Telomere-to-telomere and haplotype-resolved genome of the kiwifruit Actinidia eriantha
Abstract Actinidia eriantha is a characteristic fruit tree featuring with great potential for its abundant vitamin C and strong disease resistance. It has been used in a wide range of breeding programs and functional genomics studies. Previously published genome assemblies of A. eriantha are quite f...
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| Format: | Article |
| Language: | English |
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BMC
2023-02-01
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| Series: | Molecular Horticulture |
| Subjects: | |
| Online Access: | https://doi.org/10.1186/s43897-023-00052-5 |
| _version_ | 1827982745361448960 |
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| author | Yingzhen Wang Minhui Dong Ying Wu Feng Zhang Wangmei Ren Yunzhi Lin Qinyao Chen Sijia Zhang Junyang Yue Yongsheng Liu |
| author_facet | Yingzhen Wang Minhui Dong Ying Wu Feng Zhang Wangmei Ren Yunzhi Lin Qinyao Chen Sijia Zhang Junyang Yue Yongsheng Liu |
| author_sort | Yingzhen Wang |
| collection | DOAJ |
| description | Abstract Actinidia eriantha is a characteristic fruit tree featuring with great potential for its abundant vitamin C and strong disease resistance. It has been used in a wide range of breeding programs and functional genomics studies. Previously published genome assemblies of A. eriantha are quite fragmented and not highly contiguous. Using multiple sequencing strategies, we get the haplotype-resolved and gap-free genomes of an elite breeding line “Midao 31” (MD), termed MDHAPA and MDHAPB. The new assemblies anchored to 29 pseudochromosome pairs with a length of 619.3 Mb and 611.7 Mb, as well as resolved 27 and 28 gap-close chromosomes in a telomere-to-telomere (T2T) manner. Based on the haplotype-resolved genome, we found that most alleles experienced purifying selection and coordinately expressed. Owing to the high continuity of assemblies, we defined the centromeric regions of A. eriantha, and identified the major repeating monomer, which is designated as Ae-CEN153. This resource lays a solid foundation for further functional genomics study and horticultural traits improvement in kiwifruit. Graphical Abstract |
| first_indexed | 2024-04-09T22:38:10Z |
| format | Article |
| id | doaj.art-6730cca3d16d44b08ec53a7d3fe44005 |
| institution | Directory Open Access Journal |
| issn | 2730-9401 |
| language | English |
| last_indexed | 2024-04-09T22:38:10Z |
| publishDate | 2023-02-01 |
| publisher | BMC |
| record_format | Article |
| series | Molecular Horticulture |
| spelling | doaj.art-6730cca3d16d44b08ec53a7d3fe440052023-03-22T12:22:31ZengBMCMolecular Horticulture2730-94012023-02-013111110.1186/s43897-023-00052-5Telomere-to-telomere and haplotype-resolved genome of the kiwifruit Actinidia erianthaYingzhen Wang0Minhui Dong1Ying Wu2Feng Zhang3Wangmei Ren4Yunzhi Lin5Qinyao Chen6Sijia Zhang7Junyang Yue8Yongsheng Liu9School of Horticulture, Anhui Agricultural UniversitySchool of Horticulture, Anhui Agricultural UniversitySchool of Horticulture, Anhui Agricultural UniversitySchool of Horticulture, Anhui Agricultural UniversitySchool of Horticulture, Anhui Agricultural UniversityMinistry of Education Key Laboratory for Bio-Resource and Eco-Environment, College of Life Science, State Key Laboratory of Hydraulics and Mountain River Engineering, Sichuan UniversitySchool of Horticulture, Anhui Agricultural UniversitySchool of Horticulture, Anhui Agricultural UniversitySchool of Horticulture, Anhui Agricultural UniversitySchool of Horticulture, Anhui Agricultural UniversityAbstract Actinidia eriantha is a characteristic fruit tree featuring with great potential for its abundant vitamin C and strong disease resistance. It has been used in a wide range of breeding programs and functional genomics studies. Previously published genome assemblies of A. eriantha are quite fragmented and not highly contiguous. Using multiple sequencing strategies, we get the haplotype-resolved and gap-free genomes of an elite breeding line “Midao 31” (MD), termed MDHAPA and MDHAPB. The new assemblies anchored to 29 pseudochromosome pairs with a length of 619.3 Mb and 611.7 Mb, as well as resolved 27 and 28 gap-close chromosomes in a telomere-to-telomere (T2T) manner. Based on the haplotype-resolved genome, we found that most alleles experienced purifying selection and coordinately expressed. Owing to the high continuity of assemblies, we defined the centromeric regions of A. eriantha, and identified the major repeating monomer, which is designated as Ae-CEN153. This resource lays a solid foundation for further functional genomics study and horticultural traits improvement in kiwifruit. Graphical Abstracthttps://doi.org/10.1186/s43897-023-00052-5KiwifruitActinidia erianthaGenomeTelomere-to-telomereHaplotypeCentromeric |
| spellingShingle | Yingzhen Wang Minhui Dong Ying Wu Feng Zhang Wangmei Ren Yunzhi Lin Qinyao Chen Sijia Zhang Junyang Yue Yongsheng Liu Telomere-to-telomere and haplotype-resolved genome of the kiwifruit Actinidia eriantha Molecular Horticulture Kiwifruit Actinidia eriantha Genome Telomere-to-telomere Haplotype Centromeric |
| title | Telomere-to-telomere and haplotype-resolved genome of the kiwifruit Actinidia eriantha |
| title_full | Telomere-to-telomere and haplotype-resolved genome of the kiwifruit Actinidia eriantha |
| title_fullStr | Telomere-to-telomere and haplotype-resolved genome of the kiwifruit Actinidia eriantha |
| title_full_unstemmed | Telomere-to-telomere and haplotype-resolved genome of the kiwifruit Actinidia eriantha |
| title_short | Telomere-to-telomere and haplotype-resolved genome of the kiwifruit Actinidia eriantha |
| title_sort | telomere to telomere and haplotype resolved genome of the kiwifruit actinidia eriantha |
| topic | Kiwifruit Actinidia eriantha Genome Telomere-to-telomere Haplotype Centromeric |
| url | https://doi.org/10.1186/s43897-023-00052-5 |
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