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对作为韩国天然纪念物的濒危物种谢米诺夫天牛(鞘翅目:天牛科)的基因组大小估计

Genome Size Estimation of Semenov (Coleoptera: Cerambycidae), an Endangered Species and a Korea Natural Monument.

作者信息

Yu Yun-Sang, Jin Soyeong, Cho Namjoon, Lim Jongok, Kim Cheol-Hak, Lee Seung-Gyu, Kim Sangil, Park Jong-Seok, Kim Keekwang, Park Chungoo, Cho Sung-Jin

机构信息

School of Biological Sciences, College of Natural Sciences, Chungbuk National University, Cheongju 28644, Korea.

School of Biological Sciences and Technology, Chonnam National University, Gwangju 61186, Korea.

出版信息

Insects. 2021 Jan 27;12(2):111. doi: 10.3390/insects12020111.

DOI:10.3390/insects12020111
PMID:33513896
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC7910860/
Abstract

We estimated the genome size of a relict longhorn beetle, Semenov (Cerambycidae: Prioninae)-the Korean natural monument no. 218 and a Class I endangered species-using a combination of flow cytometry and -mer analysis. The two independent methods enabled accurate estimation of the genome size in Cerambycidae for the first time. The genome size of was 1.8 ± 0.2 Gb, representing one of the largest cerambycid genomes studied to date. An accurate estimation of genome size of a critically endangered longhorned beetle is a major milestone in our understanding and characterization of the genome. Ultimately, the findings provide useful insight into insect genomics and genome size evolution, particularly among beetles.

摘要

我们使用流式细胞术和k-mer分析相结合的方法,估算了一种残遗天牛——谢米诺夫天牛(鞘翅目:锯天牛亚科)的基因组大小。谢米诺夫天牛是韩国第218号天然纪念物,也是一级濒危物种。这两种独立的方法首次实现了对天牛科昆虫基因组大小的准确估算。谢米诺夫天牛的基因组大小为1.8±0.2Gb,是迄今为止所研究的最大的天牛基因组之一。准确估算一种极度濒危天牛的基因组大小,是我们在了解和描述该基因组方面的一个重要里程碑。最终,这些发现为昆虫基因组学和基因组大小进化,尤其是甲虫的基因组学和基因组大小进化,提供了有益的见解。

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本文引用的文献

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Mitochondrial DNA B Resour. 2017 Sep 9;2(2):629-631. doi: 10.1080/23802359.2017.1372718.
2
Measuring Genome Sizes Using Read-Depth, k-mers, and Flow Cytometry: Methodological Comparisons in Beetles (Coleoptera).利用读长深度、k-mer和流式细胞术测量基因组大小:甲虫(鞘翅目)的方法学比较
G3 (Bethesda). 2020 Sep 2;10(9):3047-3060. doi: 10.1534/g3.120.401028.
3
Annotated Draft Genomes of Two Caddisfly Species Plectrocnemia conspersa CURTIS and Hydropsyche tenuis NAVAS (Insecta: Trichoptera).
两种石蛾物种 Plectrocnemia conspersa CURTIS 和 Hydropsyche tenuis NAVAS 的注释草案基因组(昆虫纲: Trichoptera)。
Genome Biol Evol. 2019 Dec 1;11(12):3445-3451. doi: 10.1093/gbe/evz264.
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The draft genome sequence of the spider Dysdera silvatica (Araneae, Dysderidae): A valuable resource for functional and evolutionary genomic studies in chelicerates.《Silvatica 蜘蛛(蛛形纲,Dysderidae)基因组草案序列:蛛形类功能和进化基因组研究的有价值资源》
Gigascience. 2019 Aug 1;8(8). doi: 10.1093/gigascience/giz099.
5
Hybrid Genome Assembly of a Neotropical Mutualistic Ant.新热带互惠共生蚁的混合基因组组装。
Genome Biol Evol. 2019 Aug 1;11(8):2306-2311. doi: 10.1093/gbe/evz159.
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Insect genomes: progress and challenges.昆虫基因组:进展与挑战。
Insect Mol Biol. 2019 Dec;28(6):739-758. doi: 10.1111/imb.12599. Epub 2019 Jun 17.
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Estimating the -mer Coverage Frequencies in Genomic Datasets: A Comparative Assessment of the State-of-the-art.估算基因组数据集中的-mer覆盖频率:对当前技术水平的比较评估。
Curr Genomics. 2019 Jan;20(1):2-15. doi: 10.2174/1389202919666181026101326.
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9
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West meets East: How do rainforest beetles become circum-Pacific? Evolutionary origin of Callipogon relictus and allied species (Cerambycidae: Prioninae) in the New and Old Worlds.西遇东:热带雨林甲虫如何成为环太平洋生物?新世界和旧世界中 Callipogon relictus 和相关物种(鞘翅目:扁甲科)的进化起源。
Mol Phylogenet Evol. 2018 Aug;125:163-176. doi: 10.1016/j.ympev.2018.02.019. Epub 2018 Mar 7.