Genome‐based evolutionary history of        <i xmlns='http://www.wiley.com/namespaces/wiley'>PseudomonasPseudomonas        spp

Hesse Cedar; Schulz Frederik; Bull Carolee T.; Shaffer Brenda T.; Yan Qing; Shapiro Nicole; Hassan Karl A.; Varghese Neha; Elbourne Liam D. H.; Paulsen Ian T.; Kyrpides Nikos; Woyke Tanja; Loper Joyce E.

摘要

Summary > Pseudomonas is a large and diverse genus of Gammaproteobacteria . To provide a framework for discovery of evolutionary and taxonomic relationships of these bacteria, we compared the genomes of type strains of 163 species and 3 additional subspecies of Pseudomonas , including 118 genomes sequenced herein. A maximum likelihood phylogeny of the 166 type strains based on protein sequences of 100 single‐copy orthologous genes revealed thirteen groups of Pseudomonas , composed of two to sixty three species each. Pairwise average nucleotide identities and alignment fractions were calculated for the data set of the 166 type strains and 1224 genomes of Pseudomonas available in public databases. Results revealed that 394 of the 1224 genomes were distinct from any type strain, suggesting that the type strains represent only a fraction of the genomic diversity of the genus. The core genome of Pseudomonas was determined to contain 794 genes conferring primarily housekeeping functions. The results of this study provide a phylogenetic framework for future studies aiming to resolve the classification and phylogenetic relationships, identify new gene functions and phenotypes, and explore the ecological and metabolic potential of the Pseudomonas spp. </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 xmlns =“http://www.wiley.com/namespaces/wiley”type =“main”xml：lang =“en”> <title type =“main”>摘要</ title> > <i >假单胞菌</ i>是丙曲曲杆菌的一个大而多样化的属，</ i>。为了提供关于这些细菌的进化和分类和分类关系的框架，我们比较了163种的类型菌株的基因组和3个额外的假单胞菌的额外亚种，包括本文测序的118个基因组。基于100个单拷贝正交基因的蛋白质序列的166型菌株的最大似然性系统发育显示，由两到六十三种物种组成的十三组假单胞菌。对公共数据库中可用的166型菌株的数据集和1224个基因组的数据集进行计算成对平均核苷酸同一性和对准级分。结果表明，1224个基因组中的394种不同于任何类型的菌株，表明菌株仅代表该属的基因组多样性的一部分。确定假单胞菌的核心基因组含有794个基因，主要是管家功能。本研究的结果为未来的研究提供了系统发育框架，旨在解决分类和系统发育关系，鉴定新的基因功能和表型，并探讨假单胞菌SPP的生态和代谢潜力。 </ p> </ abstract> </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-22868/'>《Environmental microbiology》</a> <b style="margin: 0 2px;">|</b><span>2018年第6期</span><b style="margin: 0 2px;">|</b><span>共18页</span> </div> </li> <li> <div class="author"> <span class="lefttit">作者</span> <p id="fAuthorthree" class="threelineshidden zhankaihshouqi"> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Hesse Cedar&option=202" target="_blank" rel="nofollow">Hesse Cedar;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Schulz Frederik&option=202" target="_blank" rel="nofollow">Schulz Frederik;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Bull Carolee T.&option=202" target="_blank" rel="nofollow">Bull Carolee T.;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Shaffer Brenda T.&option=202" target="_blank" rel="nofollow">Shaffer Brenda T.;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Yan Qing&option=202" target="_blank" rel="nofollow">Yan Qing;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Shapiro Nicole&option=202" target="_blank" rel="nofollow">Shapiro Nicole;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Hassan Karl A.&option=202" target="_blank" rel="nofollow">Hassan Karl A.;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Varghese Neha&option=202" target="_blank" rel="nofollow">Varghese Neha;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Elbourne Liam D. H.&option=202" target="_blank" rel="nofollow">Elbourne Liam D. H.;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Paulsen Ian T.&option=202" target="_blank" rel="nofollow">Paulsen Ian T.;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Kyrpides Nikos&option=202" target="_blank" rel="nofollow">Kyrpides Nikos;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Woyke Tanja&option=202" target="_blank" rel="nofollow">Woyke Tanja;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Loper Joyce E.&option=202" target="_blank" rel="nofollow">Loper Joyce E.;</a> </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"> <p>US Department of AgricultureAgricultural Research Service Horticultural Crops Research LaboratoryCorvallis OR USA;</p> <p>US Department of EnergyJoint Genome InstituteWalnut Creek CA USA;</p> <p>Department of Plant Pathology and Environmental MicrobiologyPenn StateUniversity Park PA USA;</p> <p>US Department of AgricultureAgricultural Research Service Horticultural Crops Research LaboratoryCorvallis OR USA;</p> <p>Department of Botany and Plant PathologyOregon State UniversityCorvallis OR USA;</p> <p>US Department of EnergyJoint Genome InstituteWalnut Creek CA USA;</p> <p>School of Environmental and Life SciencesThe University of NewcastleCallaghan NSW Australia;</p> <p>US Department of EnergyJoint Genome InstituteWalnut Creek CA USA;</p> <p>Department of Molecular SciencesMacquarie UniversityNSW Australia;</p> <p>Department of Molecular SciencesMacquarie UniversityNSW Australia;</p> <p>US Department of EnergyJoint Genome InstituteWalnut Creek CA USA;</p> <p>US Department of EnergyJoint Genome InstituteWalnut Creek CA USA;</p> <p>US Department of AgricultureAgricultural Research Service Horticultural Crops Research LaboratoryCorvallis OR USA;</p> </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/183.html" title="微生物学">微生物学;</a></span> </li> <li class="antistop"> <span class="lefttit">关键词</span> <p style="width: 86%;vertical-align: text-top;"> </p> </li> </ul> </div> </div> <div class="literature cardcommon" id="literaturereference" style="display:none"> <div class="similarity "> <h3 class="all_title" id="enpatent111">引文网络</h3> <div class="referencetab clearfix"> <ul id="referencedaohang"> <li dataid="referenceul">参考文献</li> <li dataid="citationul">引证文献</li> <li 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Genome‐based evolutionary history of PseudomonasPseudomonas spp

摘要