ArticleJournal of biomolecular techniques : JBT2017
Assessment of REPLI-g Multiple Displacement Whole Genome Amplification (WGA) Techniques for Metagenomic Applications.
Article in Journal of biomolecular techniques : JBT, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 21 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
21 citing papers in PubMed, 36 citations in OpenAlex.
- Insights from healthy mares reveal that mammalian uteri harbor a diverse virome.Scientific reports · 2026Article
- Whole Genome Amplification of Microbial DNA from Host-Depleted Clinical Samples.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Improved Sensitivity of Quantitative Polymerase Chain Reaction and Next Generation Sequencing for Detection of Salmonella spp. in Mixed Environmental Communities Using Whole Genome Amplification.MicrobiologyOpen · 2025Article
- Strain-level dissection of complex rhizoplane and soil bacterial communities using single-cell genomics and metagenomics.DNA research : an international journal for rapid publication of reports on genes and genomes · 2025Article
- Unveiling the Future of Infective Endocarditis Diagnosis: The Transformative Role of Metagenomic Next-Generation Sequencing in Culture-Negative Cases.Journal of epidemiology and global health · 2025Review
- Isothermal Detection Methods for Fungal Pathogens in Closed Environment Agriculture.Journal of fungi (Basel, Switzerland) · 2024Review
- Detecting life by behavior, the overlooked sensitivity of behavioral assays.Scientific reports · 2024Article
- Longitudinal multi-omics analysis of host microbiome architecture and immune responses during short-term spaceflight.Nature microbiology · 2024Article
- Development and proof-of-concept demonstration of a clinical metagenomics method for the rapid detection of bloodstream infection.BMC medical genomics · 2024Article
- A targeted approach to enrich host-associated bacteria for metagenomic sequencing.FEMS microbes · 2024Article
- Viral activation and ecological restructuring characterize a microbiome axis of spaceflight-associated immune activation.Research square · 2023Article
- A primer-independent DNA polymerase-based method for competent whole-genome amplification of intermediate to high GC sequences.NAR genomics and bioinformatics · 2023Article
- Metagenomic Methods for Addressing NASA's Planetary Protection Policy Requirements on Future Missions: A Workshop Report.Astrobiology · 2023Article
- Conservation of Genomic Information in Multiple Displacement Amplified Low-Quantity Metagenomic Material from Marine Invertebrates.Marine drugs · 2023Article
- Review
- Recent advances and application of whole genome amplification in molecular diagnosis and medicine.MedComm · 2022Review
- A Review of the Scientific Rigor, Reproducibility, and Transparency Studies Conducted by the ABRF Research Groups.Journal of biomolecular techniques : JBT · 2020Review
- Unexpectedly high genetic diversity in a rare and endangered seabird in the Hawaiian Archipelago.PeerJ · 2020Article
- The Impact of Heterogeneity on Single-Cell Sequencing.Frontiers in genetics · 2019Article
- Mesophilic Sporeformers Identified in Whey Powder by Using Shotgun Metagenomic Sequencing.Applied and environmental microbiology · 2018Article
Corrections and comments
- Erratum issued
Authors and funding
8 authors at 3 institutions in 1 country.
Funding
Abstract
Amplification of minute quantities of DNA is a fundamental challenge in low-biomass metagenomic and microbiome studies because of potential biases in coverage, guanine-cytosine (GC) content, and altered species abundances. Whole genome amplification (WGA), although widely used, is notorious for introducing artifact sequences, either by amplifying laboratory contaminants or by nonrandom amplification of a sample's DNA. In this study, we investigate the effect of REPLI-g multiple displacement amplification (MDA; Qiagen, Valencia, CA, USA) on sequencing data quality and species abundance detection in 8 paired metagenomic samples and 1 titrated, mixed control sample. We extracted and sequenced genomic DNA (gDNA) from 8 environmental samples and compared the quality of the sequencing data for the MDA and their corresponding non-MDA samples. The degree of REPLI-g MDA bias was evaluated by sequence metrics, species composition, and cross-validating observed species abundance and species diversity estimates using the One Codex and MetaPhlAn taxonomic classification tools. Here, we provide evidence of the overall efficacy of REPLI-g MDA on retaining sequencing data quality and species abundance measurements while providing increased yields of high-fidelity DNA. We find that species abundance estimates are largely consistent across samples, even with REPLI-g amplification, as demonstrated by the Spearman's rank order coefficient (R
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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.