The gap-free genome of Forsythia suspensa illuminates the intricate landscape of centromeres

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外文摘要：Forsythia suspensa,commonly known as weeping forsythia,holds significance in traditional medicine and horticulture.Despite its ecological and cultural importance,the existing reference genome presents challenges with duplications and gaps,hindering in-depth genomic analyses.Here,we present a Telomere-to-Telomere(T2T)assembly of the F.suspensa genome,integrating Oxford Nanopore Technologies(ONT)ultra-long,Hi-C datasets,and high-fidelity(HiFi)sequencing data.The T2T reference genome(Fsus-CHAU)consists of 14 chromosomes,totaling 688.79 Mb,and encompasses 33 932 predicted protein-coding genes.Additionally,we characterize functional centromeres in the F.suspensa genome by developing a specific CENH3 antibody.We demonstrate that centromeric regions in F.suspensa exhibit a diverse array of satellites,showcasing distinctive types with unconventional lengths across various chromosomes.This discovery offers implications for the adaptability of CENH3 and the potential influence on centromere dynamics.Furthermore,after assessing the insertion time of full-length LTRs within centromeric regions,we found that they are older compared to those across the entire genome,contrasting with observations in other species where centromeric retrotransposons are typically young.We hypothesize that asexual reproduction may impact retrotransposon dynamics,influencing centromere evolution.In conclusion,our T2T assembly of the F.suspensa genome,accompanied by detailed genomic annotations and centromere analysis,significantly enhances F.suspensa potential as a subject of study in fields ranging from ecology and horticulture to traditional medicine.

作者：

Jian Cui、Congle Zhu、Lisha Shen、Congyang Yi、Rong Wu、Xiaoyang Sun、Fangpu Han、Yong Li、Yang Liu

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作者单位：

School of Architecture & Built Environment,The University of Adelaide,Adelaide,5005,Australia

Key Laboratory of Seed Innovation,Institute of Genetics and Developmental Biology,Chinese Academy of Sciences,Beijing,100101,China

College of Life Science and Technology,Inner Mongolia Normal University,Hohhot,010022,China

College of Grassland Science,Qingdao Agricultural University,Qingdao,266109,China

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出版年：

2024

DOI：

10.1093/hr/uhae185

园艺研究(英文)

CSTPCD

ISSN：

年,卷(期)：2024.11(9)