The Aedes aegypti mosquito is a threat to human health across the globe. The A. aegypti genome was recently re-sequenced and re-assembled. Due to a combination of long-read PacBio and Hi-C sequencing, the AaegL5 assembly is chromosome complete and significantly improves the assembly in key areas such as the M/m sex-determining locus. Release of the updated genome assembly has precipitated the need to reprocess historical functional genomic data sets, including cis-regulatory element (CRE) maps that had previously been generated for A. aegypti. We re-processed and re-analyzed the A. aegypti whole embryo FAIRE seq data to create an updated embryonic CRE map for the AaegL5 genome. We validated that the new CRE map recapitulates key features of the original AaegL3 CRE map. Further, we built on the improved assembly in the M/m locus to analyze overlaps of open chromatin regions with genes. To support the validation, we created a new method (PeakMatcher) for matching peaks from the same experimental data set across genome assemblies. Use of PeakMatcher software, which is available publicly under an open-source license, facilitated the release of an updated and validated CRE map, which is available through the NIH GEO. These findings demonstrate that PeakMatcher software will be a useful resource for validation and transferring of previous annotations to updated genome assemblies.

中文翻译：

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PeakMatcher 有助于更新埃及伊蚊胚胎顺式调控元件图

埃及伊蚊对全球人类健康构成威胁。A. aegypti 基因组最近被重新测序和重新组装。由于结合了长读长 PacBio 和 Hi-C 测序，AaegL5 组装是染色体完整的，并显着改善了关键区域（例如 M/m 性别决定位点）的组装。更新基因组组装的发布促使需要重新处理历史功能基因组数据集，包括之前为埃及蚊生成的顺式调控元件 (CRE) 图。我们重新处理并重新分析了 A. aegypti 全胚胎 FAIRE seq 数据，以创建 AaegL5 基因组的更新胚胎 CRE 图。我们验证了新的 CRE 地图概括了原始 AaegL3 CRE 地图的关键特征。更远，我们基于 M/m 基因座中改进的组装来分析开放染色质区域与基因的重叠。为了支持验证，我们创建了一种新方法 (PeakMatcher)，用于在基因组组装中匹配来自相同实验数据集的峰。使用在开源许可下公开可用的 PeakMatcher 软件促进了更新和验证的 CRE 地图的发布，该地图可通过 NIH GEO 获得。这些发现表明，PeakMatcher 软件将成为验证和将以前的注释转移到更新的基因组组装的有用资源。它在开源许可下公开可用，促进了更新和验证的 CRE 地图的发布，该地图可通过 NIH GEO 获得。这些发现表明，PeakMatcher 软件将成为验证和将以前的注释转移到更新的基因组组装的有用资源。它在开源许可下公开可用，促进了更新和验证的 CRE 地图的发布，该地图可通过 NIH GEO 获得。这些发现表明，PeakMatcher 软件将成为验证和将以前的注释转移到更新的基因组组装的有用资源。