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具有温度依赖型性别决定系统的亚洲黄喉拟水龟（Mauremys mutica）的染色体水平基因组组装。

Chromosome-level genome assembly of Asian yellow pond turtle (Mauremys mutica) with temperature-dependent sex determination system.

机构信息

Key Laboratory of Tropical and Subtropical Fishery Resource Application and Cultivation of Ministry of Agriculture and Rural Affairs, Pearl River Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou, 51038, China.

College of Life Science and Fisheries, Shanghai Ocean University, Shanghai, 201306, China.

出版信息

Sci Rep. 2022 May 12;12(1):7905. doi: 10.1038/s41598-022-12054-2.

DOI:10.1038/s41598-022-12054-2
PMID:35550586
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC9098631/
Abstract

Knowledge of sex determination has important implications in physiology, ecology and genetics, but the evolutionary mechanisms of sex determination systems in turtles have not been fully elucidated, due to a lack of reference genomes. Here, we generate a high-quality genome assembly of Asian yellow pond turtle (Mauremys mutica) using continuous long-read (PacBio platform), Illumina, and high-throughput chromatin conformation capture (Hi-C) technologies. The M. mutica haplotype has a genome size of 2.23 Gb with a contig N50 of 8.53 Mb and scaffold N50 of 141.98 Mb. 99.98% sequences of the total assembly are anchored to 26 pseudochromosomes. Comparative genomics analysis indicated that the lizard-snake-tuatara clade diverged from the bird-crocodilian-turtle clade at approximately 267.0-312.3 Mya. Intriguingly, positive selected genes are mostly enriched in the calcium signaling pathway and neuroactive ligand-receptor interaction, which are involved in the process of temperature-dependent sex determination. These findings provide important evolutionary insights into temperature-dependent sex determination system.

摘要

性别的相关知识在生理学、生态学和遗传学方面具有重要意义，但由于缺乏参考基因组，龟鳖类性别决定系统的进化机制仍未完全阐明。本研究利用长读长测序（PacBio 平台）、Illumina 测序和高通量染色质构象捕获（Hi-C）技术，生成了高质量的亚洲黄缘闭壳龟（Mauremys mutica）基因组序列。M. mutica 单倍型基因组大小为 2.23Gb，contig N50 为 8.53Mb，scaffold N50 为 141.98Mb。总组装序列的 99.98%被锚定到 26 条假染色体上。比较基因组学分析表明，蜥蜴-蛇-蚓螈分支与鸟类-鳄鱼-龟鳖分支在大约 267.0-312.3Mya 前就已分化。有趣的是，正选择基因主要富集在钙信号通路和神经活性配体-受体相互作用中，这些通路与温度依赖型性别决定过程有关。这些发现为温度依赖型性别决定系统提供了重要的进化见解。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4e2c/9098631/41e264581052/41598_2022_12054_Fig5_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4e2c/9098631/37a2a3958572/41598_2022_12054_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4e2c/9098631/ba276b96be73/41598_2022_12054_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4e2c/9098631/63014ad6b7ec/41598_2022_12054_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4e2c/9098631/ddb6f12f0071/41598_2022_12054_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4e2c/9098631/41e264581052/41598_2022_12054_Fig5_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4e2c/9098631/37a2a3958572/41598_2022_12054_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4e2c/9098631/ba276b96be73/41598_2022_12054_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4e2c/9098631/63014ad6b7ec/41598_2022_12054_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4e2c/9098631/ddb6f12f0071/41598_2022_12054_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4e2c/9098631/41e264581052/41598_2022_12054_Fig5_HTML.jpg

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