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

被引：79

作者：

Ahrendt, Steven R. ^{[1
,2
]}

Quandt, C. Alisha ^{[3
,9
]}

Ciobanu, Doina ^{[1
]}

Clum, Alicia ^{[1
]}

Salamov, Asaf ^{[1
]}

Andreopoulos, Bill ^{[1
]}

Cheng, Jan-Fang ^{[1
]}

Woyke, Tanja ^{[1
]}

Pelin, Adrian ^{[4
]}

Henrissat, Bernard ^{[5
,6
,7
]}

Reynolds, Nicole K. ^{[8
]}

Benny, Gerald L. ^{[8
]}

Smith, Matthew E. ^{[8
]}

James, Timothy Y. ^{[3
]}

Grigoriev, Igor, V ^{[1
,2
]}

机构：

[1] US DOE, Joint Genome Inst, Walnut Creek, CA 94598 USA

[2] Univ Calif Berkeley, Dept Plant & Microbial Biol, Berkeley, CA 94720 USA

[3] Univ Michigan, Dept Ecol & Evolutionary Biol, Ann Arbor, MI 48109 USA

[4] Ottawa Hosp Res Inst, Ctr Innovat Canc Res, Ottawa, ON, Canada

[5] Aix Marseille Univ, Architecture & Fonct Macromol Biol, UMR CNRS 7857, Marseille, France

[6] INRA, USC Architecture & Fonct Macromol Biol 1408, Marseille, France

[7] King Abdulaziz Univ, Dept Biol Sci, Jeddah, Saudi Arabia

[8] Univ Florida, Dept Plant Pathol, Gainesville, FL 32611 USA

[9] Univ Colorado, Dept Ecol & Evolutionary Biol, Boulder, CO 80309 USA

来源：

NATURE MICROBIOLOGY | 2018年 / 3卷 / 12期

关键词：

MULTIPLE SEQUENCE ALIGNMENT; SYNCEPHALIS ZOOPAGALES; PHYLOGENY; GENE; CLASSIFICATION; ANNOTATION; DISCOVERY; EVOLUTION; ZOOPAGOMYCOTINA; SUPERFAMILY;

D O I：

10.1038/s41564-018-0261-0

中图分类号：

Q93 [微生物学];

学科分类号：

071005 ; 100705 ;

摘要：

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.

引用

页码：1417 / 1428

页数：12

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