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Reconstruction and analysis of a three‐compartment genome‐scale metabolic model for Pseudomonas fluorescensPseudomonas fluorescens

机译:三室基因组代谢模型的重建与分析 假单胞菌荧光荧光荧光荧光剂

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Abstract > With the versatile metabolic diversity, Pseudomonas fluorescens is a potential candidate in petroleum aromatic hydrocarbon (PAH) bioremediation. Genome‐scale metabolic model (GSMM) can provide systematic information to guide the development of metabolic engineering strategy to improve microbial activity. In this study, a GSMM for P.?fluorescens SBW25 was reconstructed, which is termed as lCW1057. The reconstruction was based on automatic reannotation and manual curation. The periplasmic compartment was constructed to better represent the proton gradient profile. The reconstructed proton transport chain has a P/O (ATP generated per atom oxygen consumed by the respiratory chain) ratio of 11/8. Flux balance analysis (FBA) was performed to explore the whole‐cell metabolic flow. The model suggested that instead of Embden–Meyerhof–Parnas pathway, Entner–Doudoroff pathway was used in glycolytic metabolism of P.?fluorescens , indicating that the growth of P.?fluorescens is more energy dependent. Furthermore, P.?fluorescens can use nitrate as the terminal electron acceptor for the glucose metabolism. The β‐ketoadipate pathway was involved in catechol metabolism. The uptake of oxygen is mandatory for the aromatic ring cleavage. The in silico and in vitro maximum specific growth rate was compared, resulting in 10% difference when catechol was used as the sole carbon source. </abstract> </span> <span class="z_kbtn z_kbtnclass hoverxs" style="display: none;">展开▼</span> </div> <div class="translation abstracttxt"> <span class="zhankaihshouqi fivelineshidden" id="abstract"> <span>机译:</span><Abstract Type =“Main”XML:Lang =“en”> <标题类型=“main”>抽象</ title> > 随着多功能的代谢多样性, 假单胞菌荧光荧光素</ i> 是石油芳烃(PAH)生物化的潜在候选物。基因组级代谢模型(GSMM)可以提供系统信息,以指导代谢工程策略的发展,以改善微生物活动。在这项研究中,一个GSMM p.?fluorescens </ i> 重建SBW25,被称为LCW1057。重建是基于自动的成果和手动策策。构建过周质室以更好地代表质子梯度曲线。重建的质子传输链具有11/8的P / O(呼吸链消耗的每次原子氧产生的ATP)的比例。进行通量平衡分析(FBA)以探讨全细胞代谢流。该模型建议,而不是Embden-Meyerhof-Parnas途径,Entner-doudoroff途径用于糖酵解代谢 p.?fluorescens </ i> ,表明增长了 p.?fluorescens </ i> 更有能量依赖。此外, p.?fluorescens </ i> 可以使用硝酸盐作为葡萄糖代谢的末端电子受体。 β-酮饼型途径参与儿茶酚代谢。对于芳香环切割是强制性的氧气的吸收。这 在Silico </ i> 和 在体外</ i> 比较最大的比较速率,导致儿茶酚用作唯一碳源时10%的差异。 </ p> </摘要> </span> <span class="z_kbtn z_kbtnclass hoverxs" style="display: none;">展开▼</span> </div> </div> <div class="record"> <h2 class="all_title" id="enpatent33" >著录项</h2> <ul> <li> <span class="lefttit">来源</span> <div style="width: 86%;vertical-align: text-top;display: inline-block;"> <a href='/journal-foreign-15016/'>《Biotechnology and Applied Biochemistry》</a> <b style="margin: 0 2px;">|</b><span>2020年第1期</span><b style="margin: 0 2px;">|</b><span>共7页</span> </div> </li> <li> <div class="author"> <span class="lefttit">作者</span> <p id="fAuthorthree" class="threelineshidden zhankaihshouqi"> </p> <span class="z_kbtnclass z_kbtnclassall hoverxs" id="zkzz" style="display: none;">展开▼</span> </div> </li> <li> <div style="display: flex;"> <span class="lefttit">作者单位</span> <div style="position: relative;margin-left: 3px;max-width: 639px;"> <div class="threelineshidden zhankaihshouqi" id="fOrgthree"> </div> <span class="z_kbtnclass z_kbtnclassall hoverxs" id="zhdw" style="display: none;">展开▼</span> </div> </div> </li> <li > <span class="lefttit">收录信息</span> <span style="width: 86%;vertical-align: text-top;display: inline-block;"></span> </li> <li> <span class="lefttit">原文格式</span> <span>PDF</span> </li> <li> <span class="lefttit">正文语种</span> <span>eng</span> </li> <li> <span class="lefttit">中图分类</span> <span><a href="https://www.zhangqiaokeyan.com/clc/180.html" title="生物工程学(生物技术)">生物工程学(生物技术);</a><a href="https://www.zhangqiaokeyan.com/clc/177.html" title="生物化学">生物化学;</a></span> </li> <li class="antistop"> <span class="lefttit">关键词</span> <p style="width: 86%;vertical-align: text-top;"> <a style="color: #3E7FEB;" href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=genome‐scale metabolic model&option=203" rel="nofollow">genome‐scale metabolic model;</a> <a style="color: #3E7FEB;" href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Pseudomonas fluorescens&option=203" rel="nofollow">Pseudomonas fluorescens;</a> <a style="color: #3E7FEB;" href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=catechol&option=203" rel="nofollow">catechol;</a> <a style="color: #3E7FEB;" href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=bioremediation&option=203" rel="nofollow">bioremediation;</a> </p> <div class="translation"> 机译:基因组级代谢模型;荧光荧光;儿茶酚;生物修复; 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