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A guide to minimize contamination issues in microbiome restoration studies
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What this work says
Outgoing claims: the papers this work cites, builds on, or argues with.
inferredcites →https://doi.org/10.1002/cjp2.151openalex-snapshot
Microbiome applications for pathology: challenges of low microbial biomass samples during diagnostic testing
inferredcites →https://doi.org/10.1002/mbo3.645openalex-snapshot
Short‐term direct contact with soil and plant materials leads to an immediate increase in diversity of skin microbiota
inferredcites →https://doi.org/10.1007/s00248-014-0453-yopenalex-snapshot
How to Deal with PCR Contamination in Molecular Microbial Ecology
inferredcites →https://doi.org/10.1007/s00253-017-8583-zopenalex-snapshot
Impact of DNA extraction, sample dilution, and reagent contamination on 16S rRNA gene sequencing of human feces
inferredcites →https://doi.org/10.1007/s00374-012-0691-4openalex-snapshot
Manipulating the soil microbiome to increase soil health and plant fertility
inferredcites →https://doi.org/10.1007/s11258-020-01068-3openalex-snapshot
Editorial: Special thematic issue on applying microbial community research to improve conservation and restoration outcomes
inferredcites →https://doi.org/10.1016/j.envint.2019.05.011openalex-snapshot
Can bacterial indicators of a grassy woodland restoration inform ecosystem assessment and microbiota-mediated human health?
inferredcites →https://doi.org/10.1016/j.envint.2020.106084openalex-snapshot
Transfer of environmental microbes to the skin and respiratory tract of humans after urban green space exposure
inferredcites →https://doi.org/10.1016/j.funeco.2020.100939openalex-snapshot
Characterising the soil fungal microbiome in metropolitan green spaces across a vegetation biodiversity gradient
inferredcites →https://doi.org/10.1016/j.scitotenv.2016.07.037openalex-snapshot
Urban greenness influences airborne bacterial community composition
inferredcites →https://doi.org/10.1016/j.scitotenv.2019.134684openalex-snapshot
Naturally-diverse airborne environmental microbial exposures modulate the gut microbiome and may provide anxiolytic benefits in mice
inferredcites →https://doi.org/10.1016/j.scitotenv.2020.137626openalex-snapshot
The Lovebug Effect: Is the human biophilic drive influenced by interactions between the host, the environment, and the microbiome?
inferredcites →https://doi.org/10.1016/j.tim.2018.11.003openalex-snapshot
Contamination in Low Microbial Biomass Microbiome Studies: Issues and Recommendations
inferredcites →https://doi.org/10.1016/j.tplants.2012.04.001openalex-snapshot
The rhizosphere microbiome and plant health
inferredcites →https://doi.org/10.1016/s0378-1097(02)01190-4openalex-snapshot
Identification of mixed bacterial DNA contamination in broad-range PCR amplification of 16S rDNA V1 and V3 variable regions by pyrosequencing of cloned amplicons
inferredcites →https://doi.org/10.1038/ismej.2012.8openalex-snapshot
Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms
inferredcites →https://doi.org/10.1038/s41576-019-0152-0openalex-snapshot
The potential of genomics for restoring ecosystems and biodiversity
inferredcites →https://doi.org/10.1038/s41587-019-0209-9openalex-snapshot
Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2
inferredcites →https://doi.org/10.1051/iufost:20060800openalex-snapshot
Microbial contamination of food refrigeration equipment
inferredcites →https://doi.org/10.1080/20548923.2016.1258824openalex-snapshot
From the field to the laboratory: Controlling DNA contamination in human ancient DNA research in the high-throughput sequencing era
inferredcites →https://doi.org/10.1111/1755-0998.13011openalex-snapshot
Laboratory contamination over time during low‐biomass sample analysis
inferredcites →https://doi.org/10.1111/ele.12816openalex-snapshot
Small‐scale spatial variability in the distribution of ectomycorrhizal fungi affects plant performance and fungal diversity
inferredcites →https://doi.org/10.1111/j.1600-0587.2010.06421.xopenalex-snapshot
Sampling in ecology and evolution – bridging the gap between theory and practice
inferredcites →https://doi.org/10.1111/rec.13040openalex-snapshot
Bio‐priming seeds with cyanobacteria: effects on native plant growth and soil properties
inferredcites →https://doi.org/10.1111/rec.13237openalex-snapshot
Restoration, soil organisms, and soil processes: emerging approaches
inferredcites →https://doi.org/10.1126/science.276.5313.734openalex-snapshot
A Molecular View of Microbial Diversity and the Biosphere
inferredcites →https://doi.org/10.1128/aem.64.8.3110-3113.1998openalex-snapshot
Specific Ribosomal DNA Sequences from Diverse Environmental Settings Correlate with Experimental Contaminants
inferredcites →https://doi.org/10.1128/jcm.02112-15openalex-snapshot
Occurrence of Fungal DNA Contamination in PCR Reagents: Approaches to Control and Decontamination
inferredcites →https://doi.org/10.1128/msystems.00186-19openalex-snapshot
Quantifying and Understanding Well-to-Well Contamination in Microbiome Research
inferredcites →https://doi.org/10.1128/msystems.00290-19openalex-snapshot
Controlling for Contaminants in Low-Biomass 16S rRNA Gene Sequencing Experiments
inferredcites →https://doi.org/10.1128/msystems.00362-19openalex-snapshot
A Lot on Your Plate? Well-to-Well Contamination as an Additional Confounder in Microbiome Sequence Analyses
inferredcites →https://doi.org/10.1186/s12866-019-1560-1openalex-snapshot
Laboratory contamination in airway microbiome studies
inferredcites →https://doi.org/10.1186/s12915-014-0087-zopenalex-snapshot
Reagent and laboratory contamination can critically impact sequence-based microbiome analyses
inferredcites →https://doi.org/10.1186/s13099-016-0103-7openalex-snapshot
Inherent bacterial DNA contamination of extraction and sequencing reagents may affect interpretation of microbiota in low bacterial biomass samples
inferredcites →https://doi.org/10.1186/s40168-018-0605-2openalex-snapshot
Simple statistical identification and removal of contaminant sequences in marker-gene and metagenomics data
inferredcites →https://doi.org/10.1186/s40550-016-0032-8openalex-snapshot
Effectiveness of the sanitation regimes used by dairy actors to control microbial contamination of plastic jerry cans’ surfaces
inferredcites →https://doi.org/10.1289/ehp7807openalex-snapshot
Vertical Stratification in Urban Green Space Aerobiomes
inferredcites →https://doi.org/10.1371/journal.pone.0061217openalex-snapshot
phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data
inferredcites →https://doi.org/10.3390/challe9020040openalex-snapshot
Walking Ecosystems in Microbiome-Inspired Green Infrastructure: An Ecological Perspective on Enhancing Personal and Planetary Health
What points at this work
Incoming claims: where this work appears in other papers’ reference lists and arguments.
inferred← citeshttps://doi.org/10.1002/ece3.11018openalex-snapshot
Light–dark cycles may influence in situ soil bacterial networks and diurnally‐sensitive taxa
inferred← citeshttps://doi.org/10.1007/s10123-024-00521-xopenalex-snapshot
Rusa deer microbiota: the importance of preliminary data analysis for meaningful diversity comparisons
inferred← citeshttps://doi.org/10.1007/s11104-022-05523-0openalex-snapshot
Soil microbial communities and nitrogen associated with cheatgrass invasion in a sagebrush shrubland
inferred← citeshttps://doi.org/10.1016/b978-0-323-99931-1.00156-2openalex-snapshot
Ancient human microbiomes
inferred← citeshttps://doi.org/10.1016/j.apsoil.2026.106995openalex-snapshot
Habitat fragmentation shifts soil microbial composition but not alpha diversity
inferred← citeshttps://doi.org/10.1016/j.scitotenv.2022.157617openalex-snapshot
Key factors to consider in the use of environmental DNA metabarcoding to monitor terrestrial ecological restoration
inferred← citeshttps://doi.org/10.1016/j.scitotenv.2024.172158openalex-snapshot
Childcare centre soil microbiomes are influenced by substrate type and surrounding vegetation condition
inferred← citeshttps://doi.org/10.1038/s41564-025-02035-2openalex-snapshot
Guidelines for preventing and reporting contamination in low-biomass microbiome studies
inferred← citeshttps://doi.org/10.1093/lambio/ovaf026openalex-snapshot
Preparation protocol for epifluorescence microscopy when working close to the detection limit
inferred← citeshttps://doi.org/10.1099/mic.0.001564openalex-snapshot
From air to insight: the evolution of airborne DNA sequencing technologies
inferred← citeshttps://doi.org/10.1111/mec.70062openalex-snapshot
Arid Soil Bacterial Legacies Improve Drought Resilience of the Keystone Grass, Themeda triandra
inferred← citeshttps://doi.org/10.1111/mec.70552openalex-snapshot
Restoration Plantings Promote Functional Recovery of Soil Fungi
inferred← citeshttps://doi.org/10.1111/rec.13635openalex-snapshot
Does revegetation cause soil microbiota recovery? Evidence from revisiting a revegetation chronosequence 6 years after initial sampling
inferred← citeshttps://doi.org/10.1111/rec.13687openalex-snapshot
A practical guide for restoration ecologists to manage microbial contamination risks before laboratory processes during microbiota restoration studies
inferred← citeshttps://doi.org/10.1111/rec.13881openalex-snapshot
Methods guides based on dogma not science: an example from microbiota restoration
inferred← citeshttps://doi.org/10.22541/au.168614476.62136224/v1openalex-snapshot
Light-dark cycles influence soil bacterial composition in situ
inferred← citeshttps://doi.org/10.31548/biologiya14(3-4).2023.007openalex-snapshot
IDENTIFICATION OF MYCOPLASMA CONTAMINATION IN CELL CULTURE
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Science and Advanced Computing — runs a structured editorial panel for researchers
publishing outside journals, and publishes on CiteStamp rails. Submission is free
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