Mycobiome diversity: high-throughput sequencing and identification of fungi
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Summary
An overview and practical recommendations for aspects of HTS studies ranging from sampling and laboratory practices to data processing and analysis are provided, and advice for leveraging next-generation technologies to explore mycobiome diversity in different habitats is provided.
- Type
- review
- Published
- 2018-10-26
- Cited by
- 793
- References
- 195
- OpenAlex
- https://openalex.org/W2900678021
- Semantic Scholar
- https://api.semanticscholar.org/CorpusID:53438777
Keywords
Biology, Identification (biology), Computational biology, DNA sequencing, Fungal Diversity
References
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- PIPITS: an automated pipeline for analyses of fungal internal transcribed spacer sequences from the Illumina sequencing platform
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- Population genomics of domestic and wild yeasts
Cited by
- High‐throughput identification and diagnostics of pathogens and pests: Overview and practical recommendations
- SSU‐rRNA Gene Sequencing Survey of Benthic Microbial Eukaryotes from Guaymas Basin Hydrothermal Vent
- Characterizing both bacteria and fungi improves understanding of the Arabidopsis root microbiome
- Targeting intrinsic cell death pathways to control fungal pathogens
- The developing relationship between the study of fungal communities and community ecology theory
- The known and the unknown in soil microbial ecology.
- Combining the 5.8S and ITS2 gene regions to improve classification of fungi
- Metatranscriptomics as a tool to identify fungal species and subspecies in mixed communities – a proof of concept under laboratory conditions
- Tracking Replicate Divergence in Microbial Community Composition and Function in Experimental Microcosms
- Relative performance of Oxford Nanopore MinION vs. Pacific Biosciences Sequel third-generation sequencing platforms in identification of agricultural and forest pathogens
- Studying fungal pathogens of humans and fungal infections: fungal diversity and diversity of approaches
- Differential abundance analyses of human microbiota in Parkinson’s disease
- Local abiotic conditions are more important than landscape context for structuring arbuscular mycorrhizal fungal communities in the roots of a forest herb
- CCMetagen: comprehensive and accurate identification of eukaryotes and prokaryotes in metagenomic data
- Microbial networks inferred from metabarcoding data lack replicability: consequences for next-generation biomonitoring
- Cryptic Risks to Forest Biosecurity Associated with the Global Movement of Commercial Seed
- Spatial structures of fungal DNA assemblages revealed with eDNA metabarcoding in a forest river network in western Japan
- Impact of environmental gradients on the abundance and diversity of planktonic fungi across coastal habitats of contrasting trophic status.
- The Impact of Water-Damage on Microbial Communities in North American Public Housing
- Towards PacBio-based pan-eukaryote metabarcoding using full-length ITS sequences.
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