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James D, Poveda C, Walton GE, Elmore JS, Linden B, Gibson J, Griffin BA, Robertson MD, Lewis MC. Do high-protein diets have the potential to reduce gut barrier function in a sex-dependent manner? Eur J Nutr 2024:10.1007/s00394-024-03407-w. [PMID: 38662018 DOI: 10.1007/s00394-024-03407-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2023] [Accepted: 04/16/2024] [Indexed: 04/26/2024]
Abstract
PURPOSE Impaired gut barrier function is associated with systemic inflammation and many chronic diseases. Undigested dietary proteins are fermented in the colon by the gut microbiota which produces nitrogenous metabolites shown to reduce barrier function in vitro. With growing evidence of sex-based differences in gut microbiotas, we determined whether there were sex by dietary protein interactions which could differentially impact barrier function via microbiota modification. METHODS Fermentation systems were inoculated with faeces from healthy males (n = 5) and females (n = 5) and supplemented with 0.9 g of non-hydrolysed proteins sourced from whey, fish, milk, soya, egg, pea, or mycoprotein. Microbial populations were quantified using fluorescence in situ hybridisation with flow cytometry. Metabolite concentrations were analysed using gas chromatography, solid phase microextraction coupled with gas chromatography-mass spectrometry and ELISA. RESULTS Increased protein availability resulted in increased proteolytic Bacteroides spp (p < 0.01) and Clostridium coccoides (p < 0.01), along with increased phenol (p < 0.01), p-cresol (p < 0.01), indole (p = 0.018) and ammonia (p < 0.01), varying by protein type. Counts of Clostridium cluster IX (p = 0.03) and concentration of p-cresol (p = 0.025) increased in males, while females produced more ammonia (p = 0.02), irrespective of protein type. Further, we observed significant sex-protein interactions affecting bacterial populations and metabolites (p < 0.005). CONCLUSIONS Our findings suggest that protein fermentation by the gut microbiota in vitro is influenced by both protein source and the donor's sex. Should these results be confirmed through human studies, they could have major implications for developing dietary recommendations tailored by sex to prevent chronic illnesses.
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Affiliation(s)
- Daniel James
- Department of Food and Nutritional Sciences, University of Reading, Whiteknights Campus, Reading, RG6 6DZ, UK.
| | - Carlos Poveda
- Department of Food and Nutritional Sciences, University of Reading, Whiteknights Campus, Reading, RG6 6DZ, UK
| | - Gemma E Walton
- Department of Food and Nutritional Sciences, University of Reading, Whiteknights Campus, Reading, RG6 6DZ, UK
| | - J Stephen Elmore
- Department of Food and Nutritional Sciences, University of Reading, Whiteknights Campus, Reading, RG6 6DZ, UK
| | - Brandon Linden
- Department of Nutrition, Food & Exercise Sciences, University of Surrey, Guildford, GU2 7XH, UK
| | - John Gibson
- Food and Feed Innovations, Woodstock, Newcastle Rd, Woore, N Shropshire, CW3 95N, UK
| | - Bruce A Griffin
- Department of Nutrition, Food & Exercise Sciences, University of Surrey, Guildford, GU2 7XH, UK
| | - M Denise Robertson
- Department of Nutrition, Food & Exercise Sciences, University of Surrey, Guildford, GU2 7XH, UK
| | - Marie C Lewis
- Department of Food and Nutritional Sciences, University of Reading, Whiteknights Campus, Reading, RG6 6DZ, UK
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Buiatte V, Fonseca A, Alonso Madureira P, Nakashima Vaz AC, Tizioto PC, Centola Vidal AM, Ganda E, de Azevedo Ruiz VL. A comparative study of the bacterial diversity and composition of nursery piglets' oral fluid, feces, and housing environment. Sci Rep 2024; 14:4119. [PMID: 38374338 PMCID: PMC10876639 DOI: 10.1038/s41598-024-54269-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2023] [Accepted: 02/10/2024] [Indexed: 02/21/2024] Open
Abstract
The oral cavity is the portal of entry for many microorganisms that affect swine, and the swine oral fluid has been used as a specimen for the diagnosis of several infectious diseases. The oral microbiota has been shown to play important roles in humans, such as protection against non-indigenous bacteria. In swine, studies that have investigated the microbial composition of the oral cavity of pigs are scarce. This study aimed to characterize the oral fluid microbiota of weaned pigs from five commercial farms in Brazil and compare it to their respective fecal and environmental microbiotas. Bacterial compositions were determined by 16S rRNA gene sequencing and analyzed in R Studio. Oral fluid samples were significantly less diverse (alpha diversity) than pen floor and fecal samples (P < 0.01). Alpha diversity changed among farms in oral fluid and pen floor samples, but no differences were observed in fecal samples. Permutational ANOVA revealed that beta diversity was significantly different among sample types (P = 0.001) and farms (P = 0.001), with separation of sample types (feces, pen floor, and oral fluid) on the principal coordinates analysis. Most counts obtained from oral fluid samples were classified as Firmicutes (80.4%) and Proteobacteria (7.7%). The genera Streptococcus, members of the Pasteurellaceae family, and Veillonella were differentially abundant in oral fluid samples when compared to fecal samples, in which Streptococcus was identified as a core genus that was strongly correlated (SparCC) with other taxa. Firmicutes and Bacteroidota were the most relatively abundant phyla identified in fecal and pen floor samples, and Prevotella_9 was the most classified genus. No differentially abundant taxa were identified when comparing fecal samples and pen floor samples. We concluded that under the conditions of our study, the oral fluid microbiota of weaned piglets is different (beta diversity) and less diverse (alpha diversity) than the fecal and environmental microbiotas. Several differentially abundant taxa were identified in the oral fluid samples, and some have been described as important colonizers of the oral cavity in human microbiome studies. Further understanding of the relationship between the oral fluid microbiota and swine is necessary and would create opportunities for the development of innovative solutions that target the microbiota to improve swine health and production.
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Affiliation(s)
- Vinicius Buiatte
- Department of Animal Science, College of Agricultural Sciences, The Pennsylvania State University, University Park, PA, 16802, USA
| | - Ana Fonseca
- Department of Animal Science, College of Agricultural Sciences, The Pennsylvania State University, University Park, PA, 16802, USA
| | - Paloma Alonso Madureira
- Department of Veterinary Medicine, Faculty of Animal Science and Food Engineering, Universidade de São Paulo, Pirassununga, SP, Brazil
| | - Andréia Cristina Nakashima Vaz
- Department of Veterinary Medicine, Faculty of Animal Science and Food Engineering, Universidade de São Paulo, Pirassununga, SP, Brazil
| | | | - Ana Maria Centola Vidal
- Department of Veterinary Medicine, Faculty of Animal Science and Food Engineering, Universidade de São Paulo, Pirassununga, SP, Brazil
| | - Erika Ganda
- Department of Animal Science, College of Agricultural Sciences, The Pennsylvania State University, University Park, PA, 16802, USA
| | - Vera Letticie de Azevedo Ruiz
- Department of Veterinary Medicine, Faculty of Animal Science and Food Engineering, Universidade de São Paulo, Pirassununga, SP, Brazil.
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Kiernan DP, O’Doherty JV, Sweeney T. The Effect of Maternal Probiotic or Synbiotic Supplementation on Sow and Offspring Gastrointestinal Microbiota, Health, and Performance. Animals (Basel) 2023; 13:2996. [PMID: 37835602 PMCID: PMC10571980 DOI: 10.3390/ani13192996] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/11/2023] [Revised: 09/14/2023] [Accepted: 09/20/2023] [Indexed: 10/15/2023] Open
Abstract
The increasing prevalence of antimicrobial-resistant pathogens has prompted the reduction in antibiotic and antimicrobial use in commercial pig production. This has led to increased research efforts to identify alternative dietary interventions to support the health and development of the pig. The crucial role of the GIT microbiota in animal health and performance is becoming increasingly evident. Hence, promoting an improved GIT microbiota, particularly the pioneer microbiota in the young pig, is a fundamental focus. Recent research has indicated that the sow's GIT microbiota is a significant contributor to the development of the offspring's microbiota. Thus, dietary manipulation of the sow's microbiota with probiotics or synbiotics, before farrowing and during lactation, is a compelling area of exploration. This review aims to identify the potential health benefits of maternal probiotic or synbiotic supplementation to both the sow and her offspring and to explore their possible modes of action. Finally, the results of maternal sow probiotic and synbiotic supplementation studies are collated and summarized. Maternal probiotic or synbiotic supplementation offers an effective strategy to modulate the sow's microbiota and thereby enhance the formation of a health-promoting pioneer microbiota in the offspring. In addition, this strategy can potentially reduce oxidative stress and inflammation in the sow and her offspring, enhance the immune potential of the milk, the immune system development in the offspring, and the sow's feed intake during lactation. Although many studies have used probiotics in the maternal sow diet, the most effective probiotic or probiotic blends remain unclear. To this extent, further direct comparative investigations using different probiotics are warranted to advance the current understanding in this area. Moreover, the number of investigations supplementing synbiotics in the maternal sow diet is limited and is an area where further exploration is warranted.
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Affiliation(s)
- Dillon P. Kiernan
- School of Veterinary Medicine, University College Dublin, D04 C1P1 Dublin, Ireland;
| | - John V. O’Doherty
- School of Agriculture and Food Science, University College Dublin, D04 C1P1 Dublin, Ireland;
| | - Torres Sweeney
- School of Veterinary Medicine, University College Dublin, D04 C1P1 Dublin, Ireland;
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Querdasi FR, Vogel SC, Thomason ME, Callaghan BL, Brito NH. A comparison of the infant gut microbiome before versus after the start of the covid-19 pandemic. Sci Rep 2023; 13:13289. [PMID: 37587195 PMCID: PMC10432475 DOI: 10.1038/s41598-023-40102-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/03/2023] [Accepted: 08/04/2023] [Indexed: 08/18/2023] Open
Abstract
The COVID-19 pandemic and resulting public health directives led to many changes in families' social and material environments. Prior research suggests that these changes are likely to impact composition of the gut microbiome, particularly during early childhood when the gut microbiome is developing most rapidly. Importantly, disruption to the gut microbiome during this sensitive period can have potentially long-lasting impacts on health and development. In the current study, we compare gut microbiome composition among a socioeconomically and racially diverse group of 12-month old infants living in New York City who provided stool samples before the pandemic (N = 34) to a group who provided samples during the first 9-months of the pandemic (March-December 2020; N = 20). We found that infants sampled during the pandemic had lower alpha diversity of the microbiome, lower abundance of Pasteurellaceae and Haemophilus, and significantly different beta diversity based on unweighted Unifrac distance than infants sampled before the pandemic. Exploratory analyses suggest that gut microbiome changes due to the pandemic occurred relatively quickly after the start of the pandemic and were sustained. Our results provide evidence that pandemic-related environmental disruptions had an impact on community-level taxonomic diversity of the developing gut microbiome, as well as abundance of specific members of the gut bacterial community.
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Zhang YD, Fan SJ, Zhang Z, Li JX, Liu XX, Hu LX, Knibbs LD, Dadvand P, Jalaludin B, Browning MH, Zhao T, Heinrich J, He Z, Chen CZ, Zhou Y, Dong GH, Yang BY. Association between Residential Greenness and Human Microbiota: Evidence from Multiple Countries. Environ Health Perspect 2023; 131:87010. [PMID: 37585351 PMCID: PMC10431502 DOI: 10.1289/ehp12186] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/21/2022] [Revised: 07/06/2023] [Accepted: 07/17/2023] [Indexed: 08/18/2023]
Abstract
BACKGROUND Greenness, referring to a measurement of the density of vegetated land (e.g., gardens, parks, grasslands), has been linked with many human health outcomes. However, the evidence on greenness exposure and human microbiota remains limited, inconclusive, drawn from specific regions, and based on only modest sample size. OBJECTIVES We aimed to study the association between greenness exposure and human microbial diversity and composition in a large sample across 34 countries and regions. METHODS We explored associations between residential greenness and human microbial alpha-diversity, composition, and genus abundance using data from 34 countries. Greenness exposure was assessed using the normalized difference vegetation index and the enhanced vegetation index mean values in the month before sampling. We used linear regression models to estimate the association between greenness and microbial alpha-diversity and tested the effect modification of age, sex, climate zone, and pet ownership of participants. Differences in microbial composition were tested by permutational multivariate analysis of variance based on Bray-Curtis distance and differential taxa were detected using the DESeq2 R package between two greenness exposure groups split by median values of greenness. RESULTS We found that higher greenness was significantly associated with greater richness levels in the palm and gut microbiota but decreased evenness in the gut microbiota. Pet ownership and climate zone modified some associations between greenness and alpha-diversity. Palm and gut microbial composition at the genus level also varied by greenness. Higher abundances of the genera Lactobacillus and Bifidobacterium, and lower abundances of the genera Anaerotruncus and Streptococcus, were observed in people with higher greenness levels. DISCUSSION These findings suggest that residential greenness was associated with microbial richness and composition in the human skin and gut samples, collected across different geographic contexts. Future studies may validate the observed associations and determine whether they correspond to improvements in human health. https://doi.org/10.1289/EHP12186.
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Affiliation(s)
- Yi-Dan Zhang
- Guangdong Provincial Engineering Technology Research Center of Environmental Pollution and Health Risk Assessment, Department of Occupational and Environmental Health, School of Public Health, Sun Yat-sen University, Guangzhou, China
| | - Shu-Jun Fan
- Department of Environmental Health, Guangzhou Center for Disease Control and Prevention, Guangzhou, China
- Institute of Public Health, Guangzhou Medical University and Guangzhou Center for Disease Control and Prevention, Guangzhou, China
| | - Zheng Zhang
- Department of Central Laboratory, Beijing Obstetrics and Gynecology Hospital, Capital Medical University, Beijing Maternal and Child Health Care Hospital, Beijing, China
| | - Jia-Xin Li
- Guangdong Provincial Engineering Technology Research Center of Environmental Pollution and Health Risk Assessment, Department of Occupational and Environmental Health, School of Public Health, Sun Yat-sen University, Guangzhou, China
| | - Xiao-Xuan Liu
- Guangdong Provincial Engineering Technology Research Center of Environmental Pollution and Health Risk Assessment, Department of Occupational and Environmental Health, School of Public Health, Sun Yat-sen University, Guangzhou, China
| | - Li-Xin Hu
- Department of Maternal and Child Health, School of Public Health, Sun Yat-sen University, Guangzhou, China
| | - Luke D. Knibbs
- School of Public Health, University of Sydney, Camperdown, New South Wales, Australia
| | - Payam Dadvand
- ISGlobal, Barcelona, Spain
- Universitat Pompeu Fabra, Barcelona, Spain
- CIBER Epidemiología y Salud Pública, Madrid, Spain
| | - Bin Jalaludin
- School of Population Health, University of New South Wales, Kensington, New South Wales, Australia
| | - Matthew H.E.M. Browning
- Department of Park, Recreation, and Tourism Management, Clemson University, Clemson, South Carolina, USA
| | - Tianyu Zhao
- Institute and Clinic for Occupational, Social and Environmental Medicine, Hospital of the Ludwig-Maximilians-Universität München (LMU Munich), Munich, Germany
- Comprehensive Pneumology Center Munich, LMU Munich, Munich, Germany
- German Center for Lung Research, Justus Liebig University Giessen, Giessen, Germany
- Institute of Epidemiology, Helmholtz Zentrum München–German Research Center for Environmental Health, Neuherberg, Germany
| | - Joachim Heinrich
- Institute and Clinic for Occupational, Social and Environmental Medicine, LMU Munich, Munich, Germany
- Allergy and Lung Health Unit, Melbourne School of Population and Global Health, University of Melbourne, Melbourne, Victoria, Australia
| | - Zhini He
- Food Safety and Health Research Center, Guangdong Provincial Key Laboratory of Tropical Disease Research, School of Public Health, Southern Medical University, Guangzhou, China
| | - Cheng-Zhi Chen
- School of Public Health and Management, Research Center for Medicine and Social Development, Innovation Center for Social Risk Governance in Health, Chongqing Medical University, Chongqing, China
| | - Yuanzhong Zhou
- Department of Epidemiology, School of Public Health, Zunyi Medical University, Zunyi, China
| | - Guang-Hui Dong
- Guangdong Provincial Engineering Technology Research Center of Environmental Pollution and Health Risk Assessment, Department of Occupational and Environmental Health, School of Public Health, Sun Yat-sen University, Guangzhou, China
| | - Bo-Yi Yang
- Guangdong Provincial Engineering Technology Research Center of Environmental Pollution and Health Risk Assessment, Department of Occupational and Environmental Health, School of Public Health, Sun Yat-sen University, Guangzhou, China
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Chanpong A, Borrelli O, Thapar N. The Potential Role of Microorganisms on Enteric Nervous System Development and Disease. Biomolecules 2023; 13:447. [PMID: 36979382 PMCID: PMC10046024 DOI: 10.3390/biom13030447] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/09/2023] [Revised: 02/14/2023] [Accepted: 02/25/2023] [Indexed: 03/06/2023] Open
Abstract
The enteric nervous system (ENS), the inherent nervous system of the gastrointestinal (GI) tract is a vast nervous system that controls key GI functions, including motility. It functions at a critical interface between the gut luminal contents, including the diverse population of microorganisms deemed the microbiota, as well as the autonomic and central nervous systems. Critical development of this axis of interaction, a key determinant of human health and disease, appears to occur most significantly during early life and childhood, from the pre-natal through to the post-natal period. These factors that enable the ENS to function as a master regulator also make it vulnerable to damage and, in turn, a number of GI motility disorders. Increasing attention is now being paid to the potential of disruption of the microbiota and pathogenic microorganisms in the potential aetiopathogeneis of GI motility disorders in children. This article explores the evidence regarding the relationship between the development and integrity of the ENS and the potential for such factors, notably dysbiosis and pathogenic bacteria, viruses and parasites, to impact upon them in early life.
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Rydal MP, Gambino M, Castro-Mejia JL, Poulsen LL, Jørgensen CB, Nielsen JP. Post-weaning diarrhea in pigs from a single Danish production herd was not associated with the pre-weaning fecal microbiota composition and diversity. Front Microbiol 2023; 14:1108197. [PMID: 36922976 PMCID: PMC10010570 DOI: 10.3389/fmicb.2023.1108197] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/26/2022] [Accepted: 02/03/2023] [Indexed: 03/03/2023] Open
Abstract
Introduction The association between the porcine pre-weaning gut microbiota composition and diversity, and subsequent post-weaning diarrhea (PWD) susceptibility is currently being studied. In this longitudinal study, we examined the association between pre-weaning fecal microbiome composition and diversity, and PWD development in a Danish sow herd. Methods Forty-five pigs were followed from birth until 7 days after weaning (post-natal day (PND) 33). At PND 33, the pigs were categorized as PWD cases or healthy controls based on fecal consistency. We compared their fecal microbiomes at PND 8, late lactation (PND 27) and 7 days post weaning (PND 33) using 16S rRNA V3 region high-throughput sequencing. At PND 27 and 33, we also weighed the pigs, assessed fecal shedding of hemolytic Escherichia coli by culture and characterized hemolytic isolates by ETEC virulence factors with PCR and by whole genome sequencing. Results A total of 25 out of 45 pigs developed PWD and one Enterotoxigenic E. coli strain with F18:LT:EAST1 virotype was isolated from most pigs. At PND 33, we found differences in beta diversity between PWD and healthy pigs (R2 = 0.027, p = 0.009) and that body weight was associated with both alpha and beta diversity. Pre-weaning fecal microbiome diversity did not differ between PWD and healthy pigs and we found no significant, differentially abundant bacteria between them. Conclusion In the production herd under study, pre-weaning fecal microbiome diversity and composition were not useful indicators of PWD susceptibility.
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Affiliation(s)
- Martin Peter Rydal
- Department of Veterinary and Animal Sciences, Faculty of Health and Medical Sciences, University of Copenhagen, Frederiksberg, Denmark
| | - Michela Gambino
- Department of Veterinary and Animal Sciences, Faculty of Health and Medical Sciences, University of Copenhagen, Frederiksberg, Denmark
| | - Josue L Castro-Mejia
- Department of Food Science, Faculty of Science, University of Copenhagen, Frederiksberg, Denmark
| | - Louise Ladefoged Poulsen
- Department of Veterinary and Animal Sciences, Faculty of Health and Medical Sciences, University of Copenhagen, Frederiksberg, Denmark
| | - Claus Bøttcher Jørgensen
- Department of Veterinary and Animal Sciences, Faculty of Health and Medical Sciences, University of Copenhagen, Frederiksberg, Denmark
| | - Jens Peter Nielsen
- Department of Veterinary and Animal Sciences, Faculty of Health and Medical Sciences, University of Copenhagen, Frederiksberg, Denmark
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Saladrigas-García M, Durán M, D’Angelo M, Coma J, Pérez JF, Martín-Orúe SM. An insight into the commercial piglet's microbial gut colonization: from birth towards weaning. Anim Microbiome 2022; 4:68. [PMID: 36572944 PMCID: PMC9791761 DOI: 10.1186/s42523-022-00221-9] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/26/2022] [Accepted: 12/18/2022] [Indexed: 12/28/2022] Open
Abstract
BACKGROUND The establishment of the gut microbiota can be influenced by several perinatal factors, including, most importantly, the maternal microbiota. Moreover, early-life environmental variation affects gut microbial colonization and the intestinal health of offspring throughout life. The present study aimed to explore the development of piglet gut microbiota from birth to weaning in the commercial practice and also to assess how different farm environments could condition this process. Although it is possible to find in the literature other studies with similar objectives this work probably represents one of the few studies that make a systematic evaluation of such differential factors under a real scenario. To achieve this objective, we performed two trials. In a first Trial, we selected 2 farms in which we performed an intensive sampling (5 samples /animal) to characterize the gut colonization pattern during the first days of life and to identify the time window with the greatest impact. Both farms differed in their health status and the use of antimicrobials in the piglets. In a second Trial, we selected 4 additional farms with variable rearing conditions and a distinctive use of antimicrobials in the sows with a simplified sampling pattern (2 samples/animal). Faecal samples were obtained with swabs and DNA was extracted by using the PSP® Spin Stool DNA Kit and sequencing of the 16S rRNA gene (V3-V4 region) performed by Illumina MiSeq Platform. RESULTS The present study contributes to a better understanding of microbiome development during the transition from birth to weaning in commercial conditions. Alpha diversity was strongly affected by age, with an increased richness of species through time. Beta diversity decreased after weaning, suggesting a convergent evolvement among individuals. We pinpointed the early intestinal colonizers belonging to Bacteroides, Escherichia-Shigella, Clostridium sensu stricto 1, and Fusobacterium genera. During lactation(d7-d21 of life), the higher relative abundances of Bacteroides and Lactobacillus genera were correlated with a milk-oriented microbiome. As the piglets aged and after weaning (d36 of life), increasing abundances of genera such as Prevotella, Butyricimonas, Christensenellaceae R-7 group, Dorea, Phascolarctobacterium, Rikenellaceae RC9 gut group, Subdoligranulum, and Ruminococcaceae UCG-002 were observed. These changes indicate the adaptation of the piglets to a cereal-based diet rich in oligosaccharides and starch. Our results also show that the farm can have a significant impact in such a process, evidencing the influence of different environments and rearing systems on the gut microbiota development of the young piglet. Differences between farms were more noticeable after weaning than during lactation with changes in alpha and beta biodiversity and specific taxa. The analysis of such differences suggests that piglets receiving intramuscular amoxicillin (days 2-5 of life) and being offered an acidifying rehydrating solution (Alpha farm in Trial 1) have a greater alpha diversity and more abundant Lactobacillus population. Moreover, the only farm that did not offer any rehydrating solution (Foxtrot farm in Trial 2) showed a lower alpha diversity (day 2 of life) and increased abundance of Enterobacteriaceae (both at 2 and 21 days). The use of in-feed antibiotics in the sows was also associated with structural changes in the piglets' gut ecosystem although without changes in richness or diversity. Significant shifts could be registered in different microbial groups, particularly lower abundances of Fusobacterium in those piglets from medicated sows. CONCLUSIONS In conclusion, during the first weeks of life, the pig microbiota showed a relevant succession of microbial groups towards a more homogeneous and stable ecosystem better adapted to the solid dry feed. In this relevant early-age process, the rearing conditions, the farm environment, and particularly the antimicrobial use in piglets and mothers determine changes that could have a relevant impact on gut microbiota maturation. More research is needed to elucidate the relative impact of these farm-induced early life-long changes in the growing pig.
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Affiliation(s)
- Mireia Saladrigas-García
- grid.7080.f0000 0001 2296 0625Servicio de Nutrición Y Bienestar Animal. Departamento de Ciencia Animal Y de los Alimentos, Universitat Autònoma de Barcelona, 08193 Bellaterra, Barcelona, Spain
| | | | - Matilde D’Angelo
- grid.7080.f0000 0001 2296 0625Servicio de Nutrición Y Bienestar Animal. Departamento de Ciencia Animal Y de los Alimentos, Universitat Autònoma de Barcelona, 08193 Bellaterra, Barcelona, Spain
| | - Jaume Coma
- Grupo Vall Companys, 25191 Lleida, Spain
| | - José Francisco Pérez
- grid.7080.f0000 0001 2296 0625Servicio de Nutrición Y Bienestar Animal. Departamento de Ciencia Animal Y de los Alimentos, Universitat Autònoma de Barcelona, 08193 Bellaterra, Barcelona, Spain
| | - Susana María Martín-Orúe
- grid.7080.f0000 0001 2296 0625Servicio de Nutrición Y Bienestar Animal. Departamento de Ciencia Animal Y de los Alimentos, Universitat Autònoma de Barcelona, 08193 Bellaterra, Barcelona, Spain
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Abbas M, Hayirli Z, Drakesmith H, Andrews SC, Lewis MC. Effects of iron deficiency and iron supplementation at the host-microbiota interface: Could a piglet model unravel complexities of the underlying mechanisms? Front Nutr 2022; 9:927754. [PMID: 36267902 PMCID: PMC9577221 DOI: 10.3389/fnut.2022.927754] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2022] [Accepted: 08/05/2022] [Indexed: 01/14/2023] Open
Abstract
Iron deficiency is the most prevalent human micronutrient deficiency, disrupting the physiological development of millions of infants and children. Oral iron supplementation is used to address iron-deficiency anemia and reduce associated stunting but can promote infection risk since restriction of iron availability serves as an innate immune mechanism against invading pathogens. Raised iron availability is associated with an increase in enteric pathogens, especially Enterobacteriaceae species, accompanied by reductions in beneficial bacteria such as Bifidobacteria and lactobacilli and may skew the pattern of gut microbiota development. Since the gut microbiota is the primary driver of immune development, deviations from normal patterns of bacterial succession in early life can have long-term implications for immune functionality. There is a paucity of knowledge regarding how both iron deficiency and luminal iron availability affect gut microbiota development, or the subsequent impact on immunity, which are likely to be contributors to the increased risk of infection. Piglets are naturally iron deficient. This is largely due to their low iron endowments at birth (primarily due to large litter sizes), and their rapid growth combined with the low iron levels in sow milk. Thus, piglets consistently become iron deficient within days of birth which rapidly progresses to anemia in the absence of iron supplementation. Moreover, like humans, pigs are omnivorous and share many characteristics of human gut physiology, microbiota and immunity. In addition, their precocial nature permits early maternal separation, individual housing, and tight control of nutritional intake. Here, we highlight the advantages of piglets as valuable and highly relevant models for human infants in promoting understanding of how early iron status impacts physiological development. We also indicate how piglets offer potential to unravel the complexities of microbiota-immune responses during iron deficiency and in response to iron supplementation, and the link between these and increased risk of infectious disease.
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Affiliation(s)
- Munawar Abbas
- Food and Nutritional Sciences, University of Reading, Reading, United Kingdom
| | - Zeynep Hayirli
- Food and Nutritional Sciences, University of Reading, Reading, United Kingdom
| | - Hal Drakesmith
- MRC Human Immunology Unit, MRC Weatherall Institute of Molecular Medicine, University of Oxford, Oxford, United Kingdom
| | - Simon C. Andrews
- School of Biological Sciences, University of Reading, Reading, United Kingdom
| | - Marie C. Lewis
- Food and Nutritional Sciences, University of Reading, Reading, United Kingdom
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10
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Rose EC, Blikslager AT, Ziegler AL. Porcine Models of the Intestinal Microbiota: The Translational Key to Understanding How Gut Commensals Contribute to Gastrointestinal Disease. Front Vet Sci 2022; 9:834598. [PMID: 35400098 PMCID: PMC8990160 DOI: 10.3389/fvets.2022.834598] [Citation(s) in RCA: 14] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/13/2021] [Accepted: 02/28/2022] [Indexed: 12/14/2022] Open
Abstract
In the United States, gastrointestinal disorders account for in excess of $130 billion in healthcare expenditures and 22 million hospitalizations annually. Many of these disorders, including necrotizing enterocolitis of infants, obesity, diarrhea, and inflammatory bowel disease, are associated with disturbances in the gastrointestinal microbial composition and metabolic activity. To further elucidate the pathogenesis of these disease syndromes as well as uncover novel therapies and preventative measures, gastrointestinal researchers should consider the pig as a powerful, translational model of the gastrointestinal microbiota. This is because pigs and humans share striking similarities in their intestinal microbiota as well as gastrointestinal anatomy and physiology. The introduction of gnotobiotic pigs, particularly human-microbial associated pigs, has already amplified our understanding of many gastrointestinal diseases that have detrimental effects on human health worldwide. Continued utilization of these models will undoubtedly inform translational advancements in future gastrointestinal research and potential therapeutics.
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Affiliation(s)
| | | | - Amanda L. Ziegler
- Department of Clinical Sciences, College of Veterinary Medicine, North Carolina State University, Raleigh, NC, United States
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11
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Sonalio K, Almeida HMS, Mechler-Dreibi ML, Storino GY, Haesebrouck F, Maes D, de Oliveira LG. Influence of Mycoplasma hyopneumoniae natural infection on the respiratory microbiome diversity of finishing pigs. Vet Res 2022; 53:20. [PMID: 35303928 PMCID: PMC8932171 DOI: 10.1186/s13567-022-01038-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/27/2021] [Accepted: 02/10/2022] [Indexed: 11/10/2022] Open
Abstract
Mycoplasma (M.) hyopneumoniae interacts with the respiratory microbiota and facilitates colonization of other pathogens. The present study investigated the pulmonary and nasal microbiota of M. hyopneumoniae-infected and M. hyopneumoniae-free pigs. Sixty-six pigs from three commercial herds were selected at the end of the finishing phase: 44 originated from two M. hyopneumoniae-positive herds and 22 from a M. hyopneumoniae-negative farm. At the slaughterhouse, samples of nasal turbinate (NT) and bronchus-alveolar lavage fluid (BALF) were collected. DNA was extracted with a commercial kit and the infection status was confirmed by qPCR. All samples from the same herd were pooled, and next-generation sequencing based on the hypervariable region V3-V4 of the 16 s bacterial rDNA was performed. Data analysis included the taxonomic analysis, Alpha diversity indexes, and Principal coordinates analysis (Pcoa) using Jaccard, Bray-Curtis, Weighted Unifrac, and Unweighted Unifrac distances. All pigs from the infected herds tested PCR positive for M. hyopneumoniae, whereas all pigs from the negative farm were negative. There was a greater diversity of microorganisms in BALF when compared to NT samples in all the farms. BALF samples from infected animals showed higher abundance of M. hyopneumoniae than NT samples and a predominance of Pasteurella multocida among the main species identified, which was also abundant in the M. hyopneumoniae-free herd. PCoa diagrams indicated that for most of the samples, dissimilarity on bacterial composition was observed, regardless of infection status and sample type. Therefore, the lung microbiota was modulated by M. hyopneumoniae infection, which could play a role in the pathogenesis of M. hyopneumoniae-disease.
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Affiliation(s)
- Karina Sonalio
- School of Agricultural and Veterinarian Sciences, São Paulo State University (Unesp), Jaboticabal, Brazil.,Faculty of Veterinary Medicine, Ghent University, Merelbeke, Belgium
| | - Henrique M S Almeida
- School of Agricultural and Veterinarian Sciences, São Paulo State University (Unesp), Jaboticabal, Brazil
| | - Marina L Mechler-Dreibi
- School of Agricultural and Veterinarian Sciences, São Paulo State University (Unesp), Jaboticabal, Brazil
| | - Gabriel Y Storino
- School of Agricultural and Veterinarian Sciences, São Paulo State University (Unesp), Jaboticabal, Brazil
| | | | - Dominiek Maes
- Faculty of Veterinary Medicine, Ghent University, Merelbeke, Belgium
| | - Luís Guilherme de Oliveira
- School of Agricultural and Veterinarian Sciences, São Paulo State University (Unesp), Jaboticabal, Brazil.
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12
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Law K, Lozinski B, Torres I, Davison S, Hilbrands A, Nelson E, Parra-Suescun J, Johnston L, Gomez A. Disinfection of Maternal Environments Is Associated with Piglet Microbiome Composition from Birth to Weaning. mSphere 2021; 6:e0066321. [PMID: 34494881 PMCID: PMC8550216 DOI: 10.1128/msphere.00663-21] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2021] [Accepted: 08/20/2021] [Indexed: 02/06/2023] Open
Abstract
Maternal factors predetermine offspring development and health, including the establishment of offsprings' first microbiomes. Research in swine has shown that early microbial exposures impact microbiome colonization in piglets, but this phenomenon has never been tested in the context of delivery room disinfection. Thus, we exposed gestating sows to two delivery environments (n = 3/environment): stalls cleaned with a broad-spectrum disinfectant (disinfected environment [D]) or stalls cleaned only with hot-water power washing (nondisinfected environment [Nde]), 3 days prior to farrowing. Microbiomes of sows and farrowed piglets (n = 27/environment) were profiled at 4 different time points from birth to weaning via 16S rRNA sequencing. The results show that although vaginal, milk, skin, and gut microbiomes in mothers were minimally affected, sanitation of farrowing stalls impacted piglet microbiome colonization. These effects were mainly characterized by lower bacterial diversity in the gut and nasal cavity, specifically in D piglets at birth, and by distinct taxonomic compositions from birth to weaning depending on the farrowing environment. For instance, environmental bacteria greatly influenced microbiome colonization in Nde piglets, which also harbored significantly higher abundances of gut Lactobacillus and nasal Enhydrobacter at several time points through weaning. Different sanitation strategies at birth also resulted in distinct microbiome assembly patterns, with lower microbial exposures in D piglets being associated with limited interactions between bacterial taxa. However, increasing microbial exposures at birth through the lack of disinfection were also associated with lower piglet weight, highlighting the importance of understanding the trade-offs among optimal microbiome development, health, and growth performance in swine production systems. IMPORTANCE We show that levels of disinfection in farrowing facilities can impact early microbial exposures and colonization by pioneer microbes in piglets. Although previous research has shown a similar effect by raising pigs outdoors or by exposing them to soil, these practices are unattainable in most swine production systems in the United States due to biosecurity practices. Thus, our results underscore the importance of evaluating different disinfection practices in swine production to safely reduce pathogenic risks without limiting early microbial exposures. Allowing early exposure to both beneficial and pathogenic microbes may positively impact immune responses, reduce the stressors of weaning, and potentially reduce the need for dietary antimicrobials. However, the benefits of modified early microbial exposures need to be accomplished along with acceptable growth performance. Thus, our results also provide clues for understanding how disinfection practices in farrowing rooms may impact early microbiome development and assembly.
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Affiliation(s)
- Kayla Law
- Department of Animal Science, University of Minnesotagrid.17635.36, St. Paul, Minnesota, USA
| | - Brigit Lozinski
- Department of Animal Science, University of Minnesotagrid.17635.36, St. Paul, Minnesota, USA
| | - Ivanellis Torres
- Department of Animal Science, University of Minnesotagrid.17635.36, St. Paul, Minnesota, USA
| | - Samuel Davison
- Department of Animal Science, University of Minnesotagrid.17635.36, St. Paul, Minnesota, USA
| | - Adrienne Hilbrands
- Department of Animal Science, University of Minnesotagrid.17635.36, St. Paul, Minnesota, USA
- University of Minnesotagrid.17635.36, West Central Research and Outreach Center, Morris, Minnesota, USA
| | - Emma Nelson
- Department of Animal Science, University of Minnesotagrid.17635.36, St. Paul, Minnesota, USA
- University of Minnesotagrid.17635.36, West Central Research and Outreach Center, Morris, Minnesota, USA
| | | | - Lee Johnston
- Department of Animal Science, University of Minnesotagrid.17635.36, St. Paul, Minnesota, USA
- University of Minnesotagrid.17635.36, West Central Research and Outreach Center, Morris, Minnesota, USA
| | - Andres Gomez
- Department of Animal Science, University of Minnesotagrid.17635.36, St. Paul, Minnesota, USA
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13
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Verbeek E, Keeling L, Landberg R, Lindberg JE, Dicksved J. The gut microbiota and microbial metabolites are associated with tail biting in pigs. Sci Rep 2021; 11:20547. [PMID: 34654857 DOI: 10.1038/s41598-021-99741-8] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/26/2021] [Accepted: 09/27/2021] [Indexed: 02/06/2023] Open
Abstract
Tail biting is an abnormal behaviour that causes stress, injury and pain. Given the critical role of the gut-microbiota in the development of behavioural problems in humans and animals, the aim of this study was to determine whether pigs that are biters, victims of tail biting or controls (nine matched sets of pigs) have a different microbiota composition, diversity and microbial metabolite profile. We collected faecal and blood samples from each individual for analysis. The gut microbiota composition was most different between the biter and the control pigs, with a higher relative abundance of Firmicutes in tail biter pigs than the controls. Furthermore, we detected differences in faecal and plasma short chain fatty acids (SCFA) profiles between the biter and victim pigs, suggesting physiological differences even though they are kept in the same pen. Thus, in addition to supporting an association between the gut microbiota and tail biting in pigs, this study also provides the first evidence of an association between tail biting and SCFA. Therefore, further research is needed to confirm these associations, to determine causality and to study how the SCFA profiles of an individual play a role in the development of tail biting behaviour.
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14
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Nowland TL, Kirkwood RN, Pluske JR. Review: Can early-life establishment of the piglet intestinal microbiota influence production outcomes? Animal 2021; 16 Suppl 2:100368. [PMID: 34649827 DOI: 10.1016/j.animal.2021.100368] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2021] [Revised: 08/07/2021] [Accepted: 08/27/2021] [Indexed: 12/21/2022] Open
Abstract
The gastrointestinal tract microbiota is involved in the development and function of many body processes. Studies demonstrate that early-life microbial colonisation is the most important time for shaping intestinal and immune development, with perturbations to the microbiota during this time having long-lasting negative implications for the host. Piglets face many early-life events that shape the acquisition and development of their intestinal microbiota. The pork industry has a unique advantage in that the producer has a degree of control over what piglets are exposed to, providing conditions that allow for optimum piglet growth and development. An influx of publications within this area has occurred in recent times and with this, interest surrounding its application in pork production has increased. However, it can be difficult to distinguish which research is of most relevance to industry in terms of delivering repeatable and reliable production outcomes. In this review, we describe the literature surrounding research within pigs, predominantly during the preweaning period that has either provided solutions to industry problems or is generating information targeted at addressing relevant industry issues, with the focus being on studies demonstrating causation where possible. This review will provide a basis for the development of new studies targeted at understanding how to better support initial intestinal microbiota colonisation in order to improve piglet health and survival.
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Affiliation(s)
- T L Nowland
- Livestock Sciences, South Australian Research and Development Institute, PPPI Building, University of Adelaide, Roseworthy, SA 5371, Australia.
| | - R N Kirkwood
- School of Animal and Veterinary Sciences, The University of Adelaide, Roseworthy, SA 5371, Australia
| | - J R Pluske
- Faculty of Veterinary and Agricultural Sciences, The University of Melbourne, Parkville, VIC 3010, Australia
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15
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Cheng H, Liu J, Tan Y, Feng W, Peng C. Interactions between gut microbiota and berberine, a necessary procedure to understand the mechanisms of berberine. J Pharm Anal 2021. [PMID: 36105164 PMCID: PMC9463479 DOI: 10.1016/j.jpha.2021.10.003] [Citation(s) in RCA: 47] [Impact Index Per Article: 15.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2021] [Revised: 09/23/2021] [Accepted: 10/19/2021] [Indexed: 02/06/2023] Open
Abstract
Berberine (BBR), an isoquinoline alkaloid, has been found in many plants, such as Coptis chinensis Franch and Phellodendron chinense Schneid. Although BBR has a wide spectrum of pharmacological effects, its oral bioavailability is extremely low. In recent years, gut microbiota has emerged as a cynosure to understand the mechanisms of action of herbal compounds. Numerous studies have demonstrated that due to its low bioavailability, BBR can interact with the gut microbiota, thereby exhibiting altered pharmacological effects. However, no systematic and comprehensive review has summarized these interactions and their corresponding influences on pharmacological effects. Here, we describe the direct interactive relationships between BBR and gut microbiota, including regulation of gut microbiota composition and metabolism by BBR and metabolization of BBR by gut microbiota. In addition, the complex interactions between gut microbiota and BBR as well as the side effects and personalized use of BBR are discussed. Furthermore, we provide our viewpoint on future research directions regarding BBR and gut microbiota. This review not only helps to explain the mechanisms underlying BBR activity but also provides support for the rational use of BBR in clinical practice. Low bioavailability enables interactions between berberine and the gut microbiota. Berberine can shape the composition and metabolism of the gut microbiota. Gut microbiota can metabolize and transform berberine. Personalized use of berberine can reduce the occurrence of side effects.
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16
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Lymberopoulos E, Gentili GI, Alomari M, Sharma N. Topological Data Analysis Highlights Novel Geographical Signatures of the Human Gut Microbiome. Front Artif Intell 2021; 4:680564. [PMID: 34490420 PMCID: PMC8417942 DOI: 10.3389/frai.2021.680564] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/14/2021] [Accepted: 07/28/2021] [Indexed: 01/22/2023] Open
Abstract
Background: There is growing interest in the connection between the gut microbiome and human health and disease. Conventional approaches to analyse microbiome data typically entail dimensionality reduction and assume linearity of the observed relationships, however, the microbiome is a highly complex ecosystem marked by non-linear relationships. In this study, we use topological data analysis (TDA) to explore differences and similarities between the gut microbiome across several countries. Methods: We used curated adult microbiome data at the genus level from the GMrepo database. The dataset contains OTU and demographical data of over 4,400 samples from 19 studies, spanning 12 countries. We analysed the data with tmap, an integrative framework for TDA specifically designed for stratification and enrichment analysis of population-based gut microbiome datasets. Results: We find associations between specific microbial genera and groups of countries. Specifically, both the USA and UK were significantly co-enriched with the proinflammatory genera Lachnoclostridium and Ruminiclostridium, while France and New Zealand were co-enriched with other, butyrate-producing, taxa of the order Clostridiales. Conclusion: The TDA approach demonstrates the overlap and distinctions of microbiome composition between and within countries. This yields unique insights into complex associations in the dataset, a finding not possible with conventional approaches. It highlights the potential utility of TDA as a complementary tool in microbiome research, particularly for large population-scale datasets, and suggests further analysis on the effects of diet and other regionally varying factors.
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Affiliation(s)
- Eva Lymberopoulos
- Department of Clinical and Movement Neurosciences, Institute of Neurology, University College London, London, United Kingdom.,CDT AI-Enabled Healthcare Systems, Institute of Health Informatics, University College London, London, United Kingdom
| | - Giorgia Isabella Gentili
- Department of Clinical and Movement Neurosciences, Institute of Neurology, University College London, London, United Kingdom
| | - Muhannad Alomari
- Department of Clinical and Movement Neurosciences, Institute of Neurology, University College London, London, United Kingdom.,R Data Labs, Rolls-Royce Ltd, Derby, United Kingdom
| | - Nikhil Sharma
- Department of Clinical and Movement Neurosciences, Institute of Neurology, University College London, London, United Kingdom.,National Hospital for Neurology and Neurosurgery, University College London Hospitals NHS Foundation Trust, London, United Kingdom
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17
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Brame JE, Liddicoat C, Abbott CA, Breed MF. The potential of outdoor environments to supply beneficial butyrate-producing bacteria to humans. Sci Total Environ 2021; 777:146063. [PMID: 33684759 DOI: 10.1016/j.scitotenv.2021.146063] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/16/2020] [Revised: 02/19/2021] [Accepted: 02/19/2021] [Indexed: 06/12/2023]
Abstract
Butyrate is an important mediator of human health and disease. The mechanisms of action of butyrate are becoming increasingly well-known. Many commensal bacteria that inhabit the human gut can synthesise butyrate, which is then absorbed into the human host. Simultaneously, several immune- and inflammatory-mediated diseases are being linked to insufficient exposure to beneficial microbes from our environment, including butyrate-producing bacteria. However, the role of outdoor environmental exposure to butyrate-producing bacteria remains poorly understood. Here we review the literature on the human exposure pathways to butyrate-producing bacteria, with a particular focus on outdoor environmental sources (e.g. associated with plants, plant-based residues, and soil), and the health implications of exposure to them. Emerging evidence suggests that environmental butyrate-producers may help supplement the human gut microbiota and represent an important component of the Biodiversity and Old Friends hypotheses. Improving our understanding of potential sources, precursors, and exposure pathways of environmental butyrate-producers that influence the gut microbiota and butyrate production offers promise to advance multiple disciplines of health and environmental science. We outline research priorities to address knowledge gaps in the outdoor environment-butyrate-health nexus and build knowledge of the potential pathways to help optimise exposure to human-beneficial butyrate-producing bacteria from the outdoor environment during childhood and adulthood.
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Affiliation(s)
- Joel E Brame
- College of Science and Engineering, Flinders University, Bedford Park, SA 5042, Australia.
| | - Craig Liddicoat
- College of Science and Engineering, Flinders University, Bedford Park, SA 5042, Australia; School of Public Health, The University of Adelaide, SA 5005, Australia
| | - Catherine A Abbott
- College of Science and Engineering, Flinders University, Bedford Park, SA 5042, Australia
| | - Martin F Breed
- College of Science and Engineering, Flinders University, Bedford Park, SA 5042, Australia
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18
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Fournier E, Roussel C, Dominicis A, Ley D, Peyron MA, Collado V, Mercier-Bonin M, Lacroix C, Alric M, Van de Wiele T, Chassard C, Etienne-Mesmin L, Blanquet-Diot S. In vitro models of gut digestion across childhood: current developments, challenges and future trends. Biotechnol Adv 2021; 54:107796. [PMID: 34252564 DOI: 10.1016/j.biotechadv.2021.107796] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/18/2021] [Revised: 07/05/2021] [Accepted: 07/06/2021] [Indexed: 02/08/2023]
Abstract
The human digestion is a multi-step and multi-compartment process essential for human health, at the heart of many issues raised by academics, the medical world and industrials from the food, nutrition and pharma fields. In the first years of life, major dietary changes occur and are concomitant with an evolution of the whole child digestive tract anatomy and physiology, including colonization of gut microbiota. All these phenomena are influenced by child exposure to environmental compounds, such as drugs (especially antibiotics) and food pollutants, but also childhood infections. Due to obvious ethical, regulatory and technical limitations, in vivo approaches in animal and human are more and more restricted to favor complementary in vitro approaches. This review summarizes current knowledge on the evolution of child gut physiology from birth to 3 years old regarding physicochemical, mechanical and microbial parameters. Then, all the available in vitro models of the child digestive tract are described, ranging from the simplest static mono-compartmental systems to the most sophisticated dynamic and multi-compartmental models, and mimicking from the oral phase to the colon compartment. Lastly, we detail the main applications of child gut models in nutritional, pharmaceutical and microbiological studies and discuss the limitations and challenges facing this field of research.
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Affiliation(s)
- Elora Fournier
- Université Clermont Auvergne, INRAE, UMR 454 MEDIS, Microbiologie Environnement Digestif et Santé, CRNH Auvergne, 63000 Clermont-Ferrand, France; Toxalim, Research Centre in Food Toxicology, INRAE, ENVT, INP-Purpan, UPS, Université de Toulouse, 31000 Toulouse, France
| | - Charlène Roussel
- Laval University, INAF Institute of Nutrition and Functional Foods, G1V 0A6 Quebec, Canada
| | - Alessandra Dominicis
- European Reference Laboratory for E. coli, Istituto Superiore di Sanità, Rome, Italy
| | - Delphine Ley
- Université Lille 2, Faculté de Médecine, Inserm U995 Nutritional Modulation of Infection and Inflammation, 59045 Lille, France
| | - Marie-Agnès Peyron
- Université Clermont Auvergne, INRAE, UNH, Unité de Nutrition Humaine, CRNH Auvergne, 63000 Clermont-Ferrand, France
| | - Valérie Collado
- Université Clermont Auvergne, EA 4847, CROC, Centre de Recherche en Odontologie Clinique, 63000 Clermont-Ferrand, France
| | - Muriel Mercier-Bonin
- Toxalim, Research Centre in Food Toxicology, INRAE, ENVT, INP-Purpan, UPS, Université de Toulouse, 31000 Toulouse, France
| | - Christophe Lacroix
- Laboratory of Food Biotechnology, Institute of Food, Nutrition and Health, ETH Zurich, 8092 Zürich, Switzerland
| | - Monique Alric
- Université Clermont Auvergne, INRAE, UMR 454 MEDIS, Microbiologie Environnement Digestif et Santé, CRNH Auvergne, 63000 Clermont-Ferrand, France
| | - Tom Van de Wiele
- Ghent University, Center for Microbial Ecology and Technology (CMET), Coupure Links 653, 9000 Ghent, Belgium
| | - Christophe Chassard
- Université Clermont Auvergne, INRAE, VetAgro Sup, UMRF, 15000 Aurillac, France
| | - Lucie Etienne-Mesmin
- Université Clermont Auvergne, INRAE, UMR 454 MEDIS, Microbiologie Environnement Digestif et Santé, CRNH Auvergne, 63000 Clermont-Ferrand, France
| | - Stéphanie Blanquet-Diot
- Université Clermont Auvergne, INRAE, UMR 454 MEDIS, Microbiologie Environnement Digestif et Santé, CRNH Auvergne, 63000 Clermont-Ferrand, France.
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19
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Verbeek E, Dicksved J, Keeling L. Supplementation of Lactobacillus early in life alters attention bias to threat in piglets. Sci Rep 2021; 11:10130. [PMID: 33980959 DOI: 10.1038/s41598-021-89560-2] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2020] [Accepted: 04/28/2021] [Indexed: 02/06/2023] Open
Abstract
Gut microbes play an important role in regulating brain processes and influence behaviour, cognition and emotional states in humans and rodents. Nevertheless, it is not known how ingestion of beneficial microbes modulates emotional states in piglets and whether it can improve welfare. Here we use an attention bias task to assess the effects of Lactobacillus reuteri ATCC-PTA-6475 and Lactobacillus plantarum L1-6 supplementation early in life on emotional states in 33 piglets compared to 31 placebo supplemented piglets. We hypothesized that Lactobacillus supplementation would reduce vigilance behaviour (head at shoulder height or higher) and attention (head oriented towards the threat) in response to an auditory threat. The results showed that the control group increased vigilance behaviour in response to the threat, but there was no increase in the probiotics group. Despite the increased vigilance, the control group paid less attention to the threat. One explanation may be that control piglets avoided looking in the direction of the threat just because they perceived it as more threatening, but further research is necessary to confirm this. In conclusion, Lactobacillus supplementation may be a suitable tool to reduce anxiety, promote a more appropriate response to a challenge and so improve welfare.
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20
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Trevisi P, Luise D, Correa F, Bosi P. Timely Control of Gastrointestinal Eubiosis: A Strategic Pillar of Pig Health. Microorganisms 2021; 9:313. [PMID: 33546450 PMCID: PMC7913656 DOI: 10.3390/microorganisms9020313] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2020] [Revised: 01/30/2021] [Accepted: 02/01/2021] [Indexed: 12/15/2022] Open
Abstract
The pig gastrointestinal tract (GIT) is an open ecosystem in which microorganisms and their host are mutually involved and continually adapt to different factors and problems which may or may not be host dependent or due to the production system. The aim of the present review is to highlight the factors affecting the GIT microbial balance in young pigs, focusing on the pre- and post-weaning phases, to define a road map for improving pig health and the production efficiency of the food chain. Birth and weaning body weight, physiological maturation, colostrum and milk (composition and intake), genetic background, environmental stressors and management practices, antibiotic use and diet composition are considered. Overall, there is a lack of knowledge regarding the effect that some factors, including weaning age, the use of creep feed, the composition of the colostrum and milk and the use of antibiotics, may have on the gut microbiome of piglets. Furthermore, the information on the gut microbiome of piglets is mainly based on the taxonomy description, while there is a lack of knowledge regarding the functional modification of the microbiota, essential for the exploitation of microbiota potential for modulating pig physiology.
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Affiliation(s)
- Paolo Trevisi
- Department of Agricultural and Food Sciences (DISTAL), University of Bologna, 40127 Bologna, Italy; (D.L.); (F.C.); (P.B.)
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21
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Abstract
Initially described for allergic diseases, the hygiene hypothesis was extended to autoimmune diseases in the early 2000s. A historical overview allows appreciation of the development of this concept over the last two decades and its discussion in the context of evolution. While the epidemiological data are convergent, with a few exceptions, the underlying mechanisms are multiple and complex. A major question is to determine what is the respective role of pathogens, bacteria, viruses, and parasites, versus commensals. The role of the intestinal microbiota has elicited much interest, but is it a cause or a consequence of autoimmune-mediated inflammation? Our hypothesis is that both pathogens and commensals intervene. Another question is to dissect what are the underlying cellular and molecular mechanisms. The role of immunoregulatory cytokines, in particular interleukin-10 and TGF beta is probably essential. An important place should also be given to ligands of innate immunity receptors present in bacteria, viruses or parasites acting independently of their immunogenicity. The role of Toll-Like Receptor (TLR) ligands is well documented including via TLR ligand desensitization.
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Affiliation(s)
- Jean-François Bach
- Université de Paris, Paris, France.,INSERM U1151, Institut Necker-Enfants Malades, Paris, France.,Academie des Sciences, Paris, France
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22
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Hansen LHB, Nielsen B, Boll EJ, Skjøt-Rasmussen L, Wellejus A, Jørgensen L, Lauridsen C, Canibe N. Functional in vitro screening of probiotic strains for inoculation of piglets as a prophylactic measure towards Enterotoxigenic Escherichia coli infection. J Microbiol Methods 2020; 180:106126. [PMID: 33333101 DOI: 10.1016/j.mimet.2020.106126] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/14/2020] [Revised: 12/11/2020] [Accepted: 12/11/2020] [Indexed: 12/23/2022]
Abstract
Enterotoxigenic Escherichia coli (ETEC), being the major cause of post-weaning diarrhoea (PWD) in newly weaned piglets, induces poor performance and economic losses in pig production. This functional in vitro screening study investigated probiotic strains for use in suckling piglets as a prophylactic strategy towards PWD. Nine strains were evaluated based on their ability to: enhance intestinal epithelial barrier function, reduce adherence of ETEC F18 to intestinal cells, inhibit growth of ETEC F18, and grow on porcine milk oligosaccharides. Strains included in the screening were of the species Lactobacillus, Enterococcus, Bifidobacterium and Bacillus. Our in vitro screening demonstrated genus-, species and strain-specific differences in the mode of action of the tested probiotic strains. Some of the tested bifidobacteria were able to grow on the two porcine milk oligosaccharides, 3'-sialyllactose sodium salt (3'SL) and Lacto-N-neotetraose (LNnT), whereas most lactic acid bacteria strains and both Bacillus subtilis strains failed to do so. All probiotic strains inhibited growth of ETEC F18 on agar plates. All but the bifidobacteria reduced binding of ETEC F18 to Caco-2 cell monolayers, with the Enterococcus faecium strain having the most profound effect. All three lactic acid bacteria and Bifidobacterium animalis subsp. lactis counteracted the ETEC F18-induced permeability across Caco-2 cell monolayers with the E. faecium strain exhibiting the most pronounced protective effect. The findings from this in vitro screening study indicate that, when selecting probiotic strains for suckling piglets as a prophylactic strategy towards PWD, it would be advantageous to choose a multi-species product including strains with different modes of action in order to increase the likelihood of achieving beneficial effects in vivo.
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Affiliation(s)
- L H B Hansen
- Chr. Hansen A/S, Animal Health Innovation, Bøge Allé 10-12, 2970 Hørsholm, Denmark; Aarhus University, Department of Animal Science, Blichers Allé 20, 8830 Tjele, Denmark.
| | - B Nielsen
- Chr. Hansen A/S, Animal Health Innovation, Bøge Allé 10-12, 2970 Hørsholm, Denmark
| | - E J Boll
- Chr. Hansen A/S, Animal Health Innovation, Bøge Allé 10-12, 2970 Hørsholm, Denmark
| | - L Skjøt-Rasmussen
- Chr. Hansen A/S, Animal Health Innovation, Bøge Allé 10-12, 2970 Hørsholm, Denmark
| | - A Wellejus
- Chr. Hansen A/S, Human Health Innovation, Bøge Allé 10-12, 2970 Hørsholm, Denmark
| | - L Jørgensen
- Chr. Hansen A/S, Animal Health Commercial Development, Bøge Allé 10-12, 2970 Hørsholm, Denmark
| | - C Lauridsen
- Aarhus University, Department of Animal Science, Blichers Allé 20, 8830 Tjele, Denmark
| | - N Canibe
- Aarhus University, Department of Animal Science, Blichers Allé 20, 8830 Tjele, Denmark
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23
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de Vries H, Geervliet M, Jansen CA, Rutten VPMG, van Hees H, Groothuis N, Wells JM, Savelkoul HFJ, Tijhaar E, Smidt H. Impact of Yeast-Derived β-Glucans on the Porcine Gut Microbiota and Immune System in Early Life. Microorganisms 2020; 8:microorganisms8101573. [PMID: 33066115 PMCID: PMC7601942 DOI: 10.3390/microorganisms8101573] [Citation(s) in RCA: 22] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2020] [Revised: 10/07/2020] [Accepted: 10/09/2020] [Indexed: 01/10/2023] Open
Abstract
Piglets are susceptible to infections in early life and around weaning due to rapid environmental and dietary changes. A compelling target to improve pig health in early life is diet, as it constitutes a pivotal determinant of gut microbial colonization and maturation of the host’s immune system. In the present study, we investigated how supplementation of yeast-derived β-glucans affects the gut microbiota and immune function pre- and post-weaning, and how these complex systems develop over time. From day two after birth until two weeks after weaning, piglets received yeast-derived β-glucans or a control treatment orally and were subsequently vaccinated against Salmonella Typhimurium. Faeces, digesta, blood, and tissue samples were collected to study gut microbiota composition and immune function. Overall, yeast-derived β-glucans did not affect the vaccination response, and only modest effects on faecal microbiota composition and immune parameters were observed, primarily before weaning. This study demonstrates that the pre-weaning period offers a ‘window of opportunity’ to alter the gut microbiota and immune system through diet. However, the observed changes were modest, and any long-lasting effects of yeast-derived β-glucans remain to be elucidated.
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Affiliation(s)
- Hugo de Vries
- Laboratory of Microbiology, Wageningen University, 6700 EH Wageningen, The Netherlands;
- Host-Microbe Interactomics Group, Wageningen University, 6700 AH Wageningen, The Netherlands;
| | - Mirelle Geervliet
- Cell Biology and Immunology Group, Wageningen University, 6700 AH Wageningen, The Netherlands; (M.G.); (N.G.); (H.F.J.S.); (E.T.)
| | - Christine A. Jansen
- Department of Biomolecular Health Sciences, Division of Infectious Diseases and Immunology, Faculty of Veterinary Medicine, Utrecht University, 3584 CL Utrecht, The Netherlands; (C.A.J.); (V.P.M.G.R.)
| | - Victor P. M. G. Rutten
- Department of Biomolecular Health Sciences, Division of Infectious Diseases and Immunology, Faculty of Veterinary Medicine, Utrecht University, 3584 CL Utrecht, The Netherlands; (C.A.J.); (V.P.M.G.R.)
- Department of Veterinary Tropical Diseases, Faculty of Veterinary Science, University of Pretoria, Private Bag X04, Onderstepoort 0110, South Africa
| | - Hubèrt van Hees
- Research and Development, Trouw Nutrition, 3800 AG Amersfoort, The Netherlands;
| | - Natalie Groothuis
- Cell Biology and Immunology Group, Wageningen University, 6700 AH Wageningen, The Netherlands; (M.G.); (N.G.); (H.F.J.S.); (E.T.)
| | - Jerry M. Wells
- Host-Microbe Interactomics Group, Wageningen University, 6700 AH Wageningen, The Netherlands;
| | - Huub F. J. Savelkoul
- Cell Biology and Immunology Group, Wageningen University, 6700 AH Wageningen, The Netherlands; (M.G.); (N.G.); (H.F.J.S.); (E.T.)
| | - Edwin Tijhaar
- Cell Biology and Immunology Group, Wageningen University, 6700 AH Wageningen, The Netherlands; (M.G.); (N.G.); (H.F.J.S.); (E.T.)
| | - Hauke Smidt
- Laboratory of Microbiology, Wageningen University, 6700 EH Wageningen, The Netherlands;
- Correspondence:
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24
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Achard CS, Dupouy V, Cauquil L, Arpaillange N, Bousquet-Melou A, Floc’h NL, Zemb O. Early Inoculation of Microbial Suspension in Suckling Piglets Affects the Transmission of Maternal Microbiota and the Associated Antibiotic Resistance Genes. Microorganisms 2020; 8:microorganisms8101576. [PMID: 33066283 PMCID: PMC7602062 DOI: 10.3390/microorganisms8101576] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2020] [Revised: 09/29/2020] [Accepted: 10/07/2020] [Indexed: 12/18/2022] Open
Abstract
Antibiotic resistance of microbes thriving in the animal gut is a growing concern for public health as it may serve as a hidden reservoir for antibiotic resistance genes (ARGs). We compared 16 control piglets to 24 piglets fed for 3 weeks with S1 or S2 fecal suspensions from two sows that were not exposed to antibiotics for at least 6 months: the first suspension decreased the erythromycin resistance gene ermB and the aminoglycoside phosphotransferase gene conferring resistance to kanamycine (aphA3), while the second decreased the tetracycline resistance gene tetL, with an unexpected increase in ARGs. Using 16S RNA sequencing, we identified microbial species that are likely to carry ARGs, such as the lincosamide nucleotidyltransferase lnuB, the cephalosporinase cepA, and the tetracycline resistance genes tetG and tetM, as well as microbes that never co-exist with the tetracycline resistance gene tetQ, the erythromycin resistance gene ermG and aphA3. Since 73% of the microbes detected in the sows were not detected in the piglets at weaning, a neutral model was applied to estimate whether a microbial species is more important than chance would predict. This model confirmed that force-feeding modifies the dynamics of gut colonization. In conclusion, early inoculation of gut microbes is an interesting possibility to stimulate gut microbiota towards a desirable state in pig production, but more work is needed to be able to predict which communities should be used.
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Affiliation(s)
- Caroline S. Achard
- Génétique Physiologie et Systèmes d’Elevage (GenPhySE), Université de Toulouse, Institut National De Recherche Pour L’agriculture, L’alimentation Et L’environnement (INRAE), Institut National Polytechnique de Toulouse (INPT), École nationale vétérinaire de Toulouse (ENVT), F-31320 Castanet Tolosan, France; (C.S.A.); (L.C.)
- Lallemand SAS, 19 rue des Briquetiers, BP 59, 31702 Blagnac CEDEX, France
| | - Veronique Dupouy
- Innovations thérapeutiques et résistances (INTHERES), Université de Toulouse, INRAE, ENVT, F-31300 Toulouse, France; (V.D.); (N.A.); (A.B.-M.)
| | - Laurent Cauquil
- Génétique Physiologie et Systèmes d’Elevage (GenPhySE), Université de Toulouse, Institut National De Recherche Pour L’agriculture, L’alimentation Et L’environnement (INRAE), Institut National Polytechnique de Toulouse (INPT), École nationale vétérinaire de Toulouse (ENVT), F-31320 Castanet Tolosan, France; (C.S.A.); (L.C.)
| | - Nathalie Arpaillange
- Innovations thérapeutiques et résistances (INTHERES), Université de Toulouse, INRAE, ENVT, F-31300 Toulouse, France; (V.D.); (N.A.); (A.B.-M.)
| | - Alain Bousquet-Melou
- Innovations thérapeutiques et résistances (INTHERES), Université de Toulouse, INRAE, ENVT, F-31300 Toulouse, France; (V.D.); (N.A.); (A.B.-M.)
| | - Nathalie Le Floc’h
- Physiologie, Environnement et Génétique pour l’Animal et les Systèmes d’Élevage (PEGASE), Institut national de recherche pour l’agriculture, l’alimentation et l’environnement (INRAE), Institut Agro, 35590 Saint-Gilles, France;
| | - Olivier Zemb
- Génétique Physiologie et Systèmes d’Elevage (GenPhySE), Université de Toulouse, Institut National De Recherche Pour L’agriculture, L’alimentation Et L’environnement (INRAE), Institut National Polytechnique de Toulouse (INPT), École nationale vétérinaire de Toulouse (ENVT), F-31320 Castanet Tolosan, France; (C.S.A.); (L.C.)
- Correspondence:
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25
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Nielsen CC, Gascon M, Osornio-Vargas AR, Shier C, Guttman DS, Becker AB, Azad MB, Sears MR, Lefebvre DL, Moraes TJ, Turvey SE, Subbarao P, Takaro TK, Brook JR, Scott JA, Mandhane PJ, Tun HM, Kozyrskyj AL. Natural environments in the urban context and gut microbiota in infants. Environ Int 2020; 142:105881. [PMID: 32610248 DOI: 10.1016/j.envint.2020.105881] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/26/2020] [Revised: 05/27/2020] [Accepted: 06/07/2020] [Indexed: 06/11/2023]
Abstract
The biodiversity hypothesis that contact with natural environments (e.g. native vegetation) and biodiversity, through the influence of environmental microbes, may be beneficial for human commensal microbiota has been insufficiently tested. We aimed to study the association between living near natural environments in the urban context, and gut microbiota diversity and composition in young infants. Based on data linkage between the unique Urban Primary Land and Vegetation Inventory (uPLVI) for the city of Edmonton and 355 infants in the CHILD Cohort Study, infant exposure to natural environments (any and specific types, yes/no) was determined within 500 m and 1000 m of their home residence. Gut microbiota composition and diversity at age 4 months was assessed in infant fecal samples. Adjusted for covariates, we observed a reduced odds of high microbial alpha-diversity in the gut of infants exposed to any natural environment within 500 m [Shannon index aOR (95%CI) = 0.63 (0.40, 0.98) and Simpson index = 0.63 (0.41, 0.98)]. In stratified analyses, these associations remained only among infants not breastfed or living with household pets. When doubly stratifying by these variables, the reduced likelihood of high alpha-diversity was present only among infants who were not breastfed and lived with household pets [9% of the study population, Shannon index = 0.07 (0.01, 0.49) and Simpson index = 0.11 (0.02, 0.66)]. Differences in beta-diversity was also seen (p = 0.04) with proximity to a nature space in not breastfed and pets-exposed infants. No associations were observed among infants who were fully formula-fed but without pets at home. When families and their pets had close access to a natural environment, Verrucomicrobiales colonization was reduced in the gut microbiota of formula-fed infants, the abundance of Clostridiales was depleted, whereas the abundance of Enterobacteriales was enriched. Our double-stratified results indicate that proximity to a natural environment plus pet ownership has the capacity to alter the gut microbiota of formula-fed infants. Further research is needed to replicate and better interpret these results, as well as to understand their health consequences.
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Affiliation(s)
- Charlene C Nielsen
- Department of Pediatrics, University of Alberta, Edmonton, AB, Canada; inVIVO Planetary Health, Canada
| | - Mireia Gascon
- ISGlobal, Barcelona, Spain; Universitat Pompeu Fabra (UPF), Barcelona, Spain; CIBER Epidemiología y Salud Pública (CIBERESP), Spain
| | - Alvaro R Osornio-Vargas
- Department of Pediatrics, University of Alberta, Edmonton, AB, Canada; inVIVO Planetary Health, Canada
| | - Catherine Shier
- Urban Form and Corporate Strategic Development, City Planning, City of Edmonton, Edmonton, AB, Canada
| | - David S Guttman
- Centre for the Analysis of Genome Evolution and Function, University of Toronto, Toronto, ON, Canada
| | - Allan B Becker
- Department of Pediatrics & Child Health, Children's Hospital Research Institute of Manitoba, University of Manitoba, Winnipeg, MB, Canada
| | - Meghan B Azad
- Department of Pediatrics & Child Health, Children's Hospital Research Institute of Manitoba, University of Manitoba, Winnipeg, MB, Canada
| | - Malcolm R Sears
- Department of Medicine, McMaster University, Hamilton, ON, Canada
| | - Diana L Lefebvre
- Department of Medicine, McMaster University, Hamilton, ON, Canada
| | - Theo J Moraes
- Department of Pediatrics, Hospital for Sick Children, University of Toronto, Toronto, ON, Canada
| | - Stuart E Turvey
- Department of Pediatrics, Child & Family Research Institute, BC Children's Hospital, University of British Columbia, Vancouver, BC, Canada
| | - Padmaja Subbarao
- Department of Pediatrics, Hospital for Sick Children, University of Toronto, Toronto, ON, Canada
| | - Tim K Takaro
- Faculty of Health Sciences, Simon Fraser University, Vancouver, BC, Canada
| | - Jeffrey R Brook
- Dalla Lana School of Public Health, University of Toronto, Toronto, ON, Canada
| | - James A Scott
- Dalla Lana School of Public Health, University of Toronto, Toronto, ON, Canada
| | - Piush J Mandhane
- Department of Pediatrics, University of Alberta, Edmonton, AB, Canada
| | - Hein M Tun
- HKU-Pasteur Research Pole, School of Public Health, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Hong Kong Special Administrative Region; inVIVO Planetary Health, Canada.
| | - Anita L Kozyrskyj
- Department of Pediatrics, University of Alberta, Edmonton, AB, Canada; Department of Obstetrics & Gynecology, University of Alberta, AB, Canada; School of Public Health, University of Alberta, AB, Canada; inVIVO Planetary Health, Canada.
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26
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Buzoianu SG, Firth AM, Putrino C, Vannucci F. Early-Life Intake of an Isotonic Protein Drink Improves the Gut Microbial Profile of Piglets. Animals (Basel) 2020; 10:E879. [PMID: 32443653 DOI: 10.3390/ani10050879] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2020] [Revised: 05/11/2020] [Accepted: 05/14/2020] [Indexed: 11/17/2022] Open
Abstract
Simple Summary The gut microbiota plays a key role in maintaining the overall health and homeostasis of mammals. Developing blends of nutrients that contribute to a diverse and balanced gut microbiota community thus contributes to improve pig health, particularly at weaning when rapid dietary and environmental changes occur. As shown in the present study, Tonisity Px, an isotonic protein drink that provides key nutrients for nourishing the enterocytes, increased the abundance of beneficial bacteria and decreased that of potentially-pathogenic bacteria when provided to piglets aged 2 to 8 days. This isotonic protein drink also improved the overall gut environment, both pre-weaning and post-weaning, as revealed by 16S rRNA gene sequencing and semiquantitative Escherichia coli culture. Abstract A healthy microbial community in the gut of piglets is critical to minimize the negative performance consequences associated with dietary and environmental changes that occur at weaning. Tonisity Px, an isotonic protein drink, is a potential alternative to balance the gut microbiota as it contains key ingredients for nourishing the small intestine. In the present study, 16 litters comprising 161 piglets were randomly allocated to a group to which Tonisity Px was provided from days 2 to 8 of age (TPX group) or to a control group, to which no Tonisity Px was provided. The TPX group also received Tonisity Px in the 3 days before and after weaning. At days 9, 17, and 30 of age, fecal and ileum samples were collected from piglets belonging to both groups and analyzed using 16S rRNA gene sequencing, semiquantitative PCR of Rotavirus serogroups, and semiquantitative Escherichia coli culture. Overall, Tonisity Px increased the abundance of beneficial bacterial populations (Lactobacillus and Bacteroides species) and reduced potentially pathogenic bacterial populations (E. coli and Prevotellaceae), in both the pre-weaning and post-weaning periods.
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Abstract
It is well established that pig gut microbiota plays a critical role in maintaining metabolic homeostasis as well as in a myriad of physiological, neurological and immunological functions; including protection from pathogens and digestion of food materials - some of which would be otherwise indigestible by the pig. A rich and diverse gut microbial ecosystem (balanced microbiota) is the hallmark of good health; while qualitative and quantitative perturbations in the microbial composition can lead to development of various diseases. Alternatively, diseases caused by stressors or other factors have been shown to negatively impact the microbiota. This review focuses primarily on how commensal microorganisms in the gastrointestinal tract of pigs influence biochemical, physiological, immunological, and metabolic processes within the host animal.
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Affiliation(s)
- Yadnyavalkya Patil
- College of Agricultural Sciences, Department of Veterinary Medicine, Guangdong Ocean University, Zhanjiang, China
- Faculty of Agriculture and Life Sciences, Department of Wine, Food, and Molecular Biosciences, Lincoln University, Lincoln, Canterbury, New Zealand
- Shenzhen Institute, Guangdong Ocean University, Shenzhen, China
| | - Ravi Gooneratne
- Faculty of Agriculture and Life Sciences, Department of Wine, Food, and Molecular Biosciences, Lincoln University, Lincoln, Canterbury, New Zealand
| | - Xiang-Hong Ju
- College of Agricultural Sciences, Department of Veterinary Medicine, Guangdong Ocean University, Zhanjiang, China
- Shenzhen Institute, Guangdong Ocean University, Shenzhen, China
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28
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Khan MS, Ikram M, Park JS, Park TJ, Kim MO. Gut Microbiota, Its Role in Induction of Alzheimer's Disease Pathology, and Possible Therapeutic Interventions: Special Focus on Anthocyanins. Cells 2020; 9:cells9040853. [PMID: 32244729 PMCID: PMC7226756 DOI: 10.3390/cells9040853] [Citation(s) in RCA: 45] [Impact Index Per Article: 11.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/29/2020] [Revised: 03/22/2020] [Accepted: 03/31/2020] [Indexed: 12/21/2022] Open
Abstract
The human gut is a safe environment for several microbes that are symbiotic and important for the wellbeing of human health. However, studies on gut microbiota in different animals have suggested that changes in the composition and structure of these microbes may promote gut inflammation by releasing inflammatory cytokines and lipopolysaccharides, gut-wall leakage, and may affect systemic inflammatory and immune mechanisms that are important for the normal functioning of the body. There are many factors that aid in the gut’s dysbiosis and neuroinflammation, including high stress levels, lack of sleep, fatty and processed foods, and the prolonged use of antibiotics. These neurotoxic mechanisms of dysbiosis may increase susceptibility to Alzheimer’s disease (AD) and other neurodegenerative conditions. Therefore, studies have recently been conducted to tackle AD-like conditions by specifically targeting gut microbes that need further elucidation. It was suggested that gut dyshomeostasis may be regulated by using available options, including the use of flavonoids such as anthocyanins, and restriction of the use of high-fatty-acid-containing food. In this review, we summarize the gut microbiota, factors promoting it, and possible therapeutic interventions especially focused on the therapeutic potential of natural dietary polyflavonoid anthocyanins. Our study strongly suggests that gut dysbiosis and systemic inflammation are critically involved in the development of neurodegenerative disorders, and the natural intake of these flavonoids may provide new therapeutic opportunities for preclinical or clinical studies.
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Affiliation(s)
- Muhammad Sohail Khan
- Division of Applied Life Science (BK 21), College of Natural Sciences, Gyeongsang National University, Jinju 52828, Korea; (M.S.K.); (M.I.); (J.S.P.)
| | - Muhammad Ikram
- Division of Applied Life Science (BK 21), College of Natural Sciences, Gyeongsang National University, Jinju 52828, Korea; (M.S.K.); (M.I.); (J.S.P.)
| | - Jun Sung Park
- Division of Applied Life Science (BK 21), College of Natural Sciences, Gyeongsang National University, Jinju 52828, Korea; (M.S.K.); (M.I.); (J.S.P.)
| | - Tae Ju Park
- Paul O’Gorman Leukaemia Research, Centre Institute of Cancer, Sciences University of Glasgow, 0747 657 5394 Glasgow, UK;
| | - Myeong Ok Kim
- Division of Applied Life Science (BK 21), College of Natural Sciences, Gyeongsang National University, Jinju 52828, Korea; (M.S.K.); (M.I.); (J.S.P.)
- Correspondence: ; Tel.: +82-55-772-1345; Fax: +82-55-772-2656
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29
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Mahmmod YS, Correa-Fiz F, Aragon V. Variations in association of nasal microbiota with virulent and non-virulent strains of Glaesserella (Haemophilus) parasuis in weaning piglets. Vet Res 2020; 51:7. [PMID: 32014043 PMCID: PMC6996185 DOI: 10.1186/s13567-020-0738-8] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/18/2019] [Accepted: 01/07/2020] [Indexed: 12/22/2022] Open
Abstract
Glaesserella (formerly Haemophilus) parasuis causes Glässer’s disease, which results in high economic loss in the swine industry. To understand the polymicrobial interactions of G. parasuis and the nasal microbiota, the statistical association patterns of nasal colonizing bacteria with virulent and non-virulent strains of G. parasuis were studied accounting for the farm management practices as potential risk factors for the occurrence of Glässer’s disease. The nasal microbiota from 51 weaned-piglets from four farms with Glässer’s disease and three farms with no respiratory diseases was previously characterized and included in this study. The presence of virulent and/or non-virulent G. parasuis strains in the nasal cavities was determined in order to establish the potential association with other members of the nasal microbiota. Multivariate logistic and linear regression models were performed among the various members of nasal microbiota and G. parasuis. The multi-site production system and disease presence in the farm were both significantly associated with the presence of G. parasuis virulent strains in the nose of the piglets. Differential bacterial associations were observed with virulent or non-virulent G. parasuis. Chitinophagaceae, Corynebacteriaceae and Corynebacterium were positively associated with the virulent G. parasuis strains, while Enterobacteriaceae, Peptostreptococcaceae, Clostridium XI, and Escherichia/Shigella were negatively associated with virulent G. parasuis. On the other hand, Flavobacteriaceae, Planobacterium, and Phascolarctobacterium were positively associated with the non-virulent G. parasuis strains, while Rikenellaceae, Enterococcaceae, Odoribacter, and Corynebacterium were negatively associated with non-virulent G. parasuis. In conclusion, the nasal microbiota communities showed variations in the association with the G. parasuis strains type.
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Affiliation(s)
- Yasser S Mahmmod
- IRTA, Centre de Recerca en Sanitat Animal (CReSA, IRTA-UAB), Campus de la Universitat Autònoma de Barcelona, 08193, Bellaterra, Spain. .,Universitat Autònoma de Barcelona, Cerdanyola del Vallès, 08193, Bellaterra, Barcelona, Spain. .,Infectious Diseases, Department of Animal Medicine, Faculty of Veterinary Medicine, Zagazig University, Zagazig, Sharkia, 44511, Egypt.
| | - Florencia Correa-Fiz
- IRTA, Centre de Recerca en Sanitat Animal (CReSA, IRTA-UAB), Campus de la Universitat Autònoma de Barcelona, 08193, Bellaterra, Spain.,OIE Collaborating Centre for the Research and Control of Emerging and Re-emerging Swine Diseases in Europe (IRTA-CReSA), Bellaterra, Barcelona, Spain
| | - Virginia Aragon
- IRTA, Centre de Recerca en Sanitat Animal (CReSA, IRTA-UAB), Campus de la Universitat Autònoma de Barcelona, 08193, Bellaterra, Spain.,OIE Collaborating Centre for the Research and Control of Emerging and Re-emerging Swine Diseases in Europe (IRTA-CReSA), Bellaterra, Barcelona, Spain
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30
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Wilkinson N, Hughes RJ, Bajagai YS, Aspden WJ, Hao Van TT, Moore RJ, Stanley D. Reduced environmental bacterial load during early development and gut colonisation has detrimental health consequences in Japanese quail. Heliyon 2020; 6:e03213. [PMID: 31970305 PMCID: PMC6965716 DOI: 10.1016/j.heliyon.2020.e03213] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2019] [Revised: 11/03/2019] [Accepted: 01/10/2020] [Indexed: 12/26/2022] Open
Abstract
Gastrointestinal colonisation by commensal microbiota is essential for the health and well-being of the host. We aimed to evaluate the influence of a reduced bacterial load environment on microbiota development and maturation, and the possibility of targeted colonisation via at-hatch administration of a selected bacterial strain. Japanese quail (Coturnix japonica) were inoculated within 1 h of hatch with a freshly grown culture of a Lactobacillus agilis isolate derived from a healthy adult quail. Hatchlings were kept in a mouse isolator for one week and then housed between one and four weeks of age, with a flock of normally grown adult quail to expose the bacteria-restricted birds to normal commensal quail bacteria. The bacterial isolate used to inoculate the birds was found to completely dominate the microbiota of the intestine of L.agilis at-hatch inoculated birds. Despite 3 weeks of co-housing of the test birds with an adult flock harbouring normal rich gut microbiota, neither the Lactobacillus inoculated nor PBS inoculated birds reached the level of bacterial diversity seen in birds raised under normal conditions. Neither PBS nor Lactobacillus inoculated birds were able to adopt normal quail microbiota after one week of restricted exposure to bacteria, indicating that contact with diverse microbiota during the early days of gut development in birds is critical for the establishment of healthy intestinal community. Very early intervention in the form of a suitable bacterial probiotic inoculant immediately post-hatch protected birds grown in extreme hygiene conditions from developing anomalous gut microbiota and intestinal damage. Our data shows that it is possible to induce dominance of desired strain using simple timed manipulation.
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Affiliation(s)
- Ngare Wilkinson
- Central Queensland University, Institute for Future Farming Systems, Rockhampton, Queensland, 4702, Australia.,Poultry Cooperative Research Centre, University of New England Armidale, New South Wales 2315, Australia
| | - Robert J Hughes
- Poultry Cooperative Research Centre, University of New England Armidale, New South Wales 2315, Australia.,South Australian Research and Development Institute, Pig and Poultry Production Institute, Roseworthy, South Australia 5371, Australia.,The University of Adelaide, School of Animal and Veterinary Sciences Roseworthy, South Australia 5371, Australia
| | - Yadav Sharma Bajagai
- Central Queensland University, Institute for Future Farming Systems, Rockhampton, Queensland, 4702, Australia
| | - William J Aspden
- Central Queensland University, Institute for Future Farming Systems, Rockhampton, Queensland, 4702, Australia
| | - Thi Thu Hao Van
- RMIT University, School of Science, Bundoora, Victoria 3083, Australia
| | - Robert J Moore
- Poultry Cooperative Research Centre, University of New England Armidale, New South Wales 2315, Australia.,RMIT University, School of Science, Bundoora, Victoria 3083, Australia
| | - Dragana Stanley
- Central Queensland University, Institute for Future Farming Systems, Rockhampton, Queensland, 4702, Australia.,Poultry Cooperative Research Centre, University of New England Armidale, New South Wales 2315, Australia
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Aluthge ND, Van Sambeek DM, Carney-Hinkle EE, Li YS, Fernando SC, Burkey TE. BOARD INVITED REVIEW: The pig microbiota and the potential for harnessing the power of the microbiome to improve growth and health1. J Anim Sci 2019; 97:3741-3757. [PMID: 31250899 DOI: 10.1093/jas/skz208] [Citation(s) in RCA: 30] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/02/2019] [Accepted: 06/24/2019] [Indexed: 12/14/2022] Open
Abstract
A variety of microorganisms inhabit the gastrointestinal tract of animals including bacteria, archaea, fungi, protozoa, and viruses. Pioneers in gut microbiology have stressed the critical importance of diet:microbe interactions and how these interactions may contribute to health status. As scientists have overcome the limitations of culture-based microbiology, the importance of these interactions has become more clear even to the extent that the gut microbiota has emerged as an important immunologic and metabolic organ. Recent advances in metagenomics and metabolomics have helped scientists to demonstrate that interactions among the diet, the gut microbiota, and the host to have profound effects on animal health and disease. However, although scientists have now accumulated a great deal of data with respect to what organisms comprise the gastrointestinal landscape, there is a need to look more closely at causative effects of the microbiome. The objective of this review is intended to provide: 1) a review of what is currently known with respect to the dynamics of microbial colonization of the porcine gastrointestinal tract; 2) a review of the impact of nutrient:microbe effects on growth and health; 3) examples of the therapeutic potential of prebiotics, probiotics, and synbiotics; and 4) a discussion about what the future holds with respect to microbiome research opportunities and challenges. Taken together, by considering what is currently known in the four aforementioned areas, our overarching goal is to set the stage for narrowing the path towards discovering how the porcine gut microbiota (individually and collectively) may affect specific host phenotypes.
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Affiliation(s)
- Nirosh D Aluthge
- Department of Animal Science, University of Nebraska, Lincoln, NE
| | | | | | - Yanshuo S Li
- Department of Animal Science, University of Nebraska, Lincoln, NE
| | | | - Thomas E Burkey
- Department of Animal Science, University of Nebraska, Lincoln, NE
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Menegat MB, DeRouchey JM, Woodworth JC, Dritz SS, Tokach MD, Goodband RD. Effects of Bacillus subtilis C-3102 on sow and progeny performance, fecal consistency, and fecal microbes during gestation, lactation, and nursery periods1,2. J Anim Sci 2019; 97:3920-3937. [PMID: 31292631 DOI: 10.1093/jas/skz236] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2019] [Accepted: 07/09/2019] [Indexed: 12/17/2022] Open
Abstract
This study evaluated the effects of providing a dietary probiotic, Bacillus subtilis C-3102, to sows during gestation and lactation and to progeny after weaning on performance, fecal consistency, and fecal microbes. For the sow portion of the study, 29 sows and litters were used from day 30 of gestation until weaning. Sow treatments consisted of control diet or probiotic diet with B. subtilis C-3102 at 500,000 cfu/g of gestation feed and 1,000,000 cfu/g of lactation feed. For the nursery portion of the study, 358 weaned pigs, progeny of sows on study, were used in a 42-d nursery study. Nursery treatments consisted of control diet or probiotic diet with B. subtilis C-3102 and prebiotics at 500,000 cfu/g of nursery feed. Treatments were arranged in a split-plot design with sow treatment (control or probiotic diet) as main plot and nursery treatment (control or probiotic diet) as subplot. Performance, fecal consistency by fecal score method, and fecal microbes by isolation and enumeration method were assessed. In lactation, probiotic-fed sows tended (P = 0.057) to have increased feed intake, but it did not improve (P > 0.05) sow or litter performance in lactation. In the nursery, there were no (P > 0.10) interactions or main effects of sow or nursery treatments on overall growth performance. However, pigs born from control-fed sows had greater (P < 0.05) average daily gain, average daily feed intake, and body weight in late nursery than pigs born from probiotic-fed sows. Fecal score evaluation of nursing and nursery pigs indicated no influence (P > 0.05) of sow or nursery treatments on fecal consistency. Fecal microbial analysis revealed a modest modification in fecal microbial population by increasing (P < 0.05) the number of total Bacillus sp. in probiotic-fed sows and nursery pigs. Nursing piglets born from probiotic-fed sows carried over (P < 0.05) this modification in fecal microbial population preweaning. In conclusion, providing a probiotic based on B. subtilis C-3102 to sows during gestation and lactation and to progeny after weaning did not elicit noteworthy improvements in performance or fecal consistency, but there was a benefit on sow lactation feed intake. Fecal microbial analysis indicated a maternal-progeny intestinal microbiota relationship with pigs born from probiotic-fed sows displaying similar fecal microbial population as sows. However, pigs born from probiotic-fed sows demonstrated reduced growth rate and feed consumption in late nursery.
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Affiliation(s)
- Mariana B Menegat
- Department of Diagnostic Medicine/Pathobiology, College of Veterinary Medicine, Kansas State University, Manhattan, KS
| | - Joel M DeRouchey
- Department of Animal Sciences and Industry, College of Agriculture, Kansas State University, Manhattan, KS
| | - Jason C Woodworth
- Department of Animal Sciences and Industry, College of Agriculture, Kansas State University, Manhattan, KS
| | - Steve S Dritz
- Department of Diagnostic Medicine/Pathobiology, College of Veterinary Medicine, Kansas State University, Manhattan, KS
| | - Mike D Tokach
- Department of Animal Sciences and Industry, College of Agriculture, Kansas State University, Manhattan, KS
| | - Robert D Goodband
- Department of Animal Sciences and Industry, College of Agriculture, Kansas State University, Manhattan, KS
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Tun MH, Tun HM, Mahoney JJ, Konya TB, Guttman DS, Becker AB, Mandhane PJ, Turvey SE, Subbarao P, Sears MR, Brook JR, Lou W, Takaro TK, Scott JA, Kozyrskyj AL. Postnatal exposure to household disinfectants, infant gut microbiota and subsequent risk of overweight in children. CMAJ 2019; 190:E1097-E1107. [PMID: 30224442 DOI: 10.1503/cmaj.170809] [Citation(s) in RCA: 38] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 06/25/2018] [Indexed: 12/28/2022] Open
Abstract
BACKGROUND Emerging links between household cleaning products and childhood overweight may involve the gut microbiome. We determined mediating effects of infant gut microbiota on associations between home use of cleaning products and future overweight. METHODS From the Canadian Healthy Infant Longitudinal Development (CHILD) birth cohort, we tested associations between maternal report of cleaning product use and overweight at age 3, and whether associations were mediated by microbial profiles of fecal samples in 3- to 4-month-old infants. RESULTS Among 757 infants, the abundance of specific gut microbiota was associated with household cleaning with disinfectants and eco-friendly products in a dose-dependent manner. With more frequent use of disinfectants, Lachnospiraceae increasingly became more abundant (highest v. lowest quintile of use: adjusted odds ratio [AOR] 1.93, 95% confidence interval [CI] 1.08 to 3.45) while genus Haemophilus declined in abundance (highest v. lowest quintile of use: AOR 0.36, 95% CI 0.20 to 0.65). Enterobacteriaceae were successively depleted with greater use of eco-friendly products (AOR 0.45, 95% CI 0.27 to 0.74). Lachnospiraceae abundance significantly mediated associations of the top 30th centile of household disinfectant use with higher body mass index (BMI) z score (p = 0.02) and with increased odds of overweight or obesity (p = 0.04) at age 3. Use of eco-friendly products was associated with decreased odds of overweight or obesity independently of Enterobacteriaceae abundance (AOR 0.44, 95% CI 0.22 to 0.86), with no significant mediation (p = 0.2). INTERPRETATION Exposure to household disinfectants was associated with higher BMI at age 3, mediated by gut microbial composition at age 3-4 months. Although child overweight was less common in households that cleaned with eco-friendly products, the lack of mediation by infant gut microbiota suggests another pathway for this association.
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Affiliation(s)
- Mon H Tun
- School of Public Health (M. Tun, Kozyrskyj), University of Alberta, Edmonton, Alta.; Department of Pediatrics (M. Tun, H. Tun, Mahoney, Mandhane, Kozyrskyj), University of Alberta, Edmonton, Alta.; Dalla Lana School of Public Health (Konya, Brook, Lou, Scott), University of Toronto, Toronto, Ont.; Centre for the Analysis of Genome Evolution and Function (Guttman), University of Toronto, Toronto, Ont.; Department of Pediatrics and Child Health (Becker), University of Manitoba, Winnipeg, Man.; Department of Pediatrics (Turvey), Child and Family Research Institute, University of British Columbia, Vancouver, BC; Department of Pediatric Respiratory Medicine (Subbarao), University of Toronto. Toronto, Ont.; Department of Medicine (Sears), McMaster University, Hamilton, Ont.; Faculty of Health Sciences (Takarao), Simon Fraser University, Vancouver, BC; Canadian Healthy Infant Longitudinal Development Study (CHILD Study Investigators)
| | - Hein M Tun
- School of Public Health (M. Tun, Kozyrskyj), University of Alberta, Edmonton, Alta.; Department of Pediatrics (M. Tun, H. Tun, Mahoney, Mandhane, Kozyrskyj), University of Alberta, Edmonton, Alta.; Dalla Lana School of Public Health (Konya, Brook, Lou, Scott), University of Toronto, Toronto, Ont.; Centre for the Analysis of Genome Evolution and Function (Guttman), University of Toronto, Toronto, Ont.; Department of Pediatrics and Child Health (Becker), University of Manitoba, Winnipeg, Man.; Department of Pediatrics (Turvey), Child and Family Research Institute, University of British Columbia, Vancouver, BC; Department of Pediatric Respiratory Medicine (Subbarao), University of Toronto. Toronto, Ont.; Department of Medicine (Sears), McMaster University, Hamilton, Ont.; Faculty of Health Sciences (Takarao), Simon Fraser University, Vancouver, BC; Canadian Healthy Infant Longitudinal Development Study (CHILD Study Investigators)
| | - Justin J Mahoney
- School of Public Health (M. Tun, Kozyrskyj), University of Alberta, Edmonton, Alta.; Department of Pediatrics (M. Tun, H. Tun, Mahoney, Mandhane, Kozyrskyj), University of Alberta, Edmonton, Alta.; Dalla Lana School of Public Health (Konya, Brook, Lou, Scott), University of Toronto, Toronto, Ont.; Centre for the Analysis of Genome Evolution and Function (Guttman), University of Toronto, Toronto, Ont.; Department of Pediatrics and Child Health (Becker), University of Manitoba, Winnipeg, Man.; Department of Pediatrics (Turvey), Child and Family Research Institute, University of British Columbia, Vancouver, BC; Department of Pediatric Respiratory Medicine (Subbarao), University of Toronto. Toronto, Ont.; Department of Medicine (Sears), McMaster University, Hamilton, Ont.; Faculty of Health Sciences (Takarao), Simon Fraser University, Vancouver, BC; Canadian Healthy Infant Longitudinal Development Study (CHILD Study Investigators)
| | - Theodore B Konya
- School of Public Health (M. Tun, Kozyrskyj), University of Alberta, Edmonton, Alta.; Department of Pediatrics (M. Tun, H. Tun, Mahoney, Mandhane, Kozyrskyj), University of Alberta, Edmonton, Alta.; Dalla Lana School of Public Health (Konya, Brook, Lou, Scott), University of Toronto, Toronto, Ont.; Centre for the Analysis of Genome Evolution and Function (Guttman), University of Toronto, Toronto, Ont.; Department of Pediatrics and Child Health (Becker), University of Manitoba, Winnipeg, Man.; Department of Pediatrics (Turvey), Child and Family Research Institute, University of British Columbia, Vancouver, BC; Department of Pediatric Respiratory Medicine (Subbarao), University of Toronto. Toronto, Ont.; Department of Medicine (Sears), McMaster University, Hamilton, Ont.; Faculty of Health Sciences (Takarao), Simon Fraser University, Vancouver, BC; Canadian Healthy Infant Longitudinal Development Study (CHILD Study Investigators)
| | - David S Guttman
- School of Public Health (M. Tun, Kozyrskyj), University of Alberta, Edmonton, Alta.; Department of Pediatrics (M. Tun, H. Tun, Mahoney, Mandhane, Kozyrskyj), University of Alberta, Edmonton, Alta.; Dalla Lana School of Public Health (Konya, Brook, Lou, Scott), University of Toronto, Toronto, Ont.; Centre for the Analysis of Genome Evolution and Function (Guttman), University of Toronto, Toronto, Ont.; Department of Pediatrics and Child Health (Becker), University of Manitoba, Winnipeg, Man.; Department of Pediatrics (Turvey), Child and Family Research Institute, University of British Columbia, Vancouver, BC; Department of Pediatric Respiratory Medicine (Subbarao), University of Toronto. Toronto, Ont.; Department of Medicine (Sears), McMaster University, Hamilton, Ont.; Faculty of Health Sciences (Takarao), Simon Fraser University, Vancouver, BC; Canadian Healthy Infant Longitudinal Development Study (CHILD Study Investigators)
| | - Allan B Becker
- School of Public Health (M. Tun, Kozyrskyj), University of Alberta, Edmonton, Alta.; Department of Pediatrics (M. Tun, H. Tun, Mahoney, Mandhane, Kozyrskyj), University of Alberta, Edmonton, Alta.; Dalla Lana School of Public Health (Konya, Brook, Lou, Scott), University of Toronto, Toronto, Ont.; Centre for the Analysis of Genome Evolution and Function (Guttman), University of Toronto, Toronto, Ont.; Department of Pediatrics and Child Health (Becker), University of Manitoba, Winnipeg, Man.; Department of Pediatrics (Turvey), Child and Family Research Institute, University of British Columbia, Vancouver, BC; Department of Pediatric Respiratory Medicine (Subbarao), University of Toronto. Toronto, Ont.; Department of Medicine (Sears), McMaster University, Hamilton, Ont.; Faculty of Health Sciences (Takarao), Simon Fraser University, Vancouver, BC; Canadian Healthy Infant Longitudinal Development Study (CHILD Study Investigators)
| | - Piush J Mandhane
- School of Public Health (M. Tun, Kozyrskyj), University of Alberta, Edmonton, Alta.; Department of Pediatrics (M. Tun, H. Tun, Mahoney, Mandhane, Kozyrskyj), University of Alberta, Edmonton, Alta.; Dalla Lana School of Public Health (Konya, Brook, Lou, Scott), University of Toronto, Toronto, Ont.; Centre for the Analysis of Genome Evolution and Function (Guttman), University of Toronto, Toronto, Ont.; Department of Pediatrics and Child Health (Becker), University of Manitoba, Winnipeg, Man.; Department of Pediatrics (Turvey), Child and Family Research Institute, University of British Columbia, Vancouver, BC; Department of Pediatric Respiratory Medicine (Subbarao), University of Toronto. Toronto, Ont.; Department of Medicine (Sears), McMaster University, Hamilton, Ont.; Faculty of Health Sciences (Takarao), Simon Fraser University, Vancouver, BC; Canadian Healthy Infant Longitudinal Development Study (CHILD Study Investigators)
| | - Stuart E Turvey
- School of Public Health (M. Tun, Kozyrskyj), University of Alberta, Edmonton, Alta.; Department of Pediatrics (M. Tun, H. Tun, Mahoney, Mandhane, Kozyrskyj), University of Alberta, Edmonton, Alta.; Dalla Lana School of Public Health (Konya, Brook, Lou, Scott), University of Toronto, Toronto, Ont.; Centre for the Analysis of Genome Evolution and Function (Guttman), University of Toronto, Toronto, Ont.; Department of Pediatrics and Child Health (Becker), University of Manitoba, Winnipeg, Man.; Department of Pediatrics (Turvey), Child and Family Research Institute, University of British Columbia, Vancouver, BC; Department of Pediatric Respiratory Medicine (Subbarao), University of Toronto. Toronto, Ont.; Department of Medicine (Sears), McMaster University, Hamilton, Ont.; Faculty of Health Sciences (Takarao), Simon Fraser University, Vancouver, BC; Canadian Healthy Infant Longitudinal Development Study (CHILD Study Investigators)
| | - Padmaja Subbarao
- School of Public Health (M. Tun, Kozyrskyj), University of Alberta, Edmonton, Alta.; Department of Pediatrics (M. Tun, H. Tun, Mahoney, Mandhane, Kozyrskyj), University of Alberta, Edmonton, Alta.; Dalla Lana School of Public Health (Konya, Brook, Lou, Scott), University of Toronto, Toronto, Ont.; Centre for the Analysis of Genome Evolution and Function (Guttman), University of Toronto, Toronto, Ont.; Department of Pediatrics and Child Health (Becker), University of Manitoba, Winnipeg, Man.; Department of Pediatrics (Turvey), Child and Family Research Institute, University of British Columbia, Vancouver, BC; Department of Pediatric Respiratory Medicine (Subbarao), University of Toronto. Toronto, Ont.; Department of Medicine (Sears), McMaster University, Hamilton, Ont.; Faculty of Health Sciences (Takarao), Simon Fraser University, Vancouver, BC; Canadian Healthy Infant Longitudinal Development Study (CHILD Study Investigators)
| | - Malcolm R Sears
- School of Public Health (M. Tun, Kozyrskyj), University of Alberta, Edmonton, Alta.; Department of Pediatrics (M. Tun, H. Tun, Mahoney, Mandhane, Kozyrskyj), University of Alberta, Edmonton, Alta.; Dalla Lana School of Public Health (Konya, Brook, Lou, Scott), University of Toronto, Toronto, Ont.; Centre for the Analysis of Genome Evolution and Function (Guttman), University of Toronto, Toronto, Ont.; Department of Pediatrics and Child Health (Becker), University of Manitoba, Winnipeg, Man.; Department of Pediatrics (Turvey), Child and Family Research Institute, University of British Columbia, Vancouver, BC; Department of Pediatric Respiratory Medicine (Subbarao), University of Toronto. Toronto, Ont.; Department of Medicine (Sears), McMaster University, Hamilton, Ont.; Faculty of Health Sciences (Takarao), Simon Fraser University, Vancouver, BC; Canadian Healthy Infant Longitudinal Development Study (CHILD Study Investigators)
| | - Jeffrey R Brook
- School of Public Health (M. Tun, Kozyrskyj), University of Alberta, Edmonton, Alta.; Department of Pediatrics (M. Tun, H. Tun, Mahoney, Mandhane, Kozyrskyj), University of Alberta, Edmonton, Alta.; Dalla Lana School of Public Health (Konya, Brook, Lou, Scott), University of Toronto, Toronto, Ont.; Centre for the Analysis of Genome Evolution and Function (Guttman), University of Toronto, Toronto, Ont.; Department of Pediatrics and Child Health (Becker), University of Manitoba, Winnipeg, Man.; Department of Pediatrics (Turvey), Child and Family Research Institute, University of British Columbia, Vancouver, BC; Department of Pediatric Respiratory Medicine (Subbarao), University of Toronto. Toronto, Ont.; Department of Medicine (Sears), McMaster University, Hamilton, Ont.; Faculty of Health Sciences (Takarao), Simon Fraser University, Vancouver, BC; Canadian Healthy Infant Longitudinal Development Study (CHILD Study Investigators)
| | - Wendy Lou
- School of Public Health (M. Tun, Kozyrskyj), University of Alberta, Edmonton, Alta.; Department of Pediatrics (M. Tun, H. Tun, Mahoney, Mandhane, Kozyrskyj), University of Alberta, Edmonton, Alta.; Dalla Lana School of Public Health (Konya, Brook, Lou, Scott), University of Toronto, Toronto, Ont.; Centre for the Analysis of Genome Evolution and Function (Guttman), University of Toronto, Toronto, Ont.; Department of Pediatrics and Child Health (Becker), University of Manitoba, Winnipeg, Man.; Department of Pediatrics (Turvey), Child and Family Research Institute, University of British Columbia, Vancouver, BC; Department of Pediatric Respiratory Medicine (Subbarao), University of Toronto. Toronto, Ont.; Department of Medicine (Sears), McMaster University, Hamilton, Ont.; Faculty of Health Sciences (Takarao), Simon Fraser University, Vancouver, BC; Canadian Healthy Infant Longitudinal Development Study (CHILD Study Investigators)
| | - Tim K Takaro
- School of Public Health (M. Tun, Kozyrskyj), University of Alberta, Edmonton, Alta.; Department of Pediatrics (M. Tun, H. Tun, Mahoney, Mandhane, Kozyrskyj), University of Alberta, Edmonton, Alta.; Dalla Lana School of Public Health (Konya, Brook, Lou, Scott), University of Toronto, Toronto, Ont.; Centre for the Analysis of Genome Evolution and Function (Guttman), University of Toronto, Toronto, Ont.; Department of Pediatrics and Child Health (Becker), University of Manitoba, Winnipeg, Man.; Department of Pediatrics (Turvey), Child and Family Research Institute, University of British Columbia, Vancouver, BC; Department of Pediatric Respiratory Medicine (Subbarao), University of Toronto. Toronto, Ont.; Department of Medicine (Sears), McMaster University, Hamilton, Ont.; Faculty of Health Sciences (Takarao), Simon Fraser University, Vancouver, BC; Canadian Healthy Infant Longitudinal Development Study (CHILD Study Investigators)
| | - James A Scott
- School of Public Health (M. Tun, Kozyrskyj), University of Alberta, Edmonton, Alta.; Department of Pediatrics (M. Tun, H. Tun, Mahoney, Mandhane, Kozyrskyj), University of Alberta, Edmonton, Alta.; Dalla Lana School of Public Health (Konya, Brook, Lou, Scott), University of Toronto, Toronto, Ont.; Centre for the Analysis of Genome Evolution and Function (Guttman), University of Toronto, Toronto, Ont.; Department of Pediatrics and Child Health (Becker), University of Manitoba, Winnipeg, Man.; Department of Pediatrics (Turvey), Child and Family Research Institute, University of British Columbia, Vancouver, BC; Department of Pediatric Respiratory Medicine (Subbarao), University of Toronto. Toronto, Ont.; Department of Medicine (Sears), McMaster University, Hamilton, Ont.; Faculty of Health Sciences (Takarao), Simon Fraser University, Vancouver, BC; Canadian Healthy Infant Longitudinal Development Study (CHILD Study Investigators)
| | - Anita L Kozyrskyj
- School of Public Health (M. Tun, Kozyrskyj), University of Alberta, Edmonton, Alta.; Department of Pediatrics (M. Tun, H. Tun, Mahoney, Mandhane, Kozyrskyj), University of Alberta, Edmonton, Alta.; Dalla Lana School of Public Health (Konya, Brook, Lou, Scott), University of Toronto, Toronto, Ont.; Centre for the Analysis of Genome Evolution and Function (Guttman), University of Toronto, Toronto, Ont.; Department of Pediatrics and Child Health (Becker), University of Manitoba, Winnipeg, Man.; Department of Pediatrics (Turvey), Child and Family Research Institute, University of British Columbia, Vancouver, BC; Department of Pediatric Respiratory Medicine (Subbarao), University of Toronto. Toronto, Ont.; Department of Medicine (Sears), McMaster University, Hamilton, Ont.; Faculty of Health Sciences (Takarao), Simon Fraser University, Vancouver, BC; Canadian Healthy Infant Longitudinal Development Study (CHILD Study Investigators)
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Megahed A, Zeineldin M, Evans K, Maradiaga N, Blair B, Aldridge B, Lowe J. Impacts of environmental complexity on respiratory and gut microbiome community structure and diversity in growing pigs. Sci Rep 2019; 9:13773. [PMID: 31551432 DOI: 10.1038/s41598-019-50187-z] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2019] [Accepted: 09/04/2019] [Indexed: 12/14/2022] Open
Abstract
The limited understanding of the interaction between rearing environment of the growing pig and the pig’s microbial community impedes efforts to identify the optimal housing system to maximize animal health and production. Accordingly, we characterized the impact of housing complexity on shaping the respiratory and gut microbiota of growing pig. A total of 175 weaned pigs from 25 litters were randomly assigned within liter to either simple slatted-floor (S) or complex straw-based rearing ecosystem (C). Beside the floor swabs samples, fecal swabs and mucosal scraping samples from bronchus, ileum, and colon were collected approximately 164 days post-weaning at the time of slaughter. The S ecosystem seems to increase the α-diversity of respiratory and gut microbiota. Moreover, the C-raised pigs showed 35.4, 89.2, and 60.0% reduction in the Firmicutes/Bacteroidetes ratio than the S-raised pigs at bronchus, ileum, and colon, respectively. The unfavorable taxa Psychrobacter, Corynebacterium, Actinobacteria, and Neisseria were the signature taxa of C environment-associated microbial community. Therefore, the microbiota of S-raised pigs seems to show higher density of the most essential and beneficial taxa than the C-raised pigs. We preliminarily conclude that increasing the physical complexity of rearing environment seems to provide suboptimal conditions for establishing a healthy microbial community in the growing pigs.
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Kers JG, Velkers FC, Fischer EAJ, Hermes GDA, Lamot DM, Stegeman JA, Smidt H. Take care of the environment: housing conditions affect the interplay of nutritional interventions and intestinal microbiota in broiler chickens. Anim Microbiome 2019; 1:10. [PMID: 33499936 PMCID: PMC7807522 DOI: 10.1186/s42523-019-0009-z] [Citation(s) in RCA: 26] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2019] [Accepted: 07/17/2019] [Indexed: 12/16/2022] Open
Abstract
Background The intestinal microbiota is shaped by many interactions between microorganisms, host, diet, and the environment. Exposure to microorganisms present in the environment, and exchange of microorganisms between hosts sharing the same environment, can influence intestinal microbiota of individuals, but how this affects microbiota studies is poorly understood. We investigated the effects of experimental housing circumstances on intestinal microbiota composition in broiler chickens, and how these effects may influence the capacity to determine diet related effects in a nutrition experiment. A cross-sectional experiment was conducted simultaneously in a feed research facility with mesh panels between pens (Housing condition 1, H1), in an extensively cleaned stable with floor pens with solid wooden panels (H2), and in isolators (H3). In H1 and H2 different distances between pens were created to assess gut microbiota exchange between pens. Feed with and without a blend of medium-chain fatty acids (MCFA) was used to create differences in cecal microbiota between pens or isolators within the same housing condition. Male one-day-old Ross broiler chickens (n = 370) were randomly distributed across H1, H2, and H3. After 35 days cecal microbiota composition was assessed by 16S ribosomal RNA gene amplicon sequencing. Metabolic functioning of cecal content was assessed based on high-performance liquid chromatography. Results Microbial alpha diversity was not affected in broilers fed +MCFA in H1 but was increased in H2 and H3. Based on weighted UniFrac distances, the nutritional intervention explained 10%, whereas housing condition explained 28% of cecal microbiota variation between all broilers. The effect size of the nutritional intervention varied within housing conditions between 11, 27, and 13% for H1, H2, and H3. Furthermore, performance and metabolic output were significantly different between housing conditions. The distance between pens within H1 and H2 did not influence the percentage of shared genera or operational taxonomic units (OTUs). Conclusions The cecal microbiota of broilers was modifiable by a nutritional intervention, but the housing condition affected microbiota composition and functionality stronger than the diet intervention. Consequently, for interpretation of intestinal microbiota studies in poultry it is essential to be aware of the potentially large impact of housing conditions on the obtained results. Electronic supplementary material The online version of this article (10.1186/s42523-019-0009-z) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Jannigje G Kers
- Faculty of Veterinary Medicine, Department of Farm Animal Health, Utrecht University, Utrecht, the Netherlands. .,Laboratory of Microbiology, Wageningen University and Research, Wageningen, the Netherlands.
| | - Francisca C Velkers
- Faculty of Veterinary Medicine, Department of Farm Animal Health, Utrecht University, Utrecht, the Netherlands
| | - Egil A J Fischer
- Faculty of Veterinary Medicine, Department of Farm Animal Health, Utrecht University, Utrecht, the Netherlands
| | - Gerben D A Hermes
- Laboratory of Microbiology, Wageningen University and Research, Wageningen, the Netherlands
| | - David M Lamot
- Cargill Animal Nutrition Innovation Center, Velddriel, the Netherlands
| | - J Arjan Stegeman
- Faculty of Veterinary Medicine, Department of Farm Animal Health, Utrecht University, Utrecht, the Netherlands
| | - Hauke Smidt
- Laboratory of Microbiology, Wageningen University and Research, Wageningen, the Netherlands
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Achard CS, Dupouy V, Siviglia S, Arpaillange N, Cauquil L, Bousquet-Mélou A, Zemb O. Variability of the Ability of Complex Microbial Communities to Exclude Microbes Carrying Antibiotic Resistance Genes in Rabbits. Front Microbiol 2019; 10:1503. [PMID: 31333614 PMCID: PMC6615258 DOI: 10.3389/fmicb.2019.01503] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2018] [Accepted: 06/14/2019] [Indexed: 01/16/2023] Open
Abstract
Reducing antibiotic use is a necessary step toward less antibiotic resistance in livestock, but many antibiotic resistance genes can persist for years, even in an antibiotic-free environment. In this study, we investigated the potential of three fecal complex microbial communities from antibiotic-naive does to drive the microbiota of kits from antibiotic-exposed dams and outcompete bacteria-carrying antibiotic-resistant genes. The fecal complex microbial communities were either orally delivered or simply added as fresh fecal pellets in four to five nests that were kept clean from maternal feces. Additionally, four nests were cleaned for the maternal feces and five nests were handled according to the common farm practice (i.e., cleaning once a week) as controls. At weaning, we measured the relative abundance of 26 antibiotic resistance genes, the proportion of Enterobacteriaceae resistant to tetracycline and sulfonamide antibiotics, and the taxonomic composition of the microbiota by sequencing the 16S rRNA genes of one kit per nest. Changing the surrounding microbes of the kits can hinder the transmission of antibiotic resistance genes from one generation to the next, but the three communities widely differed in their ability to orient gut microbes and in their impact on antibiotic resistance genes. The most efficient delivery of the microbial community reduced the proportion of resistant Enterobacteria from 93 to 9%, decreased the relative abundance of eight antibiotic resistance genes, and changed the gut microbes of the kits at weaning. The least efficient did not reduce any ARG or modify the bacterial community. In addition, adding fecal pellets was more efficient than the oral inoculation of the anaerobic suspension derived from these fecal pellets. However, we were unable to predict the outcome of the exclusion from the data of the donor does (species composition and abundance of antibiotic resistance genes). In conclusion, we revealed major differences between microbial communities regarding their ability to exclude antibiotic resistance genes, but more work is needed to understand the components leading to the successful exclusion of antibiotic resistance genes from the gut. As a consequence, studies about the impact of competitive exclusion should use several microbial communities in order to draw general conclusions.
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Affiliation(s)
| | | | - Suzanne Siviglia
- GenPhySE, INRA, ENVT, Université de Toulouse, Toulouse, France.,InTheRes, INRA, ENVT, Université de Toulouse, Toulouse, France
| | | | - Laurent Cauquil
- GenPhySE, INRA, ENVT, Université de Toulouse, Toulouse, France
| | | | - Olivier Zemb
- GenPhySE, INRA, ENVT, Université de Toulouse, Toulouse, France
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Schokker D, Hulsegge I, Woelders H, Rebel JMJ. Plasticity of intestinal gene expression profile signatures reflected by nutritional interventions in piglets. BMC Genomics 2019; 20:414. [PMID: 31122193 PMCID: PMC6533718 DOI: 10.1186/s12864-019-5748-4] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/18/2019] [Accepted: 04/29/2019] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND Immediately after birth, the porcine intestine rapidly develops morphologically, functionally, and immunologically. The jejunum, the second part of the small intestine, is of importance for nutrient uptake and immune surveillance. To study the early postnatal development of the jejunum, a meta-analysis was performed on different transcriptomic datasets. These datasets were acquired from different experimental in-house studies or from experiments described in literature of porcine jejunum mucosa. Gene expression was measured under different experimental interventions, such as nutritional intervention, at various time-points (age). RESULTS The studies included in the meta-analysis provided gene expression data for various time-points (piglet ages) for piglets that had received a treatment versus control piglets. In separate studies, treatments were administered to the sow (i.e. amoxicillin), or nutritional supplementation directly to the piglets with medium chain fatty acids (MCFAs), and oral administration of fructooligosaccharides (FOS) or a high dose of zinc-oxide, respectively. In the meta-analysis, genes were grouped into 16 clusters according to their temporal gene expression profiles for control piglets, i.e. the changes of gene expression level over time. Functional analysis showed that these temporal profile clusters had different dominant processes, such as immune related processes or barrier function. Transcriptomics data of treatment piglets was subsequently superimposed over the control temporal profiles. In this way we could investigate which temporal profile clusters (and which biological processes) were modulated by the treatments. Interestingly, not all 16 temporal profiles were modulated. CONCLUSIONS We showed that it is possible to re-use (publicly available) transcriptomics data and produce temporal gene expression profiles for control piglets with overexpression of genes representing specific biological processes. Subsequently, by superimposing gene expression data from (nutritional) intervention studies we observed deviations from some of these reference profile(s) and thus the plasticity of the system. By employing this meta-analysis approach we highlighted the importance of birth and weaning and the underlying biological processes.
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Affiliation(s)
- Dirkjan Schokker
- Wageningen University & Research Animal Breeding and Genomics, P.O. Box 338, 6700, AH, Wageningen, The Netherlands.
| | - Ina Hulsegge
- Wageningen University & Research Animal Breeding and Genomics, P.O. Box 338, 6700, AH, Wageningen, The Netherlands
| | - Henri Woelders
- Wageningen University & Research Animal Breeding and Genomics, P.O. Box 338, 6700, AH, Wageningen, The Netherlands
| | - Johanna M J Rebel
- Wageningen University & Research Animal Health and Welfare, P.O. Box 338, 6700, AH, Wageningen, The Netherlands
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Heiss CN, Olofsson LE. The role of the gut microbiota in development, function and disorders of the central nervous system and the enteric nervous system. J Neuroendocrinol 2019; 31:e12684. [PMID: 30614568 DOI: 10.1111/jne.12684] [Citation(s) in RCA: 142] [Impact Index Per Article: 28.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 11/10/2018] [Revised: 12/20/2018] [Accepted: 12/31/2018] [Indexed: 02/06/2023]
Abstract
The gut microbiota has emerged as an environmental factor that modulates the development of the central nervous system (CNS) and the enteric nervous system (ENS). Before obtaining its own microbiota, eutherian foetuses are exposed to products and metabolites from the maternal microbiota. At birth, the infants are colonised by microorganisms. The microbial composition in early life is strongly influenced by the mode of delivery, the feeding method, the use of antibiotics and the maternal microbial composition. Microbial products and microbially produced metabolites act as signalling molecules that have direct or indirect effects on the CNS and the ENS. An increasing number of studies show that the gut microbiota can modulate important processes during development, including neurogenesis, myelination, glial cell function, synaptic pruning and blood-brain barrier permeability. Furthermore, numerous studies indicate that there is a developmental window early in life during which the gut microbial composition is crucial and perturbation of the gut microbiota during this period causes long-lasting effects on the development of the CNS and the ENS. However, other functions are readily modulated in adult animals, including microglia activation and neuroinflammation. Several neurobehavioural, neurodegenerative, mental and metabolic disorders, including Parkinson disease, autism spectrum disorder, schizophrenia, Alzheimer's disease, depression and obesity, have been linked to the gut microbiota. This review focuses on the role of the microorganisms in the development and function of the CNS and the ENS, as well as their potential role in pathogenesis.
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Affiliation(s)
- Christina N Heiss
- Wallenberg Laboratory, Department of Molecular and Clinical Medicine, Institute of Medicine, University of Gothenburg, Gothenburg, Sweden
| | - Louise E Olofsson
- Wallenberg Laboratory, Department of Molecular and Clinical Medicine, Institute of Medicine, University of Gothenburg, Gothenburg, Sweden
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Li M, Li L, Huang T, Liu Y, Lei A, Ma C, Chen F, Chen M. Effects of Attenuated S. agalactiae Strain YM001 on Intestinal Microbiota of Tilapia Are Recoverable. Front Microbiol 2019; 9:3251. [PMID: 30687255 PMCID: PMC6333689 DOI: 10.3389/fmicb.2018.03251] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/13/2018] [Accepted: 12/14/2018] [Indexed: 11/25/2022] Open
Abstract
Previously, we constructed and characterized the vaccine efficacy of attenuated S. agalactiae strain YM001 in tilapia. In this study, the potential impacts of YM001 on the tilapia intestinal microbiota were assessed by qPCR and 16S rRNA sequencing methods. The results showed that YM001 distributed unevenly in different parts of intestine, peaked in the intestine at 12 h after oral administration, and then declined gradually. YM001 caused 0% mortality of fish during the entire experimental period, while the referent strain HN016 caused 100% mortality at 3 d after oral administration. However, the intestinal microbiota could be changed by YM001, the diversity of intestinal microbiota decreased first and gradually recovered after oral administration. The diversity of intestinal microbiota of tilapia was negatively correlated with the content of HN016 in the intestinal tract. The oral YM001 mainly changed the abundance of Streptococcus, Cetobacterium, Akkermansia, Romboutsia, Bacteroides, Brevinema, Lachnospiraceae_NK4A136-group, coprothermobactter, presiomonas, and Roseburia in intestine. The present study indicate that oral administration of YM001 altered the diversity and composition of intestinal microbiota in tilapia, but these change were only temporary, non-lethal, and recoverable. The results provide a more comprehensive experimental basis for the safety of oral YM001 vaccines.
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Affiliation(s)
- Ming Li
- Guangxi Key Laboratory of Aquatic Genetic Breeding and Healthy Aquaculture, Guangxi Institute of Fisheries, Nanning, China
| | - Liping Li
- Guangxi Key Laboratory of Aquatic Genetic Breeding and Healthy Aquaculture, Guangxi Institute of Fisheries, Nanning, China
| | - Ting Huang
- Guangxi Key Laboratory of Aquatic Genetic Breeding and Healthy Aquaculture, Guangxi Institute of Fisheries, Nanning, China
| | - Yu Liu
- Guangxi Key Laboratory of Aquatic Genetic Breeding and Healthy Aquaculture, Guangxi Institute of Fisheries, Nanning, China
| | - Aiying Lei
- Guangxi Key Laboratory of Aquatic Genetic Breeding and Healthy Aquaculture, Guangxi Institute of Fisheries, Nanning, China
| | - Chunxia Ma
- Guangxi Key Laboratory of Animal Vaccines and Diagnostics, Department of Bacteriology, Guangxi Veterinary Research Institute, Nanning, China
| | - Fuyan Chen
- Guangxi Key Laboratory of Aquatic Genetic Breeding and Healthy Aquaculture, Guangxi Institute of Fisheries, Nanning, China
| | - Ming Chen
- Guangxi Key Laboratory of Aquatic Genetic Breeding and Healthy Aquaculture, Guangxi Institute of Fisheries, Nanning, China
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Tsai T, Sales MA, Kim H, Erf GF, Vo N, Carbonero F, van der Merwe M, Kegley EB, Buddington R, Wang X, Maxwell CV, Zhao J. Isolated Rearing at Lactation Increases Gut Microbial Diversity and Post-weaning Performance in Pigs. Front Microbiol 2018; 9:2889. [PMID: 30555436 PMCID: PMC6282802 DOI: 10.3389/fmicb.2018.02889] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/04/2018] [Accepted: 11/12/2018] [Indexed: 11/13/2022] Open
Abstract
Environment and diet are two major factors affecting the human gut microbiome. In this study, we used a pig model to determine the impact of these two factors during lactation on the gut microbiome, immune system, and growth performance. We assigned 80 4-day-old pigs from 20 sows to two rearing strategies at lactation: conventional rearing on sow’s milk (SR) or isolated rearing on milk replacer supplemented with solid feed starting on day 10 (IR). At weaning (day 21), SR and IR piglets were co-mingled (10 pens of 4 piglets/pen) and fed the same corn-soybean meal-dried distiller grain with solubles- and antibiotic-free diets for eight feeding phase regimes. Fecal samples were collected on day 21, 62, and 78 for next-generation sequencing of the V4 hypervariable region of the bacterial 16S rRNA gene. Results indicate that IR significantly increased swine microbial diversity and changed the microbiome structure at day 21. Such changes diminished after the two piglet groups were co-mingled and fed the same diet. Post-weaning growth performance also improved in IR piglets. Toward the end of the nursery period (NP), IR piglets had greater average daily gain (0.49 vs. 0.41 kg/d; P < 0.01) and average daily feed intake (0.61 vs. 0.59 kg/d; P < 0.01) but lower feed efficiency (0.64 vs. 0.68; P = 0.05). Consequently, IR piglets were heavier by 2.9 kg (P < 0.01) at the end of NP, and by 4.1 kg (P = 0.08) at market age compared to SR piglets. Interestingly, pigs from the two groups had similar lean tissue percentage. Random forest analysis showed that members of Leuconostoc and Lactococcus best differentiated the IR and SR piglets at weaning (day 21), were negatively correlated with levels of Foxp3 regulatory T cell populations on day 20, and positively correlated with post-weaning growth performance. Our results suggest that rearing strategies may be managed so as to accelerate early-life establishment of the swine gut microbiome to enhance growth performance in piglets.
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Affiliation(s)
- Tsungcheng Tsai
- Department of Animal Science, Division of Agriculture, University of Arkansas, Fayetteville, AR, United States
| | - Marites A Sales
- Department of Poultry Science, Division of Agriculture, University of Arkansas, Fayetteville, AR, United States
| | - Haejin Kim
- Department of Animal Science, Division of Agriculture, University of Arkansas, Fayetteville, AR, United States
| | - Gisela F Erf
- Department of Poultry Science, Division of Agriculture, University of Arkansas, Fayetteville, AR, United States
| | - Nguyen Vo
- Department of Food Science, Division of Agriculture, University of Arkansas, Fayetteville, AR, United States
| | - Franck Carbonero
- Department of Food Science, Division of Agriculture, University of Arkansas, Fayetteville, AR, United States
| | | | - Elizabeth B Kegley
- Department of Animal Science, Division of Agriculture, University of Arkansas, Fayetteville, AR, United States
| | - Randy Buddington
- School of Health Studies, University of Memphis, Memphis, TN, United States
| | - Xiaofan Wang
- Department of Animal Science, Division of Agriculture, University of Arkansas, Fayetteville, AR, United States
| | - Charles V Maxwell
- Department of Animal Science, Division of Agriculture, University of Arkansas, Fayetteville, AR, United States
| | - Jiangchao Zhao
- Department of Animal Science, Division of Agriculture, University of Arkansas, Fayetteville, AR, United States
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Differding MK, Mueller NT. Are household disinfectants microbially mediated obesogens? CMAJ 2018; 190:E1095-E1096. [PMID: 30224441 PMCID: PMC6141251 DOI: 10.1503/cmaj.181134] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/01/2022] Open
Affiliation(s)
- Moira K Differding
- Department of Epidemiology (Differding, Mueller), and Welch Center for Prevention, Epidemiology and Clinical Research (Mueller), Johns Hopkins Bloomberg School of Public Health, Baltimore, Md
| | - Noel T Mueller
- Department of Epidemiology (Differding, Mueller), and Welch Center for Prevention, Epidemiology and Clinical Research (Mueller), Johns Hopkins Bloomberg School of Public Health, Baltimore, Md.
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Kiros TG, Pinloche E, D’Inca R, Auclair E, Van Kessel A. Model development: establishing pigs with homogenous microbial profile in the hind gut. Can J Anim Sci 2018. [DOI: 10.1139/cjas-2017-0066] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
Abstract
The considerable animal-to-animal variation in microbial profiles is a challenge in elucidating the role of gut microbiota in host metabolism. The main purpose of this study was, therefore, to develop a pig model with reduced animal-to-animal variation in gut microbial profile. Twelve piglets from four sows were reared conventionally and 12 piglets from four sows were reared artificially in high efficiency particulate air (HEPA) filtered isolators. All isolator-reared piglets were given an artificial colostrum formula containing the combined fecal material from all eight sows. All piglets were killed at 21 d of age and intestinal contents subjected to 16s rRNA gene-based terminal restriction fragment length polymorphism (T-RFLP) profiling. Resulting T-RFLP profiles clustered into two distinct groups representing the two treatment groups. Furthermore, Bray–Curtis dissimilarity distance values and Dice similarity indices showed reduced beta diversity in isolator-reared pigs indicating animal-to-animal variation was reduced in isolator-reared compared to conventional piglets. However, surprisingly, increased alpha diversity was observed in isolator-reared piglets compared with conventional piglets. In conclusion, the study demonstrated that rearing of piglets under conditions of controlled environment reduced animal-to-animal variation in the hindgut microbiota while paradoxically increasing within animal microbial diversity. Isolator rearing may be useful as a model to improve detection of treatment effects on gut microbiota.
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Affiliation(s)
- Tadele G. Kiros
- Department of Animal and Poultry Science, University of Saskatchewan, 51 Campus Drive, Saskatoon, SK S7N 5A8, Canada
| | - Eric Pinloche
- Institute of Biological, Environmental and Rural Sciences (IBERS), Aberystwyth University, Llanbadarn Campus, Aberystwyth SY23 3AL, UK
| | - Romain D’Inca
- SI Lesaffre, Phileo-Lesaffre Animal Care, 137 Rue Gabriel Péri, 59700 Marcq-en-Barœul, France
| | - Eric Auclair
- SI Lesaffre, Phileo-Lesaffre Animal Care, 137 Rue Gabriel Péri, 59700 Marcq-en-Barœul, France
| | - Andrew Van Kessel
- Department of Animal and Poultry Science, University of Saskatchewan, 51 Campus Drive, Saskatoon, SK S7N 5A8, Canada
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Ottman N, Ruokolainen L, Suomalainen A, Sinkko H, Karisola P, Lehtimäki J, Lehto M, Hanski I, Alenius H, Fyhrquist N. Soil exposure modifies the gut microbiota and supports immune tolerance in a mouse model. J Allergy Clin Immunol 2019; 143:1198-1206.e12. [PMID: 30097187 DOI: 10.1016/j.jaci.2018.06.024] [Citation(s) in RCA: 83] [Impact Index Per Article: 13.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/14/2017] [Revised: 06/08/2018] [Accepted: 06/14/2018] [Indexed: 12/13/2022]
Abstract
BACKGROUND Sufficient exposure to natural environments, in particular soil and its microbes, has been suggested to be protective against allergies. OBJECTIVE We aim at gaining more direct evidence of the environment-microbiota-health axis by studying the colonization of gut microbiota in mice after exposure to soil and by examining immune status in both a steady-state situation and during allergic inflammation. METHODS The gastrointestinal microbiota of mice housed on clean bedding or in contact with soil was analyzed by using 16S rRNA gene sequencing, and the data were combined with immune parameters measured in the gut mucosa, lung tissue, and serum samples. RESULTS We observed marked differences in the small intestinal and fecal microbiota composition between mice housed on clean bedding or in contact with soil, with a higher proportion of Bacteroidetes relative to Firmicutes in the soil group. The housing environment also influenced mouse intestinal gene expression, as shown by upregulated expression of the immunoregulatory markers IL-10, forkhead box P3, and cytotoxic T lymphocyte-associated protein 4 in the soil group. Importantly, using the murine asthma model, we found that exposure to soil polarizes the immune system toward TH1 and a higher level of anti-inflammatory signaling, alleviating TH2-type allergic responses. The inflammatory status of the mice had a marked influence on the composition of the gut microbiota, suggesting bidirectional communication along the gut-lung axis. CONCLUSION Our results provide evidence of the role of environmentally acquired microbes in alleviating against TH2-driven inflammation, which relates to allergic diseases.
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Paul C, Bayrychenko Z, Junier T, Filippidou S, Beck K, Bueche M, Greub G, Bürgmann H, Junier P. Dissemination of antibiotic resistance genes associated with the sporobiota in sediments impacted by wastewater. PeerJ 2018; 6:e4989. [PMID: 29942682 PMCID: PMC6015491 DOI: 10.7717/peerj.4989] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2018] [Accepted: 05/27/2018] [Indexed: 12/14/2022] Open
Abstract
Aquatic ecosystems serve as a dissemination pathway and a reservoir of both antibiotic resistant bacteria (ARB) and antibiotic resistance genes (ARG). In this study, we investigate the role of the bacterial sporobiota to act as a vector for ARG dispersal in aquatic ecosystems. The sporobiota was operationally defined as the resilient fraction of the bacterial community withstanding a harsh extraction treatment eliminating the easily lysed fraction of the total bacterial community. The sporobiota has been identified as a critical component of the human microbiome, and therefore potentially a key element in the dissemination of ARG in human-impacted environments. A region of Lake Geneva in which the accumulation of ARG in the sediments has been previously linked to the deposition of treated wastewater was selected to investigate the dissemination of tet(W) and sul1, two genes conferring resistance to tetracycline and sulfonamide, respectively. Analysis of the abundance of these ARG within the sporobiome (collection of genes of the sporobiota) and correlation with community composition and environmental parameters demonstrated that ARG can spread across the environment with the sporobiota being the dispersal vector. A highly abundant OTU affiliated with the genus Clostridium was identified as a potential specific vector for the dissemination of tet(W), due to a strong correlation with tet(W) frequency (ARG copy numbers/ng DNA). The high dispersal rate, long-term survival, and potential reactivation of the sporobiota constitute a serious concern in terms of dissemination and persistence of ARG in the environment.
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Affiliation(s)
- Christophe Paul
- Institute of Biology, Laboratory of Microbiology, University of Neuchatel, Neuchâtel, NE, Switzerland
| | - Zhanna Bayrychenko
- Institute of Biology, Laboratory of Microbiology, University of Neuchatel, Neuchâtel, NE, Switzerland
| | - Thomas Junier
- Vital-IT, Swiss Institute of Bioinformatics, Lausanne, Switzerland
| | - Sevasti Filippidou
- Institute of Biology, Laboratory of Microbiology, University of Neuchatel, Neuchâtel, NE, Switzerland
| | - Karin Beck
- Eawag, Swiss Federal Institute of Aquatic Science and Technology, Kastanienbaum, Switzerland
| | - Matthieu Bueche
- Institute of Biology, Laboratory of Microbiology, University of Neuchatel, Neuchâtel, NE, Switzerland
| | - Gilbert Greub
- Institute of Microbiology, University Hospital Center, University of Lausanne, Lausanne, Switzerland
| | - Helmut Bürgmann
- Eawag, Swiss Federal Institute of Aquatic Science and Technology, Kastanienbaum, Switzerland
| | - Pilar Junier
- Institute of Biology, Laboratory of Microbiology, University of Neuchatel, Neuchâtel, NE, Switzerland
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Pluske JR, Turpin DL, Kim JC. Gastrointestinal tract (gut) health in the young pig. Anim Nutr 2018; 4:187-196. [PMID: 30140758 PMCID: PMC6104527 DOI: 10.1016/j.aninu.2017.12.004] [Citation(s) in RCA: 193] [Impact Index Per Article: 32.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/09/2017] [Revised: 12/11/2017] [Accepted: 12/18/2017] [Indexed: 12/15/2022]
Abstract
An optimally functioning gastrointestinal tract (GIT) clearly is of importance to the overall metabolism, physiology, disease status and performance of pigs of all stages of growth and development. Recently, the 'health' of the GIT ('gut health') has attracted much attention despite the lack of a clear definition to the term or its aetiology, although in broad terms, 'gut health' encompasses a number of physiological and functional features including nutrient digestion and absorption, host metabolism and energy generation, a stable and appropriate microbiota/microbiome, defence mechanisms including barrier function and mucosal immune mechanisms, and the interactions between these components. 'Gut health' in the newly-weaned (young) pig is of obvious interest due to changes in GIT structure and function associated with the post-weaning transition, and more recently to the upsurge in interest in different feed additives as dietary alternatives/replacements caused by bans/reductions in certain antimicrobial compounds being available in some parts of the world. In the presence of enteric disease(s) after weaning, a deterioration in 'gut health' may be synonymous to the overall health of the pig, and although some direct relationships can be drawn between pig performance and efficiency and a 'healthy' GIT, sometimes this connection is subtler and less obvious, especially in the absence of overt enteric disease(s). The factors and conditions involved in 'gut health' are multifactorial, complex, often poorly described and sometimes incorrectly interpreted, although it is evident that perturbations of the GIT can cause an imbalance and disturb the generalized homeostasis. In addition to any enteric diseases or conditions that might arise as a result of these disturbances, other influences will also impact such as the responses occurring in the GIT in the period immediately after weaning, any changes that might occur after a change in diet, and (or) disruptions to meal patterns and hence the flow of nutrients. Ultimately, 'gut health' represents the outcome of the GIT in response to its capacity and ability to respond and adapt to the insults and challenges it encounters.
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Affiliation(s)
- John R. Pluske
- School of Veterinary and Life Sciences, Murdoch University, Murdoch, WA 6150, Australia
| | - Diana L. Turpin
- School of Veterinary and Life Sciences, Murdoch University, Murdoch, WA 6150, Australia
- Pork Innovation Western Australia (Inc.), 20 Avon Crescent, Viveash, WA 6056, Australia
| | - Jae-Cheol Kim
- School of Veterinary and Life Sciences, Murdoch University, Murdoch, WA 6150, Australia
- AB Vista Asia Pte. Ltd, The Mezo, 329682, Singapore
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Soler C, Goossens T, Bermejo A, Migura-García L, Cusco A, Francino O, Fraile L. Digestive microbiota is different in pigs receiving antimicrobials or a feed additive during the nursery period. PLoS One 2018; 13:e0197353. [PMID: 29799833 PMCID: PMC5969774 DOI: 10.1371/journal.pone.0197353] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2017] [Accepted: 05/01/2018] [Indexed: 02/01/2023] Open
Abstract
Antimicrobials have been used in a prophylactic way to decrease the incidence of digestive disorders during the piglet post-weaning period. Nowadays, it is urgent to reduce their consumption in livestock to address the problem of antimicrobial resistance. In this study, the effect of a product on piglet microbiota has been investigated as an alternative to antimicrobials. Three groups of ten post-weaning pigs were sampled at 0, 15 and 30 days one week post-weaning; the control, antibiotic and feed additive group received a standard post-weaning diet without antibiotics or additives, the same diet as the control group but with amoxicillin and colistin sulphate and the same diet as the control group but with a feed additive (Sanacore-EN, Nutriad International N.V.), respectively. The total DNA extracted from faeces was used to amplify the 16S RNA gene for massive sequencing under manufacturer’s conditions. Sequencing data was quality filtered and analyzed using QIIME software and suitable statistical methods. In general terms, age modifies significantly the microbiota of the piglets. Thus, the oldest the animal, the highest bacterial diversity observed for the control and the feed additive groups. However, this diversity was very similar in the antibiotic group throughout the trial. Interestingly, a clear increase in abundance of Bacillus and Lactobacillus spp was detected within the feed additive group versus the antibiotic and control groups. In conclusion, the feed additive group had a positive effect in the endogenous microbiota of post-weaning pigs increasing both, the diversity of bacterial families and the abundance of lactic acid bacteria during the post-weaning period.
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Affiliation(s)
- Cassandra Soler
- Departament de Ciencia Animal, ETSEA, Universitat de Lleida, Lleida, Spain
| | - Tim Goossens
- Nutriad International N.V., Dendermonde, Belgium
| | | | - Lourdes Migura-García
- IRTA, Centre de Recerca en Sanitat Animal (CReSA, IRTA-UAB), Campus de la Universitat Autònoma de Barcelona, Bellaterra, Spain
| | - Anna Cusco
- Servicio Veterinario de Genética Molecular, Facultad de Veterinaria, Campus de la Universitat Autònoma de Barcelona, Bellaterra, Spain
| | - Olga Francino
- Servicio Veterinario de Genética Molecular, Facultad de Veterinaria, Campus de la Universitat Autònoma de Barcelona, Bellaterra, Spain
| | - Lorenzo Fraile
- Departament de Ciencia Animal, ETSEA, Universitat de Lleida, Lleida, Spain
- * E-mail:
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Christoforidou Z, Burt R, Mulder I, Gill BP, Pluske J, Kelly D, Stokes CR, Bailey M, Lewis MC. Development of Immune Cells in the Intestinal Mucosa Can Be Affected by Intensive and Extensive Farm Environments, and Antibiotic Use. Front Immunol 2018; 9:1061. [PMID: 29868021 PMCID: PMC5964130 DOI: 10.3389/fimmu.2018.01061] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2018] [Accepted: 04/27/2018] [Indexed: 12/30/2022] Open
Abstract
Epidemiological studies have demonstrated that exposure to farm environments during childhood can be linked to reductions in the incidence of immune disorders, but generating an appropriate model is difficult. 108 half-sibling piglets were born on either extensive (outdoor) or intensive (indoor) farms: at 1 day old, a subset of piglets from each litter were transferred to a high-hygiene isolator facility to create differences in rearing environment either during birth/first day or during the subsequent 56 days of life. Interactions between CD14, CD16, MHCIIDR, and capillary endothelium were assessed using four-color quantitative fluorescence immunohistology. Effects of birth and rearing environment on the antigen-presenting microenvironment of the proximal and distal jejunum (professional and stromal) were apparent at 5, 28, and 56 days after birth However, effects on CD4+CD25+Foxp3+ regulatory T-cells (Tregs) in the intestinal mucosa were apparent around weaning at 28 days but had disappeared by 56 days. These Tregs were reduced in the isolator piglets compared to their farm-reared siblings, but this effect was less marked in piglets born on the extensive farm and required administration of antibiotics. Our results suggest that there may be at least two windows of opportunity in which different farm environments were influencing immune development: one during the perinatal period (up to the first day of life), and one during later infancy. Furthermore, the differences on Tregs suggest that the effects of early life influences may be particularly critical around weaning.
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Affiliation(s)
- Zoe Christoforidou
- Infection and Immunity, School of Veterinary Science, University of Bristol, Langford, United Kingdom
| | - Rachel Burt
- Infection and Immunity, School of Veterinary Science, University of Bristol, Langford, United Kingdom
| | - Imke Mulder
- Gut Immunology Group, Rowett Institute, University of Aberdeen, Aberdeen, United Kingdom
| | - Bhupinder P Gill
- Agricultural and Horticultural Development Board, Milton Keynes, United Kingdom
| | - John Pluske
- School of Veterinary and Life Sciences, Murdoch University, Murdoch, WA, Australia
| | - Denise Kelly
- Gut Immunology Group, Rowett Institute, University of Aberdeen, Aberdeen, United Kingdom
| | - Christopher R Stokes
- Infection and Immunity, School of Veterinary Science, University of Bristol, Langford, United Kingdom
| | - Michael Bailey
- Infection and Immunity, School of Veterinary Science, University of Bristol, Langford, United Kingdom
| | - Marie C Lewis
- Food and Nutritional Sciences, School of Chemistry, Food and Pharmacy, University of Reading, Reading, United Kingdom
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Wisselink HJ, Cornelissen JBWJ, Mevius DJ, Smits MA, Smidt H, Rebel JMJ. Antibiotics in 16-day-old broilers temporarily affect microbial and immune parameters in the gut. Poult Sci 2018; 96:3068-3078. [PMID: 28595274 DOI: 10.3382/ps/pex133] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2016] [Accepted: 05/08/2017] [Indexed: 11/20/2022] Open
Abstract
Animal health benefits from a stable intestinal homeostasis, for which proper development and functioning of the intestinal microbiota and immune system are essential. It has been established that changes in microbial colonization in early life (the first 2 wk post hatch) impacts the functioning of the adult gut and the associated crosstalk between microbiota and intestinal mucosal cells. The aim of the present study was to study the effect of the administration of antibiotics later in life (d 15 to 20 post hatch) on microbiota and immune parameters. For this purpose, chickens received from 15 d post hatch during 5 d amoxicillin or enrofloxacin through their drinking water. Before and at 6, 16, and 27 d after start of the administration of antibiotics, the composition of the microbiota in the jejunum was determined using a 16S ribosomal RNA gene-targeted DNA microarray, the CHICKChip. At 6 d after the start of the administration of the antibiotics, the composition and diversity of the microbiota were affected significantly (P < 0.05), but this change was small and observed only temporarily since differences disappeared at 16 d after initiating treatment with amoxillin and at 27 d after starting treatment with enrofloxacin. Intestinal morphology and development were not visibly affected since there were no differences between villus/crypt ratios and numbers of PAS+ and PCNA+ cells in the duodenum and jejunum at any time point. At 16 d after the start of antibiotic administration, the number of CD4+ T-cells and CD8+ T-cells in the duodenum was lower compared to the control animals; however, this difference was not significant. At some time points, significant differences (P < 0.05) were observed among the groups to locally expressed IL-8, IL-1β, IFN-γ, IL-2, and IL-4 mRNA. However, this effect was not long lasting, as differences that were observed at 16 d after starting the treatment had disappeared at 27 d after treatment was started. The results of this study indicate that later in the broiler's life, antibiotics only temporarily affect intestinal microbial and immune parameters.
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Affiliation(s)
- H J Wisselink
- Wageningen Bioveterinary Research, P.O. Box 65, 8200 AB Lelystad, The Netherlands.
| | - J B W J Cornelissen
- Wageningen Bioveterinary Research, P.O. Box 65, 8200 AB Lelystad, The Netherlands
| | - D J Mevius
- Wageningen Bioveterinary Research, P.O. Box 65, 8200 AB Lelystad, The Netherlands; Department of Infectious Diseases and Immunology, Utrecht University, Faculty of Veterinary Medicine, Yalelaan 1, 3584 CL Utrecht, The Netherlands
| | - M A Smits
- Wageningen Bioveterinary Research, P.O. Box 65, 8200 AB Lelystad, The Netherlands; Wageningen Livestock Research, P.O. Box 338, 6700 AH Wageningen, The Netherlands
| | - H Smidt
- Laboratory of Microbiology, Wageningen University & Research, P.O. Box 8033, 6700EH Wageningen, The Netherlands
| | - J M J Rebel
- Wageningen Livestock Research, P.O. Box 338, 6700 AH Wageningen, The Netherlands
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49
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Celi P, Cowieson A, Fru-Nji F, Steinert R, Kluenter AM, Verlhac V. Gastrointestinal functionality in animal nutrition and health: New opportunities for sustainable animal production. Anim Feed Sci Technol 2017. [DOI: 10.1016/j.anifeedsci.2017.09.012] [Citation(s) in RCA: 158] [Impact Index Per Article: 22.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
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50
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Abstract
Many essential functions of the human body are dependent on the symbiotic microbiota, which is present at especially high numbers and diversity in the gut. This intricate host-microbe relationship is a result of the long-term coevolution between the two. While the inheritance of mutational changes in the host evolution is almost exclusively vertical, the main mechanism of bacterial evolution is horizontal gene exchange. The gut conditions, with stable temperature, continuous food supply, constant physicochemical conditions, extremely high concentration of microbial cells and phages, and plenty of opportunities for conjugation on the surfaces of food particles and host tissues, represent one of the most favorable ecological niches for horizontal gene exchange. Thus, the gut microbial system genetically is very dynamic and capable of rapid response, at the genetic level, to selection, for example, by antibiotics. There are many other factors to which the microbiota may dynamically respond including lifestyle, therapy, diet, refined food, food additives, consumption of pre- and probiotics, and many others. The impact of the changing selective pressures on gut microbiota, however, is poorly understood. Presumably, the gut microbiome responds to these changes by genetic restructuring of gut populations, driven mainly via horizontal gene exchange. Thus, our main goal is to reveal the role played by horizontal gene exchange in the changing landscape of the gastrointestinal microbiome and potential effect of these changes on human health in general and autoimmune diseases in particular.
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Affiliation(s)
- Aaron Lerner
- B. Rappaport School of Medicine, Technion-Israel Institute of Technology, Haifa, Israel.,AESKU.KIPP Institute, Wendelsheim, Germany
| | | | - Rustam Aminov
- Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan, Russia.,School of Medicine & Dentistry, University of Aberdeen, Aberdeen, United Kingdom
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