Single nucleus genome sequencing reveals high similarity among nuclei of an endomycorrhizal fungus.
Nuclei of arbuscular endomycorrhizal fungi have been described as highly diverse due to their asexual nature and absence of a single cell stage with only one nucleus. This has raised fundamental questions concerning speciation, selection and transmission of the genetic make-up to next generations. A...
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2014
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oai:doaj.org-article:02cf47d90a8c448facab3c93d0d1bc942021-11-18T06:21:20ZSingle nucleus genome sequencing reveals high similarity among nuclei of an endomycorrhizal fungus.1553-73901553-740410.1371/journal.pgen.1004078https://doaj.org/article/02cf47d90a8c448facab3c93d0d1bc942014-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/24415955/?tool=EBIhttps://doaj.org/toc/1553-7390https://doaj.org/toc/1553-7404Nuclei of arbuscular endomycorrhizal fungi have been described as highly diverse due to their asexual nature and absence of a single cell stage with only one nucleus. This has raised fundamental questions concerning speciation, selection and transmission of the genetic make-up to next generations. Although this concept has become textbook knowledge, it is only based on studying a few loci, including 45S rDNA. To provide a more comprehensive insight into the genetic makeup of arbuscular endomycorrhizal fungi, we applied de novo genome sequencing of individual nuclei of Rhizophagus irregularis. This revealed a surprisingly low level of polymorphism between nuclei. In contrast, within a nucleus, the 45S rDNA repeat unit turned out to be highly diverged. This finding demystifies a long-lasting hypothesis on the complex genetic makeup of arbuscular endomycorrhizal fungi. Subsequent genome assembly resulted in the first draft reference genome sequence of an arbuscular endomycorrhizal fungus. Its length is 141 Mbps, representing over 27,000 protein-coding gene models. We used the genomic sequence to reinvestigate the phylogenetic relationships of Rhizophagus irregularis with other fungal phyla. This unambiguously demonstrated that Glomeromycota are more closely related to Mucoromycotina than to its postulated sister Dikarya.Kui LinErik LimpensZhonghua ZhangSergey IvanovDiane G O SaundersDesheng MuErli PangHuifen CaoHwangho ChaTao LinQian ZhouYi ShangYing LiTrupti SharmaRobin van VelzenNorbert de RuijterDuur K AanenJoe WinSophien KamounTon BisselingRené GeurtsSanwen HuangPublic Library of Science (PLoS)articleGeneticsQH426-470ENPLoS Genetics, Vol 10, Iss 1, p e1004078 (2014) |
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DOAJ |
| collection |
DOAJ |
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Genetics QH426-470 |
| spellingShingle |
Genetics QH426-470 Kui Lin Erik Limpens Zhonghua Zhang Sergey Ivanov Diane G O Saunders Desheng Mu Erli Pang Huifen Cao Hwangho Cha Tao Lin Qian Zhou Yi Shang Ying Li Trupti Sharma Robin van Velzen Norbert de Ruijter Duur K Aanen Joe Win Sophien Kamoun Ton Bisseling René Geurts Sanwen Huang Single nucleus genome sequencing reveals high similarity among nuclei of an endomycorrhizal fungus. |
| description |
Nuclei of arbuscular endomycorrhizal fungi have been described as highly diverse due to their asexual nature and absence of a single cell stage with only one nucleus. This has raised fundamental questions concerning speciation, selection and transmission of the genetic make-up to next generations. Although this concept has become textbook knowledge, it is only based on studying a few loci, including 45S rDNA. To provide a more comprehensive insight into the genetic makeup of arbuscular endomycorrhizal fungi, we applied de novo genome sequencing of individual nuclei of Rhizophagus irregularis. This revealed a surprisingly low level of polymorphism between nuclei. In contrast, within a nucleus, the 45S rDNA repeat unit turned out to be highly diverged. This finding demystifies a long-lasting hypothesis on the complex genetic makeup of arbuscular endomycorrhizal fungi. Subsequent genome assembly resulted in the first draft reference genome sequence of an arbuscular endomycorrhizal fungus. Its length is 141 Mbps, representing over 27,000 protein-coding gene models. We used the genomic sequence to reinvestigate the phylogenetic relationships of Rhizophagus irregularis with other fungal phyla. This unambiguously demonstrated that Glomeromycota are more closely related to Mucoromycotina than to its postulated sister Dikarya. |
| format |
article |
| author |
Kui Lin Erik Limpens Zhonghua Zhang Sergey Ivanov Diane G O Saunders Desheng Mu Erli Pang Huifen Cao Hwangho Cha Tao Lin Qian Zhou Yi Shang Ying Li Trupti Sharma Robin van Velzen Norbert de Ruijter Duur K Aanen Joe Win Sophien Kamoun Ton Bisseling René Geurts Sanwen Huang |
| author_facet |
Kui Lin Erik Limpens Zhonghua Zhang Sergey Ivanov Diane G O Saunders Desheng Mu Erli Pang Huifen Cao Hwangho Cha Tao Lin Qian Zhou Yi Shang Ying Li Trupti Sharma Robin van Velzen Norbert de Ruijter Duur K Aanen Joe Win Sophien Kamoun Ton Bisseling René Geurts Sanwen Huang |
| author_sort |
Kui Lin |
| title |
Single nucleus genome sequencing reveals high similarity among nuclei of an endomycorrhizal fungus. |
| title_short |
Single nucleus genome sequencing reveals high similarity among nuclei of an endomycorrhizal fungus. |
| title_full |
Single nucleus genome sequencing reveals high similarity among nuclei of an endomycorrhizal fungus. |
| title_fullStr |
Single nucleus genome sequencing reveals high similarity among nuclei of an endomycorrhizal fungus. |
| title_full_unstemmed |
Single nucleus genome sequencing reveals high similarity among nuclei of an endomycorrhizal fungus. |
| title_sort |
single nucleus genome sequencing reveals high similarity among nuclei of an endomycorrhizal fungus. |
| publisher |
Public Library of Science (PLoS) |
| publishDate |
2014 |
| url |
https://doaj.org/article/02cf47d90a8c448facab3c93d0d1bc94 |
| work_keys_str_mv |
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