A high-quality genome assembly and annotation of the gray mangrove, Avicennia marina

The gray mangrove [Avicennia marina (Forsk.) Vierh.] is the most widely distributed mangrove species, ranging throughout the Indo-West Pacific. It presents remarkable levels of geographic variation both in phenotypic traits and habitat, often occupying extreme environments at the edges of its distribution. However, subspecific evolutionary relationships and adaptive mechanisms remain understudied, especially across populations of the West Indian Ocean. High-quality genomic resources accounting for such variability are also sparse. Here we report the first chromosome-level assembly of the genome of A. marina. We used a previously release draft assembly and proximity ligation libraries Chicago and Dovetail HiC for scaffolding, producing a 456,526,188 bp long genome. The largest 32 scaffolds (22.4 Mb to 10.5 Mb) accounted for 98 % of the genome assembly, with the remaining 2% distributed among much shorter 3,759 scaffolds (62.4 Kb to 1 Kb). We annotated 45,032 protein-coding genes using ti...灰红树林[白骨壤（Avicennia marina (Forsk.) Vierh.）]是分布范围最广的红树植物类群，其分布覆盖整个印度-西太平洋区域。该物种在表型性状与生境方面均呈现显著的地理分化水平，且常栖息于分布区边缘的极端环境中。然而，目前针对其亚种级演化关系与适应机制的研究仍较为匮乏，尤其是西印度洋种群相关的研究。针对这类物种变异的高质量基因组资源也十分稀缺。本研究首次报道了白骨壤（A. marina）的染色体级基因组组装（chromosome-level assembly）结果。我们利用已发表的草图基因组（draft assembly）以及邻近连接文库（proximity ligation libraries）Chicago与Dovetail HiC进行基因组支架（scaffold）构建，最终得到总长456,526,188 bp的基因组序列。其中最大的32个基因组支架（长度区间为22.4 Mb至10.5 Mb）占基因组组装总量的98%，剩余2%则分布于3759个更短小的支架中（长度区间为62.4 Kb至1 Kb）。我们注释得到45032个蛋白质编码基因，相关分析方法原文未完整给出。