was induced by SM1 in the drinking water.

Heterotrophic Bacterial Community Structure of Multistage Biofilters in a Commercial Pufferfish Takifugu rubripes RAS

2013 ◽  
Vol 726-731 ◽  
pp. 1621-1627 ◽  
Author(s):  
Zhu Chen ◽  
Ying Liu ◽  
Liang Zi Liu ◽  
Xiao Jing Wang ◽  
Zhi Pei Liu ◽  
...  
Keyword(s):  
Community Structure ◽  
Microbial Community ◽  
Bacterial Community ◽  
Bacterial Community Structure ◽  
Heterotrophic Bacteria ◽  
Diversity Index ◽  
Community Diversity ◽  
Takifugu Rubripes ◽  
Recirculating Aquaculture ◽  
Microbial Resources

The success of a recirculating aquaculture system (RAS) greatly depends on the structure, dynamics and activities of microbial community. Heterotrophic bacteria as the major members play various roles. The heterotrophic bacterial community structure in threestaged biofilters was studied using four different media. 228 isolates belonging to 77species were obtained and affiliated toGammaproteobacteria,Alphaproteobacteria,Bacteroidetes,Firmicutes,ActinobacteriaandBetaproteobacteria.Gammaproteobacteriawas the predominant group. The concurrence was found between potential pathogens (VibrioandShewanella) and probiotics (BacillusandPseudomonas). On the basis of community diversity index, we could infer that differences existed between stages, and the diversity index increased along the biofilters. A comprehensive understanding of microbial community in RAS will be in favor of utilization of microbial resources and optimizing the culture systems' operation.

Using Bioinformatics to Quantify the Variability and Diversity of the Microbial Community Structure in Pond Ecosystems of a Subtropical Catchment

2020 ◽  
Vol 15 ◽  
Author(s):  
Jiaogen Zhou ◽  
Yang Wang ◽  
Qiuliang Lei
Keyword(s):  
Community Structure ◽  
Microbial Community ◽  
Environmental Factors ◽  
Microbial Communities ◽  
Microbial Community Structure ◽  
Fish Farming ◽  
Water Bodies ◽  
Fish Pond ◽  
P Fractions ◽  
Pond Ecosystems

Background: In rural China, many natural water bodies and farmlands have been converted to fish farming ponds as an economic development strategy. There is still a limited understanding of how the diversity and structure of microbial communities change in natural and managed fish pond ecosystems. Objective: We aimed to identify the changes of the diversity and structure of microbial community and driving mechanism in pond ecosystems. Methods: The datasets of 16S rRNA amplicon sequencing and the concentrations of N and P fractions were achieved in water samplers of pond ecosystems. Bioinformatics analysis was used to analyze the diversity and structure of the microbial communities. Results: Our results indicated that the diversity and structure of the microbial communities in the natural ponds were significantly different from ones in managed fish ponds. The nutrients of N and P and water environmental factors were responsible for 46.3% and 19.5% of the changes in the structure and diversity of the microbial community, respectively. Conclusion: The N and P fractions and water environmental factors influenced the microbial community structure and diversity in pond ecosystems. Fish farming indirectly affected the microbial community by altering the contents of N and P fractions in water bodies of ponds when a natural pond was converted to a managed fish pond. Conclusion: The N and P fractions and water environmental factors influenced the microbial community structure and diversity in pond ecosystems. Fish farming indirectly affected the microbial community by altering the contents of N and P fractions in water bodies of ponds when a natural pond was converted to a managed fish pond.

scholarly journals PhenoGMM: Gaussian Mixture Modeling of Cytometry Data Quantifies Changes in Microbial Community Structure

mSphere ◽  
2021 ◽  
Vol 6 (1) ◽  
Author(s):  
Peter Rubbens ◽  
Ruben Props ◽  
Frederiek-Maarten Kerckhof ◽  
Nico Boon ◽  
Willem Waegeman
Keyword(s):  
Flow Cytometry ◽  
Community Structure ◽  
Microbial Community ◽  
Microbial Community Structure ◽  
Gaussian Mixture Models ◽  
Gaussian Mixture ◽  
Community Diversity ◽  
Data Sets ◽  
Natural Ecosystems ◽  
Flow Cytometry Data

ABSTRACT Microbial flow cytometry can rapidly characterize the status of microbial communities. Upon measurement, large amounts of quantitative single-cell data are generated, which need to be analyzed appropriately. Cytometric fingerprinting approaches are often used for this purpose. Traditional approaches either require a manual annotation of regions of interest, do not fully consider the multivariate characteristics of the data, or result in many community-describing variables. To address these shortcomings, we propose an automated model-based fingerprinting approach based on Gaussian mixture models, which we call PhenoGMM. The method successfully quantifies changes in microbial community structure based on flow cytometry data, which can be expressed in terms of cytometric diversity. We evaluate the performance of PhenoGMM using data sets from both synthetic and natural ecosystems and compare the method with a generic binning fingerprinting approach. PhenoGMM supports the rapid and quantitative screening of microbial community structure and dynamics. IMPORTANCE Microorganisms are vital components in various ecosystems on Earth. In order to investigate the microbial diversity, researchers have largely relied on the analysis of 16S rRNA gene sequences from DNA. Flow cytometry has been proposed as an alternative technology to characterize microbial community diversity and dynamics. The technology enables a fast measurement of optical properties of individual cells. So-called fingerprinting techniques are needed in order to describe microbial community diversity and dynamics based on flow cytometry data. In this work, we propose a more advanced fingerprinting strategy based on Gaussian mixture models. We evaluated our workflow on data sets from both synthetic and natural ecosystems, illustrating its general applicability for the analysis of microbial flow cytometry data. PhenoGMM supports a rapid and quantitative analysis of microbial community structure using flow cytometry.

Analysis of Microbial Community Succession in Daqing Oil Field

2010 ◽  
Vol 113-116 ◽  
pp. 830-834
Author(s):  
Yong Hong Huang ◽  
Guo Ling Ren ◽  
Li Wei ◽  
Xiao Lin Wu ◽  
Hong Mei Yuan ◽  
...  
Keyword(s):  
Microbial Community ◽  
Oil Recovery ◽  
Dynamic Change ◽  
Oil Production ◽  
Oil Field ◽  
Community Diversity ◽  
Oil Reservoir ◽  
Crude Oil Production ◽  
Daqing Oil Field ◽  
Single Well

It is difficult to increase crude oil production for Daqing oil field by conventional technologies. In order to increase crude oil production, we make use of microbial enhanced oil recovery technology. The results showed that fluid production increased by 11 tons, oil production increased by 1.7 tons, water rate has decreased by 0.6 tons in oil reservoir after polymer flooding, North-2-4-P47 single-well daily. Microbial community diversity and dynamic change in oil reservoir after polymer flooding in Daqing Oil Field, North 2-4-P47 single-well in the process of microbial enhanced oil recovery was analyzed by PCR-DGGE. The results showed that the dominant microbes of North-2-4-P47 single-well are Acinetobacter johnsonii., Pseudomonas fluorescens., Pseudomonas sp., Bosea sp., Syntrophothermus lipocalidus., Aeromonas media. and some uncultured bacterium. Overall, microbial community diversity is abundant, and dynamic change of microbial community is also great in North-2-4-P49 single-well.

scholarly journals Ecological Effects of Heavy Metal Pollution on Soil Microbial Community Structure and Diversity on Both Sides of a River around a Mining Area

2020 ◽  
Vol 17 (16) ◽  
pp. 5680
Author(s):  
Xingqing Zhao ◽  
Jian Huang ◽  
Xuyan Zhu ◽  
Jinchun Chai ◽  
Xiaoli Ji
Keyword(s):  
Heavy Metal ◽  
Community Structure ◽  
Microbial Community ◽  
Environmental Factors ◽  
Microbial Communities ◽  
Microbial Community Structure ◽  
Metal Pollution ◽  
Heavy Metal Pollution ◽  
Mining Area ◽  
Soil Microbial

The objectives of this study were to understand the characteristics of heavy metal pollution caused by mining activities on the two sides of the Shun’an river and the response of soil microorganisms to the habitats by different contamination levels and vegetation. This paper selected soil samples from the banks of the Shun’an River near the Shizishan mining area, which is at the left of the river, in Tongling, Anhui Province, China. Using Illumina MiSeq 2500 technology, we analyzed the relationship between environmental factors and microbial communities. As the distance from the mining area increased, the heavy metal comprehensive pollution and potential risk value decreased. Additionally, the pollution severity and risk value of the left bank, where the mining area lies, were generally higher than those of the right bank. Because the symmetric sampling points on both banks of the river had similar planting types, their environmental factors and microbial community structure were similar and clustered. However, under different vegetation, the paddy soils tended to have a higher nutrient content and community richness and diversity than the vegetable fields or the abandoned land. It was found that soil microbial communities in this area were mostly affected by pH and Nemerow pollution index (PN). The pH significantly affected the abundance and structure of most microorganisms. In addition, Proteobacteria, Acidobacteria, and Bacteroidetes had significant tolerance to Zn, Pb, and Cd. By exploring the potential use of these tolerant microorganisms, we seek to provide strains and the theoretical basis for the bioremediation of areas contaminated by heavy metal.

scholarly journals Microbial community diversity patterns are related to physical and chemical differences among temperate lakes near Beaver Island, MI

PeerJ ◽  
2017 ◽  
Vol 5 ◽  
pp. e3937 ◽  
Author(s):  
Miranda H. Hengy ◽  
Dean J. Horton ◽  
Donald G. Uzarski ◽  
Deric R. Learman
Keyword(s):  
Community Structure ◽  
Microbial Community ◽  
Microbial Communities ◽  
Microbial Community Structure ◽  
Bottom Water ◽  
Community Diversity ◽  
Freshwater Lakes ◽  
Microbial Community Diversity ◽  
Physical And Chemical ◽  
Beaver Island

Lakes are dynamic and complex ecosystems that can be influenced by physical, chemical, and biological processes. Additionally, individual lakes are often chemically and physically distinct, even within the same geographic region. Here we show that differences in physicochemical conditions among freshwater lakes located on (and around) the same island, as well as within the water column of each lake, are significantly related to aquatic microbial community diversity. Water samples were collected over time from the surface and bottom-water within four freshwater lakes located around Beaver Island, MI within the Laurentian Great Lakes region. Three of the sampled lakes experienced seasonal lake mixing events, impacting either O2, pH, temperature, or a combination of the three. Microbial community alpha and beta diversity were assessed and individual microbial taxa were identified via high-throughput sequencing of the 16S rRNA gene. Results demonstrated that physical and chemical variability (temperature, dissolved oxygen, and pH) were significantly related to divergence in the beta diversity of surface and bottom-water microbial communities. Despite its correlation to microbial community structure in unconstrained analyses, constrained analyses demonstrated that dissolved organic carbon (DOC) concentration was not strongly related to microbial community structure among or within lakes. Additionally, several taxa were correlated (either positively or negatively) to environmental variables, which could be related to aerobic and anaerobic metabolisms. This study highlights the measurable relationships between environmental conditions and microbial communities within freshwater temperate lakes around the same island.

Analysis on Microbial Community Structure and Phylogenetics for the Reservoir System after the Microbial Enhanced Oil Recovery

2011 ◽  
Vol 361-363 ◽  
pp. 393-399
Author(s):  
Yong Hong Huang ◽  
Hai Yan Ding ◽  
Zhao Wei Hou ◽  
Guo Ling Ren ◽  
Xiao Lin Wu ◽  
...  
Keyword(s):  
Community Structure ◽  
Microbial Community ◽  
Enhanced Oil Recovery ◽  
Oil Recovery ◽  
Microbial Community Structure ◽  
Polymer Flooding ◽  
Microbial Enhanced Oil Recovery ◽  
Reservoir System ◽  
Directional Control ◽  
Microbial Flooding

In order to probe a new enhanced oil recovery technology during the post polymer flooding process, we constructed the 16SrDNA gene library and analysed PCR-DGGE during the post-microbial enhanced oil recovery of polymer flooding process. Through the research for the reservoir system, we studied the microbial community structure and genetic diversity after polymer flooding process, made the phylogenetic analysis. It is supposed to provide a dependable basis for MEOR through directional control microbial community of reservoir, through development and application of effective microbial flooding technology.

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