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Comparative metagenomic sequencing analysis of cecum microbiotal diversity and function in broilers and layers
The composition of the gastrointestinal microorganisms in poultry is closely associated with the host and its environment. In this study, using 16S rRNA and metagenomic techniques, we comprehensively analyzed the structure and diversity of the cecal microbiota of broiler chickens (BC) and laying hen...
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| Published in: | 3 Biotech 2019-08, Vol.9 (8), p.316-10, Article 316 |
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| creator | Qi, Zhao Shi, Shuiqin Tu, Jian Li, Shaowen |
| description | The composition of the gastrointestinal microorganisms in poultry is closely associated with the host and its environment. In this study, using 16S rRNA and metagenomic techniques, we comprehensively analyzed the structure and diversity of the cecal microbiota of broiler chickens (BC) and laying hens (LH). The 16S rRNA sequencing analysis showed Firmicutes, Bacteroidetes, and Proteobacteria were the main cecal bacterial phyla in BC and LH. However, at the genus level, LH had a greater abundance of
Bacteroides
(
P |
| doi_str_mv | 10.1007/s13205-019-1834-1 |
| format | article |
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Bacteroides
(
P
< 0.05),
Rikenellaceae
_RC9_gut_group (
P
< 0.01),
Phascolarctobacterium
(
P
< 0.05),
Desulfovibrio
(
P
< 0.05),
Prevotellaceae
_UCG-001 (
P
< 0.05), and unclassified_o_
Bacteroidales
(
P
< 0.05), whereas BC had a greater abundance of
Alistipes
(
P
< 0.05),
Rikenella
(
P
< 0.05),
Ruminococcaceae
_UCG-005 (
P
< 0.05),
Lachnoclostridium
(
P
< 0.05), and unclassified_f_
Ruminococcaceae
(
P
< 0.05). It is particularly noteworthy that the genus
Desulfovibrio
was significantly more abundant in the LH cecum than in the BC cecum (
P
< 0.05). A metagenomic analysis showed that the annotations in the LH dataset were significantly more abundant than in the BC dataset, and included replication, recombination and repair, energy production and transformation, cell wall/membrane/envelope biogenesis, and amino acid transport and metabolism-related functions (
P
< 0.05). This study indicates that microbial genotypic differences in chickens of the same species can cause changes in the abundances of the gut microbiota, but do not alter the structural composition or major functional characteristics of the gut microbiota.]]></description><identifier>ISSN: 2190-572X</identifier><identifier>EISSN: 2190-5738</identifier><identifier>DOI: 10.1007/s13205-019-1834-1</identifier><identifier>PMID: 31406638</identifier><language>eng</language><publisher>Cham: Springer International Publishing</publisher><subject>Abundance ; Agriculture ; Amino acids ; Annotations ; Bioinformatics ; Biomaterials ; Biotechnology ; Cancer Research ; Cecum ; Cell walls ; Chemistry ; Chemistry and Materials Science ; Chickens ; Composition ; Datasets ; Desulfovibrio ; Digestive system ; Gastrointestinal tract ; Genetic transformation ; Intestinal microflora ; Microbiota ; Microorganisms ; Original ; Original Article ; Poultry ; Recombination ; rRNA 16S ; Ruminococcaceae ; Sequences ; Stem Cells</subject><ispartof>3 Biotech, 2019-08, Vol.9 (8), p.316-10, Article 316</ispartof><rights>King Abdulaziz City for Science and Technology 2019</rights><rights>Copyright Springer Nature B.V. 2019</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c470t-f39fe9569a44b278bc790e1a271659df3880d9fbdba3b41a2c2288c8c12695223</citedby><cites>FETCH-LOGICAL-c470t-f39fe9569a44b278bc790e1a271659df3880d9fbdba3b41a2c2288c8c12695223</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC6669222/pdf/$$EPDF$$P50$$Gpubmedcentral$$H</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC6669222/$$EHTML$$P50$$Gpubmedcentral$$H</linktohtml><link.rule.ids>230,314,727,780,784,885,27924,27925,53791,53793</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/31406638$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Qi, Zhao</creatorcontrib><creatorcontrib>Shi, Shuiqin</creatorcontrib><creatorcontrib>Tu, Jian</creatorcontrib><creatorcontrib>Li, Shaowen</creatorcontrib><title>Comparative metagenomic sequencing analysis of cecum microbiotal diversity and function in broilers and layers</title><title>3 Biotech</title><addtitle>3 Biotech</addtitle><addtitle>3 Biotech</addtitle><description><![CDATA[The composition of the gastrointestinal microorganisms in poultry is closely associated with the host and its environment. In this study, using 16S rRNA and metagenomic techniques, we comprehensively analyzed the structure and diversity of the cecal microbiota of broiler chickens (BC) and laying hens (LH). The 16S rRNA sequencing analysis showed Firmicutes, Bacteroidetes, and Proteobacteria were the main cecal bacterial phyla in BC and LH. However, at the genus level, LH had a greater abundance of
Bacteroides
(
P
< 0.05),
Rikenellaceae
_RC9_gut_group (
P
< 0.01),
Phascolarctobacterium
(
P
< 0.05),
Desulfovibrio
(
P
< 0.05),
Prevotellaceae
_UCG-001 (
P
< 0.05), and unclassified_o_
Bacteroidales
(
P
< 0.05), whereas BC had a greater abundance of
Alistipes
(
P
< 0.05),
Rikenella
(
P
< 0.05),
Ruminococcaceae
_UCG-005 (
P
< 0.05),
Lachnoclostridium
(
P
< 0.05), and unclassified_f_
Ruminococcaceae
(
P
< 0.05). It is particularly noteworthy that the genus
Desulfovibrio
was significantly more abundant in the LH cecum than in the BC cecum (
P
< 0.05). A metagenomic analysis showed that the annotations in the LH dataset were significantly more abundant than in the BC dataset, and included replication, recombination and repair, energy production and transformation, cell wall/membrane/envelope biogenesis, and amino acid transport and metabolism-related functions (
P
< 0.05). This study indicates that microbial genotypic differences in chickens of the same species can cause changes in the abundances of the gut microbiota, but do not alter the structural composition or major functional characteristics of the gut microbiota.]]></description><subject>Abundance</subject><subject>Agriculture</subject><subject>Amino acids</subject><subject>Annotations</subject><subject>Bioinformatics</subject><subject>Biomaterials</subject><subject>Biotechnology</subject><subject>Cancer Research</subject><subject>Cecum</subject><subject>Cell walls</subject><subject>Chemistry</subject><subject>Chemistry and Materials Science</subject><subject>Chickens</subject><subject>Composition</subject><subject>Datasets</subject><subject>Desulfovibrio</subject><subject>Digestive system</subject><subject>Gastrointestinal tract</subject><subject>Genetic transformation</subject><subject>Intestinal microflora</subject><subject>Microbiota</subject><subject>Microorganisms</subject><subject>Original</subject><subject>Original Article</subject><subject>Poultry</subject><subject>Recombination</subject><subject>rRNA 16S</subject><subject>Ruminococcaceae</subject><subject>Sequences</subject><subject>Stem Cells</subject><issn>2190-572X</issn><issn>2190-5738</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2019</creationdate><recordtype>article</recordtype><recordid>eNp1kUtLJDEUhYM4qPT4A2YjATduSvOoSiUbQRp1BMHNDMwupFKpNlKVtEmV0P_e23ZP-wCzySXnuyfJPQj9ouScElJfZMoZqQpCVUElLwu6h44YVaSoai73dzX7d4iOc34isCpaKUoO0CGnJRGCyyMU5nFYmmRG_-Lw4EazcCEO3uLsnicXrA8LbILpV9lnHDtsnZ0GDECKjY-j6XELnSn7cQVci7sp2NHHgH3ATYq-B-1N6M0Kyp_oR2f67I63-wz9vbn-M_9d3D_c3s2v7gtb1mQsOq46pyqhTFk2rJaNrRVx1LCaikq1HZeStKpr2sbwpoRzy5iUVlrKhKoY4zN0ufFdTs3gWuvCmEyvl8kPJq10NF5_VoJ_1Iv4ooUQir0ZnG0NUoRB5FEPPlvX9ya4OGXNWM1gzoRxQE-_oE9xSjCzNSXqkldKKaDohoLJ5Zxct3sMJXodqN4EqiFQvQ5UU-g5-fiLXcf_-ABgGyCDFBYuvV_9vesrnlKtjQ</recordid><startdate>20190801</startdate><enddate>20190801</enddate><creator>Qi, Zhao</creator><creator>Shi, Shuiqin</creator><creator>Tu, Jian</creator><creator>Li, Shaowen</creator><general>Springer International Publishing</general><general>Springer Nature B.V</general><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7X8</scope><scope>5PM</scope></search><sort><creationdate>20190801</creationdate><title>Comparative metagenomic sequencing analysis of cecum microbiotal diversity and function in broilers and layers</title><author>Qi, Zhao ; Shi, Shuiqin ; Tu, Jian ; Li, Shaowen</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c470t-f39fe9569a44b278bc790e1a271659df3880d9fbdba3b41a2c2288c8c12695223</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2019</creationdate><topic>Abundance</topic><topic>Agriculture</topic><topic>Amino acids</topic><topic>Annotations</topic><topic>Bioinformatics</topic><topic>Biomaterials</topic><topic>Biotechnology</topic><topic>Cancer Research</topic><topic>Cecum</topic><topic>Cell walls</topic><topic>Chemistry</topic><topic>Chemistry and Materials Science</topic><topic>Chickens</topic><topic>Composition</topic><topic>Datasets</topic><topic>Desulfovibrio</topic><topic>Digestive system</topic><topic>Gastrointestinal tract</topic><topic>Genetic transformation</topic><topic>Intestinal microflora</topic><topic>Microbiota</topic><topic>Microorganisms</topic><topic>Original</topic><topic>Original Article</topic><topic>Poultry</topic><topic>Recombination</topic><topic>rRNA 16S</topic><topic>Ruminococcaceae</topic><topic>Sequences</topic><topic>Stem Cells</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Qi, Zhao</creatorcontrib><creatorcontrib>Shi, Shuiqin</creatorcontrib><creatorcontrib>Tu, Jian</creatorcontrib><creatorcontrib>Li, Shaowen</creatorcontrib><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>3 Biotech</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Qi, Zhao</au><au>Shi, Shuiqin</au><au>Tu, Jian</au><au>Li, Shaowen</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Comparative metagenomic sequencing analysis of cecum microbiotal diversity and function in broilers and layers</atitle><jtitle>3 Biotech</jtitle><stitle>3 Biotech</stitle><addtitle>3 Biotech</addtitle><date>2019-08-01</date><risdate>2019</risdate><volume>9</volume><issue>8</issue><spage>316</spage><epage>10</epage><pages>316-10</pages><artnum>316</artnum><issn>2190-572X</issn><eissn>2190-5738</eissn><abstract><![CDATA[The composition of the gastrointestinal microorganisms in poultry is closely associated with the host and its environment. In this study, using 16S rRNA and metagenomic techniques, we comprehensively analyzed the structure and diversity of the cecal microbiota of broiler chickens (BC) and laying hens (LH). The 16S rRNA sequencing analysis showed Firmicutes, Bacteroidetes, and Proteobacteria were the main cecal bacterial phyla in BC and LH. However, at the genus level, LH had a greater abundance of
Bacteroides
(
P
< 0.05),
Rikenellaceae
_RC9_gut_group (
P
< 0.01),
Phascolarctobacterium
(
P
< 0.05),
Desulfovibrio
(
P
< 0.05),
Prevotellaceae
_UCG-001 (
P
< 0.05), and unclassified_o_
Bacteroidales
(
P
< 0.05), whereas BC had a greater abundance of
Alistipes
(
P
< 0.05),
Rikenella
(
P
< 0.05),
Ruminococcaceae
_UCG-005 (
P
< 0.05),
Lachnoclostridium
(
P
< 0.05), and unclassified_f_
Ruminococcaceae
(
P
< 0.05). It is particularly noteworthy that the genus
Desulfovibrio
was significantly more abundant in the LH cecum than in the BC cecum (
P
< 0.05). A metagenomic analysis showed that the annotations in the LH dataset were significantly more abundant than in the BC dataset, and included replication, recombination and repair, energy production and transformation, cell wall/membrane/envelope biogenesis, and amino acid transport and metabolism-related functions (
P
< 0.05). This study indicates that microbial genotypic differences in chickens of the same species can cause changes in the abundances of the gut microbiota, but do not alter the structural composition or major functional characteristics of the gut microbiota.]]></abstract><cop>Cham</cop><pub>Springer International Publishing</pub><pmid>31406638</pmid><doi>10.1007/s13205-019-1834-1</doi><tpages>10</tpages><oa>free_for_read</oa></addata></record> |
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| source | Springer Link; PubMed Central |
| subjects | Abundance Agriculture Amino acids Annotations Bioinformatics Biomaterials Biotechnology Cancer Research Cecum Cell walls Chemistry Chemistry and Materials Science Chickens Composition Datasets Desulfovibrio Digestive system Gastrointestinal tract Genetic transformation Intestinal microflora Microbiota Microorganisms Original Original Article Poultry Recombination rRNA 16S Ruminococcaceae Sequences Stem Cells |
| title | Comparative metagenomic sequencing analysis of cecum microbiotal diversity and function in broilers and layers |
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