首页|BL-Hi-C reveals the 3D genome structure of Brassica crops with high sensitivity

BL-Hi-C reveals the 3D genome structure of Brassica crops with high sensitivity

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High-throughput Chromatin Conformation Capture(Hi-C)technologies can be used to investigate the three-dimensional genomic structure of plants.However,the practical utility of these technologies is impeded by significant background noise,hindering their capability in detecting fine 3D genomic structures.In this study,we optimized the Bridge Linker Hi-C technology(BL-Hi-C)to comprehensively investigate the 3D chromatin landscape of Brassica rapa and Brassica oleracea.The Bouquet configuration of both B.rapa and B.oleracea was elucidated through the construction of a 3D genome simulation.The optimized BL-Hi-C exhibited lower background noise compared to conventional Hi-C methods.Taking this advantage,we used BL-Hi-C to identify FLC gene loops in Arabidopsis,B.rapa,and B.oleracea.We observed that gene loops of FLC2 exhibited conservation across Arabidopsis,B.rapa,and B.oleracea.While gene loops of syntenic FLCs exhibited conservation across B.rapa and B.oleracea,variations in gene loops were evident among multiple paralogs FLCs within the same species.Collectively,our findings highlight the high sensitivity of optimized BL-Hi-C as a powerful tool for investigating the fine 3D genomic organization.

Lupeng Zhang、Ranze Zhao、Jianli Liang、Xu Cai、Lei Zhang、Huiling Guo、Zhicheng Zhang、Jian Wu、Xiaowu Wang

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State Key Laboratory of Vegetable Biobreeding,Institute of Vegetables and Flowers,Chinese Academy of Agricultural Sciences,Beijing 100081,China

国家重点研发计划Agricultural Science and Technology Innovation Program(ASTIP)State Key Laboratory of Vegetable Biobreeding,Key Laboratory of Biology and Genetic Improvement of Horticultural Crops,MinisSino-Dutch Joint Lab of Horticultural Genomics Technology,Beijing

2021YFF1000101

2024

10.1093/hr/uhae017

园艺研究(英文)

园艺研究(英文)

CSTPCD
ISSN：
年,卷(期)：2024.11(3)
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