ArticleBMC genomics2022
Combined assembly of long and short sequencing reads improve the efficiency of exploring the soil metagenome.
Article in BMC genomics, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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Who cites it
12 citing papers in PubMed.
- Large-scale estimation of bacterial and archaeal DNA prevalence in metagenomes reveals biome-specific patterns.mSystems · 2026Article
- Unraveling plasmid contributions to phosphorus acquisition in soil microbiomes.Environmental microbiome · 2026Article
- Comparison of short-read and long-read metagenome assemblies in a natural soil community highlights systematic bias in recovery of high-diversity populations.NAR genomics and bioinformatics · 2025Article
- Evaluating the Assembly Strategy of a Fungal Genome from Metagenomic Data:Journal of fungi (Basel, Switzerland) · 2025Article
- Hidden Allies: Decoding the Core Endohyphal Bacteriome of Aspergillus fumigatus.Environmental microbiology reports · 2025Article
- Mining and rational design of psychrophilic catalases using metagenomics and deep learning models.Applied microbiology and biotechnology · 2024Article
- The pesticides carbofuran and picloram alter the diversity and abundance of soil microbial communities.PloS one · 2024Article
- Diversity, Taxonomic Novelty, and Encoded Functions of Salar de Ascotán Microbiota, as Revealed by Metagenome-Assembled Genomes.Microorganisms · 2023Article
- The endohyphal microbiome: current progress and challenges for scaling down integrative multi-omic microbiome research.Microbiome · 2023Article
- Comparing genomes recovered from time-series metagenomes using long- and short-read sequencing technologies.Microbiome · 2023Article
- Conservation of Genomic Information in Multiple Displacement Amplified Low-Quantity Metagenomic Material from Marine Invertebrates.Marine drugs · 2023Article
- Improved Assembly of Metagenome-Assembled Genomes and Viruses in Tibetan Saline Lake Sediment by HiFi Metagenomic Sequencing.Microbiology spectrum · 2023Article
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10 authors.
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Abstract
backgroundAdvances in DNA sequencing technologies have transformed our capacity to perform life science research, decipher the dynamics of complex soil microbial communities and exploit them for plant disease management. However, soil is a complex conglomerate, which makes functional metagenomics studies very challenging.
resultsMetagenomes were assembled by long-read (PacBio, PB), short-read (Illumina, IL), and mixture of PB and IL (PI) sequencing of soil DNA samples were compared. Ortholog analyses and functional annotation revealed that the PI approach significantly increased the contig length of the metagenomic sequences compared to IL and enlarged the gene pool compared to PB. The PI approach also offered comparable or higher species abundance than either PB or IL alone, and showed significant advantages for studying natural product biosynthetic genes in the soil microbiomes.
conclusionOur results provide an effective strategy for combining long and short-read DNA sequencing data to explore and distill the maximum information out of soil metagenomics.
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