Untangling the cecal microbiota of feral chickens by culturomic and metagenomic analyses

Ferrario Chiara; Alessandri Giulia; Mancabelli Leonardo; Gering Eben; Mangifesta Marta; Milani Christian; Lugli Gabriele Andrea; Viappiani Alice; Duranti Sabrina; Turroni Francesca; Ossiprandi Maria Cristina; Hiyashi Ricardo; Mackie Roderick; van Sinderen Douwe; Ventura Marco

摘要

Summary > Different factors may modulate the gut microbiota of animals. In any particular environment, diet, genetic factors and human influences can shape the bacterial?communities residing in the gastrointestinal tract.?Metagenomic approaches have significantly expanded our knowledge on microbiota dynamics inside hosts, yet cultivation and isolation of bacterial members of these complex ecosystems may still be necessary to fully understand interactions between bacterial communities and their host. A dual approach, involving culture‐independent and ‐dependent techniques, was used here to decipher the microbiota communities that inhabit the gastro intestinal tract of free‐range, broiler and feral chickens. In silico analysis revealed the presence of a core microbiota that is typical of those animals that live in different geographical areas and that have limited contact with humans. Anthropic influences guide the metabolic potential and the presence of antibiotic resistance genes of these different bacterial communities. Culturomics attempts, based on different cultivation conditions, were applied to reconstruct in vitro the microbiota of feral chickens. A unique strain collection representing members of the four major phyla of the poultry microbiota was assembled, including bacterial strains that are not typically retrieved from the chicken gut. </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> >不同的因素可以调节动物的肠道微生物群。在任何特定的环境中，饮食，遗传因素和人类影响都可以塑造细菌？居住在胃肠道中的社区。更明显地扩展了我们对宿主内微生物群动态的了解，但这些复杂生态系统的细菌成员的培养和分离可能仍然有必要充分了解细菌社区与其宿主之间的相互作用。这里使用了涉及文化和依赖技术的双重方法，以破译栖息于自由射程，肉鸡和野鸡的Gastro肠道的微生物群社区。在硅中，分析揭示了核心微生物的存在，这是典型的那些生活在不同地理区域的动物，并且与人类有限。人类影响引导了这些不同细菌群落的代谢潜力和存在抗生素抗性基因。基于不同的培养条件，将培养瘤的尝试施用于野生鸡的微生物群中重建。组装代表家禽微生物的四个主要诸至禽微生物的构件的独特应变系列，包括通常从鸡肠道检索的细菌菌株。 </ 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>2017年第11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=Ferrario Chiara&option=202" target="_blank" rel="nofollow">Ferrario Chiara;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Alessandri Giulia&option=202" target="_blank" rel="nofollow">Alessandri Giulia;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Mancabelli Leonardo&option=202" target="_blank" rel="nofollow">Mancabelli Leonardo;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Gering Eben&option=202" target="_blank" rel="nofollow">Gering Eben;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Mangifesta Marta&option=202" target="_blank" rel="nofollow">Mangifesta Marta;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Milani Christian&option=202" target="_blank" rel="nofollow">Milani Christian;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Lugli Gabriele Andrea&option=202" target="_blank" rel="nofollow">Lugli Gabriele Andrea;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Viappiani Alice&option=202" target="_blank" rel="nofollow">Viappiani Alice;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Duranti Sabrina&option=202" target="_blank" rel="nofollow">Duranti Sabrina;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Turroni Francesca&option=202" target="_blank" rel="nofollow">Turroni Francesca;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Ossiprandi Maria Cristina&option=202" target="_blank" rel="nofollow">Ossiprandi Maria Cristina;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Hiyashi Ricardo&option=202" target="_blank" rel="nofollow">Hiyashi Ricardo;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Mackie Roderick&option=202" target="_blank" rel="nofollow">Mackie Roderick;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=van Sinderen Douwe&option=202" target="_blank" rel="nofollow">van Sinderen Douwe;</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Ventura Marco&option=202" target="_blank" rel="nofollow">Ventura Marco;</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>Laboratory of Probiogenomics Department of Chemical Sciences Life Sciences and Environmental SustainabilityUniversity of ParmaParma Italy;</p> <p>Laboratory of Probiogenomics Department of Chemical Sciences Life Sciences and Environmental SustainabilityUniversity of ParmaParma Italy;</p> <p>Laboratory of Probiogenomics Department of Chemical Sciences Life Sciences and Environmental SustainabilityUniversity of ParmaParma Italy;</p> <p>Kellogg Biological StationMichigan State University Department of Zoology 3700 East Gull Lake RoadHickory Corners MI 49060 USA;</p> <p>GenProbio srlParma Italy;</p> <p>Laboratory of Probiogenomics Department of Chemical Sciences Life Sciences and Environmental SustainabilityUniversity of ParmaParma Italy;</p> <p>Laboratory of Probiogenomics Department of Chemical Sciences Life Sciences and Environmental SustainabilityUniversity of ParmaParma Italy;</p> <p>GenProbio srlParma Italy;</p> <p>Laboratory of Probiogenomics Department of Chemical Sciences Life Sciences and Environmental SustainabilityUniversity of ParmaParma Italy;</p> <p>Laboratory of Probiogenomics Department of Chemical Sciences Life Sciences and Environmental SustainabilityUniversity of ParmaParma Italy;</p> <p>Microbiome Research HubUniversity of ParmaParma Italy;</p> <p>Department of Animal SciencesUniversity of IllinoisUrbana IL 61801 USA;</p> <p>Carle R. Woese Institute for Genomic Biology Division of Nutritional SciencesUniversity of IllinoisUrbana IL 61801 USA;</p> <p>APC Microbiome Institute and School of Microbiology Bioscience InstituteNational University of IrelandCork Ireland;</p> <p>Laboratory of Probiogenomics Department of Chemical Sciences Life Sciences and Environmental SustainabilityUniversity of ParmaParma Italy;</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 dataid="commonreferenceul">共引文献</li> <li dataid="commoncitationul">同被引文献</li> <li dataid="tworeferenceul">二级参考文献</li> <li dataid="twocitationul">二级引证文献</li> </ul> </div> <div class="reference_details" id="referenceList"> <ul id="referenceul"></ul> <ul id="citationul"></ul> <ul id="commonreferenceul"></ul> <ul id="commoncitationul"></ul> <ul id="tworeferenceul"></ul> <ul id="twocitationul"></ul> </div> </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 > 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efficiency in Xiayan chickens</a> <b>[O] </b> . <span> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Wenya Du&option=202" target="_blank" rel="nofollow" class="tuijian_auth tuijian_authcolor">Wenya Du,</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Jixian Deng&option=202" target="_blank" rel="nofollow" class="tuijian_auth tuijian_authcolor">Jixian Deng,</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Zhuliang Yang&option=202" target="_blank" rel="nofollow" class="tuijian_auth tuijian_authcolor">Zhuliang Yang,</a> <span>2020</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：Metagenomic分析揭示了XIAYAN鸡的CECAL Microbiota与饲料效率之间的联系</span> </p> </li> <li> <div> <b>12. </b><a class="enjiyixqcontent" href="/open-access_resources_thesis/01000131666685.html">The Gut Microbiota composition of Feral and Tamworth Pigs determined using High-Throughput Culturomics and Metagenomics Reveals Compositional Variations When Compared to the Commercial Breeds</a> <b>[O] </b> . <span> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Gavin J. Fenske&option=202" target="_blank" rel="nofollow" class="tuijian_auth tuijian_authcolor">Gavin J. Fenske,</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Sudeep Ghimire&option=202" target="_blank" rel="nofollow" class="tuijian_auth tuijian_authcolor">Sudeep Ghimire,</a> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=Linto Antony&option=202" target="_blank" rel="nofollow" class="tuijian_auth tuijian_authcolor">Linto Antony,</a> <span>2019</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：使用高通量培养族菌和Metagenomics测定的野生和Tamworth猪的肠道微生物群组成揭示了与商业品种相比的组成变化</span> </p> </li> </ul> <ul style="display: none;"> <li> <div> <b>1. </b><a class="enjiyixqcontent" href="/academic-conference-cn_meeting-39576_thesis/020222408291.html">野鸡尾南部铅锌矿成矿规律及找矿潜力分析及预测</a> <b>[C]</b> <span> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=&option=202" target="_blank" rel="nofollow" class="tuijian_auth tuijian_authcolor"> . </a> <span> <a href="/conference-cn-39576/" target="_blank" rel="nofollow" class="tuijian_authcolor"> . 2016年湖南省地质学会学术年会 </a> <span> <span> . 2016</span> </span> </div> </li> <li> <div> <b>2. </b><a class="enjiyixqcontent" href="/academic-degree-domestic_mphd_thesis/020311698853.html">广州汉族与维吾尔族青年群体间偏见及其媒介影响因素</a> <b>[A] </b> <span> <a href="/search.html?doctypes=4_5_6_1-0_4-0_1_2_3_7_9&sertext=崔泽然&option=202" target="_blank" rel="nofollow" class="tuijian_auth tuijian_authcolor"> . 崔泽然</a> <span> . 2015</span> </span> </div> </li> </ul> <ul style="display: none;"> <li> <div> <b>1. </b><a class="enjiyixqcontent" href="/patent-detail/06120209522304.html">培养基分析试管、培养基分析瓶及培养基分析袋</a> <b>[P]</b> . <span> 中国专利： CN209522846U </span> <span> . 2019.10.22</span> </div> </li> <li> <div> <b>2. </b><a class="enjiyixqcontent" href="/patent-detail/06120208022208.html">B族链球菌运送培养基及B族链球菌检测试剂盒</a> <b>[P]</b> . <span> 中国专利： CN208023034U </span> <span> . 2018.10.30</span> </div> </li> <li> <div> <b>3. </b><a class="enjiyixqcontent" href="/patent-detail/06130406554448.html">a cluster of genes encoding enzymes 36a23c), which can be used as feed additives and degradation of lignins.from a bank of metagenomics of stool microbiota dromedary.</a> <b>[P]</b> . <span> 外国专利：  TN2017000053A1 </span> <span> . 2018-07-04</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：一组编码酶36a23c）的基因，可以用作饲料添加剂和木质素的降解。来自粪便微生物单峰母系的宏基因组学研究。 </span> </p> </li> <li> <div> <b>4. </b><a class="enjiyixqcontent" href="/patent-detail/06130500512346.html">PROTEIN COMPOSITION AND METHODS FOR ANALYSING MICROBIOTA</a> <b>[P]</b> . <span> 外国专利：  US2021255197A1 </span> <span> . 2021-08-19</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：蛋白质组合物和分析微生物群的方法 </span> </p> </li> <li> <div> <b>5. </b><a class="enjiyixqcontent" href="/patent-detail/06130402759928.html">PROTEIN COMPOSITION AND METHODS FOR ANALYSING MICROBIOTA</a> <b>[P]</b> . <span> 外国专利：  EP3464610A4 </span> <span> . 2020-03-11</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：微生物组成的蛋白质组成和分析方法 </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('0704023229192','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 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