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Comparative Genome Analysis Between Aspergillus oryzae Strains Reveals Close Relationship Between Sites of Mutation Localization and Regions of Highly Divergent Genes among Aspergillus Species
Aspergillus oryzae has been utilized for over 1000 years in Japan for the production of various traditional foods, and a large number of A. oryzae strains have been isolated and/or selected for the effective fermentation of food ingredients. Characteristics of genetic alterations among the strains u...
Autores principales: | , , , , , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2012
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3473370/ https://www.ncbi.nlm.nih.gov/pubmed/22912434 http://dx.doi.org/10.1093/dnares/dss019 |
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author | Umemura, Myco Koike, Hideaki Yamane, Noriko Koyama, Yoshinori Satou, Yuki Kikuzato, Ikuya Teruya, Morimi Tsukahara, Masatoshi Imada, Yumi Wachi, Youji Miwa, Yukino Yano, Shuichi Tamano, Koichi Kawarabayasi, Yutaka Fujimori, Kazuhiro E. Machida, Masayuki Hirano, Takashi |
author_facet | Umemura, Myco Koike, Hideaki Yamane, Noriko Koyama, Yoshinori Satou, Yuki Kikuzato, Ikuya Teruya, Morimi Tsukahara, Masatoshi Imada, Yumi Wachi, Youji Miwa, Yukino Yano, Shuichi Tamano, Koichi Kawarabayasi, Yutaka Fujimori, Kazuhiro E. Machida, Masayuki Hirano, Takashi |
author_sort | Umemura, Myco |
collection | PubMed |
description | Aspergillus oryzae has been utilized for over 1000 years in Japan for the production of various traditional foods, and a large number of A. oryzae strains have been isolated and/or selected for the effective fermentation of food ingredients. Characteristics of genetic alterations among the strains used are of particular interest in studies of A. oryzae. Here, we have sequenced the whole genome of an industrial fungal isolate, A. oryzae RIB326, by using a next-generation sequencing system and compared the data with those of A. oryzae RIB40, a wild-type strain sequenced in 2005. The aim of this study was to evaluate the mutation pressure on the non-syntenic blocks (NSBs) of the genome, which were previously identified through comparative genomic analysis of A. oryzae, Aspergillus fumigatus, and Aspergillus nidulans. We found that genes within the NSBs of RIB326 accumulate mutations more frequently than those within the SBs, regardless of their distance from the telomeres or of their expression level. Our findings suggest that the high mutation frequency of NSBs might contribute to maintaining the diversity of the A. oryzae genome. |
format | Online Article Text |
id | pubmed-3473370 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2012 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-34733702012-10-17 Comparative Genome Analysis Between Aspergillus oryzae Strains Reveals Close Relationship Between Sites of Mutation Localization and Regions of Highly Divergent Genes among Aspergillus Species Umemura, Myco Koike, Hideaki Yamane, Noriko Koyama, Yoshinori Satou, Yuki Kikuzato, Ikuya Teruya, Morimi Tsukahara, Masatoshi Imada, Yumi Wachi, Youji Miwa, Yukino Yano, Shuichi Tamano, Koichi Kawarabayasi, Yutaka Fujimori, Kazuhiro E. Machida, Masayuki Hirano, Takashi DNA Res Full Papers Aspergillus oryzae has been utilized for over 1000 years in Japan for the production of various traditional foods, and a large number of A. oryzae strains have been isolated and/or selected for the effective fermentation of food ingredients. Characteristics of genetic alterations among the strains used are of particular interest in studies of A. oryzae. Here, we have sequenced the whole genome of an industrial fungal isolate, A. oryzae RIB326, by using a next-generation sequencing system and compared the data with those of A. oryzae RIB40, a wild-type strain sequenced in 2005. The aim of this study was to evaluate the mutation pressure on the non-syntenic blocks (NSBs) of the genome, which were previously identified through comparative genomic analysis of A. oryzae, Aspergillus fumigatus, and Aspergillus nidulans. We found that genes within the NSBs of RIB326 accumulate mutations more frequently than those within the SBs, regardless of their distance from the telomeres or of their expression level. Our findings suggest that the high mutation frequency of NSBs might contribute to maintaining the diversity of the A. oryzae genome. Oxford University Press 2012-10 2012-08-21 /pmc/articles/PMC3473370/ /pubmed/22912434 http://dx.doi.org/10.1093/dnares/dss019 Text en © The Author 2012. Published by Oxford University Press on behalf of Kazusa DNA Research Institute. http://creativecommons.org/licenses/by-nc/3.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/3.0/), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Full Papers Umemura, Myco Koike, Hideaki Yamane, Noriko Koyama, Yoshinori Satou, Yuki Kikuzato, Ikuya Teruya, Morimi Tsukahara, Masatoshi Imada, Yumi Wachi, Youji Miwa, Yukino Yano, Shuichi Tamano, Koichi Kawarabayasi, Yutaka Fujimori, Kazuhiro E. Machida, Masayuki Hirano, Takashi Comparative Genome Analysis Between Aspergillus oryzae Strains Reveals Close Relationship Between Sites of Mutation Localization and Regions of Highly Divergent Genes among Aspergillus Species |
title | Comparative Genome Analysis Between Aspergillus oryzae Strains Reveals Close Relationship Between Sites of Mutation Localization and Regions of Highly Divergent Genes among Aspergillus Species |
title_full | Comparative Genome Analysis Between Aspergillus oryzae Strains Reveals Close Relationship Between Sites of Mutation Localization and Regions of Highly Divergent Genes among Aspergillus Species |
title_fullStr | Comparative Genome Analysis Between Aspergillus oryzae Strains Reveals Close Relationship Between Sites of Mutation Localization and Regions of Highly Divergent Genes among Aspergillus Species |
title_full_unstemmed | Comparative Genome Analysis Between Aspergillus oryzae Strains Reveals Close Relationship Between Sites of Mutation Localization and Regions of Highly Divergent Genes among Aspergillus Species |
title_short | Comparative Genome Analysis Between Aspergillus oryzae Strains Reveals Close Relationship Between Sites of Mutation Localization and Regions of Highly Divergent Genes among Aspergillus Species |
title_sort | comparative genome analysis between aspergillus oryzae strains reveals close relationship between sites of mutation localization and regions of highly divergent genes among aspergillus species |
topic | Full Papers |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3473370/ https://www.ncbi.nlm.nih.gov/pubmed/22912434 http://dx.doi.org/10.1093/dnares/dss019 |
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