ArticleApplied and environmental microbiology2004
Comparison of different primer sets for use in automated ribosomal intergenic spacer analysis of complex bacterial communities.
Article in Applied and environmental microbiology, 2004. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 148 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
148 citing papers in PubMed, 500 citations in OpenAlex.
- Piscirickettsiosis in Farmed Turbot, Scophthalmus maximus.Journal of fish diseases · 2026Article
- Environmental and agronomic drivers of bacterial and fungal alpha diversity in crop rhizosphere: a multifactorial field study.Brazilian journal of microbiology : [publication of the Brazilian Society for Microbiology] · 2026Article
- Linkages Between Trace Elements and Bacterial Communities in Glacial Freshwater Systems of Zhongar Alatau National Park, Kazakhstan.Microbial ecology · 2026Article
- Primer choice shapes microbial community interpretation across habitats and informs short-term structured enrichment in environmental and applied systems.Frontiers in microbiology · 2026Article
- 1,2-DCA biodegradation potential of an aquifer assessed in situ and in aerobic and anaerobic microcosms.Environmental microbiome · 2024Article
- Comparative analysis of prokaryotic microbiomes in high-altitude active layer soils: insights from Ladakh and global analogues using In-Silico approaches.Brazilian journal of microbiology : [publication of the Brazilian Society for Microbiology] · 2024Article
- Microbial, chemical, and isotopic monitoring integrated approach to assess potential leachate contamination of groundwater in a karstic aquifer (Apulia, Italy).Environmental monitoring and assessment · 2024Article
- Article
- Ecological indicators and biological resources for hydrocarbon rhizoremediation in a protected area.Frontiers in bioengineering and biotechnology · 2024Article
- Mucin glycans drive oral microbial community composition and function.NPJ biofilms and microbiomes · 2023Article
- Characterization of TwoFoods (Basel, Switzerland) · 2022Article
- The effect ofiScience · 2022Article
- Rhizosheath-root system changes exopolysaccharide content but stabilizes bacterial community across contrasting seasons in a desert environment.Environmental microbiome · 2022Article
- Destabilization of the Bacterial Interactome Identifies Nutrient Restriction-Induced Dysbiosis in Insect Guts.Microbiology spectrum · 2022Article
- Control of Fusarium and nematodes by entomopathogenic fungi for organic production of Zingiber officinale.Journal of natural medicines · 2022Article
- Exploring the Diversity and Aromatic Hydrocarbon Degrading Potential of Epiphytic Fungi on Hornbeams from Chronically Polluted Areas.Journal of fungi (Basel, Switzerland) · 2021Article
- Microbial Succession under Freeze-Thaw Events and Its Potential for Hydrocarbon Degradation in Nutrient-Amended Antarctic Soil.Microorganisms · 2021Article
- Effects ofFrontiers in microbiology · 2021Article
- Genome-Wide Transcription Factor DNA Binding Sites and Gene Regulatory Networks inFrontiers in microbiology · 2021Article
- Disinfectant, Soap or Probiotic Cleaning? Surface Microbiome Diversity and Biofilm Competitive Exclusion.Microorganisms · 2020Article
88 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
10 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
ITSF and ITSReub, constituting a new primer set designed for the amplification of the 16S-23S rRNA intergenic transcribed spacers, have been compared with primer sets consisting of 1406F and 23Sr (M. M. Fisher and E. W. Triplett, Appl. Environ. Microbiol. 65:4630-4636, 1999) and S-D-Bact-1522-b-S-20 and L-D-Bact-132-a-A-18 (L. Ranjard et al., Appl. Environ. Microbiol. 67:4479-4487, 2001), previously proposed for automated ribosomal intergenic spacer analysis (ARISA) of complex bacterial communities. An agricultural soil and a polluted soil, maize silage, goat milk, a small marble sample from the facade of the Certosa of Pavia (Pavia, Italy), and brine from a deep hypersaline anoxic basin in the Mediterranean Sea were analyzed with the three primer sets. The number of peaks in the ARISA profiles, the range of peak size (width of the profile), and the reproducibility of results were used as indices to evaluate the efficiency of the three primer sets. The overall data showed that ITSF and ITSReub generated the most informative (in term of peak number) and reproducible profiles and yielded a wider range of spacer sizes (134 to 1,387) than the other primer sets, which were limited in detecting long fragments. The minimum amount of DNA template and sensitivity in detection of minor DNA populations were evaluated with artificial mixtures of defined bacterial species. ITSF and ITSReub amplified all the bacteria at DNA template concentrations from 280 to 0.14 ng microl(-1), while the other primer sets failed to detect the spacers of one or more bacterial strains. Although the primer set consisting of ITSF and ITSReub and that of S-D-Bact-1522-b-S-20 and L-D-Bact-132-a-A-18 showed similar sensitivities for the DNA of Allorhizobium undicula mixed with the DNA of other species, the S-D-Bact-1522-b-S-20 and L-D-Bact-132-a-A-18 primer set failed to detect the DNA of Pseudomonas stutzeri.
Indexed as
Identifiers
What OpenQuestion holds
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.