A chromosome-level assembly of the widely used Rockefeller strain of Aedes aegypti, the yellow fever mosquito.
A chromosome-level assembly of the widely used Rockefeller strain of Aedes aegypti, the yellow fever mosquito.
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DOI：
10.1093/g3journal/jkac242
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发表时间：
2022-11-04
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影响因子：
--
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中科院分区：
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埃及伊蚊是人类重要疾病的传播媒介，基因组资源对埃及伊蚊及其生态系统相互作用的研究具有重要意义。已经建立了几个实验室驯化的这种蚊子的品系，但毒理学研究中使用最多的品系是“洛克菲勒”，它最初是130年前在古巴收集和建立的。 。另一种参考菌株“利物浦”的全长基因组组装于2018年发表，是该物种的参考基因组(AaegL5)。然而，洛克菲勒菌株的遗传学研究因只有利物浦菌株作为参考基因组而变得复杂。利物浦和洛克菲勒之间的差异几十年来一直是众所周知的，特别是在与蚊子行为和媒介控制(例如嗅觉)相关的基因表达方面。这些差异表明，AaegL5可能不能完全代表洛克菲勒基因组，这给研究带来了潜在的障碍。在这里，我们介绍了洛克菲勒基因组的染色体水平的组装和注释，并与利物浦的基因组进行了比较。我们的结果为泛基因组方法理解这一重要疾病媒介的进化和多样性奠定了基础。
Aedes aegypti is the vector of important human diseases, and genomic resources are crucial in facilitating the study of A. aegypti and its ecosystem interactions. Several laboratory-acclimated strains of this mosquito have been established, but the most used strain in toxicology studies is “Rockefeller,” which was originally collected and established in Cuba 130 years ago. A full-length genome assembly of another reference strain, “Liverpool,” was published in 2018 and is the reference genome for the species (AaegL5). However, genetic studies with the Rockefeller strain are complicated by the availability of only the Liverpool strain as the reference genome. Differences between Liverpool and Rockefeller have been known for decades, particularly in the expression of genes relevant to mosquito behavior and vector control (e.g. olfactory). These differences indicate that AaegL5 is likely not fully representative of the Rockefeller genome, presenting potential impediments to research. Here, we present a chromosomal-level assembly and annotation of the Rockefeller genome and a comparative characterization vs the Liverpool genome. Our results set the stage for a pan-genomic approach to understanding evolution and diversity within this important disease vector.
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DOI：
10.1093/bioinformatics/btq033
发表时间：
2010-03-15
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Quinlan AR;Hall IM
通讯作者：
Hall IM
影响因子：
48
作者：
Langmead, Ben;Salzberg, Steven L.
通讯作者：
Salzberg, Steven L.
影响因子：
4.9
作者：
Bao W;Kojima KK;Kohany O
通讯作者：
Kohany O
影响因子：
14.9
作者：
Kriventseva EV;Kuznetsov D;Tegenfeldt F;Manni M;Dias R;Simão FA;Zdobnov EM
通讯作者：
Zdobnov EM
影响因子：
4.3
作者：
Marçais G;Delcher AL;Phillippy AM;Coston R;Salzberg SL;Zimin A
通讯作者：
Zimin A