Bisulfite sequencing reveals that Aspergillus flavus holds a hollow in DNA methylation.
Bisulfite sequencing reveals that Aspergillus flavus holds a hollow in DNA methylation.
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DOI：
10.1371/journal.pone.0030349
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发表时间：
2012
期刊：
影响因子：
3.7
通讯作者：
He ZM
中科院分区：
文献类型：
--
作者：
Liu SY;Lin JQ;Wu HL;Wang CC;Huang SJ;Luo YF;Sun JH;Zhou JX;Yan SJ;He JG;Wang J;He ZM
黄曲霉最早因其产生黄曲霉毒素而受到科学关注。黄曲霉毒素生物合成的基本规律一直是其他微生物次生代谢物生物合成的理论模型。然而，几十年来，作为参与基因调控的重要表观基因组修饰之一的DNA甲基化状态，在黄曲霉中仍然存在争议。在这里，我们应用亚硫酸氢盐测序结合生物复制策略来研究黄曲霉基因组的DNA甲基化图谱。亚硫酸氢盐测序数据和与其他真菌的甲基组比较都证实了这种真菌的DNA甲基化水平可以忽略不计。对曲霉DNA甲基转移酶的进一步研究揭示了它与RID类酶的密切关系以及它与DNA甲基化已被证实的物种的甲基转移酶的差异。黄曲霉基因组重复内容的缺乏和少量剩余重复序列的高RIP指数可能支持我们的推测，即黄曲霉可能不存在DNA甲基化，或者它可能具有从头DNA甲基化，这种甲基化发生在该真菌物种隐蔽的有性阶段。这项工作有助于我们了解黄曲霉的DNA甲基化状态，也加强了我们对真菌物种DNA甲基化的看法。此外，我们将亚硫酸氢盐测序应用于DNA低甲基化物种的DNA甲基化检测的策略可能会为以后对其他低甲基化物种的科学研究提供参考。
Aspergillus flavus first gained scientific attention for its production of aflatoxin. The underlying regulation of aflatoxin biosynthesis has been serving as a theoretical model for biosynthesis of other microbial secondary metabolites. Nevertheless, for several decades, the DNA methylation status, one of the important epigenomic modifications involved in gene regulation, in A. flavus remains to be controversial. Here, we applied bisulfite sequencing in conjunction with a biological replicate strategy to investigate the DNA methylation profiling of A. flavus genome. Both the bisulfite sequencing data and the methylome comparisons with other fungi confirm that the DNA methylation level of this fungus is negligible. Further investigation into the DNA methyltransferase of Aspergillus uncovers its close relationship with RID-like enzymes as well as its divergence with the methyltransferase of species with validated DNA methylation. The lack of repeat contents of the A. flavus' genome and the high RIP-index of the small amount of remanent repeat potentially support our speculation that DNA methylation may be absent in A. flavus or that it may possess de novo DNA methylation which occurs very transiently during the obscure sexual stage of this fungal species. This work contributes to our understanding on the DNA methylation status of A. flavus, as well as reinforces our views on the DNA methylation in fungal species. In addition, our strategy of applying bisulfite sequencing to DNA methylation detection in species with low DNA methylation may serve as a reference for later scientific investigations in other hypomethylated species.
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影响因子：
3.8
作者：
Kensler, Thomas W.;Roebuck, Bill D.;Groopman, John D.
通讯作者：
Groopman, John D.
DOI：
10.1016/s0027-5107(99)00099-8
发表时间：
1999-08-11
影响因子：
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作者：
Doiron, KMJ;Lavigne-Nicolas, J;Cupples, CG
通讯作者：
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作者：
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3
作者：
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通讯作者：
Clutterbuck, A. John
改进了病原曲霉曲霉中的功能分析方案。
影响因子：
4.2
作者：
He, Zhu-Mei;Price, Michael S.;OBrian, Gregory R.;Georgianna, D. Ryan;Payne, Gary A.
通讯作者：
Payne, Gary A.