Patterns of thaumarchaeal gene expression in culture and diverse marine environments

Carini Paul; Dupont Christopher L.; Santoro Alyson E.

摘要

Summary > Thaumarchaea are ubiquitous in marine habitats where they participate in carbon and nitrogen cycling. Although metatranscriptomes suggest thaumarchaea are active microbes in marine waters, we understand little about how thaumarchaeal gene expression patterns relate to substrate utilization and activity. Here, we report the global transcriptional response of the marine ammonia‐oxidizing thaumarchaeon ‘ Candidatus Nitrosopelagicus brevis’ str. CN25 to ammonia limitation using RNA‐Seq. We further describe the genome and transcriptome of Ca . N. brevis str. U25, a new strain capable of urea utilization. Ammonia limitation in CN25 resulted in reduced expression of transcripts coding for ammonia oxidation proteins, and increased expression of a gene coding an Hsp20‐like chaperone. Despite significantly different transcript abundances across treatments, two ammonia monooxygenase subunits ( amoAB ), a nitrite reductase ( nirK ) and both ammonium transporter genes were always among the most abundant transcripts, regardless of growth state. Ca . N. brevis str. U25 cells expressed a urea transporter 139‐fold more than the urease catalytic subunit ureC . Gene coexpression networks derived from culture transcriptomes and 10 thaumarchaea‐enriched metatranscriptomes revealed a high degree of correlated gene expression across disparate environmental conditions and identified a module of coexpressed genes, including amoABC and nirK , that we hypothesize to represent the core ammonia oxidation machinery. </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> > thaumarchaea是普遍存在的海洋栖息地，他们参与碳和氮循环。虽然metaTranscriptomes表明硫砂是海水中的活性微生物，但我们毫无理解的是如何与基质利用和活性有关。在这里，我们报告了海洋氨氧化的全局转录反应Thaumarchaeon' Candidatus </ i>硝基吡咯的Brevis'str。 CN25使用RNA-SEQ氨的限制。我们进一步描述了 Ca-i>的基因组和转录组。 N. Brevis str。 U25，一种能够利用尿素利用的新菌株。 CN25中的氨限制导致对氨氧化蛋白的转录物的表达减少，并增加了编码Hsp20样伴侣的基因的表达。尽管治疗的显着不同的转录性丰度，但两种氨单氧基酶亚基（ amoAb），亚硝酸盐还原酶（钠</ i）和铵转运蛋白基因始终是最丰富的成绩单之一，无论如何）生长状态。 ca </ i>。 N. Brevis str。 U25细胞表达了尿素转运蛋白，比脲酶催化亚基（尿素催化亚基）表示尿素转运蛋白。源自培养转录om和10个富含素富集的metaTranscraphy om的基因共抑制网络揭示了跨不同环境条件的高度相关的基因表达，并鉴定了共表达基因的模块，包括 amoabc </ i>和 nirk </ i >，我们假设代表核心氧化机械。 </ 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13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=Carini Paul&option=202" target="_blank" rel="nofollow">Carini Paul;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Dupont Christopher L.&option=202" target="_blank" rel="nofollow">Dupont Christopher L.;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Santoro Alyson E.&option=202" target="_blank" rel="nofollow">Santoro Alyson 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>Horn Point LaboratoryUniversity of Maryland Center for Environmental ScienceCambridge MD 21613 USA;</p> <p>J. Craig Venter InstituteSan Diego CA 92037 USA;</p> <p>Horn Point LaboratoryUniversity of Maryland Center for Environmental ScienceCambridge MD 21613 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"> <div class="similarity "> <h3 class="all_title" id="enpatent66">相似文献</h3> <div class="similaritytab clearfix"> <ul> <li class="active" >外文文献</li> <li >中文文献</li> <li >专利</li> </ul> </div> <div class="similarity_details"> <ul > <li> <div> <b>1. </b><a class="enjiyixqcontent" href="/journal-foreign-detail/0704023228771.html">Patterns of thaumarchaeal gene expression in culture and diverse marine environments</a> <b>[J]</b> . <span> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Carini Paul&option=202" target="_blank" rel="nofollow" class="tuijian_auth tuijian_authcolor">Carini Paul,</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Dupont Christopher L.&option=202" target="_blank" rel="nofollow" class="tuijian_auth tuijian_authcolor">Dupont Christopher L.,</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Santoro Alyson E.&option=202" target="_blank" rel="nofollow" class="tuijian_auth tuijian_authcolor">Santoro Alyson E. </a> <a href="/journal-foreign-22868/" target="_blank" rel="nofollow" class="tuijian_authcolor">Environmental microbiology .</a> <span>2018</span> <span>,第6期</span> </span> </div> <p class="zwjiyix translation" style="max-width: initial;height: auto;word-break: break-all;white-space: initial;text-overflow: initial;overflow: initial;"> <span>机译：培养和各种海洋环境中的Thaumarchaeal基因表达的模式</span> </p> </li> <li> <div> <b>2. </b><a class="enjiyixqcontent" href="/journal-foreign-detail/0704012937712.html">A day in the life in the dynamic marine environment: how nutrients shape diel patterns of phytoplankton photosynthesis and carbon fixation gene expression in the Mississippi and Orinoco River plumes.</a> <b>[J]</b> . <span> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=John D. 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. 侯一农</a> <span> <a href="/conference-cn-7892/" target="_blank" rel="nofollow" class="tuijian_authcolor"> . 第二届中国教育国际化与信息化论坛 </a> <span> <span> . 2012</span> </span> </div> </li> <li> <div> <b>7. </b><a class="enjiyixqcontent" href="/academic-degree-domestic_mphd_thesis/020311459661.html">抑制人SOST基因表达的腺病毒构建及其对间接共培养体系中MG-63细胞的影响</a> <b>[A] </b> <span> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=程俊雄&option=202" target="_blank" rel="nofollow" class="tuijian_auth tuijian_authcolor"> . 程俊雄</a> <span> . 2016</span> </span> </div> </li> </ul> <ul style="display: none;"> <li> <div> <b>1. </b><a class="enjiyixqcontent" href="/patent-detail/061204518375.html">一种靶向沉默害虫模式识别蛋白GNBP3基因表达的重组真菌及在害虫防治中的应用</a> <b>[P]</b> . <span> 中国专利： CN110759983B </span> <span> . 2021.07.09</span> </div> </li> <li> <div> <b>2. </b><a class="enjiyixqcontent" href="/patent-detail/06120103387695.html">一种靶向沉默害虫模式识别蛋白GNBP3基因表达的重组真菌及在害虫防治中的应用</a> <b>[P]</b> . <span> 中国专利： CN110759983A </span> <span> . 2020-02-07</span> </div> </li> <li> <div> <b>3. </b><a class="enjiyixqcontent" href="/patent-detail/06130462789640.html">Process for the expression of genes in plants, the parts of plants and cell cultures vegetable, and the dna fragments, plasmids and micro - organisms processed to be used during the implementation of the process, and the use of that - ci for the expression of genes in plants, the parts of plants and cell cultures vegetable</a> <b>[P]</b> . <span> 外国专利：  FR2603451B1 </span> <span> . 1992-03-06</span> </div> <p class="zwjiyix translation" style="max-width: initial;height: auto;word-break: break-all;white-space: initial;text-overflow: initial;overflow: initial;"> <span>机译：在植物，植物和细胞培养的植物部分中表达基因的过程，以及在该过程的实施过程中要使用的dna片段，质粒和微生物的表达，以及使用ci来表达植物，植物部位和细胞培养物中的基因蔬菜 </span> </p> </li> <li> <div> <b>4. </b><a class="enjiyixqcontent" href="/patent-detail/06130468416905.html">METHOD FOR THE EXPRESSION OF GENES IN PLANTS, PARTS OF PLANTS AND CELL CULTURES, AND FRAGMENTS OF DNA, PLASMIDS AND TRANSFORMED MICROORGANISMS FOR USE IN THE IMPLEMENTATION OF THE METHOD, AND USE OF THE SAME CI FOR THE EXPRESSION OF GENES IN PLANTS, PARTS OF PLANTS AND PLANT CELL CULTURES</a> <b>[P]</b> . <span> 外国专利：  FR2603451A1 </span> <span> . 1988-03-11</span> </div> <p class="zwjiyix translation" style="max-width: initial;height: auto;word-break: break-all;white-space: initial;text-overflow: initial;overflow: initial;"> <span>机译：在植物，部分植物和细胞培养物中表达基因的方法，以及用于实施该方法的DNA，质粒和转化的微生物片段，以及使用同一CI在植物，部分植物中表达基因的方法植物和植物细胞培养 </span> </p> </li> <li> <div> <b>5. </b><a class="enjiyixqcontent" href="/patent-detail/06130470319288.html">A METHOD FOR THE EXPRESSION OF GENES IN PLANTS, PARTS OF¹PLANTS, AND PLANT CELL CULTURES, AND DNA FRAGMENTS,¹PLASMIDS, AND TRANSFORMED MICROORGANISMS TO BE USED WHEN¹CARRYING OUT THE METHOD, AS WELL AS THE USE THEREOF FOR THE¹EXPRESSION OF GENES IN PLANTS PARTS OF PLANTS, AND PLANT¹CELL CULTURES</a> <b>[P]</b> . <span> 外国专利：  IE870201L </span> <span> . 1987-07-28</span> </div> <p class="zwjiyix translation" style="max-width: initial;height: auto;word-break: break-all;white-space: initial;text-overflow: initial;overflow: initial;"> <span>机译：一种在植物中表达基因的方法，在进行该方法时要使用一种表达植物中基因的方法，并将其用于表达植物中的基因，以及植物细胞培养 </span> </p> </li> </ul> </div> </div> </div> <div class="theme cardcommon" style="overflow: auto;display:none"> <h3 class="all_title" id="enpatent55">相关主题</h3> <ul id="subject"> </ul> </div> </div> </div> </div> <div class="right rightcon"> <div class="details_img cardcommon clearfix" style="margin-bottom: 10px;display:none;" > </div> </div> </div> <div id="thesis_get_original1" class="downloadBth" style="bottom: 19px;z-index: 999;" onclick="ywcd('0704023228771','4',7,2,1,'',this,24)" class="delivery" prompt="010401" title="通过人工服务将文献原文发送至邮箱" >获取原文</div> <div class="journalsub-pop-up" style="display: none"> <div class="journal-sub"> <h2>期刊订阅</h2> <img src="https://cdn.zhangqiaokeyan.com/img/loginclose.png" alt="关闭" 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