Exploring MicroRNA-Like Small RNAs in the Filamentous Fungus Fusarium oxysporum

doi:10.1371/journal.pone.0104956

	Exploring MicroRNA-Like Small RNAs in the Filamentous Fungus Fusarium oxysporum
	Chen, Rui 1; Jiang, Nan 3; Jiang, Qiyan 2; Sun, Xianjun 2; Wang, Yong 1; Zhang, Hui 2; Hu, Zheng 2
刊名	PLOS ONE
	2014
卷号	9 期号:8 页码:-
ISSN号	1932-6203
DOI	10.1371/journal.pone.0104956
通讯作者	Chen, Rui
英文摘要	RNA silencing such as quelling and meiotic silencing by unpaired DNA (MSUD) and several other classes of special small RNAs have been discovered in filamentous fungi recently. More than four different mechanisms of microRNA-like RNAs (milRNAs) production have been illustrated in the model fungus Neurospora crassa including a dicer-independent pathway. To date, very little work focusing on small RNAs in fungi has been reported and no universal or particular characteristic of milRNAs were defined clearly. In this study, small RNA and degradome libraries were constructed and subsequently deep sequenced for investigating milRNAs and their potential cleavage targets on the genome level in the filamentous fungus F. oxysporum f. sp. lycopersici. As a result, there is no intersection of conserved miRNAs found by BLASTing against the miRBase. Further analysis showed that the small RNA population of F. oxysporum shared many common features with the small RNAs from N. crassa and other fungi. According to the known standards of miRNA prediction in plants and animals, milRNA candidates from 8 families (comprising 19 members) were screened out and identified. However, none of them could trigger target cleavage based on the degradome data. Moreover, most major signals of cleavage in transcripts could not match appropriate complementary small RNAs, suggesting that other predominant modes for milRNA-mediated gene regulation could exist in F. oxysporum. In addition, the PAREsnip program was utilized for comprehensive analysis and 3 families of small RNAs leading to transcript cleavage were experimentally validated. Altogether, our findings provided valuable information and important hints for better understanding the functions of the small RNAs and milRNAs in the fungal kingdom.
学科主题	Multidisciplinary Sciences
语种	英语
出版者	PUBLIC LIBRARY SCIENCE
WOS记录号	WOS:000342687200044
内容类型	期刊论文
源URL	[http://111.203.20.206/handle/2HMLN22E/4848]
专题	作物科学研究所_种质资源保存与研究中心
作者单位	1.Tianjin Acad Agr Sci, Tianjin Inst Agr Qual Standard & Testing Technol, Tianjin, Peoples R China 2.Chinese Acad Agr Sci, Inst Crop Sci, Natl Key Facil Crop Genet Resources & Improvement, Beijing 100193, Peoples R China 3.Chinese Acad Sci, Inst Appl Ecol, Shenyang 110016, Peoples R China
推荐引用方式 GB/T 7714	Chen, Rui,Jiang, Nan,Jiang, Qiyan,et al. Exploring MicroRNA-Like Small RNAs in the Filamentous Fungus Fusarium oxysporum[J]. PLOS ONE,2014,9(8):-.
APA	Chen, Rui.,Jiang, Nan.,Jiang, Qiyan.,Sun, Xianjun.,Wang, Yong.,...&Hu, Zheng.(2014).Exploring MicroRNA-Like Small RNAs in the Filamentous Fungus Fusarium oxysporum.PLOS ONE,9(8),-.
MLA	Chen, Rui,et al."Exploring MicroRNA-Like Small RNAs in the Filamentous Fungus Fusarium oxysporum".PLOS ONE 9.8(2014):-.