Analysis of the vaginal microbiome of giant pandas using metagenomics sequencing
In this study, a total of 14 vaginal samples (GPV1‐14) from giant pandas were analyzed. These vaginal samples were divided into two groups as per the region and age of giant pandas. All the vaginal samples were analyzed using metagenomic sequencing. As per the outcomes of metagenomic analysis, Prote...
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| description | In this study, a total of 14 vaginal samples (GPV1‐14) from giant pandas were analyzed. These vaginal samples were divided into two groups as per the region and age of giant pandas. All the vaginal samples were analyzed using metagenomic sequencing. As per the outcomes of metagenomic analysis, Proteobacteria (39.04%), Firmicutes (5.27%), Actinobacteria (2.94%), and Basidiomycota (2.77%) were found to be the dominant phyla in the microbiome of the vaginal samples. At the genus level, Pseudomonas (21.90%) was found to be the most dominant genus, followed by Streptococcus (3.47%), Psychrobacter (1.89%), and Proteus (1.38%). Metastats analysis of the microbial species in the vaginal samples of giant pandas from Wolong Nature Reserve, Dujiangyan and Ningbo Youngor Zoo, and Ya'an Bifengxia Nature Reserve was found to be significantly different (p |
| doi_str_mv | 10.1002/mbo3.1131 |
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| fullrecord | <record><control><sourceid>proquest_pubme</sourceid><recordid>TN_cdi_pubmedcentral_primary_oai_pubmedcentral_nih_gov_7755806</recordid><sourceformat>XML</sourceformat><sourcesystem>PC</sourcesystem><sourcerecordid>2461862486</sourcerecordid><originalsourceid>FETCH-LOGICAL-c4431-830a4ba5e64878346d017240e498bcdcfd8bb861961a49543cb21409a6b258633</originalsourceid><addsrcrecordid>eNp1kU1LAzEQhoMoVrQH_4AEvOihNV-bzV4EFb9AqQc9h2Q33UZ2k7rZrfTfm7W1VMG5zDDz8PIyLwDHGI0xQuSi1p6OMaZ4BxwQxJKRECTd3ZoHYBjCO4qVIsIZ3gcDSglKMkQPwMuVU9Uy2AD9FLYzAxeqtHEFa5s3Xltfm_5SWuVaOFeuUAF2wboS1qZVpXE-ggEG89EZl8f9EdibqiqY4bofgre729ebh9HT5P7x5upplDNG8UhQpJhWieFMpIIyXiCcEoYMy4TOi3xaCK0FxxnHimUJo7kmmKFMcU0SwSk9BJcr3Xmna1PkxrWNquS8sbVqltIrK39fnJ3J0i9kmiaJQDwKnK0FGh_Nh1bWNuSmqpQzvguSMI4FJ0z06Okf9N13TfxST6U4o1RkSaTOV1R8XAiNmW7MYCT7qGQfleyjiuzJtvsN-RNMBC5WwKetzPJ_Jfl8PaHfkl-1dpy6</addsrcrecordid><sourcetype>Open Access Repository</sourcetype><iscdi>true</iscdi><recordtype>article</recordtype><pqid>2471933895</pqid></control><display><type>article</type><title>Analysis of the vaginal microbiome of giant pandas using metagenomics sequencing</title><source>DOAJ Directory of Open Access Journals</source><source>Wiley Online Library Journals Frontfile Complete</source><source>Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals</source><source>Wiley-Blackwell Open Access Titles</source><source>PubMed Central</source><creator>Zhang, Lan ; Li, Caiwu ; Zhai, Yaru ; Feng, Lan ; Bai, Keke ; Zhang, Zhizhong ; Huang, Yan ; Li, Ti ; Li, Desheng ; Li, Hao ; Cui, Pengfei ; Chen, Danyu ; Wang, Hongning ; Yang, Xin</creator><creatorcontrib>Zhang, Lan ; Li, Caiwu ; Zhai, Yaru ; Feng, Lan ; Bai, Keke ; Zhang, Zhizhong ; Huang, Yan ; Li, Ti ; Li, Desheng ; Li, Hao ; Cui, Pengfei ; Chen, Danyu ; Wang, Hongning ; Yang, Xin</creatorcontrib><description>In this study, a total of 14 vaginal samples (GPV1‐14) from giant pandas were analyzed. These vaginal samples were divided into two groups as per the region and age of giant pandas. All the vaginal samples were analyzed using metagenomic sequencing. As per the outcomes of metagenomic analysis, Proteobacteria (39.04%), Firmicutes (5.27%), Actinobacteria (2.94%), and Basidiomycota (2.77%) were found to be the dominant phyla in the microbiome of the vaginal samples. At the genus level, Pseudomonas (21.90%) was found to be the most dominant genus, followed by Streptococcus (3.47%), Psychrobacter (1.89%), and Proteus (1.38%). Metastats analysis of the microbial species in the vaginal samples of giant pandas from Wolong Nature Reserve, Dujiangyan and Ningbo Youngor Zoo, and Ya'an Bifengxia Nature Reserve was found to be significantly different (p < 0.05). Age groups, that is, AGE1 (5‐10 years old) and AGE2 (11‐16 years old), also demonstrated significantly different inter‐group microbial species (p < 0.05). For the first time, Chlamydia and Neisseria gonorrhoeae were detected in giant pandas’ reproductive tract. GPV3 vaginal sample (2.63%) showed highest Chlamydia content followed by GPV14 (0.91%), and GPV7 (0.62%). GPV5 vaginal sample (7.17%) showed the highest Neisseria gonorrhoeae content, followed by GPV14 (7.02%), and GPV8 (6.50%). Furthermore, we employed eggNOG, CAZy, KEGG, and NCBI databases to investigate the functional significance of giant panda's vaginal microbial community. The outcomes indicated that giant panda's vaginal microbes were involved in biological processes. The data from this study will help in improving the reproductive health of giant pandas.
In this study, metagenomic sequencing methods were used to analyze the vaginal microbial population structure and gene functional activity in giant pandas. Significant differences were found in the different components of the microbiota in the reproductive tract, and they may be related to the regional and age differences. The main microbial pathways and carbohydrate‐active enzymes also varied with giant pandas’ age and region.</description><identifier>ISSN: 2045-8827</identifier><identifier>EISSN: 2045-8827</identifier><identifier>DOI: 10.1002/mbo3.1131</identifier><identifier>PMID: 33205903</identifier><language>eng</language><publisher>England: John Wiley & Sons, Inc</publisher><subject>Bioinformatics ; Biological activity ; Deoxyribonucleic acid ; DNA ; Genes ; Genomics ; giant panda ; Infertility ; metagenomic sequencing ; Metagenomics ; Microbiomes ; Microbiota ; Microorganisms ; Nature reserves ; Neisseria gonorrhoeae ; Original ; Pandas ; Reproductive health ; Reproductive system ; Software ; Vagina ; vaginal microbiome ; Wildlife conservation</subject><ispartof>MicrobiologyOpen (Weinheim), 2020-12, Vol.9 (12), p.e1131-n/a</ispartof><rights>2020 The Authors. published by John Wiley & Sons Ltd.</rights><rights>2020 The Authors. MicrobiologyOpen published by John Wiley & Sons Ltd.</rights><rights>2020. This work is published under http://creativecommons.org/licenses/by-nc-nd/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c4431-830a4ba5e64878346d017240e498bcdcfd8bb861961a49543cb21409a6b258633</citedby><cites>FETCH-LOGICAL-c4431-830a4ba5e64878346d017240e498bcdcfd8bb861961a49543cb21409a6b258633</cites><orcidid>0000-0002-7940-714X</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC7755806/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC7755806/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,725,778,782,862,883,1414,11545,27907,27908,45557,45558,46035,46459,53774,53776</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/33205903$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Zhang, Lan</creatorcontrib><creatorcontrib>Li, Caiwu</creatorcontrib><creatorcontrib>Zhai, Yaru</creatorcontrib><creatorcontrib>Feng, Lan</creatorcontrib><creatorcontrib>Bai, Keke</creatorcontrib><creatorcontrib>Zhang, Zhizhong</creatorcontrib><creatorcontrib>Huang, Yan</creatorcontrib><creatorcontrib>Li, Ti</creatorcontrib><creatorcontrib>Li, Desheng</creatorcontrib><creatorcontrib>Li, Hao</creatorcontrib><creatorcontrib>Cui, Pengfei</creatorcontrib><creatorcontrib>Chen, Danyu</creatorcontrib><creatorcontrib>Wang, Hongning</creatorcontrib><creatorcontrib>Yang, Xin</creatorcontrib><title>Analysis of the vaginal microbiome of giant pandas using metagenomics sequencing</title><title>MicrobiologyOpen (Weinheim)</title><addtitle>Microbiologyopen</addtitle><description>In this study, a total of 14 vaginal samples (GPV1‐14) from giant pandas were analyzed. These vaginal samples were divided into two groups as per the region and age of giant pandas. All the vaginal samples were analyzed using metagenomic sequencing. As per the outcomes of metagenomic analysis, Proteobacteria (39.04%), Firmicutes (5.27%), Actinobacteria (2.94%), and Basidiomycota (2.77%) were found to be the dominant phyla in the microbiome of the vaginal samples. At the genus level, Pseudomonas (21.90%) was found to be the most dominant genus, followed by Streptococcus (3.47%), Psychrobacter (1.89%), and Proteus (1.38%). Metastats analysis of the microbial species in the vaginal samples of giant pandas from Wolong Nature Reserve, Dujiangyan and Ningbo Youngor Zoo, and Ya'an Bifengxia Nature Reserve was found to be significantly different (p < 0.05). Age groups, that is, AGE1 (5‐10 years old) and AGE2 (11‐16 years old), also demonstrated significantly different inter‐group microbial species (p < 0.05). For the first time, Chlamydia and Neisseria gonorrhoeae were detected in giant pandas’ reproductive tract. GPV3 vaginal sample (2.63%) showed highest Chlamydia content followed by GPV14 (0.91%), and GPV7 (0.62%). GPV5 vaginal sample (7.17%) showed the highest Neisseria gonorrhoeae content, followed by GPV14 (7.02%), and GPV8 (6.50%). Furthermore, we employed eggNOG, CAZy, KEGG, and NCBI databases to investigate the functional significance of giant panda's vaginal microbial community. The outcomes indicated that giant panda's vaginal microbes were involved in biological processes. The data from this study will help in improving the reproductive health of giant pandas.
In this study, metagenomic sequencing methods were used to analyze the vaginal microbial population structure and gene functional activity in giant pandas. Significant differences were found in the different components of the microbiota in the reproductive tract, and they may be related to the regional and age differences. The main microbial pathways and carbohydrate‐active enzymes also varied with giant pandas’ age and region.</description><subject>Bioinformatics</subject><subject>Biological activity</subject><subject>Deoxyribonucleic acid</subject><subject>DNA</subject><subject>Genes</subject><subject>Genomics</subject><subject>giant panda</subject><subject>Infertility</subject><subject>metagenomic sequencing</subject><subject>Metagenomics</subject><subject>Microbiomes</subject><subject>Microbiota</subject><subject>Microorganisms</subject><subject>Nature reserves</subject><subject>Neisseria gonorrhoeae</subject><subject>Original</subject><subject>Pandas</subject><subject>Reproductive health</subject><subject>Reproductive system</subject><subject>Software</subject><subject>Vagina</subject><subject>vaginal microbiome</subject><subject>Wildlife 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giant pandas using metagenomics sequencing</title><author>Zhang, Lan ; Li, Caiwu ; Zhai, Yaru ; Feng, Lan ; Bai, Keke ; Zhang, Zhizhong ; Huang, Yan ; Li, Ti ; Li, Desheng ; Li, Hao ; Cui, Pengfei ; Chen, Danyu ; Wang, Hongning ; Yang, Xin</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c4431-830a4ba5e64878346d017240e498bcdcfd8bb861961a49543cb21409a6b258633</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2020</creationdate><topic>Bioinformatics</topic><topic>Biological activity</topic><topic>Deoxyribonucleic acid</topic><topic>DNA</topic><topic>Genes</topic><topic>Genomics</topic><topic>giant panda</topic><topic>Infertility</topic><topic>metagenomic sequencing</topic><topic>Metagenomics</topic><topic>Microbiomes</topic><topic>Microbiota</topic><topic>Microorganisms</topic><topic>Nature reserves</topic><topic>Neisseria gonorrhoeae</topic><topic>Original</topic><topic>Pandas</topic><topic>Reproductive health</topic><topic>Reproductive system</topic><topic>Software</topic><topic>Vagina</topic><topic>vaginal microbiome</topic><topic>Wildlife conservation</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Zhang, Lan</creatorcontrib><creatorcontrib>Li, Caiwu</creatorcontrib><creatorcontrib>Zhai, Yaru</creatorcontrib><creatorcontrib>Feng, Lan</creatorcontrib><creatorcontrib>Bai, Keke</creatorcontrib><creatorcontrib>Zhang, Zhizhong</creatorcontrib><creatorcontrib>Huang, Yan</creatorcontrib><creatorcontrib>Li, Ti</creatorcontrib><creatorcontrib>Li, Desheng</creatorcontrib><creatorcontrib>Li, Hao</creatorcontrib><creatorcontrib>Cui, Pengfei</creatorcontrib><creatorcontrib>Chen, Danyu</creatorcontrib><creatorcontrib>Wang, Hongning</creatorcontrib><creatorcontrib>Yang, Xin</creatorcontrib><collection>Wiley-Blackwell Open Access Titles</collection><collection>Wiley Free 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and BioEngineering Abstracts</collection><collection>Publicly Available Content Database</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>ProQuest Central China</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>MicrobiologyOpen (Weinheim)</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Zhang, Lan</au><au>Li, Caiwu</au><au>Zhai, Yaru</au><au>Feng, Lan</au><au>Bai, Keke</au><au>Zhang, Zhizhong</au><au>Huang, Yan</au><au>Li, Ti</au><au>Li, Desheng</au><au>Li, Hao</au><au>Cui, Pengfei</au><au>Chen, Danyu</au><au>Wang, Hongning</au><au>Yang, Xin</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Analysis of the vaginal microbiome of giant pandas using metagenomics sequencing</atitle><jtitle>MicrobiologyOpen (Weinheim)</jtitle><addtitle>Microbiologyopen</addtitle><date>2020-12</date><risdate>2020</risdate><volume>9</volume><issue>12</issue><spage>e1131</spage><epage>n/a</epage><pages>e1131-n/a</pages><issn>2045-8827</issn><eissn>2045-8827</eissn><abstract>In this study, a total of 14 vaginal samples (GPV1‐14) from giant pandas were analyzed. These vaginal samples were divided into two groups as per the region and age of giant pandas. All the vaginal samples were analyzed using metagenomic sequencing. As per the outcomes of metagenomic analysis, Proteobacteria (39.04%), Firmicutes (5.27%), Actinobacteria (2.94%), and Basidiomycota (2.77%) were found to be the dominant phyla in the microbiome of the vaginal samples. At the genus level, Pseudomonas (21.90%) was found to be the most dominant genus, followed by Streptococcus (3.47%), Psychrobacter (1.89%), and Proteus (1.38%). Metastats analysis of the microbial species in the vaginal samples of giant pandas from Wolong Nature Reserve, Dujiangyan and Ningbo Youngor Zoo, and Ya'an Bifengxia Nature Reserve was found to be significantly different (p < 0.05). Age groups, that is, AGE1 (5‐10 years old) and AGE2 (11‐16 years old), also demonstrated significantly different inter‐group microbial species (p < 0.05). For the first time, Chlamydia and Neisseria gonorrhoeae were detected in giant pandas’ reproductive tract. GPV3 vaginal sample (2.63%) showed highest Chlamydia content followed by GPV14 (0.91%), and GPV7 (0.62%). GPV5 vaginal sample (7.17%) showed the highest Neisseria gonorrhoeae content, followed by GPV14 (7.02%), and GPV8 (6.50%). Furthermore, we employed eggNOG, CAZy, KEGG, and NCBI databases to investigate the functional significance of giant panda's vaginal microbial community. The outcomes indicated that giant panda's vaginal microbes were involved in biological processes. The data from this study will help in improving the reproductive health of giant pandas.
In this study, metagenomic sequencing methods were used to analyze the vaginal microbial population structure and gene functional activity in giant pandas. Significant differences were found in the different components of the microbiota in the reproductive tract, and they may be related to the regional and age differences. The main microbial pathways and carbohydrate‐active enzymes also varied with giant pandas’ age and region.</abstract><cop>England</cop><pub>John Wiley & Sons, Inc</pub><pmid>33205903</pmid><doi>10.1002/mbo3.1131</doi><tpages>0</tpages><orcidid>https://orcid.org/0000-0002-7940-714X</orcidid><oa>free_for_read</oa></addata></record> |
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| subjects | Bioinformatics Biological activity Deoxyribonucleic acid DNA Genes Genomics giant panda Infertility metagenomic sequencing Metagenomics Microbiomes Microbiota Microorganisms Nature reserves Neisseria gonorrhoeae Original Pandas Reproductive health Reproductive system Software Vagina vaginal microbiome Wildlife conservation |
| title | Analysis of the vaginal microbiome of giant pandas using metagenomics sequencing |
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