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印度洋乌贼 Uroteuthis duvaucelii（Orbigny，1848）从头转录组分析。

De novo transcriptome analysis of the Indian squid Uroteuthis duvaucelii (Orbigny, 1848) from the Indian Ocean.

机构信息

ICAR-Central Marine Fisheries Research Institute, Ernakulam North P.O., Kochi, 682018, Kerala, India.

Mangalore University, Mangalagangotri, Mangaluru, 574199, Karnataka, India.

出版信息

Sci Data. 2024 Nov 16;11(1):1236. doi: 10.1038/s41597-024-04112-3.

DOI:10.1038/s41597-024-04112-3
PMID:39550368
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11569149/
Abstract

Cephalopods have dominated the oceans for hundreds of millions of years and are unquestionably at the peak of molluscan evolution. The development of the large brain and a well-sophisticated sensory system contributed significantly to its success. Therefore, it is considered the best example of convergent evolution and attracted the attention of scientists from various disciplines of biology. The aim of the present study is to construct a reference transcriptome in the Indian squid Uroteuthis duvaucelii to gain insights into cephalopod evolution and enrich the existing cephalopod database. Around 72 million short Illumina reads were generated from five different tissues, including the brain, eye, gill, heart and gonads, and assembled using the Trinity assembler. About 26230 protein-coding sequences were annotated from the assembled transcripts. The BUSCO completeness of the assembly was 71.71% compared to the Mollusca_Odb10 gene set. KEGG and REACTOME pathway analyzes revealed that U. duvaucelii shares many genes and pathways with higher vertebrates.

摘要

头足类动物在海洋中已经统治了数亿年，无疑处于软体动物进化的巅峰。大脑的高度发达和高度复杂的感觉系统的发展对其成功做出了重大贡献。因此，它被认为是趋同进化的最佳范例，吸引了来自生物学各个学科的科学家的关注。本研究的目的是构建印度乌贼 Uroteuthis duvaucelii 的参考转录组，以深入了解头足类动物的进化，并丰富现有的头足类动物数据库。从大脑、眼睛、鳃、心脏和性腺等五种不同组织中生成了约 7200 万个短 Illumina 读段，并使用 Trinity 组装器进行组装。从组装的转录本中注释了约 26230 个蛋白质编码序列。与 Mollusca_Odb10 基因集相比，该组装的 BUSCO 完整性为 71.71%。KEGG 和 REACTOME 途径分析表明，U. duvaucelii 与高等脊椎动物共享许多基因和途径。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9300/11569149/a866ac655182/41597_2024_4112_Fig9_HTML.jpg
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https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9300/11569149/f7cdc0932c92/41597_2024_4112_Fig5_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9300/11569149/b7138d432937/41597_2024_4112_Fig6_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9300/11569149/b3959b1b3d49/41597_2024_4112_Fig7_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9300/11569149/47adb4d6e40f/41597_2024_4112_Fig8_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9300/11569149/a866ac655182/41597_2024_4112_Fig9_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9300/11569149/6c3b4382c2fb/41597_2024_4112_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9300/11569149/064190ffcfd3/41597_2024_4112_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9300/11569149/e277fcc433d2/41597_2024_4112_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9300/11569149/066a6e3b96b3/41597_2024_4112_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9300/11569149/f7cdc0932c92/41597_2024_4112_Fig5_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9300/11569149/b7138d432937/41597_2024_4112_Fig6_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9300/11569149/b3959b1b3d49/41597_2024_4112_Fig7_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9300/11569149/47adb4d6e40f/41597_2024_4112_Fig8_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9300/11569149/a866ac655182/41597_2024_4112_Fig9_HTML.jpg

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本文引用的文献

1
De novo transcriptome reconstruction in aquacultured early life stages of the cephalopod Octopus vulgaris.养殖头足类动物章鱼（Octopus vulgaris）早期生活阶段的从头转录组重建。
Sci Data. 2022 Oct 8;9(1):609. doi: 10.1038/s41597-022-01735-2.
2
OrthoDB in 2020: evolutionary and functional annotations of orthologs.2020 年的 OrthoDB：直系同源物的进化和功能注释。
Nucleic Acids Res. 2021 Jan 8;49(D1):D389-D393. doi: 10.1093/nar/gkaa1009.
3
Pfam: The protein families database in 2021.Pfam：2021 年的蛋白质家族数据库。
Nucleic Acids Res. 2021 Jan 8;49(D1):D412-D419. doi: 10.1093/nar/gkaa913.
4
Chromosome-level genome assembly of the East Asian common octopus (Octopus sinensis) using PacBio sequencing and Hi-C technology.利用 PacBio 测序和 Hi-C 技术获得的东亚长蛸染色体水平基因组组装。
Mol Ecol Resour. 2020 Nov;20(6):1572-1582. doi: 10.1111/1755-0998.13216. Epub 2020 Aug 20.
5
Improved metagenomic analysis with Kraken 2.Kraken 2 提升宏基因组分析。
Genome Biol. 2019 Nov 28;20(1):257. doi: 10.1186/s13059-019-1891-0.
6
BUSCO: Assessing Genome Assembly and Annotation Completeness.BUSCO：评估基因组组装和注释的完整性
Methods Mol Biol. 2019;1962:227-245. doi: 10.1007/978-1-4939-9173-0_14.
7
The survey and reference assisted assembly of the Octopus vulgaris genome.八腕目基因组的调查和参考辅助组装。
Sci Data. 2019 Apr 1;6(1):13. doi: 10.1038/s41597-019-0017-6.
8
Symbiotic organs shaped by distinct modes of genome evolution in cephalopods.头足类动物中基因组进化模式不同而形成的共生器官。
Proc Natl Acad Sci U S A. 2019 Feb 19;116(8):3030-3035. doi: 10.1073/pnas.1817322116. Epub 2019 Jan 11.
9
Grow Smart and Die Young: Why Did Cephalopods Evolve Intelligence?聪明早逝：头足类动物为何进化出智力？
Trends Ecol Evol. 2019 Jan;34(1):45-56. doi: 10.1016/j.tree.2018.10.010. Epub 2018 Nov 13.
10
The genome of common long-arm octopus Octopus minor.普通长腕章鱼（Octopus minor）的基因组。
Gigascience. 2018 Nov 1;7(11):giy119. doi: 10.1093/gigascience/giy119.