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Phylogenetic and Phylogenomic Definition of Rhizopus Species
Phylogenomic approaches have the potential to improve confidence about the inter-relationships of species in the order Mucorales within the fungal tree of life. Rhizopus species are especially important as plant and animal pathogens and bioindustrial fermenters for food and metabolite production. A...
Autores principales: | , , , , , , , , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Genetics Society of America
2018
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5982828/ https://www.ncbi.nlm.nih.gov/pubmed/29674435 http://dx.doi.org/10.1534/g3.118.200235 |
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author | Gryganskyi, Andrii P. Golan, Jacob Dolatabadi, Somayeh Mondo, Stephen Robb, Sofia Idnurm, Alexander Muszewska, Anna Steczkiewicz, Kamil Masonjones, Sawyer Liao, Hui-Ling Gajdeczka, Michael T. Anike, Felicia Vuek, Antonina Anishchenko, Iryna M. Voigt, Kerstin de Hoog, G. Sybren Smith, Matthew E. Heitman, Joseph Vilgalys, Rytas Stajich, Jason E. |
author_facet | Gryganskyi, Andrii P. Golan, Jacob Dolatabadi, Somayeh Mondo, Stephen Robb, Sofia Idnurm, Alexander Muszewska, Anna Steczkiewicz, Kamil Masonjones, Sawyer Liao, Hui-Ling Gajdeczka, Michael T. Anike, Felicia Vuek, Antonina Anishchenko, Iryna M. Voigt, Kerstin de Hoog, G. Sybren Smith, Matthew E. Heitman, Joseph Vilgalys, Rytas Stajich, Jason E. |
author_sort | Gryganskyi, Andrii P. |
collection | PubMed |
description | Phylogenomic approaches have the potential to improve confidence about the inter-relationships of species in the order Mucorales within the fungal tree of life. Rhizopus species are especially important as plant and animal pathogens and bioindustrial fermenters for food and metabolite production. A dataset of 192 orthologous genes was used to construct a phylogenetic tree of 21 Rhizopus strains, classified into four species isolated from habitats of industrial, medical and environmental importance. The phylogeny indicates that the genus Rhizopus consists of three major clades, with R. microsporus as the basal species and the sister lineage to R. stolonifer and two closely related species R. arrhizus and R. delemar. A comparative analysis of the mating type locus across Rhizopus reveals that its structure is flexible even between different species in the same genus, but shows similarities between Rhizopus and other mucoralean fungi. The topology of single-gene phylogenies built for two genes involved in mating is similar to the phylogenomic tree. Comparison of the total length of the genome assemblies showed that genome size varies by as much as threefold within a species and is driven by changes in transposable element copy numbers and genome duplications. |
format | Online Article Text |
id | pubmed-5982828 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2018 |
publisher | Genetics Society of America |
record_format | MEDLINE/PubMed |
spelling | pubmed-59828282018-06-06 Phylogenetic and Phylogenomic Definition of Rhizopus Species Gryganskyi, Andrii P. Golan, Jacob Dolatabadi, Somayeh Mondo, Stephen Robb, Sofia Idnurm, Alexander Muszewska, Anna Steczkiewicz, Kamil Masonjones, Sawyer Liao, Hui-Ling Gajdeczka, Michael T. Anike, Felicia Vuek, Antonina Anishchenko, Iryna M. Voigt, Kerstin de Hoog, G. Sybren Smith, Matthew E. Heitman, Joseph Vilgalys, Rytas Stajich, Jason E. G3 (Bethesda) Investigations Phylogenomic approaches have the potential to improve confidence about the inter-relationships of species in the order Mucorales within the fungal tree of life. Rhizopus species are especially important as plant and animal pathogens and bioindustrial fermenters for food and metabolite production. A dataset of 192 orthologous genes was used to construct a phylogenetic tree of 21 Rhizopus strains, classified into four species isolated from habitats of industrial, medical and environmental importance. The phylogeny indicates that the genus Rhizopus consists of three major clades, with R. microsporus as the basal species and the sister lineage to R. stolonifer and two closely related species R. arrhizus and R. delemar. A comparative analysis of the mating type locus across Rhizopus reveals that its structure is flexible even between different species in the same genus, but shows similarities between Rhizopus and other mucoralean fungi. The topology of single-gene phylogenies built for two genes involved in mating is similar to the phylogenomic tree. Comparison of the total length of the genome assemblies showed that genome size varies by as much as threefold within a species and is driven by changes in transposable element copy numbers and genome duplications. Genetics Society of America 2018-04-19 /pmc/articles/PMC5982828/ /pubmed/29674435 http://dx.doi.org/10.1534/g3.118.200235 Text en Copyright © 2018 Gryganskyi et al. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Investigations Gryganskyi, Andrii P. Golan, Jacob Dolatabadi, Somayeh Mondo, Stephen Robb, Sofia Idnurm, Alexander Muszewska, Anna Steczkiewicz, Kamil Masonjones, Sawyer Liao, Hui-Ling Gajdeczka, Michael T. Anike, Felicia Vuek, Antonina Anishchenko, Iryna M. Voigt, Kerstin de Hoog, G. Sybren Smith, Matthew E. Heitman, Joseph Vilgalys, Rytas Stajich, Jason E. Phylogenetic and Phylogenomic Definition of Rhizopus Species |
title | Phylogenetic and Phylogenomic Definition of Rhizopus Species |
title_full | Phylogenetic and Phylogenomic Definition of Rhizopus Species |
title_fullStr | Phylogenetic and Phylogenomic Definition of Rhizopus Species |
title_full_unstemmed | Phylogenetic and Phylogenomic Definition of Rhizopus Species |
title_short | Phylogenetic and Phylogenomic Definition of Rhizopus Species |
title_sort | phylogenetic and phylogenomic definition of rhizopus species |
topic | Investigations |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5982828/ https://www.ncbi.nlm.nih.gov/pubmed/29674435 http://dx.doi.org/10.1534/g3.118.200235 |
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