The biogeography of gastrointestinal mucosal microbiota of beef cattle at harvest.

IF 4 2区 生物学 Q2 MICROBIOLOGY
Frontiers in Microbiology Pub Date : 2024-12-09 eCollection Date: 2024-01-01 DOI:10.3389/fmicb.2024.1490882
J Daniel Young, Lee J Pinnell, Cory A Wolfe, Enrique Doster, Robert Valeris-Chacin, Ty E Lawrence, John T Richeson, Paul S Morley
{"title":"The biogeography of gastrointestinal mucosal microbiota of beef cattle at harvest.","authors":"J Daniel Young, Lee J Pinnell, Cory A Wolfe, Enrique Doster, Robert Valeris-Chacin, Ty E Lawrence, John T Richeson, Paul S Morley","doi":"10.3389/fmicb.2024.1490882","DOIUrl":null,"url":null,"abstract":"<p><strong>Introduction: </strong>The gastrointestinal microbiota profoundly influences the health and productivity of animals. This study aimed to characterize microbial community structures of the mouth, gastrointestinal tract (GIT), and feces of cattle.</p><p><strong>Methods: </strong>Samples were collected from 18 Akaushi crossbred steers at harvest from multiple locations, including the oral cavity, rumen, abomasum, duodenum, jejunum, ileum, cecum, spiral colon, distal colon, and feces. These cattle were raised without exposure to antimicrobial drugs or hormone implants. Total microbial abundance was assessed using qPCR targeting the V3-V4 region of the 16S rRNA gene, and microbial community composition was evaluated through 16S rRNA gene sequencing.</p><p><strong>Results: </strong>Total microbial abundance was lesser in the small intestine than in other GIT regions (<i>p</i> ≤ 0.05). Additionally, microbial communities in the small intestine had lower richness and diversity than other regions (<i>p</i> ≤ 0.05). Microbial community compositions were measurably different along the GIT, with greater relatedness in adjacent GIT sections when progressing from oral to aboral locations. Firmicutes, Bacteroidota, and Actinobacteria were the dominant phyla in all samples. However, variations in composition were evident at lower taxonomic levels within these dominant phyla among samples from different regions. Genera previously associated with healthy gut microbiome communities were observed in low abundance across GIT regions. Taxa historically associated with liver abscesses (e.g., <i>Fusobacterium</i> and <i>Trueperella</i>) were detected in low abundance (≤0.02% relative abundance) throughout the GIT. In contrast, <i>Bacteroides</i>, which recently has been identified as a dominant feature in many liver abscesses, was observed in greater relative abundance (5.2% on average) in the hindgut.</p><p><strong>Discussion: </strong>This study provides an in-depth evaluation of the GIT of harvest-ready Akaushi crossbred cattle of varying growth rates. Clear differences exist in the abundance and composition of microbial populations at different points of the GIT. Unfortunately, no single GIT location can adequately represent the microbial communities of the entire GIT, which has important implications for future research. Additionally, examining microbiome data only at the phylum level likely oversimplifies important complexities of the microbial community structures, and investigations of lower taxonomic ranks should be included.</p>","PeriodicalId":12466,"journal":{"name":"Frontiers in Microbiology","volume":"15 ","pages":"1490882"},"PeriodicalIF":4.0000,"publicationDate":"2024-12-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11663860/pdf/","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Frontiers in Microbiology","FirstCategoryId":"99","ListUrlMain":"https://doi.org/10.3389/fmicb.2024.1490882","RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"2024/1/1 0:00:00","PubModel":"eCollection","JCR":"Q2","JCRName":"MICROBIOLOGY","Score":null,"Total":0}
引用次数: 0

Abstract

Introduction: The gastrointestinal microbiota profoundly influences the health and productivity of animals. This study aimed to characterize microbial community structures of the mouth, gastrointestinal tract (GIT), and feces of cattle.

Methods: Samples were collected from 18 Akaushi crossbred steers at harvest from multiple locations, including the oral cavity, rumen, abomasum, duodenum, jejunum, ileum, cecum, spiral colon, distal colon, and feces. These cattle were raised without exposure to antimicrobial drugs or hormone implants. Total microbial abundance was assessed using qPCR targeting the V3-V4 region of the 16S rRNA gene, and microbial community composition was evaluated through 16S rRNA gene sequencing.

Results: Total microbial abundance was lesser in the small intestine than in other GIT regions (p ≤ 0.05). Additionally, microbial communities in the small intestine had lower richness and diversity than other regions (p ≤ 0.05). Microbial community compositions were measurably different along the GIT, with greater relatedness in adjacent GIT sections when progressing from oral to aboral locations. Firmicutes, Bacteroidota, and Actinobacteria were the dominant phyla in all samples. However, variations in composition were evident at lower taxonomic levels within these dominant phyla among samples from different regions. Genera previously associated with healthy gut microbiome communities were observed in low abundance across GIT regions. Taxa historically associated with liver abscesses (e.g., Fusobacterium and Trueperella) were detected in low abundance (≤0.02% relative abundance) throughout the GIT. In contrast, Bacteroides, which recently has been identified as a dominant feature in many liver abscesses, was observed in greater relative abundance (5.2% on average) in the hindgut.

Discussion: This study provides an in-depth evaluation of the GIT of harvest-ready Akaushi crossbred cattle of varying growth rates. Clear differences exist in the abundance and composition of microbial populations at different points of the GIT. Unfortunately, no single GIT location can adequately represent the microbial communities of the entire GIT, which has important implications for future research. Additionally, examining microbiome data only at the phylum level likely oversimplifies important complexities of the microbial community structures, and investigations of lower taxonomic ranks should be included.

肉牛收获期胃肠道黏膜微生物群的生物地理学。
胃肠道微生物群对动物的健康和生产能力有着深远的影响。本研究旨在研究牛口腔、胃肠道和粪便的微生物群落结构。方法:从18头收获的赤石杂交阉牛的口腔、瘤胃、胃、十二指肠、空肠、回肠、盲肠、螺旋结肠、远端结肠和粪便等多个部位采集标本。这些牛在饲养过程中没有接触过抗微生物药物或激素植入物。采用针对16S rRNA基因V3-V4区域的qPCR评估微生物总丰度,并通过16S rRNA基因测序评估微生物群落组成。结果:小肠微生物总丰度低于胃肠道其他区域(p ≤ 0.05)。小肠微生物群落丰富度和多样性低于其他区域(p ≤ 0.05)。微生物群落组成沿胃肠道有明显的差异,从口腔到流产的相邻胃肠道区域的相关性更大。厚壁菌门、拟杆菌门和放线菌门是所有样品的优势门。然而,在不同地区的样品中,这些优势门的组成在较低的分类水平上存在明显的差异。以前与健康肠道微生物群落相关的属在GIT区域的丰度较低。在整个胃肠道中,历史上与肝脓肿相关的分类群(如梭杆菌和Trueperella)的丰度较低(相对丰度≤0.02%)。相比之下,最近被确定为许多肝脓肿的主要特征的拟杆菌在后肠中观察到更高的相对丰度(平均5.2%)。讨论:本研究对不同生长速率的准备收获赤石杂交牛的GIT进行了深入评价。GIT不同位置的微生物种群的丰度和组成存在明显差异。不幸的是,没有一个单一的GIT位置可以充分代表整个GIT的微生物群落,这对未来的研究具有重要意义。此外,仅在门水平上检查微生物组数据可能过度简化了微生物群落结构的重要复杂性,并且应该包括较低分类等级的调查。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
求助全文
约1分钟内获得全文 求助全文
来源期刊
CiteScore
7.70
自引率
9.60%
发文量
4837
审稿时长
14 weeks
期刊介绍: Frontiers in Microbiology is a leading journal in its field, publishing rigorously peer-reviewed research across the entire spectrum of microbiology. Field Chief Editor Martin G. Klotz at Washington State University is supported by an outstanding Editorial Board of international researchers. This multidisciplinary open-access journal is at the forefront of disseminating and communicating scientific knowledge and impactful discoveries to researchers, academics, clinicians and the public worldwide.
×
引用
GB/T 7714-2015
复制
MLA
复制
APA
复制
导出至
BibTeX EndNote RefMan NoteFirst NoteExpress
×
提示
您的信息不完整,为了账户安全,请先补充。
现在去补充
×
提示
您因"违规操作"
具体请查看互助需知
我知道了
×
提示
确定
请完成安全验证×
copy
已复制链接
快去分享给好友吧!
我知道了
右上角分享
点击右上角分享
0
联系我们:info@booksci.cn Book学术提供免费学术资源搜索服务,方便国内外学者检索中英文文献。致力于提供最便捷和优质的服务体验。 Copyright © 2023 布克学术 All rights reserved.
京ICP备2023020795号-1
ghs 京公网安备 11010802042870号
Book学术文献互助
Book学术文献互助群
群 号:481959085
Book学术官方微信