Lotmaria passim strain 422 isolate BRL genome sequencing and assembly

A chromosome-level diploid genome assembly for the honey bee parasite Lotmaria passim, with a complete maxicircle sequence and 31 minicircle sequences. The initial contigs were assembled from 115x-per-haplotig PacBio HiFi reads by Hifiasm. Chromosome-level haplotigs were retained by purge_dups and scaffolded by YaHS, and confirmed by Hi-C-Pro. Maxicircle contigs were identified and maxicircle reads were extracted and reassembled by Hifiasm. Minicircle reads were iteratively identified starting by profile HMMs built from Leptomonas pyrrhocoris minicircles. Complete minicircle sequences were realigned at their homologous conservative regions and duplicated sequences were removed by building phylogenetic trees using iqtrees. See Methods section of publication for full procedures.

本数据集为蜜蜂寄生虫洛特马利亚·帕西姆的染色体水平二倍体基因组组装，包含完整的最大环状序列和31个最小环状序列。初始连续片段由Hifiasm软件根据每条单倍片段的115倍PacBio HiFi读数组装而成。通过purge_dups软件保留染色体水平单倍片段，并由YaHS软件构建支架，经Hi-C-Pro软件确认。通过Hifiasm软件识别最大环状连续片段，提取最大环状读数并重新组装。从由Leptomonas pyrrhocoris最小环状序列构建的轮廓隐马尔可夫模型开始，迭代识别最小环状读数。通过在保守的同源区域重新排列完整的最小环状序列，并利用iqtrees软件构建系统发育树去除重复序列。详细步骤请参阅出版物中的方法部分。