ArticleFEMS microbiology ecology2018
Primer set 2.0 for highly parallel qPCR array targeting antibiotic resistance genes and mobile genetic elements.
Article in FEMS microbiology ecology, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 68 papers, 1 of them a synthesis that pooled it.
What it found
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
68 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Contributions and Challenges of High Throughput qPCR for Determining Antimicrobial Resistance in the Environment: A Critical Review.Molecules (Basel, Switzerland) · 2019Pooled it
- Prevalence, Identification, and Antimicrobial Resistance of Bacterial Pathogens in Farm Animals from Western Kazakhstan.Biology · 2026Article
- FishChip: Development of a High-Throughput qPCR Assay for Freshwater Fish eDNA Quantification and Its Comparison With Droplet Digital PCR.Molecular ecology resources · 2026Article
- Antimicrobial Resistance Across the Urban Wastewater Continuum: A One Health Assessment Using High-Throughput qPCR.Antibiotics (Basel, Switzerland) · 2026Article
- Comparative analysis of wastewater sample processing methods for antimicrobial resistance surveillance.Microbiology spectrum · 2026Article
- Dairy manure reception pits as reservoirs of extracellular DNA-associated antibiotic resistance genes.Microbiology spectrum · 2026Article
- Article
- Occurrence and Antimicrobial Resistance Profiles ofBiology · 2026Article
- Impacts of drought and manure fertilization on soil and radish resistomes.Scientific reports · 2026Article
- Hydrodynamics Shape Antibiotic Resistance in Wastewater-Impacted River Biofilms.Microbial ecology · 2026Article
- Genotype-Phenotype Links Between Aminoglycoside-Modifying Enzymes and Aminoglycoside MICs in Aminoglycoside-ResistantMicroorganisms · 2026Article
- Data on the effect of climate change-related variables on the abundance of antibiotic resistance genes in a manure-amended soil.Data in brief · 2026Article
- Quantitative microbial risk assessment of antibiotic resistance genes and mobile genetic elements in orchard soils across South Korea.Applied and environmental microbiology · 2026Article
- Bio-Based Fertilizers from Waste: Nutrient Recovery, Soil Health, and Circular Economy Impacts.Toxics · 2026Review
- Selective shifts in mobile antibiotic resistance genes under carbamazepine exposure in wastewater microbiomes.ISME communications · 2026Article
- Comprehensive resistome and antibiotic profiling in wastewater and biosolids: a case study.Frontiers in microbiology · 2026Article
- Article
- A quantitative characterization of antibiotic resistance and its influencing factors in hospital wastewaters across Lebanon.Scientific reports · 2025Article
- Towards the integration of antibiotic resistance gene mobility into environmental surveillance and risk assessment.npj antimicrobials and resistance · 2025Review
- Fish are poor sentinels for surveillance of riverine antimicrobial resistance.One health (Amsterdam, Netherlands) · 2025Article
8 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
15 authors.
Funding
Abstract
The high-throughput antibiotic resistance gene (ARG) qPCR array, initially published in 2012, is increasingly used to quantify resistance and mobile determinants in environmental matrices. Continued utility of the array; however, necessitates improvements such as removing or redesigning questionable primer sets, updating targeted genes and coverage of available sequences. Towards this goal, a new primer design tool (EcoFunPrimer) was used to aid in identification of conserved regions of diverse genes. The total number of assays used for diverse genes was reduced from 91 old primer sets to 52 new primer sets, with only a 10% loss in sequence coverage. While the old and new array both contain 384 primer sets, a reduction in old primer sets permitted 147 additional ARGs and mobile genetic elements to be targeted. Results of validating the updated array with a mock community of strains resulted in over 98% of tested instances incurring true positive/negative calls. Common queries related to sensitivity, quantification and conventional data analysis (e.g. Ct cutoff value, and estimated genomic copies without standard curves) were also explored. A combined list of new and previously used primer sets is provided with a recommended set based on redesign of primer sets and results of validation.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.