Resolving the Mortierellaceae phylogeny through synthesis of multi-gene phylogenetics and phylogenomics  

作　　者：Natalie Vandepol Julian Liber Alessandro Desirò Hyunsoo Na Megan Kennedy Kerrie Barry Igor V.Grigoriev Andrew N.Miller Kerry O’Donnell Jason E.Stajich Gregory Bonito 

机构地区：[1]Department of Microbiology and Molecular Genetics,Michigan State University,East Lansing,MI 48824,USA [2]Department of Plant Biology,Michigan State University,East Lansing,MI 48824,USA [3]Department of Plant Soil and Microbial Sciences,Michigan State University,East Lansing,MI 48824,USA [4]Joint Genome Institute,Berkeley,CA 94720,USA [5]Illinois Natural History Survey,University of Illinois Urbana-Champaign,Champaign,IL 61820,USA [6]United States Department of Agriculture,Agricultural Research Service,Peoria,IL 61604,USA [7]Department of Microbiology and Plant Pathology&Institute for Integrative Genome Biology,University of California-Riverside,Riverside,CA 92521,USA

出　　处：《Fungal Diversity》2020年第5期267-289,共23页真菌多样性（英文）

基　　金：US National Science Foundation(NSF)DEB 1737898(GB and NVP),Michigan State University AgBioResearch NIFA project MICL02416(GB),NSF STC BEACON Cooperative Agreement DBI-093954(GB&NVP);US National Science Foundation(The Zygomycetes Genealogy of Life)DEB1354802 and DEB1441677(JS);JGI-the work conducted by the U.S.Department of Energy Joint Genome Institute,a DOE Office of Science User Facility,is supported by the Office of Science of the U.S.Department of Energy under Contract No.DE-AC02-05CH11231;Data analyses were performed on the High-Performance Computing Cluster at the University of California-Riverside in the Institute of Integrative Genome Biology supported by NSF DBI-1429826 and NIH S10-OD016290(JS).

摘　　要：Early efforts to classify Mortierellaceae were based on macro-and micromorphology,but sequencing and phylogenetic studies with ribosomal DNA(rDNA)markers have demonstrated conflicting taxonomic groupings and polyphyletic genera.Although some taxonomic confusion in the family has been clarified,rDNA data alone is unable to resolve higher level phylogenetic relationships within Mortierellaceae.In this study,we applied two parallel approaches to resolve the Mortierel-laceae phylogeny:low coverage genome(LCG)sequencing and high-throughput,multiplexed targeted amplicon sequenc-ing to generate sequence data for multi-gene phylogenetics.We then combined our datasets to provide a well-supported genome-based phylogeny having broad sampling depth from the amplicon dataset.Resolving the Mortierellaceae phylogeny into monophyletic genera resulted in 13 genera,7 of which are newly proposed.Low-coverage genome sequencing proved to be a relatively cost-effective means of generating a high-confidence phylogeny.The multi-gene phylogenetics approach enabled much greater sampling depth and breadth than the LCG approach,but has limitations too.We present this work to resolve some of the taxonomic confusion and provide a genus-level framework to empower future studies on Mortierellaceae diversity and evolution.

关 键 词：Mortierellaceae PHYLOGENOMICS Molecular systematics TAXONOMY Multi-locus sequence typing 

分 类 号：Q95[生物学—动物学]