scholarly journals The Tolerance of Anoxic-Oxic (A/O) Process for the Changing of Refractory Organics in Electroplating Wastewater: Performance, Optimization and Microbial Characteristics

Processes ◽  
2021 ◽  
Vol 9 (6) ◽  
pp. 962
Author(s):  
Jingsi Gao ◽  
Chongsen Duan ◽  
Xiao Huang ◽  
Jianghua Yu ◽  
Zhen Cao ◽  
...  
Keyword(s):  
Microbial Community ◽  
High Throughput ◽  
Performance Optimization ◽  
High Throughput Sequencing ◽  
Microbial Community Composition ◽  
Sodium Dodecyl ◽  
Stable State ◽  
Electroplating Wastewater ◽  
Microbial Characteristics ◽  
Refractory Organics

In order to investigate the tolerance of an anoxic-oxic (A/O) process for the changing of refractory organics in electroplating wastewater, optimize the technological parameters, and reveal the microbial characteristics, a pilot-scale A/O process was carried out and the microbial community composition was analyzed by high-throughput sequencing. The results indicated that a better tolerance was achieved for sodium dodecyl benzene sulfonate, and the removal efficiencies of organic matter, ammonia nitrogen (NH4+-N), and total nitrogen (TN) were 82.87%, 66.47%, and 53.28% with the optimum hydraulic retention time (HRT), internal circulation and dissolved oxygen (DO) was 12 h, 200% and 2–3 mg/L, respectively. Additionally, high-throughput sequencing results demonstrated that Proteobacteria and Bacteroidetes were the dominant bacteria phylum, and the diversity of the microbial community in the stable-state period was richer than that in the start-up period.

scholarly journals Microbial community composition in Brazilian stored diesel fuel of varying sulfur content, using high-throughput sequencing

Fuel ◽  
2017 ◽  
Vol 189 ◽  
pp. 340-349 ◽  
Author(s):  
Aline Oliboni de Azambuja ◽  
Francielle Bücker ◽  
Patrícia Dörr de Quadros ◽  
Kateryna Zhalnina ◽  
Raquel Dias ◽  
...  
Keyword(s):  
Microbial Community ◽  
Community Composition ◽  
Sulfur Content ◽  
High Throughput ◽  
Diesel Fuel ◽  
High Throughput Sequencing ◽  
Microbial Community Composition

scholarly journals A comparison of DNA/RNA extraction protocols for high-throughput sequencing of microbial communities

2020 ◽  
Author(s):  
Justin P. Shaffer ◽  
Clarisse Marotz ◽  
Pedro Belda-Ferre ◽  
Cameron Martino ◽  
Stephen Wandro ◽  
...  
Keyword(s):  
Microbial Community ◽  
High Throughput ◽  
High Throughput Sequencing ◽  
Limit Of Detection ◽  
Sequence Data ◽  
Rna Virus ◽  
Microbial Community Composition ◽  
Rna Extraction ◽  
Acid Extraction ◽  
Dna And Rna

AbstractOne goal among microbial ecology researchers is to capture the maximum amount of information from all organisms in a sample. The recent COVID-19 pandemic, caused by the RNA virus SARS-CoV-2, has highlighted a gap in traditional DNA-based protocols, including the high-throughput methods we previously established as field standards. To enable simultaneous SARS-CoV-2 and microbial community profiling, we compare the relative performance of two total nucleic acid extraction protocols and our previously benchmarked protocol. We included a diverse panel of environmental and host-associated sample types, including body sites commonly swabbed for COVID-19 testing. Here we present results comparing the cost, processing time, DNA and RNA yield, microbial community composition, limit of detection, and well-to-well contamination, between these protocols.Accession numbersRaw sequence data were deposited at the European Nucleotide Archive (accession#: ERP124610) and raw and processed data are available at Qiita (Study ID: 12201). All processing and analysis code is available on GitHub (github.com/justinshaffer/Extraction_test_MagMAX).Methods summaryTo allow for downstream applications involving RNA-based organisms such as SARS-CoV-2, we compared the two extraction protocols designed to extract DNA and RNA against our previously established protocol for extracting only DNA for microbial community analyses. Across 10 diverse sample types, one of the two protocols was equivalent or better than our established DNA-based protocol. Our conclusion is based on per-sample comparisons of DNA and RNA yield, the number of quality sequences generated, microbial community alpha- and beta-diversity and taxonomic composition, the limit of detection, and extent of well-to-well contamination.

scholarly journals Analysis of microbial community composition and diversity in postoperative intracranial infection using high-throughput sequencing

2017 ◽  
Vol 16 (4) ◽  
pp. 3938-3946 ◽  
Author(s):  
Lixin Ruan ◽  
Daowu Wu ◽  
Xinchong Li ◽  
Qichuan Huang ◽  
Laipeng Lin ◽  
...  
Keyword(s):  
Microbial Community ◽  
Community Composition ◽  
High Throughput ◽  
High Throughput Sequencing ◽  
Microbial Community Composition ◽  
Intracranial Infection

scholarly journals Effects of Andrographolide on Mouse Intestinal Microflora Based on High-Throughput Sequence Analysis

2021 ◽  
Vol 8 ◽  
Author(s):  
Haigang Wu ◽  
Xian Wu ◽  
Li Huang ◽  
Chongmei Ruan ◽  
Jinni Liu ◽  
...  
Keyword(s):  
Microbial Community ◽  
Gut Microbiota ◽  
High Throughput ◽  
High Throughput Sequencing ◽  
Bacterial Resistance ◽  
Microbial Community Composition ◽  
Intestinal Flora ◽  
Sequencing Analysis ◽  
Beneficial Bacteria ◽  
Intestinal Microbes

The intestinal flora is a micro-ecosystem that is closely linked to the overall health of the host. We examined the diversity and abundance of intestinal microorganisms in mice following the administration of andrographolide, a component of the Chinese medical herb Andrographis paniculata. Administration of andrographolide produces multiple beneficial effects including anti-inflammatory, antiviral and antibacterial effects but whether it directly influences the gut microbiota is not known. This study investigated whether the oral administration of andrographolide influences the intestinal microbiota and was compared with amoxicillin treatment as a positive control and water only as a negative control. We examined 21 cecal samples and conducted a high-throughput sequencing analysis based on V3-V4 variable region of the 16S rDNA genes. We found that the diversity and abundance of mouse gut microbiota decreased in direct proportion with the amoxicillin dose whereas andrographolide administration did not affect intestinal microbial community structure. The composition of intestinal microbes following andrographolide treatment was dominated by the Firmicutes while Bacteroidetes dominated the amoxicillin treatment group compared with the negative controls. Specifically, the f__Lachnospiraceae_ Unclassified, Lachnospiraceae_ NK4A136_group and Ruminococcaceae_ UCG-014 were enriched with andrographolide administration while Bacteroides, Klebsiella and Escherichia-Shigella significantly increased in the amoxicillin test groups. Amoxicillin administration altered the microbial community composition and structure by increasing the proportion of pathogenic to beneficial bacteria whereas andrographolide administration led to increases in the proportions and abundance of beneficial bacteria. This study provides a theoretical basis for finding alternatives to antibiotics to decrease bacterial resistance and restore intestinal floral imbalances.

scholarly journals A comparison of DNA/RNA extraction protocols for high-throughput sequencing of microbial communities

BioTechniques ◽  
2021 ◽  
Author(s):  
Justin P Shaffer ◽  
Clarisse Marotz ◽  
Pedro Belda-Ferre ◽  
Cameron Martino ◽  
Stephen Wandro ◽  
...  
Keyword(s):  
Microbial Community ◽  
High Throughput ◽  
High Throughput Sequencing ◽  
Limit Of Detection ◽  
Rna Virus ◽  
Microbial Community Composition ◽  
Rna Extraction ◽  
Acid Extraction ◽  
Dna And Rna ◽  
Community Profiling

One goal of microbial ecology researchers is to capture the maximum amount of information from all organisms in a sample. The recent COVID-19 pandemic, caused by the RNA virus SARS-CoV-2, has highlighted a gap in traditional DNA-based protocols, including the high-throughput methods the authors previously established as field standards. To enable simultaneous SARS-CoV-2 and microbial community profiling, the authors compared the relative performance of two total nucleic acid extraction protocols with the authors' previously benchmarked protocol. The authors included a diverse panel of environmental and host-associated sample types, including body sites commonly swabbed for COVID-19 testing. Here the authors present results comparing the cost, processing time, DNA and RNA yield, microbial community composition, limit of detection and well-to-well contamination between these protocols.

scholarly journals Disentangling Responses of the Subsurface Microbiome to Wetland Status and Implications for Indicating Ecosystem Functions

2021 ◽  
Vol 9 (2) ◽  
pp. 211
Author(s):  
Jie Gao ◽  
Miao Liu ◽  
Sixue Shi ◽  
Ying Liu ◽  
Yu Duan ◽  
...  
Keyword(s):  
Microbial Community ◽  
High Throughput Sequencing ◽  
Carbon Fixation ◽  
Microbial Community Composition ◽  
Ecosystem Functions ◽  
Microbial Composition ◽  
Wetland Ecosystems ◽  
Soil Microbial ◽  
Geochemical Properties ◽  
Microbial Groups

In this study, we analyzed microbial community composition and the functional capacities of degraded sites and restored/natural sites in two typical wetlands of Northeast China—the Phragmites marsh and the Carex marsh, respectively. The degradation of these wetlands, caused by grazing or land drainage for irrigation, alters microbial community components and functional structures, in addition to changing the aboveground vegetation and soil geochemical properties. Bacterial and fungal diversity at the degraded sites were significantly lower than those at restored/natural sites, indicating that soil microbial groups were sensitive to disturbances in wetland ecosystems. Further, a combined analysis using high-throughput sequencing and GeoChip arrays showed that the abundance of carbon fixation and degradation, and ~95% genes involved in nitrogen cycling were increased in abundance at grazed Phragmites sites, likely due to the stimulating impact of urine and dung deposition. In contrast, the abundance of genes involved in methane cycling was significantly increased in restored wetlands. Particularly, we found that microbial composition and activity gradually shifts according to the hierarchical marsh sites. Altogether, this study demonstrated that microbial communities as a whole could respond to wetland changes and revealed the functional potential of microbes in regulating biogeochemical cycles.

scholarly journals High-throughput sequencing analysis of microbial community diversity in response to indica and japonica bar-transgenic rice paddy soils

PLoS ONE ◽  
2019 ◽  
Vol 14 (9) ◽  
pp. e0222191 ◽  
Author(s):  
Meidan He ◽  
Jiachao Zhang ◽  
Linbo Shen ◽  
Lixin Xu ◽  
Wenjie Luo ◽  
...  
Keyword(s):  
Microbial Community ◽  
Transgenic Rice ◽  
High Throughput ◽  
High Throughput Sequencing ◽  
Rice Paddy ◽  
Paddy Soils ◽  
Community Diversity ◽  
Sequencing Analysis ◽  
Microbial Community Diversity ◽  
Rice Paddy Soils
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