A Singapore-centric Fungal Dataset of 518 Cultivated Strains with Visual Phenotypes and Taxonomic Identity
Ten, D.; Wong, F. T.; Lim, Y. H.; Koh, W.
10.1101/2025.06.15.659681 bioRxivShow abstract
The fungal kingdom represents a greatly untapped resource to produce a wide range of bioactive secondary metabolites, including antibiotics, anticancer agents, industrially significant dyes and enzymes. To-date, it is estimated only less than 5% of all fungi have been characterised, a deficit that is especially pronounced in tropical regions like Singapore, where fungal diversity remains underexplored compared to northern hemisphere counterparts. This underlines the urgency and importance of our research which motivated the creation of our curated dataset, aiming to address this gap and contribute to understanding the broader ecosystem. We developed a generalisable cultivation workflow that enables systematic strain preparation, supports high-resolution imaging, and yields sufficient fungal biomass amenable for genomic analyses. This resulted in a diverse collection of 518 phylogenetically and ecologically varied fungal strains from both terrestrial and marine environments in biodiverse Singapore. The curated dataset from this project captures both taxonomic identity and colony-level morphological traits serving as a foundation for visual phenotype to taxonomy mapping through the integration of computer vision.
Matching journals
The top 7 journals account for 50% of the predicted probability mass.
Similar papers in this journal
- Characterization of the mycobiome of the seagrass, Zostera marina, reveals putative associations with marine chytrids 92%
- No Assembly Required: Using BTyper3 to Assess the Congruency of a Proposed Taxonomic Framework for the Bacillus cereus group with Historical Typing Methods 92%
- Investigating genetic diversity within the most abundant and prevalent non-pathogenic leaf-associated bacteria interacting with Arabidopsis thaliana in natural habitats 92%
Similar papers in this journal
Similar papers in this journal
- Benchmarking fungal species classification using Oxford Nanopore Technologies long-read ITS metabarcodes 94%
- Chromosome-level de novo assembly of Coprinopsis cinerea A43mut B43mut pab1-1 #326 and genetic variant identification of mutants using Nanopore MinION sequencing 92%
- Transcription factor lineages in plant-pathogenic fungi, connecting diversity with fungal virulence 91%
Similar papers in this journal
- Grapevine pruning time affects natural wound colonization by wood-invading fungi 92%
- Hyphal exploration strategies and habitat modification of an arbuscular mycorrhizal fungus in microengineered soil chips 92%
- Diversity and function of fungi associated with the fungivorous millipede, Brachycybe lecontii 90%
Similar papers in this journal
- Cryptic genetic structure and copy-number variation in the ubiquitous forest symbiotic fungus Cenococcum geophilum 93%
- Sexual reproduction contributes to the evolution of resistance breaking isolates of the spinach pathogen Peronospora effusa 91%
- Mycena species can be opportunist-generalist plant root invaders 91%
"Similar papers" are the closest papers from that journal in the model's embedding space. They show what the match is built on, but the ranking comes mostly from a classifier over the whole training set, not from these examples alone.