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南极特有桡足类动物世宗虎斑猛水蚤的基因组。

The genome of the Antarctic-endemic copepod, Tigriopus kingsejongensis.

作者信息

Kang Seunghyun, Ahn Do-Hwan, Lee Jun Hyuck, Lee Sung Gu, Shin Seung Chul, Lee Jungeun, Min Gi-Sik, Lee Hyoungseok, Kim Hyun-Woo, Kim Sanghee, Park Hyun

机构信息

Unit of Polar Genomics, Korea Polar Research Institute, Yeonsu-gu, Incheon, South Korea.

Polar Sciences, University of Science & Technology, Yuseong-gu, Daejeon, South Korea.

出版信息

Gigascience. 2017 Jan 1;6(1):1-9. doi: 10.1093/gigascience/giw010.

DOI:10.1093/gigascience/giw010
PMID:28369352
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC5467011/
Abstract

BACKGROUND

The Antarctic intertidal zone is continuously subjected to extremely fluctuating biotic and abiotic stressors. The West Antarctic Peninsula is the most rapidly warming region on Earth. Organisms living in Antarctic intertidal pools are therefore interesting for research into evolutionary adaptation to extreme environments and the effects of climate change.

FINDINGS

We report the whole genome sequence of the Antarctic-endemic harpacticoid copepod Tigriopus kingsejongensi . The 37 Gb raw DNA sequence was generated using the Illumina Miseq platform. Libraries were prepared with 65-fold coverage and a total length of 295 Mb. The final assembly consists of 48 368 contigs with an N50 contig length of 17.5 kb, and 27 823 scaffolds with an N50 contig length of 159.2 kb. A total of 12 772 coding genes were inferred using the MAKER annotation pipeline. Comparative genome analysis revealed that T. kingsejongensis -specific genes are enriched in transport and metabolism processes. Furthermore, rapidly evolving genes related to energy metabolism showed positive selection signatures.

CONCLUSIONS

The T. kingsejongensis genome provides an interesting example of an evolutionary strategy for Antarctic cold adaptation, and offers new genetic insights into Antarctic intertidal biota.

摘要

背景

南极潮间带持续受到极其波动的生物和非生物应激源的影响。南极半岛西部是地球上变暖最快的地区。因此，生活在南极潮间带水池中的生物对于研究极端环境下的进化适应以及气候变化的影响具有重要意义。

研究结果

我们报告了南极特有猛水蚤Tigriopus kingsejongensi的全基因组序列。使用Illumina Miseq平台生成了37Gb的原始DNA序列。构建的文库覆盖度为65倍，总长度为295Mb。最终组装由48368个重叠群组成，重叠群N50长度为17.5kb，以及27823个支架，支架N50长度为159.2kb。使用MAKER注释管道推断出总共12772个编码基因。比较基因组分析表明，T. kingsejongensi特有的基因在运输和代谢过程中富集。此外,与能量代谢相关的快速进化基因显示出正选择特征。

结论

T. kingsejongensi基因组为南极寒冷适应的进化策略提供了一个有趣的例子，并为南极潮间带生物群提供了新的遗传见解。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/29e8/5467011/904f0f82498b/giw010fig5.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/29e8/5467011/873b8eb76c73/giw010fig1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/29e8/5467011/9b42e70c2f4f/giw010fig2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/29e8/5467011/e0cf78df749f/giw010fig3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/29e8/5467011/70d32b59d147/giw010fig4.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/29e8/5467011/904f0f82498b/giw010fig5.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/29e8/5467011/873b8eb76c73/giw010fig1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/29e8/5467011/9b42e70c2f4f/giw010fig2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/29e8/5467011/e0cf78df749f/giw010fig3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/29e8/5467011/70d32b59d147/giw010fig4.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/29e8/5467011/904f0f82498b/giw010fig5.jpg

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