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A complete telomere-to-telomere assembly of the maize genome

A complete telomere-to-telomere (T2T) finished genome has been the long pursuit of genomic research. Through generating deep coverage ultralong Oxford Nanopore Technology (ONT) and PacBio HiFi reads, we report here a complete genome assembly of maize with each chromosome entirely traversed in a sing...

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Autores principales: Chen, Jian, Wang, Zijian, Tan, Kaiwen, Huang, Wei, Shi, Junpeng, Li, Tong, Hu, Jiang, Wang, Kai, Wang, Chao, Xin, Beibei, Zhao, Haiming, Song, Weibin, Hufford, Matthew B., Schnable, James C., Jin, Weiwei, Lai, Jinsheng
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group US 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10335936/
https://www.ncbi.nlm.nih.gov/pubmed/37322109
http://dx.doi.org/10.1038/s41588-023-01419-6
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author Chen, Jian
Wang, Zijian
Tan, Kaiwen
Huang, Wei
Shi, Junpeng
Li, Tong
Hu, Jiang
Wang, Kai
Wang, Chao
Xin, Beibei
Zhao, Haiming
Song, Weibin
Hufford, Matthew B.
Schnable, James C.
Jin, Weiwei
Lai, Jinsheng
author_facet Chen, Jian
Wang, Zijian
Tan, Kaiwen
Huang, Wei
Shi, Junpeng
Li, Tong
Hu, Jiang
Wang, Kai
Wang, Chao
Xin, Beibei
Zhao, Haiming
Song, Weibin
Hufford, Matthew B.
Schnable, James C.
Jin, Weiwei
Lai, Jinsheng
author_sort Chen, Jian
collection PubMed
description A complete telomere-to-telomere (T2T) finished genome has been the long pursuit of genomic research. Through generating deep coverage ultralong Oxford Nanopore Technology (ONT) and PacBio HiFi reads, we report here a complete genome assembly of maize with each chromosome entirely traversed in a single contig. The 2,178.6 Mb T2T Mo17 genome with a base accuracy of over 99.99% unveiled the structural features of all repetitive regions of the genome. There were several super-long simple-sequence-repeat arrays having consecutive thymine–adenine–guanine (TAG) tri-nucleotide repeats up to 235 kb. The assembly of the entire nucleolar organizer region of the 26.8 Mb array with 2,974 45S rDNA copies revealed the enormously complex patterns of rDNA duplications and transposon insertions. Additionally, complete assemblies of all ten centromeres enabled us to precisely dissect the repeat compositions of both CentC-rich and CentC-poor centromeres. The complete Mo17 genome represents a major step forward in understanding the complexity of the highly recalcitrant repetitive regions of higher plant genomes.
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spelling pubmed-103359362023-07-13 A complete telomere-to-telomere assembly of the maize genome Chen, Jian Wang, Zijian Tan, Kaiwen Huang, Wei Shi, Junpeng Li, Tong Hu, Jiang Wang, Kai Wang, Chao Xin, Beibei Zhao, Haiming Song, Weibin Hufford, Matthew B. Schnable, James C. Jin, Weiwei Lai, Jinsheng Nat Genet Article A complete telomere-to-telomere (T2T) finished genome has been the long pursuit of genomic research. Through generating deep coverage ultralong Oxford Nanopore Technology (ONT) and PacBio HiFi reads, we report here a complete genome assembly of maize with each chromosome entirely traversed in a single contig. The 2,178.6 Mb T2T Mo17 genome with a base accuracy of over 99.99% unveiled the structural features of all repetitive regions of the genome. There were several super-long simple-sequence-repeat arrays having consecutive thymine–adenine–guanine (TAG) tri-nucleotide repeats up to 235 kb. The assembly of the entire nucleolar organizer region of the 26.8 Mb array with 2,974 45S rDNA copies revealed the enormously complex patterns of rDNA duplications and transposon insertions. Additionally, complete assemblies of all ten centromeres enabled us to precisely dissect the repeat compositions of both CentC-rich and CentC-poor centromeres. The complete Mo17 genome represents a major step forward in understanding the complexity of the highly recalcitrant repetitive regions of higher plant genomes. Nature Publishing Group US 2023-06-15 2023 /pmc/articles/PMC10335936/ /pubmed/37322109 http://dx.doi.org/10.1038/s41588-023-01419-6 Text en © The Author(s) 2023 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Article
Chen, Jian
Wang, Zijian
Tan, Kaiwen
Huang, Wei
Shi, Junpeng
Li, Tong
Hu, Jiang
Wang, Kai
Wang, Chao
Xin, Beibei
Zhao, Haiming
Song, Weibin
Hufford, Matthew B.
Schnable, James C.
Jin, Weiwei
Lai, Jinsheng
A complete telomere-to-telomere assembly of the maize genome
title A complete telomere-to-telomere assembly of the maize genome
title_full A complete telomere-to-telomere assembly of the maize genome
title_fullStr A complete telomere-to-telomere assembly of the maize genome
title_full_unstemmed A complete telomere-to-telomere assembly of the maize genome
title_short A complete telomere-to-telomere assembly of the maize genome
title_sort complete telomere-to-telomere assembly of the maize genome
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10335936/
https://www.ncbi.nlm.nih.gov/pubmed/37322109
http://dx.doi.org/10.1038/s41588-023-01419-6
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