Genome-scale phylogeny and comparative genomics of the fungal order Sordariales

被引：14

作者：

Hensen, Noah

Bonometti, Lucas ^{[1
]}

Westerberg, Ivar

Brannstrom, Ioana Onut ^{[3
,4
]}

Guillou, Sonia ^{[1
]}

Cros-Aarteil, Sandrine ^{[1
]}

Calhoun, Sara ^{[4
]}

Haridas, Sajeet ^{[4
]}

Kuo, Alan ^{[4
]}

Mondo, Stephen ^{[4
]}

Pangilinan, Jasmyn ^{[4
]}

Riley, Robert ^{[4
]}

Labutti, Kurt ^{[4
]}

Andreopoulos, Bill ^{[4
]}

Lipzen, Anna ^{[4
]}

Chen, Cindy ^{[4
]}

Yan, Mi ^{[4
]}

Daum, Chris ^{[4
]}

Ng, Vivian ^{[4
]}

Clum, Alicia ^{[4
]}

Steindorff, Andrei ^{[4
]}

Ohm, Robin A. ^{[5
]}

Martin, Francis ^{[6
]}

Silar, Philippe ^{[7
]}

Natvig, Donald O. ^{[8
]}

Lalanne, Christophe ^{[7
]}

Gautier, Valerie ^{[7
]}

Ament-Velasquezi, Sandra Lorena ^{[9
]}

Kruys, Asa ^{[10
]}

Hutchinson, Miriam I. ^{[8
]}

Powell, Amy Jo ^{[11
]}

Barry, Kerrie ^{[5
]}

Miller, Andrew N. ^{[12
]}

Grigoriev, Igor, V ^{[5
,13
]}

Debuchy, Robert ^{[14
]}

Gladieux, Pierre ^{[2
]}

Thoren, Markus Hiltunen ^{[1
,15
]}

Johannesson, Hanna ^{[1
,15
]}

机构：

[1] Stockholm Univ, Dept Ecol Environm & Plants Sci, Stockholm, Sweden

[2] Univ Montpellier, PHIM Plant Hlth Inst, Montpellier, France

[3] Univ Oslo, Nat Hist Museum, Oslo, Norway

[4] Uppsala Univ, Dept Ecol & Genet, Uppsala, Sweden

[5] Lawrence Berkeley Natl Lab, US Dept Energy Joint Genome Inst, Berkeley, CA USA

[6] Univ Lorraine, INRAE, Champenoux, France

[7] Univ Paris Cite, Lab Interdisciplinaire Energies Demain, Paris, France

[8] Univ New Mexico, Dept Biol, Albuquerque, NM USA

[9] Stockholm Univ, Dept Zool, Stockholm, Sweden

[10] Uppsala Univ, Museum Evolut, Uppsala, Sweden

[11] Sandia Natl Labs, Dept Syst Design & Architecture, Albuquerque, NM USA

[12] Univ Illinois, Illinois Nat Hist Survey, Urbana, IL USA

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

[14] Univ Paris Saclay, Inst Integrat Biol Cell, Gif Sur Yvette, France

[15] Royal Swedish Acad Sci, Stockholm, Sweden

来源：

MOLECULAR PHYLOGENETICS AND EVOLUTION | 2023年 / 189卷

关键词：

Whole-genome phylogeny; Podosporaceae; Chaetomiaceae; Sordariaceae; Genome evolution; INDUCED POINT MUTATION; NEUROSPORA-CRASSA; MODEL; SEQUENCE; RIP; LASIOSPHAERIACEAE; ASCOMYCOTA; GENERATION; PODOSPORA; EVOLUTION;

D O I：

10.1016/j.ympev.2023.107938

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

The order Sordariales is taxonomically diverse, and harbours many species with different lifestyles and large economic importance. Despite its importance, a robust genome-scale phylogeny, and associated comparative genomic analysis of the order is lacking.In this study, we examined whole-genome data from 99 Sordariales, including 52 newly sequenced genomes, and seven outgroup taxa. We inferred a comprehensive phylogeny that resolved several contentious relationships amongst families in the order, and cleared-up intrafamily relationships within the Podosporaceae. Extensive comparative genomics showed that genomes from the three largest families in the dataset (Chae-tomiaceae, Podosporaceae and Sordariaceae) differ greatly in GC content, genome size, gene number, repeat percentage, evolutionary rate, and genome content affected by repeat-induced point mutations (RIP). All genomic traits showed phylogenetic signal, and ancestral state reconstruction revealed that the variation of the properties stems primarily from within-family evolution. Together, the results provide a thorough framework for understanding genome evolution in this important group of fungi.

引用

页数：11

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