CiFi：低输入量要求下的准确长读长染色质构象捕获。

CiFi: Accurate long-read chromatin conformation capture with low-input requirements.

作者信息

McGinty Sean P, Kaya Gulhan, Sim Sheina B, Corpuz Renée L, Quail Michael A, Lawniczak Mara K N, Geib Scott M, Korlach Jonas, Dennis Megan Y

机构信息

Genome Center, MIND Institute, and Department of Biochemistry & Molecular Medicine, University of California, Davis, CA 95616, USA.

U.S. Department of Agriculture, Agricultural Research Service, U.S. Pacific Basin Agricultural Research Center, Tropical Pest Genetics and Molecular Biology Research Unit, Hilo, HI 96720, USA.

出版信息

bioRxiv. 2025 Feb 5:2025.01.31.635566. doi: 10.1101/2025.01.31.635566.

DOI:10.1101/2025.01.31.635566

PMID:39975366

原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11838532/

Abstract

By coupling chromatin conformation capture (3C) with PacBio HiFi long-read sequencing, we have developed a new method (CiFi) that enables analysis of genome interactions across repetitive genomic regions with low-input requirements. CiFi produces multiple interacting concatemer segments per read, facilitating genome assembly and scaffolding. Together, the approach enables genomic analysis of previously recalcitrant low-complexity loci, and of small organisms such as single insect individuals.

摘要

通过将染色质构象捕获技术（3C）与PacBio HiFi长读长测序相结合，我们开发了一种新方法（CiFi），该方法能够在低输入要求下分析重复基因组区域的基因组相互作用。CiFi每个读段产生多个相互作用的串联体片段，有助于基因组组装和支架构建。总之，该方法能够对以前难以处理的低复杂性位点以及单个昆虫个体等小型生物体进行基因组分析。