Genome-Wide Discovery of Putative sRNAs in Paracoccus denitrificans Expressed under Nitrous Oxide Emitting Conditions.
Genome-Wide Discovery of Putative sRNAs in Paracoccus denitrificans Expressed under Nitrous Oxide Emitting Conditions.
复制标题
在一氧化二氮发射条件下表达的dinitrificans中，基因组对srNA的全基因组发现。
DOI：
10.3389/fmicb.2016.01806
复制
发表时间：
2016
影响因子：
5.2
通讯作者：
Rowley G
中科院分区：
文献类型：
--
作者：
Gaimster H;Chalklen L;Alston M;Munnoch JT;Richardson DJ;Gates AJ;Rowley G
一氧化二氮（N2O）是一种稳定的、破坏臭氧的温室气体。向大气中排放的一氧化二氮继续增加，主要是由于土壤反硝化微生物使用含氮肥料。显然，需要更有效的缓解战略来减少排放。帮助制定未来缓解策略的一种方法是解决目前对用于产生和消耗N2O的酶的转录调控的了解不足。为了实现这一最终目标，我们对土壤反硝化副球菌（paraccoccus deniticans）进行了rna测序，分别在高N2O和低N2O排放条件下厌氧培养，以及在零N2O排放条件下好氧培养，以鉴定在这些条件下转录的具有潜在调节功能的小rna （sRNAs）。sRNAs是短的（约40-500个核苷酸）非编码rna，在许多细菌中调节广泛的活性。在整个P.反硝化生物基因组中鉴定出167个sRNAs，这些sRNAs存在于基因间区域或位于orf的反义位置。此外，这些sRNAs中的许多在高N2O和低N2O排放条件下分别表达差异，表明它们可能在N2O的产生或还原中发挥作用。其中16种sRNAs的表达已被RT-PCR证实。预计90%的srna会形成二级结构。预测的靶标包括转运蛋白和一些转录调控因子。在α-变形菌门的其他成员中，许多srna是保守的。更好地了解有助于减少N2O所需机制表达的sRNA因素，反过来将有助于为减少N2O排放的战略提供信息。
Nitrous oxide (N2O) is a stable, ozone depleting greenhouse gas. Emissions of N2O into the atmosphere continue to rise, primarily due to the use of nitrogen-containing fertilizers by soil denitrifying microbes. It is clear more effective mitigation strategies are required to reduce emissions. One way to help develop future mitigation strategies is to address the currently poor understanding of transcriptional regulation of the enzymes used to produce and consume N2O. With this ultimate aim in mind we performed RNA-seq on a model soil denitrifier, Paracoccus denitrificans, cultured anaerobically under high N2O and low N2O emitting conditions, and aerobically under zero N2O emitting conditions to identify small RNAs (sRNAs) with potential regulatory functions transcribed under these conditions. sRNAs are short (∼40–500 nucleotides) non-coding RNAs that regulate a wide range of activities in many bacteria. Hundred and sixty seven sRNAs were identified throughout the P. denitrificans genome which are either present in intergenic regions or located antisense to ORFs. Furthermore, many of these sRNAs are differentially expressed under high N2O and low N2O emitting conditions respectively, suggesting they may play a role in production or reduction of N2O. Expression of 16 of these sRNAs have been confirmed by RT-PCR. Ninety percent of the sRNAs are predicted to form secondary structures. Predicted targets include transporters and a number of transcriptional regulators. A number of sRNAs were conserved in other members of the α-proteobacteria. Better understanding of the sRNA factors which contribute to expression of the machinery required to reduce N2O will, in turn, help to inform strategies for mitigation of N2O emissions.
登录
查看更多内容
SRNA在调节转录调节剂中的作用：SRNA的LRP和SOXS调节。
影响因子：
14.9
作者：
Lee HJ;Gottesman S
通讯作者：
Gottesman S
影响因子：
4.4
作者：
Khoo JS;Chai SF;Mohamed R;Nathan S;Firdaus-Raih M
通讯作者：
Firdaus-Raih M
影响因子：
6.3
作者：
Crutzen, P. J.;Mosier, A. R.;Winiwarter, W.
通讯作者：
Winiwarter, W.
影响因子：
4.1
作者：
Pain A;Ott A;Amine H;Rochat T;Bouloc P;Gautheret D
通讯作者：
Gautheret D
影响因子：
56.9
作者：
Ravishankara, A. R.;Daniel, John S.;Portmann, Robert W.
通讯作者：
Portmann, Robert W.