Phased T2T genome of a tetraploid grapevine reveals segmental allopolyploid origin and allele-specific alternative splicing during fruit development

Clicks: 1
ID: 316871
2026
Free PDF
Article Quality & Performance Metrics
Overall Quality
Not rated
Combines reader engagement with the AI quality analysis. This article has not been analysed, so there is no overall score — reader engagement is measured and shown alongside.
AI Quality Assessment
Not analyzed
Readership in this journal

Ranked #392 of 501 articles by views in Plant physiology and biochemistry : PPB

Most read Least read

Bar heights use a square-root scale. Only the 120 most-read articles are drawn; the journal has 501 in total.

Mint this article as an NFT
Not yet minted

Create a permanent, verifiable on-chain record of this article on the Scimatic Network. The NFT is held in your Journament account, and you can withdraw it to your own wallet at any time.

5 SUSD one-off · no wallet required
Sign in to mint
Abstract
Abstract The tetraploid table grape Kyoho, a cultivar of major global economic importance, has long presented a challenge in understanding its genetic architecture and the regulatory landscapes between its different ancestral genomes. Here, we assemble a haplotype-resolved, near-complete reference genome (480.32-489.47 Mb, contig N50 17.5-23.3 Mb, with a total of only 11 gaps) to investigate regulatory dynamics through integrative multiomic analyses during fruit development. Comparative evolutionary genomics classifies Kyoho as a segmental allotetraploid with a complex mosaic genome, composed of ∼71% V. vinifera (Vv) and ∼29% V. labrusca (Vl) ancestry. A total of 67.3% of genes are shared among the four haplotypic genomes with 9.8% haplotype specific genes. Transcriptomic analysis revealed that among 17,750 pairs of ancestral alleles exhibiting directional bias, only 4,086 (23.4%) maintained a consistent ancestral dominance direction across all tissues. Similarly, comparisons of DNA methylation profiles showed no significant differences between genome ancestries Vl (0.009∼0.676): Vv (0.010∼0.670). However, alternative splicing (AS) analyses demonstrated that allele-specific splicing changes were correlated with ancestral origin across tissues (Vl: 1,529 vs. Vv: 2,052). Integrative omics identified 2,307 differentially expressed ancestral alleles that showed no significant genomic variants or methylation bias but exhibited AS bias. These genes include key regulators of fruit ripening, including ZEP, PIN, DOG1and MYB. Overall, this work delivers a landmark genomic resource and characterizes its regulatory architecture, facilitating functional genomic studies and guiding precision polyploid breeding in grapes.
Reference Key
openalex_W7164148190 Use this key to autocite in the manuscript while using SciMatic Manuscript Manager or Thesis Manager
Authors Yingchun Zhang, Xu Wang, Yanshuai Xu, Cheng Chen, Jin Yao, Qiming Long, Tianhao Zhang, Ying Su, Sifan Yang, Zeina El Ali, Ruo Yang, Yan Sheng, Yang Dong, Lianzhu Zhou, Zhongxin Jin, Xiucai Fan, Qingqing Fu, Ling Tian, Chonghuai Liu, Yongfeng Zhou, Wei Li, Yanling Peng, Lei Sun
Journal Plant physiology and biochemistry : PPB
Year 2026
DOI
10.1093/plphys/kiag330
URL
https://doi.org/10.1093/plphys/kiag330
Keywords Keywords not found

Citations

No citations found. To add a citation, contact the admin at info@scimatic.org

Comments

No comments yet. Be the first to comment on this article.