Phenome, repeatome, and transcriptome analysis to comprehend the structural and functional aspects of polyploid Morus serrata Roxb

IF 2.1 3区农林科学 Q2 FORESTRY

Trees Pub Date : 2025-08-25 DOI:10.1007/s00468-025-02665-3

Raju Mondal, Himanshu Dubey, A. Ramesha, Kunjupillai Vijayan, V. Nishitha Naik, S. Manthira Moorthy

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引用次数: 0

Abstract

Repeat elements contribute significantly to genome expansions, gene regulation, and expression of functional traits at the increased cost of genome maintenance, especially in polyploids. Morus serrata Roxb. (Moraceae) is a wild tree species having polyploid genome of Himalayan origin. Upon phenotypic analysis, M. serrata exhibited distinct polyploid-associated traits within the Morus species complex, which are impacted by cell size, cell division rate, and stoichiometry balance. Genomic analysis suggests that genome-wide repeated DNA landscape (repeatome), especially DNA transposons played a substantial role in the genome expansions of M. serrata. Furthermore, M. serrata transcriptome yielded overrepresented genes associated with the transposition of transposable elements (TEs) and nucleic acid metabolism. Overall phenome, repeatome, and transcriptome study reveals that M. serrata devotes a significant portion of its transcriptional budget to maintaining a large genome expended by TEs and loses growth superiority compared to studied species of the genus Morus L. The study provided new insights into the structural and functional aspects of natural polyploidization and loss of growth superiority.

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表型、重复组和转录组分析，以了解多倍体桑的结构和功能方面

重复元件对基因组扩增、基因调控和功能性状的表达有重要贡献，但增加了基因组维护的成本，特别是在多倍体中。桑·塞拉塔·罗克斯。桑科（Moraceae）是一种具有喜马拉雅多倍体基因组的野生树种。表型分析表明，在桑属植物复合体中，锯齿蕨表现出明显的多倍体相关性状，这些性状受细胞大小、细胞分裂率和化学计量平衡的影响。基因组分析表明，全基因组重复DNA景观（repeatome），特别是DNA转座子在serrata M.基因组扩增中发挥了重要作用。此外，serrata转录组产生了与转座因子（TEs）转位和核酸代谢相关的过度代表基因。整体的表型、重复组和转录组研究表明，与桑葚属的研究物种相比，serrata将很大一部分转录支出用于维持一个由TEs消耗的大基因组，并失去了生长优势。该研究为自然多倍体化和生长优势丧失的结构和功能方面提供了新的见解。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Trees 农林科学-林学

CiteScore

4.50

自引率

4.30%

发文量

113

审稿时长

3.8 months

期刊介绍： Trees - Structure and Function publishes original articles on the physiology, biochemistry, functional anatomy, structure and ecology of trees and other woody plants. Also presented are articles concerned with pathology and technological problems, when they contribute to the basic understanding of structure and function of trees. In addition to original articles and short communications, the journal publishes reviews on selected topics concerning the structure and function of trees.