High-throughput sequencing identification and characterization of potentially adhesion-related small RNAs in Streptococcus mutans.
High-throughput sequencing identification and characterization of potentially adhesion-related small RNAs in Streptococcus mutans.
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变形链球菌中潜在粘附相关小 RNA 的高通量测序鉴定和表征
DOI：
10.1099/jmm.0.000718
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发表时间：
2018-05
影响因子：
3
通讯作者：
Lin H
中科院分区：
文献类型：
--
作者：
Zhu W;Liu S;Liu J;Zhou Y;Lin H
粘附能力是变形链球菌的主要毒力因子之一，在多种细菌中，粘附毒力因子在转录后水平上受小rna （small rna, sRNAs）控制。在这里，我们的目的是识别和破译变形链球菌临床菌株中假定的黏附相关的sRNAs。通过RNA深度测序来鉴定不同粘附条件下潜在的sRNAs。采用实时荧光定量PCR （quantitative real-time PCR, qRT-PCR）分析sRNAs的表达，并采用生物信息学方法预测sRNAs的功能特征。共预测了736个差异表达的候选sRNAs，其中352个位于mRNA反义区（AM）， 384个位于基因间区（IGRs）。通过qRT-PCR成功验证了UA159中差异表达最多的7个sRNAs，其中2个在100个临床分离株中得到进一步证实。此外，这两个sRNAs的序列在其他链球菌物种中是保守的，表明在这些密切相关的物种中具有保守作用。我们观察到100株临床菌株的sRNA表达与黏附之间存在良好的相关性，结合GO和KEGG，为理解sRNA功能注释提供了一个视角。本研究揭示了变形链球菌中大量新的推测黏附相关的sRNAs，并有助于更好地理解变形链球菌黏附的转录调控信息。
Adherence capacity is one of the principal virulence factors of Streptococcus mutans, and adhesion virulence factors are controlled by small RNAs (sRNAs) at the post-transcriptional level in various bacteria. Here, we aimed to identify and decipher putative adhesion-related sRNAs in clinical strains of S. mutans. RNA deep-sequencing was performed to identify potential sRNAs under different adhesion conditions. The expression of sRNAs was analysed by quantitative real-time PCR (qRT-PCR), and bioinformatic methods were used to predict the functional characteristics of sRNAs. A total of 736 differentially expressed candidate sRNAs were predicted, and these included 352 sRNAs located on the antisense to mRNA (AM) and 384 sRNAs in intergenic regions (IGRs). The top 7 differentially expressed sRNAs were successfully validated by qRT-PCR in UA159, and 2 of these were further confirmed in 100 clinical isolates. Moreover, the sequences of two sRNAs were conserved in other Streptococcus species, indicating a conserved role in such closely related species. A good correlation between the expression of sRNAs and the adhesion of 100 clinical strains was observed, which, combined with GO and KEGG, provides a perspective for the comprehension of sRNA function annotation. This study revealed a multitude of novel putative adhesion-related sRNAs in S. mutans and contributed to a better understanding of information concerning the transcriptional regulation of adhesion in S. mutans.
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影响因子：
3.6
作者：
Jorgensen, Mikkel Girke;Nielsen, Jesper S.;Valentin-Hansen, Poul
通讯作者：
Valentin-Hansen, Poul
酸性胁迫下变形链球菌中的小 RNA 分析为龋齿研究提供新见解
影响因子：
5.6
作者：
Liu S;Tao Y;Yu L;Zhuang P;Zhi Q;Zhou Y;Lin H
通讯作者：
Lin H
影响因子：
2.1
作者：
Lee, Heon-Jin;Hong, Su-Hyung
通讯作者：
Hong, Su-Hyung
影响因子：
3.2
作者：
Koo, H.;Xiao, J.;Jeon, J. G.
通讯作者：
Jeon, J. G.
影响因子：
6.7
作者：
Marsh, Philip D.;Devine, Deirdre A.
通讯作者：
Devine, Deirdre A.