ArticleEnvironmental microbiology2019
ANCHOR: a 16S rRNA gene amplicon pipeline for microbial analysis of multiple environmental samples.
Article in Environmental microbiology, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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Who cites it
23 citing papers in PubMed, 59 citations in OpenAlex.
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- Milk mineral composition is strongly associated with the human milk microbiome.Frontiers in nutrition · 2025Article
- A Narrative Review of the Putative Etiologic Role and Diagnostic Utility of the Cervicovaginal Microbiome in Human Papillomavirus-Associated Cervical Carcinogenesis.Journal of medical virology · 2024Review
- Spaceflight alters host-gut microbiota interactions.NPJ biofilms and microbiomes · 2024Article
- PrimerEvalPy: a tool for in-silico evaluation of primers for targeting the microbiome.BMC bioinformatics · 2024Article
- Human milk microbiome: associations with maternal diet and infant growth.Frontiers in nutrition · 2024Article
- Evaluation of 16S rRNA genes sequences and genome-based analysis for identification of non-pathogenicFrontiers in microbiology · 2024Article
- Coral endosymbiont growth is enhanced by metabolic interactions with bacteria.Nature communications · 2023Article
- Characterizing the Effect of Amylase Inhibitors on Maltodextrin Metabolism by Gut Bacteria Using Fluorescent Glycan Labeling.ACS chemical biology · 2023Article
- Identifying glycan consumers in human gut microbiota samples using metabolic labeling coupled with fluorescence-activated cell sorting.Nature communications · 2023Article
- Dynamics of bacterial and archaeal communities during horse bedding and green waste composting.PeerJ · 2023Article
- The continuing evolution of barcode applications: Functional toxicology to cell lineage.Experimental biology and medicine (Maywood, N.J.) · 2022Review
- Dietary Intake Is Unlikely to Explain Symptom Severity and Syndrome-Specific Microbiome Alterations in a Cohort of Women with Fibromyalgia.International journal of environmental research and public health · 2022Article
- Human milk microbial species are associated with mild growth deficits during early infancy among Guatemalan mother-infant dyads.Frontiers in microbiomes · 2022Article
- Human milk microbiome is shaped by breastfeeding practices.Frontiers in microbiology · 2022Article
- Human milk microbial species are associated with infant head-circumference during early and late lactation in Guatemalan mother-infant dyads.Frontiers in microbiology · 2022Article
- Rapid Shifts in Bacterial Communities and Homogeneity of Symbiodiniaceae in Colonies ofFrontiers in microbiology · 2021Article
- Distinct Changes Occur in the Human Breast Milk Microbiome Between Early and Established Lactation in Breastfeeding Guatemalan Mothers.Frontiers in microbiology · 2021Article
- Reanalysis of the Mars500 experiment reveals common gut microbiome alterations in astronauts induced by long-duration confinement.Computational and structural biotechnology journal · 2021Article
Corrections and comments
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Authors and funding
3 authors at 3 institutions in 1 country.
Funding
Abstract
Analysis of 16S ribosomal RNA (rRNA) gene amplification data for microbial barcoding can be inaccurate across complex environmental samples. A method, ANCHOR, is presented and designed for improved species-level microbial identification using paired-end sequences directly, multiple high-complexity samples and multiple reference databases. A standard operating procedure (SOP) is reported alongside benchmarking against artificial, single sample and replicated mock data sets. The method is then directly tested using a real-world data set from surface swabs of the International Space Station (ISS). Simple mock community analysis identified 100% of the expected species and 99% of expected gene copy variants (100% identical). A replicated mock community revealed similar or better numbers of expected species than MetaAmp, DADA2, Mothur and QIIME1. Analysis of the ISS microbiome identified 714 putative unique species/strains and differential abundance analysis distinguished significant differences between the Destiny module (U.S. laboratory) and Harmony module (sleeping quarters). Harmony was remarkably dominated by human gastrointestinal tract bacteria, similar to enclosed environments on earth; however, Destiny module bacteria also derived from nonhuman microbiome carriers present on the ISS, the laboratory's research animals. ANCHOR can help substantially improve sequence resolution of 16S rRNA gene amplification data within biologically replicated environmental experiments and integrated multidatabase annotation enhances interpretation of complex, nonreference microbiomes.
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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.