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Leveraging single-cell genomics to expand the fungal tree of life.

ABSTRACT: Environmental DNA surveys reveal that most fungal diversity represents uncultured species. We sequenced the genomes of eight uncultured species across the fungal tree of life using a new single-cell genomics pipeline. We show that, despite a large variation in genome and gene space recovery from each single amplified genome (SAG), ?90% can be recovered by combining multiple SAGs. SAGs provide robust placement for early-diverging lineages and infer a diploid ancestor of fungi. Early-diverging fungi share metabolic deficiencies and show unique gene expansions correlated with parasitism and unculturability. Single-cell genomics holds great promise in exploring fungal diversity, life cycles and metabolic potential.

SUBMITTER: Ahrendt SR

PROVIDER: S-EPMC6784888 | biostudies-literature | 2018 Dec

REPOSITORIES: biostudies-literature

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Leveraging single-cell genomics to expand the fungal tree of life.

Ahrendt Steven R SR Quandt C Alisha CA Ciobanu Doina D Clum Alicia A Salamov Asaf A Andreopoulos Bill B Cheng Jan-Fang JF Woyke Tanja T Pelin Adrian A Henrissat Bernard B Reynolds Nicole K NK Benny Gerald L GL Smith Matthew E ME James Timothy Y TY Grigoriev Igor V IV

Nature microbiology 20181008 12

Environmental DNA surveys reveal that most fungal diversity represents uncultured species. We sequenced the genomes of eight uncultured species across the fungal tree of life using a new single-cell genomics pipeline. We show that, despite a large variation in genome and gene space recovery from each single amplified genome (SAG), ≥90% can be recovered by combining multiple SAGs. SAGs provide robust placement for early-diverging lineages and infer a diploid ancestor of fungi. Early-diverging fun ...[more]

PMID: 30297742

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