Pseudogenome of <i>Spea multiplicata</i> and supplement for Isdaner et al., 2024

This dataset primarily consists of a new pseudogenome assembly of the Mexican spadefoot toad, <i>S. multiplicata</i>. The previous, fragmentary genome assembly was improved by the alignment of newly generated Hi-C sequencing data. This assembly was then scaffolded along the existing genome of a congener, <i>S. bombifrons</i>. This dataset additionally contains supplemental data for a manuscript in preparation that reports the first QTL identified in <i>S. multiplicata</i> associated with phenotypic plasticity in tadpoles. These datasets include the output from each QTL scan, and the BLAST results reporting the best match from three species for each gene or transcript found in the 200 Kb window around each identified QTL.

本数据集主要包含墨西哥锄足蟾（<i>S. multiplicata</i>）的全新伪基因组组装（pseudogenome assembly）。此前碎片化的基因组组装通过新生成的Hi-C测序数据（Hi-C sequencing data）比对得到优化，随后以同属物种<i>S. bombifrons</i>的现有基因组为参照完成了支架构建。本数据集还包含一篇待投稿稿件的补充数据，该稿件首次报道了<i>S. multiplicata</i>中与蝌蚪表型可塑性（phenotypic plasticity）相关的数量性状位点（Quantitative Trait Locus, QTL）。此类数据集涵盖所有QTL扫描的输出结果，以及针对每个已鉴定QTL侧翼200 Kb区域内发现的每一个基因或转录本，比对得到三个物种最优匹配的BLAST（Basic Local Alignment Search Tool）结果。

搜集汇总

背景与挑战

背景概述

该数据集提供了一个墨西哥铲足蟾（Spea multiplicata）的改进伪基因组组装，通过Hi-C测序数据和对同属物种S. bombifrons基因组的支架构建，提升了先前碎片化组装的完整性。此外，数据集包含补充材料，支持一项关于蝌蚪表型可塑性数量性状位点（QTL）的研究，包括QTL扫描输出和基因注释结果。