一种基于单染色体测序的单染色体快速组装及性别决定区鉴定方法

IF 9.4 1区生物学 Q1 Agricultural and Biological Sciences

New Phytologist Pub Date : 2023-08-02 DOI:10.1111/nph.19176

Ning Li, Jian Zhou, Wanqing Zhang, Wenjia Liu, Bingxin Wang, Hongbing She, Ameer Ahmed Mirbahar, Shufen Li, Yulan Zhang, Wujun Gao, Wei Qian, Chuanliang Deng

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引用次数: 0

摘要

性别决定区（SDR）可能为研究性别决定基因、重组抑制和染色体异型性提供了最好的前景。然而，目前SDR鉴定和克隆的进展存在以下不足：需要构建大型近等基因系，需要相对较大的群体；全基因组测序和组装的成本很高。本文对菠菜（Spinacia oleracea L.subsp。利用单染色体测序成功地对火鸡进行了显微切割和组装。X和Y染色体的装配长度分别为约192.1和195.2 Mb。X和Y染色体之间存在三个大的倒位。X和Y染色体的SDR大小分别为c.13.2和24.1 Mb。MSY区和6个偏向男性的基因。构建了SDR中的Y染色体特异性标记，并通过荧光原位杂交在细胞学水平上验证染色体组装质量。同时观察到SDR位于Y染色体长臂上，着丝粒附近。总体而言，成功建立了快速克隆SDR的技术体系，该技术体系也适用于其他植物中特定染色体的快速组装。本研究为进一步研究菠菜性染色体进化的分子机制奠定了基础。

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A rapid method for assembly of single chromosome and identification of sex determination region based on single-chromosome sequencing

The sex-determining-region (SDR) may offer the best prospects for studying sex-determining gene, recombination suppression, and chromosome heteromorphism. However, current progress of SDR identification and cloning showed following shortcomings: large near-isogenic lines need to be constructed, and a relatively large population is needed; the cost of whole-genome sequencing and assembly is high. Herein, the X/Y chromosomes of Spinacia oleracea L. subsp. turkestanica were successfully microdissected and assembled using single-chromosome sequencing. The assembly length of X and Y chromosome is c. 192.1 and 195.2 Mb, respectively. Three large inversions existed between X and Y chromosome. The SDR size of X and Y chromosome is c. 13.2 and 24.1 Mb, respectively. MSY region and six male-biased genes were identified. A Y-chromosome-specific marker in SDR was constructed and used to verify the chromosome assembly quality at cytological level via fluorescence in situ hybridization. Meanwhile, it was observed that the SDR located on long arm of Y chromosome and near the centromere. Overall, a technical system was successfully established for rapid cloning the SDR and it is also applicable to rapid assembly of specific chromosome in other plants. Furthermore, this study laid a foundation for studying the molecular mechanism of sex chromosome evolution in spinach.

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来源期刊

New Phytologist PLANT SCIENCES-

CiteScore

17.60

自引率

5.30%

发文量

728

审稿时长

1 months

期刊介绍： New Phytologist is a leading publication that showcases exceptional and groundbreaking research in plant science and its practical applications. With a focus on five distinct sections - Physiology & Development, Environment, Interaction, Evolution, and Transformative Plant Biotechnology - the journal covers a wide array of topics ranging from cellular processes to the impact of global environmental changes. We encourage the use of interdisciplinary approaches, and our content is structured to reflect this. Our journal acknowledges the diverse techniques employed in plant science, including molecular and cell biology, functional genomics, modeling, and system-based approaches, across various subfields.