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Characterization of Nuclear and Mitochondrial Genomes of Two Tobacco Endophytic Fungi Leptosphaerulina chartarum and Curvularia trifolii and Their Contributions to Phylogenetic Implications in the Pleosporales

The symbiont endophytic fungi in tobacco are highly diverse and difficult to classify. Here, we sequenced the genomes of Curvularia trifolii and Leptosphaerulina chartarum isolated from tobacco plants. Finally, 41.68 Mb and 37.95 Mb nuclear genomes were sequenced for C. trifolii and L. chartarum wit...

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Autores principales: Yuan, Xiao-Long, Cao, Min, Shen, Guo-Ming, Zhang, Huai-Bao, Du, Yong-Mei, Zhang, Zhong-Feng, Li, Qian, Gao, Jia-Ming, Xue, Lin, Wang, Zhi-Peng, Zhang, Peng
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7177214/
https://www.ncbi.nlm.nih.gov/pubmed/32252284
http://dx.doi.org/10.3390/ijms21072461
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author Yuan, Xiao-Long
Cao, Min
Shen, Guo-Ming
Zhang, Huai-Bao
Du, Yong-Mei
Zhang, Zhong-Feng
Li, Qian
Gao, Jia-Ming
Xue, Lin
Wang, Zhi-Peng
Zhang, Peng
author_facet Yuan, Xiao-Long
Cao, Min
Shen, Guo-Ming
Zhang, Huai-Bao
Du, Yong-Mei
Zhang, Zhong-Feng
Li, Qian
Gao, Jia-Ming
Xue, Lin
Wang, Zhi-Peng
Zhang, Peng
author_sort Yuan, Xiao-Long
collection PubMed
description The symbiont endophytic fungi in tobacco are highly diverse and difficult to classify. Here, we sequenced the genomes of Curvularia trifolii and Leptosphaerulina chartarum isolated from tobacco plants. Finally, 41.68 Mb and 37.95 Mb nuclear genomes were sequenced for C. trifolii and L. chartarum with the scaffold N50, accounting for 638.94 Kb and 284.12 Kb, respectively. Meanwhile, we obtained 68,926 bp and 59,100 bp for their mitochondrial genomes. To more accurately classify C. trifolii and L. chartarum, we extracted seven nuclear genes and 12 mitochondrial genes from these two genomes and their closely related species. The genes were then used for calculation of evolutionary rates and for phylogenetic analysis. Results showed that it was difficult to achieve consistent results using a single gene due to their different evolutionary rates, while the phylogenetic trees obtained by combining datasets showed stable topologies. It is, therefore, more accurate to construct phylogenetic relationships for endophytic fungi based on multi-gene datasets. This study provides new insights into the distribution and characteristics of endophytic fungi in tobacco.
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spelling pubmed-71772142020-04-28 Characterization of Nuclear and Mitochondrial Genomes of Two Tobacco Endophytic Fungi Leptosphaerulina chartarum and Curvularia trifolii and Their Contributions to Phylogenetic Implications in the Pleosporales Yuan, Xiao-Long Cao, Min Shen, Guo-Ming Zhang, Huai-Bao Du, Yong-Mei Zhang, Zhong-Feng Li, Qian Gao, Jia-Ming Xue, Lin Wang, Zhi-Peng Zhang, Peng Int J Mol Sci Article The symbiont endophytic fungi in tobacco are highly diverse and difficult to classify. Here, we sequenced the genomes of Curvularia trifolii and Leptosphaerulina chartarum isolated from tobacco plants. Finally, 41.68 Mb and 37.95 Mb nuclear genomes were sequenced for C. trifolii and L. chartarum with the scaffold N50, accounting for 638.94 Kb and 284.12 Kb, respectively. Meanwhile, we obtained 68,926 bp and 59,100 bp for their mitochondrial genomes. To more accurately classify C. trifolii and L. chartarum, we extracted seven nuclear genes and 12 mitochondrial genes from these two genomes and their closely related species. The genes were then used for calculation of evolutionary rates and for phylogenetic analysis. Results showed that it was difficult to achieve consistent results using a single gene due to their different evolutionary rates, while the phylogenetic trees obtained by combining datasets showed stable topologies. It is, therefore, more accurate to construct phylogenetic relationships for endophytic fungi based on multi-gene datasets. This study provides new insights into the distribution and characteristics of endophytic fungi in tobacco. MDPI 2020-04-02 /pmc/articles/PMC7177214/ /pubmed/32252284 http://dx.doi.org/10.3390/ijms21072461 Text en © 2020 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Yuan, Xiao-Long
Cao, Min
Shen, Guo-Ming
Zhang, Huai-Bao
Du, Yong-Mei
Zhang, Zhong-Feng
Li, Qian
Gao, Jia-Ming
Xue, Lin
Wang, Zhi-Peng
Zhang, Peng
Characterization of Nuclear and Mitochondrial Genomes of Two Tobacco Endophytic Fungi Leptosphaerulina chartarum and Curvularia trifolii and Their Contributions to Phylogenetic Implications in the Pleosporales
title Characterization of Nuclear and Mitochondrial Genomes of Two Tobacco Endophytic Fungi Leptosphaerulina chartarum and Curvularia trifolii and Their Contributions to Phylogenetic Implications in the Pleosporales
title_full Characterization of Nuclear and Mitochondrial Genomes of Two Tobacco Endophytic Fungi Leptosphaerulina chartarum and Curvularia trifolii and Their Contributions to Phylogenetic Implications in the Pleosporales
title_fullStr Characterization of Nuclear and Mitochondrial Genomes of Two Tobacco Endophytic Fungi Leptosphaerulina chartarum and Curvularia trifolii and Their Contributions to Phylogenetic Implications in the Pleosporales
title_full_unstemmed Characterization of Nuclear and Mitochondrial Genomes of Two Tobacco Endophytic Fungi Leptosphaerulina chartarum and Curvularia trifolii and Their Contributions to Phylogenetic Implications in the Pleosporales
title_short Characterization of Nuclear and Mitochondrial Genomes of Two Tobacco Endophytic Fungi Leptosphaerulina chartarum and Curvularia trifolii and Their Contributions to Phylogenetic Implications in the Pleosporales
title_sort characterization of nuclear and mitochondrial genomes of two tobacco endophytic fungi leptosphaerulina chartarum and curvularia trifolii and their contributions to phylogenetic implications in the pleosporales
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7177214/
https://www.ncbi.nlm.nih.gov/pubmed/32252284
http://dx.doi.org/10.3390/ijms21072461
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