Assessment of the gastrointestinal microbiota using 16S ribosomal RNA gene amplicon sequencing in ruminant nutrition
The gastrointestinal (GI) tract of ruminants contains diverse microbes that ferment various feeds ingested by animals to produce various fermentation products, such as volatile fatty acids. Fermentation products can affect animal performance, health, and well-being. Within the GI microbes, the rumin...
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| Format: | Article |
| Language: | English |
| Published: |
Asian-Australasian Association of Animal Production Societies
2023-02-01
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| Series: | Animal Bioscience |
| Subjects: | |
| Online Access: | http://www.animbiosci.org/upload/pdf/ab-22-0382.pdf |
| _version_ | 1811171101603004416 |
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| author | Minseok Kim |
| author_facet | Minseok Kim |
| author_sort | Minseok Kim |
| collection | DOAJ |
| description | The gastrointestinal (GI) tract of ruminants contains diverse microbes that ferment various feeds ingested by animals to produce various fermentation products, such as volatile fatty acids. Fermentation products can affect animal performance, health, and well-being. Within the GI microbes, the ruminal microbes are highly diverse, greatly contribute to fermentation, and are the most important in ruminant nutrition. Although traditional cultivation methods provided knowledge of the metabolism of GI microbes, most of the GI microbes could not be cultured on standard culture media. By contrast, amplicon sequencing of 16S rRNA genes can be used to detect unculturable microbes. Using this approach, ruminant nutritionists and microbiologists have conducted a plethora of nutritional studies, many including dietary interventions, to improve fermentation efficiency and nutrient utilization, which has greatly expanded knowledge of the GI microbiota. This review addresses the GI content sampling method, 16S rRNA gene amplicon sequencing, and bioinformatics analysis and then discusses recent studies on the various factors, such as diet, breed, gender, animal performance, and heat stress, that influence the GI microbiota and thereby ruminant nutrition. |
| first_indexed | 2024-04-10T17:07:58Z |
| format | Article |
| id | doaj.art-f8780c2e678c4653bd021dff1c566a25 |
| institution | Directory Open Access Journal |
| issn | 2765-0189 2765-0235 |
| language | English |
| last_indexed | 2024-04-10T17:07:58Z |
| publishDate | 2023-02-01 |
| publisher | Asian-Australasian Association of Animal Production Societies |
| record_format | Article |
| series | Animal Bioscience |
| spelling | doaj.art-f8780c2e678c4653bd021dff1c566a252023-02-06T01:13:59ZengAsian-Australasian Association of Animal Production SocietiesAnimal Bioscience2765-01892765-02352023-02-0136236437310.5713/ab.22.038225010Assessment of the gastrointestinal microbiota using 16S ribosomal RNA gene amplicon sequencing in ruminant nutritionMinseok Kim0 Division of Animal Science, Chonnam National University, Gwangju 61186, KoreaThe gastrointestinal (GI) tract of ruminants contains diverse microbes that ferment various feeds ingested by animals to produce various fermentation products, such as volatile fatty acids. Fermentation products can affect animal performance, health, and well-being. Within the GI microbes, the ruminal microbes are highly diverse, greatly contribute to fermentation, and are the most important in ruminant nutrition. Although traditional cultivation methods provided knowledge of the metabolism of GI microbes, most of the GI microbes could not be cultured on standard culture media. By contrast, amplicon sequencing of 16S rRNA genes can be used to detect unculturable microbes. Using this approach, ruminant nutritionists and microbiologists have conducted a plethora of nutritional studies, many including dietary interventions, to improve fermentation efficiency and nutrient utilization, which has greatly expanded knowledge of the GI microbiota. This review addresses the GI content sampling method, 16S rRNA gene amplicon sequencing, and bioinformatics analysis and then discusses recent studies on the various factors, such as diet, breed, gender, animal performance, and heat stress, that influence the GI microbiota and thereby ruminant nutrition.http://www.animbiosci.org/upload/pdf/ab-22-0382.pdfamplicon sequencinggastrointestinal tractmicrobiota16s rrna generuminant nutrition |
| spellingShingle | Minseok Kim Assessment of the gastrointestinal microbiota using 16S ribosomal RNA gene amplicon sequencing in ruminant nutrition Animal Bioscience amplicon sequencing gastrointestinal tract microbiota 16s rrna gene ruminant nutrition |
| title | Assessment of the gastrointestinal microbiota using 16S ribosomal RNA gene amplicon sequencing in ruminant nutrition |
| title_full | Assessment of the gastrointestinal microbiota using 16S ribosomal RNA gene amplicon sequencing in ruminant nutrition |
| title_fullStr | Assessment of the gastrointestinal microbiota using 16S ribosomal RNA gene amplicon sequencing in ruminant nutrition |
| title_full_unstemmed | Assessment of the gastrointestinal microbiota using 16S ribosomal RNA gene amplicon sequencing in ruminant nutrition |
| title_short | Assessment of the gastrointestinal microbiota using 16S ribosomal RNA gene amplicon sequencing in ruminant nutrition |
| title_sort | assessment of the gastrointestinal microbiota using 16s ribosomal rna gene amplicon sequencing in ruminant nutrition |
| topic | amplicon sequencing gastrointestinal tract microbiota 16s rrna gene ruminant nutrition |
| url | http://www.animbiosci.org/upload/pdf/ab-22-0382.pdf |
| work_keys_str_mv | AT minseokkim assessmentofthegastrointestinalmicrobiotausing16sribosomalrnageneampliconsequencinginruminantnutrition |