The rapid advancement of next generation sequencing protocols in recent years has led to the diversification in the methods used to study microbial communities; however, how comparable the data generated from these different methods are, remains unclear. In this study we compared the taxonomic composition and seasonal dynamics of the bacterial community determined by two distinct 16s amplicon sequencing protocols: sequencing of the V6 region of the 16s rRNA gene using 454 pyrosequencing vs the V4 region of the 16s rRNA gene using the Illumina Hiseq 2500 platform. Significant differences between relative abundances at all taxonomic levels were observed; however, their seasonal dynamics between phyla were largely consistent between methods. This study highlights that care must be taken when comparing datasets generated from different methods.
Download full-text PDF |
Source |
|---|---|
| http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5253396 | PMC |
| http://dx.doi.org/10.1016/j.margen.2016.09.001 | DOI Listing |
Publication Analysis
Top Keywords
Similar Publications
Therapeutic effects of fumaric acid on proteomic expression and gut microbiota composition in Pacific white shrimp (Penaeus vannamei) infected with Ecytonucleospora hepatopenaei (EHP).
Fish Shellfish Immunol
January 2025
Vet Products Research & Innovation Center Co., Ltd. 141 Moo9, Thailand Science Park, Innovation Clusters (INC2) Tower D 11(th) floor, Room No. INCD1108-INCD1111 Phahonyothin Road, Khlong Nueng, Khlong Luang, Pathum Thani 12120, Thailand.
Recently, microsporidiosis caused by a microsporidian [Ecytonucleospora (Enterocytozoon) hepatopenaei, EHP] has been found to seriously impact the global shrimp industry. The aim of this study was to evaluate the therapeutic effects of fumaric acid (FA) in EHP-infected Pacific white shrimp (Penaeus vannamei). In the first 2 groups, non-EHP-infected shrimp were fed FA-supplemented (10 g/kg diet) or normal feed (CM+ and CM-, respectively).
View Article and Find Full Text PDFCervicovaginal microbiome and natural history of Chlamydia trachomatis in adolescents and young women.
Cell
January 2025
Departments of Microbiology and Immunology, Albert Einstein College of Medicine, Bronx, New York, NY, USA; Department of Pediatrics (Genetic Medicine), Albert Einstein College of Medicine, Bronx, New York, NY, USA; Department of Epidemiology and Population Health, Albert Einstein College of Medicine, Bronx, New York, NY, USA; Department Obstetrics and Gynecology and Women's Health, Albert Einstein College of Medicine, Bronx, New York, NY, USA. Electronic address:
This study investigated the cervicovaginal microbiome's (CVM's) impact on Chlamydia trachomatis (CT) infection among Black and Hispanic adolescent and young adult women. A total of 187 women with incident CT were matched to 373 controls, and the CVM was characterized before, during, and after CT infection. The findings highlight that a specific subtype of bacterial vaginosis (BV), identified from 16S rRNA gene reads using the molBV algorithm and community state type (CST) clustering, is a significant risk factor for CT acquisition.
View Article and Find Full Text PDFConstruction of a fusant bacterial strain simultaneously degrading atrazine and acetochlor and its application in soil bioremediation.
Sci Total Environ
January 2025
Jilin Academy of Agricultural Sciences (Northeast Agricultural Research Center of Chin), Gongzhuling 136100, Jilin, China. Electronic address:
Application of herbicide-degrading bacteria is an effective strategy to remove herbicide in soil. However, the ability of bacteria to degrade a herbicide is often severely limited in the presence of other pesticide. In this study, the atrazine-degrading strain Klebsiella varicola FH-1 and acetochlor-degrading strain Bacillus Aryabhatti LY-4 were used as parent strains to construct the recombinant RH-92 strain through protoplast fusion technology.
View Article and Find Full Text PDFCooperation of Lactoplantibacillus plantarum and polyethylene microplastics facilitated the disappearance of tetracycline during anaerobic fermentation of whole plant maize.
J Hazard Mater
January 2025
College of Animal Science, Guizhou University, Guiyang 550025, China; Key Laboratory of Animal Genetics, Breeding & Reproduction in the Plateau Mountainous Region, Ministry of Education, Guizhou University, Guiyang 550025, China. Electronic address:
In agricultural production systems, the harm of both antibiotics and microplastics (MPs) to human health has been an important and continuously concerned issue. A small bagged silage production system was designed to investigate the effects of Lactoplantibacillus plantarum, polyethylene (PE) -MPs and their mixture on the silage fermentation and chemical composition of Tetracycline (TET) -contaminated whole plant maize. In addition, the bacterial community of silage samples was analyzed by using next generation genome sequencing technology.
View Article and Find Full Text PDFUnderstanding pollutant-driven shifts of antibiotic resistome in activated sludge: A lab-scale study.
J Hazard Mater
January 2025
State Key Laboratory of Pollution Control and Resource Reuse, School of Environment, Nanjing University, Nanjing 210023, China. Electronic address:
Non-antibiotic pollutants have been identified as contributors to the development of antibiotic resistance across various environments. Wastewater treatment plants, recognized as hotspots for antibiotic resistance genes (ARGs), have received extensive attention regarding the mechanisms driving resistance changes in activated sludge. However, the specific impacts of heavy metals and aromatic organics-common pollutants in industrial wastewater-on the resistome of activated sludge, as well as the underlying mechanisms driving these effects, remain underexplored.
View Article and Find Full Text PDFWant AI Summaries of new PubMed Abstracts delivered to your In-box?
Enter search terms and have AI summaries delivered each week - change queries or unsubscribe any time!