Eublepharis macularius genome -- MPM_Emac_v1.0

Description of downstream analyses for the paper: Pinto, B. J., Gamble, T., Smith, C. H., Keating, S. E., Havird, J. C., &amp; Chiari, Y. (2023). The revised reference genome of the leopard gecko (<i>Eublepharis macularius</i>) provides insight into the considerations of genome phasing and assembly. <i>Journal of Heredity</i>. 114(5), 513–520. https://doi.org/10.1093/jhered/esad016MPM_Emac_v1.0 is the version described in the manuscript.MPM_Emac_v1.0.1 is the version available on NCBI.<br>The only diference between the two versions is 120bp of adapter sequence across 3 chromosomes that was removed from v1.0. However, this makes the gff file incompatible beween the two versions.<br>The other 4 assemblies: trio.asm and hiC.asm are the phased primary assemblies as described in the manuscript.<br>Also included is the liftoff annotation file for the GenBank version of the genome (GCA_028583425.1_MPM_Emac_v1.0_genomic.gff; they change the scaffold names making other files incompatible) and the mitogenome and annotation (also available on GenBank under accession OQ420358).<br><br>

本数据集为以下论文的下游分析配套说明：Pinto, B. J., Gamble, T., Smith, C. H., Keating, S. E., Havird, J. C., & Chiari, Y. (2023). 豹纹守宫（<i>Eublepharis macularius</i>）修订版参考基因组为基因组分相与组装的相关考量提供新见解。发表于《遗传学杂志》，第114卷第5期，页码513–520，DOI: 10.1093/jhered/esad016。

MPM_Emac_v1.0 为本论文中描述的基因组版本，而MPM_Emac_v1.0.1为NCBI平台上公开的版本。两个版本的唯一差异在于：v1.0版本中3条染色体上的120bp接头序列被移除，但该改动导致两个版本的GFF文件互不兼容。

其余4套组装结果包括：trio.asm与hiC.asm，二者为本论文中描述的分相一级组装结果。

本次数据集还附带针对该基因组GenBank版本的Liftoff注释文件（文件名为GCA_028583425.1_MPM_Emac_v1.0_genomic.gff；该文件修改了支架序列名称，导致与其他文件无法兼容），以及线粒体基因组及其注释文件（该文件同样可在GenBank获取，登录号为OQ420358）。