ArticleMicrobiome2023
Long-read assembled metagenomic approaches improve our understanding on metabolic potentials of microbial community in mangrove sediments.
Article in Microbiome, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
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Who cites it
22 citing papers in PubMed, 48 citations in OpenAlex.
- Metagenomic insights into mangrove lignocellulolytic bacteria and functional analysis of a glucose-tolerant GH 1 β-glucosidase.3 Biotech · 2026Article
- A seven-year metagenomic genome catalogue of mangrove and mudflat sediments from the Futian Reserve, China.Scientific data · 2026Article
- Taxonomic and Functional Assessment of Microbial Communities in Urban Runoff-Contaminated Mangrove Sediments.Current microbiology · 2026Article
- Microbial decomposer diversity and metabolic function during the decomposition of brine shrimp carcasses in a saline lake.Microbiome · 2026Article
- Microbial diversity and water quality changes in mangrove sediments in Quanzhou Bay.Frontiers in microbiology · 2026Article
- Reconstruction of 2,965 Microbial Genomes from Mangrove Sediments across Guangxi, China.Scientific data · 2025Article
- Global Distribution Patterns of Dark Matter Fungi in Cold Seep: A Metagenomic Meta-Analysis.Journal of fungi (Basel, Switzerland) · 2025Article
- Biogeography and host interactions of CPR and DPANN viruses in acid mine drainage sediments.Nature communications · 2025Article
- Comparative evaluation of MG-RAST, MEGAN6 and Kraken2 for whole metagenome analysis of saffron corms for bacterial community structure and function.Molecular genetics and genomics : MGG · 2025Article
- Unveiling soil microbial diversity through ultra-deep short-read metagenomic sequencing and co-assembly.iMeta · 2025Article
- Phylogenetically and metabolically diverse active carbon-fixing microbes reside in mangrove sediments.Microbiome · 2025Article
- Flavobacterium aestuarii sp. nov., a novel species isolated from the Pearl River Estuary.Antonie van Leeuwenhoek · 2025Article
- Metagenome-Assembled Genomes (MAGs): Advances, Challenges, and Ecological Insights.Microorganisms · 2025Review
- Fungi promote cross-domain interactions even in deep anoxic mangrove sediments.Environmental microbiome · 2025Article
- Comparative metagenomics reveals the metabolic flexibility of coastal prokaryotic microbiomes contributing to lignin degradation.Biotechnology for biofuels and bioproducts · 2025Article
- Seasonal dynamics of bacterial communities in mangrove sediments of Shupaisha island, Zhejiang Province, China.Frontiers in microbiology · 2025Article
- Analysis of metagenomic data.Nature reviews. Methods primers · 2025Article
- Unlocking the Potential of Metagenomics with the PacBio High-Fidelity Sequencing Technology.Microorganisms · 2024Review
- Article
- Homologous recombination and gene-specific selection co-shape the vertical nucleotide diversity of mangrove sediment microbial populations.Ecology and evolution · 2024Article
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Authors and funding
5 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundMangrove wetlands are coastal ecosystems with important ecological features and provide habitats for diverse microorganisms with key roles in nutrient and biogeochemical cycling. However, the overall metabolic potentials and ecological roles of microbial community in mangrove sediment are remained unanswered. In current study, the microbial and metabolic profiles of prokaryotic and fungal communities in mangrove sediments were investigated using metagenomic analysis based on PacBio single-molecule real time (SMRT) and Illumina sequencing techniques.
resultsComparing to Illumina short reads, the incorporation of PacBio long reads significantly contributed to more contiguous assemblies, yielded more than doubled high-quality metagenome-assembled genomes (MAGs), and improved the novelty of the MAGs. Further metabolic reconstruction for recovered MAGs showed that prokaryotes potentially played an essential role in carbon cycling in mangrove sediment, displaying versatile metabolic potential for degrading organic carbons, fermentation, autotrophy, and carbon fixation. Mangrove fungi also functioned as a player in carbon cycling, potentially involved in the degradation of various carbohydrate and peptide substrates. Notably, a new candidate bacterial phylum named as Candidatus Cosmopoliota with a ubiquitous distribution is proposed. Genomic analysis revealed that this new phylum is capable of utilizing various types of organic substrates, anaerobic fermentation, and carbon fixation with the Wood-Ljungdahl (WL) pathway and the reverse tricarboxylic acid (rTCA) cycle.
conclusionsThe study not only highlights the advantages of HiSeq-PacBio Hybrid assembly for a more complete profiling of environmental microbiomes but also expands our understanding of the microbial diversity and potential roles of distinct microbial groups in biogeochemical cycling in mangrove sediment. Video Abstract.
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