Integrated omics study delineates the dynamics of lipid droplets in Rhodococcus opacus PD630.
Integrated omics study delineates the dynamics of lipid droplets in Rhodococcus opacus PD630.
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综合组学研究描绘了浑浊红球菌 PD630 中脂滴的动态
DOI：
10.1093/nar/gkt932
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发表时间：
2014-01
影响因子：
14.9
通讯作者：
Liu P
中科院分区：
文献类型：
--
作者：
Chen Y;Ding Y;Yang L;Yu J;Liu G;Wang X;Zhang S;Yu D;Song L;Zhang H;Zhang C;Huo L;Huo C;Wang Y;Du Y;Zhang H;Zhang P;Na H;Xu S;Zhu Y;Xie Z;He T;Zhang Y;Wang G;Fan Z;Yang F;Liu H;Wang X;Zhang X;Zhang MQ;Li Y;Steinbüchel A;Fujimoto T;Cichello S;Yu J;Liu P
不透明红球菌PD630（R. opacus PD630）是一种产油细菌，也是少数含有脂滴（LD）的原核生物之一。LD是一种重要的细胞器，不仅用于脂质储存，而且还用于能量代谢方面的细胞间通讯，但仍是一种知之甚少的细胞器。为了利用简单的模式生物了解LD的动态，我们对R. opacus PD630的全基因组、转录组和蛋白质组分析。R. opacus PD630编码8947个基因，在脂质转运、合成和代谢方面有显著富集，显示出超强的碳源合成和催化能力。比较转录组分析从三个文化条件下揭示了景观的基因改变的表达负责脂质积累。LD蛋白质组进一步鉴定了介导脂质合成、储存和其他生物学功能的蛋白质。整合这三个组学发现了177个可能参与脂质代谢和LD动力学的蛋白质。进一步验证了LD结构样蛋白LPD 06283对LD形态的影响。我们的组学研究不仅提供了第一个完整的原核LD细胞器的组学研究，也是一个系统的平台，促进进一步的原核LD研究和生物燃料的开发。
Rhodococcus opacus strain PD630 (R. opacus PD630), is an oleaginous bacterium, and also is one of few prokaryotic organisms that contain lipid droplets (LDs). LD is an important organelle for lipid storage but also intercellular communication regarding energy metabolism, and yet is a poorly understood cellular organelle. To understand the dynamics of LD using a simple model organism, we conducted a series of comprehensive omics studies of R. opacus PD630 including complete genome, transcriptome and proteome analysis. The genome of R. opacus PD630 encodes 8947 genes that are significantly enriched in the lipid transport, synthesis and metabolic, indicating a super ability of carbon source biosynthesis and catabolism. The comparative transcriptome analysis from three culture conditions revealed the landscape of gene-altered expressions responsible for lipid accumulation. The LD proteomes further identified the proteins that mediate lipid synthesis, storage and other biological functions. Integrating these three omics uncovered 177 proteins that may be involved in lipid metabolism and LD dynamics. A LD structure-like protein LPD06283 was further verified to affect the LD morphology. Our omics studies provide not only a first integrated omics study of prokaryotic LD organelle, but also a systematic platform for facilitating further prokaryotic LD research and biofuel development.
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影响因子：
2.3
作者：
Fujimoto, Toyoshi;Ohsaki, Yuki;Cheng, Jinglei;Suzuki, Michitaka;Shinohara, Yuki
通讯作者：
Shinohara, Yuki
影响因子：
14.9
作者：
Kanehisa M;Goto S;Sato Y;Furumichi M;Tanabe M
通讯作者：
Tanabe M
影响因子：
1.7
作者：
Jurka, J;Kapitonov, VV;Walichiewicz, J
通讯作者：
Walichiewicz, J
影响因子：
14.9
作者：
Hunter S;Jones P;Mitchell A;Apweiler R;Attwood TK;Bateman A;Bernard T;Binns D;Bork P;Burge S;de Castro E;Coggill P;Corbett M;Das U;Daugherty L;Duquenne L;Finn RD;Fraser M;Gough J;Haft D;Hulo N;Kahn D;Kelly E;Letunic I;Lonsdale D;Lopez R;Madera M;Maslen J;McAnulla C;McDowall J;McMenamin C;Mi H;Mutowo-Muellenet P;Mulder N;Natale D;Orengo C;Pesseat S;Punta M;Quinn AF;Rivoire C;Sangrador-Vegas A;Selengut JD;Sigrist CJ;Scheremetjew M;Tate J;Thimmajanarthanan M;Thomas PD;Wu CH;Yeats C;Yong SY
通讯作者：
Yong SY
影响因子：
4.2
作者：
Alvarez, HM;Silva, RA;Steinbüchel, A
通讯作者：
Steinbüchel, A