A lizard is never late: Squamate genomics as a recent catalyst for understanding sex chromosome and microchromosome evolution
A lizard is never late: Squamate genomics as a recent catalyst for understanding sex chromosome and microchromosome evolution
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蜥蜴永远不会迟到：有鳞基因组学作为理解性染色体和微染色体进化的最新催化剂
DOI：
10.1093/jhered/esad023
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发表时间：
2023
影响因子：
3.1
通讯作者：
Wilson, Melissa A
中科院分区：
文献类型：
--
作者：
Pinto, Brendan J;Gamble, Tony;Smith, Chase H;Wilson, Melissa A
2011年，第一个高质量的有鳞爬行动物（蜥蜴或蛇）基因组组装发表了绿色变色龙。随后在接下来的十年中发表了数十个基因组组装，但由于缺乏邻接性或注释，这些组装在很大程度上不足以回答有关有鳞动物基因组进化的基本问题。当“基因组学时代”开始在许多生物体研究系统中大踏步前进时，在绿色变色龙基因组发表后，有鳞动物的研究进展基本上停滞不前。事实上，在2012年至2017年期间发表了零高质量（染色体水平）的有鳞动物基因组。然而，自2018年以来，高质量基因组组装的指数级增长已经实现，其中有24个额外的高质量基因组被发布用于整个有鳞生命树的物种。随着有鳞动物基因组学领域的迅速发展，我们从进化基因组学的角度进行了系统的综述。我们整理了一个近乎完整的清单，公开可用的有鳞动物基因组组件从超过六个国际和第三方存储库，并系统地评估他们的整体质量，系统发育的广度和有用性，继续提供准确和有效的见解基因组进化在有鳞爬行动物。这篇评论既突出和目录目前可用的基因组资源在有鳞目动物和他们的能力，以解决更广泛的问题，在脊椎动物，特别是性染色体和微染色体的进化，同时解决为什么有鳞目动物可能已经收到较少的历史重点，并已导致其在基因组学的进展落后于同行类群。
In 2011, the first high-quality genome assembly of a squamate reptile (lizard or snake) was published for the green anole. Dozens of genome assemblies were subsequently published over the next decade, yet these assemblies were largely inadequate for answering fundamental questions regarding genome evolution in squamates due to their lack of contiguity or annotation. As the “genomics age” was beginning to hit its stride in many organismal study systems, progress in squamates was largely stagnant following the publication of the green anole genome. In fact,zerohigh-quality (chromosome-level) squamate genomes were published between the years 2012 and 2017. However, since 2018, an exponential increase in high-quality genome assemblies has materialized with 24 additional high-quality genomes published for species across the squamate tree of life. As the field of squamate genomics is rapidly evolving, we provide a systematic review from an evolutionary genomics perspective. We collated a near-complete list of publicly available squamate genome assemblies from more than half-a-dozen international and third-party repositories and systematically evaluated them with regard to their overall quality, phylogenetic breadth, and usefulness for continuing to provide accurate and efficient insights into genome evolution across squamate reptiles. This review both highlights and catalogs the currently available genomic resources in squamates and their ability to address broader questions in vertebrates, specifically sex chromosome and microchromosome evolution, while addressing why squamates may have received less historical focus and has caused their progress in genomics to lag behind peer taxa.