1
|
Gonzalez X, Irazoqui JE. Distinct members of the Caenorhabditis elegans CeMbio reference microbiota exert cryptic virulence that is masked by host defense. Mol Microbiol 2024. [PMID: 38623070 DOI: 10.1111/mmi.15258] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2023] [Revised: 03/12/2024] [Accepted: 03/14/2024] [Indexed: 04/17/2024]
Abstract
Microbiotas are complex microbial communities that colonize specific niches in the host and provide essential organismal functions that are important in health and disease. Understanding the ability of each distinct community member to promote or impair host health, alone or in the context of the community, is imperative for understanding how differences in community structure affect host health and vice versa. Recently, a reference 12-member microbiota for the model organism Caenorhabditis elegans, known as CeMbio, was defined. Here, we show the differential ability of each CeMbio bacterial species to activate innate immunity through the conserved PMK-1/p38 MAPK, ACh-WNT, and HLH-30/TFEB pathways. Although distinct CeMbio members differed in their ability to activate the PMK-1/p38 pathway, the ability to do so did not correlate with bacterial-induced lifespan reduction in wild-type or immunodeficient animals. In contrast, most species activated HLH-30/TFEB and showed virulence toward hlh-30-deficient animals. These results suggest that the microbiota of C. elegans is rife with bacteria that can shorten the host's lifespan if host defense is compromised and that HLH-30/TFEB is a fundamental and key host protective factor.
Collapse
Affiliation(s)
- Xavier Gonzalez
- Immunology and Microbiology Graduate Program, Morningside Graduate School of Biomedical Sciences, University of Massachusetts Chan Medical School, Worcester, Massachusetts, USA
- Department of Microbiology and Physiological Systems, University of Massachusetts Chan Medical School, Worcester, Massachusetts, USA
| | - Javier E Irazoqui
- Department of Microbiology and Physiological Systems, University of Massachusetts Chan Medical School, Worcester, Massachusetts, USA
| |
Collapse
|
2
|
Choi R, Bodkhe R, Pees B, Kim D, Berg M, Monnin D, Cho J, Narayan V, Deller E, Savage-Dunn C, Shapira M. An Enterobacteriaceae bloom in aging animals is restrained by the gut microbiome. AGING BIOLOGY 2024; 2:20240024. [PMID: 38736850 PMCID: PMC11085993 DOI: 10.59368/agingbio.20240024] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/14/2024]
Abstract
The gut microbiome plays important roles in host function and health. Core microbiomes have been described for different species, and imbalances in their composition, known as dysbiosis, are associated with pathology. Changes in the gut microbiome and dysbiosis are common in aging, possibly due to multi-tissue deterioration, which includes metabolic shifts, dysregulated immunity, and disrupted epithelial barriers. However, the characteristics of these changes, as reported in different studies, are varied and sometimes conflicting. Using clonal populations of Caenorhabditis elegans to highlight trends shared among individuals, we employed 16s rRNA gene sequencing, CFU counts and fluorescent imaging, identifying an Enterobacteriaceae bloom as a common denominator in aging animals. Experiments using Enterobacter hormaechei, a representative commensal, suggested that the Enterobacteriaceae bloom was facilitated by a decline in Sma/BMP immune signaling in aging animals and demonstrated its potential for exacerbating infection susceptibility. However, such detrimental effects were context-dependent, mitigated by competition with commensal communities, highlighting the latter as determinants of healthy versus unhealthy aging, depending on their ability to restrain opportunistic pathobionts.
Collapse
Affiliation(s)
- Rebecca Choi
- Department of Integrative Biology, University of California, Berkeley, Berkeley, CA, USA
| | - Rahul Bodkhe
- Department of Integrative Biology, University of California, Berkeley, Berkeley, CA, USA
| | - Barbara Pees
- Department of Integrative Biology, University of California, Berkeley, Berkeley, CA, USA
| | - Dan Kim
- Department of Integrative Biology, University of California, Berkeley, Berkeley, CA, USA
| | - Maureen Berg
- Department of Integrative Biology, University of California, Berkeley, Berkeley, CA, USA
| | - David Monnin
- Department of Integrative Biology, University of California, Berkeley, Berkeley, CA, USA
| | - Juhyun Cho
- Department of Integrative Biology, University of California, Berkeley, Berkeley, CA, USA
| | - Vivek Narayan
- Department of Integrative Biology, University of California, Berkeley, Berkeley, CA, USA
| | - Ethan Deller
- Department of Integrative Biology, University of California, Berkeley, Berkeley, CA, USA
| | - Cathy Savage-Dunn
- Department of Biology, Queens College, City University of New York, Flushing NY, USA
| | - Michael Shapira
- Department of Integrative Biology, University of California, Berkeley, Berkeley, CA, USA
| |
Collapse
|
3
|
Choi R, Bodkhe R, Pees B, Kim D, Berg M, Monnin D, Cho J, Narayan V, Deller E, Shapira M. An Enterobacteriaceae bloom in aging animals is restrained by the gut microbiome. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2023:2023.06.13.544815. [PMID: 37398063 PMCID: PMC10312681 DOI: 10.1101/2023.06.13.544815] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 07/04/2023]
Abstract
The gut microbiome plays important roles in host function and health. Core microbiomes have been described for different species, and imbalances in their composition, known as dysbiosis, are associated with pathology. Changes in the gut microbiome and dysbiosis are common in aging, possibly due to multi-tissue deterioration, which includes metabolic shifts, dysregulated immunity, and disrupted epithelial barriers. However, the characteristics of these changes, as reported in different studies, are varied and sometimes conflicting. Using clonal populations of C. elegans to highlight trends shared among individuals, and employing NextGen sequencing, CFU counts and fluorescent imaging to characterize age-dependent changes in worms raised in different microbial environments, we identified an Enterobacteriaceae bloom as a common denominator in aging animals. Experiments using Enterobacter hormachei, a representative commensal, suggested that the Enterobacteriaceae bloom was facilitated by a decline in Sma/BMP immune signaling in aging animals and demonstrated its detrimental potential for increasing susceptibility to infection. However, such detrimental effects were context-dependent, mitigated by competition with commensal communities, highlighting the latter as determinants of healthy versus unhealthy aging, depending on their ability to restrain opportunistic pathobionts.
Collapse
Affiliation(s)
- Rebecca Choi
- Department of Integrative Biology, University of California, Berkeley, Berkeley, CA, USA
| | - Rahul Bodkhe
- Department of Integrative Biology, University of California, Berkeley, Berkeley, CA, USA
| | - Barbara Pees
- Department of Integrative Biology, University of California, Berkeley, Berkeley, CA, USA
| | - Dan Kim
- Department of Integrative Biology, University of California, Berkeley, Berkeley, CA, USA
| | - Maureen Berg
- Department of Integrative Biology, University of California, Berkeley, Berkeley, CA, USA
| | - David Monnin
- Department of Integrative Biology, University of California, Berkeley, Berkeley, CA, USA
| | - Juhyun Cho
- Department of Integrative Biology, University of California, Berkeley, Berkeley, CA, USA
| | - Vivek Narayan
- Department of Integrative Biology, University of California, Berkeley, Berkeley, CA, USA
| | - Ethan Deller
- Department of Integrative Biology, University of California, Berkeley, Berkeley, CA, USA
| | - Michael Shapira
- Department of Integrative Biology, University of California, Berkeley, Berkeley, CA, USA
| |
Collapse
|
4
|
de Abreu Ribeiro Pereira J, de Fátima Píccolo Barcelos M, Valério Villas Boas E, Hilsdorf Píccoli R, de Sales Guilarducci J, Corrêa Pereira R, Pauli JR, Batista Ferreira E, Cardoso de Angelis-Pereira M, Esper Cintra D. Combined effects of yacon flour and probiotic yogurt on the metabolic parameters and inflammatory and insulin signaling proteins in high-fat-diet-induced obese mice. JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE 2022; 102:7293-7300. [PMID: 35758165 DOI: 10.1002/jsfa.12095] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/26/2021] [Revised: 01/16/2022] [Accepted: 06/27/2022] [Indexed: 06/15/2023]
Abstract
BACKGROUND Prebiotics and probiotics may be effective dietary components that can alter the gut microbiota of the host and, consequently, overcome imbalances associated with obesity. This work aimed to evaluate the synergistic and isolated effects and mechanisms by which probiotic yogurt containing Bifidobacterium animalis and/or Lactobacillus acidophilus and yacon flour alter metabolic parameters and inflammatory and insulin signaling proteins in diet-induced obese mice. Swiss mice were fed a high-fat diet (n = 48) or a standard diet (control; n = 6) for 56 days. The 42 mice that gained the most weight were selected and divided into seven groups that received different combinations of probiotic yogurt and yacon flour. After 30 days, biochemical parameters (blood glucose, serum total cholesterol, and triacylglycerols), crude fat excretion in feces, and periepididymal fat were assessed and an immunoblotting analysis of insulin signaling proteins and interleukin-1β was conducted. RESULTS The combination of yacon flour and a yogurt with two strains of probiotics exerted positive effects on the parameters evaluated, such as decreased body weight (-6.5%; P < 0.05), fasting glucose (-23.1%; P < 0.05), and triacylglycerol levels (-21.4%; P < 0.05) and decreased periepididymal fat accumulation (-44.2%; P < 0.05). There was a decrease in inflammatory markers (P < 0.001) and an improvement in insulin signaling (P < 0.001). CONCLUSIONS The combination of a prebiotic with two strains of probiotics in a food matrix may exert a protective effect against obesity-associated inflammation, improving insulin resistance, even in the short term. © 2022 Society of Chemical Industry.
Collapse
Affiliation(s)
| | | | | | | | | | - Rafaela Corrêa Pereira
- Department of Nutrition, Federal University of Lavras, Lavras, Brazil
- Department of Agricultural Sciences, Federal Institute of Minas Gerais, Bambuí, Brazil
| | - José Rodrigo Pauli
- Laboratory of Molecular Biology of Exercise (LaBMEx), School of Applied Science, University of Campinas, Limeira, Brazil
| | | | | | - Dennys Esper Cintra
- Laboratory of Nutritional Genomics (LABGeN), School of Applied Science, University of Campinas, Limeira, Brazil
| |
Collapse
|
5
|
Pérez-Carrascal OM, Choi R, Massot M, Pees B, Narayan V, Shapira M. Host Preference of Beneficial Commensals in a Microbially-Diverse Environment. Front Cell Infect Microbiol 2022; 12:795343. [PMID: 35782135 PMCID: PMC9240469 DOI: 10.3389/fcimb.2022.795343] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/14/2021] [Accepted: 05/24/2022] [Indexed: 11/13/2022] Open
Abstract
Gut bacteria are often described by the neutral term commensals. However, the more we learn about their interactions with hosts, the more apparent it becomes that gut commensals often contribute positively to host physiology and fitness. Whether hosts can prefer beneficial bacteria, and how they do so, is not clear. This is of particular interest in the case of the bacterivore C. elegans, which depends on bacteria as food source, but also as gut colonizers that contribute to its physiology, from development to immunity. It is further unclear to what extent worms living in their microbially-diverse habitats can sense and distinguish between beneficial bacteria, food, and pathogens. Focusing on Enterobacteriaceae and members of closely related families, we isolated gut bacteria from worms raised in compost microcosms, as well as bacteria from the respective environments and evaluated their contributions to host development. Most isolates, from worms or from the surrounding environment, promoted faster development compared to the non-colonizing E. coli food strain. Pantoea strains further showed differential contributions of gut isolates versus an environmental isolate. Characterizing bacterial ability to hinder pathogenic colonization with Pseudomonas aeruginosa, supported the trend of Pantoea gut commensals being beneficial, in contrast to the environmental strain. Interestingly, worms were attracted to the beneficial Pantoea strains, preferring them over non-beneficial bacteria, including the environmental Pantoea strain. While our understanding of the mechanisms underlying these host-microbe interactions are still rudimentary, the results suggest that hosts can sense and prefer beneficial commensals.
Collapse
|
6
|
Kissoyan KAB, Peters L, Giez C, Michels J, Pees B, Hamerich IK, Schulenburg H, Dierking K. Exploring Effects of C. elegans Protective Natural Microbiota on Host Physiology. Front Cell Infect Microbiol 2022; 12:775728. [PMID: 35237530 PMCID: PMC8884406 DOI: 10.3389/fcimb.2022.775728] [Citation(s) in RCA: 13] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/14/2021] [Accepted: 01/14/2022] [Indexed: 11/29/2022] Open
Abstract
The Caenorhabditis elegans natural microbiota was described only recently. Thus, our understanding of its effects on nematode physiology is still in its infancy. We previously showed that the C. elegans natural microbiota isolates Pseudomonas lurida MYb11 and P. fluorescens MYb115 protect the worm against pathogens such as Bacillus thuringiensis (Bt). However, the overall effects of the protective microbiota on worm physiology are incompletely understood. Here, we investigated how MYb11 and MYb115 affect C. elegans lifespan, fertility, and intestinal colonization. We further studied the capacity of MYb11 and MYb115 to protect the worm against purified Bt toxins. We show that while MYb115 and MYb11 affect reproductive timing and increase early reproduction only MYb11 reduces worm lifespan. Moreover, MYb11 aggravates killing upon toxin exposure. We conclude that MYb11 has a pathogenic potential in some contexts. This work thus highlights that certain C. elegans microbiota members can be beneficial and costly to the host in a context-dependent manner, blurring the line between good and bad.
Collapse
|
7
|
Rosenberg E, Zilber-Rosenberg I. Special Issue: The Role of Microorganisms in the Evolution of Animals and Plants. Microorganisms 2022; 10:microorganisms10020250. [PMID: 35208704 PMCID: PMC8874999 DOI: 10.3390/microorganisms10020250] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2022] [Accepted: 01/18/2022] [Indexed: 12/05/2022] Open
|
8
|
Vega NM, Ludington WB. From a parts list to assembly instructions and an operating manual: how small host models can re-write microbiome theory. Curr Opin Microbiol 2021; 64:146-151. [PMID: 34739919 DOI: 10.1016/j.mib.2021.10.006] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2021] [Revised: 08/10/2021] [Accepted: 10/08/2021] [Indexed: 10/20/2022]
Affiliation(s)
- Nic M Vega
- Biology Department, Emory University, Atlanta, GA, United States.
| | - William B Ludington
- Department of Embryology, Carnegie Institution of Washington, Baltimore, MD, United States
| |
Collapse
|
9
|
An integrated view of innate immune mechanisms in C. elegans. Biochem Soc Trans 2021; 49:2307-2317. [PMID: 34623403 DOI: 10.1042/bst20210399] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2021] [Revised: 09/16/2021] [Accepted: 09/20/2021] [Indexed: 12/13/2022]
Abstract
The simple notion 'infection causes an immune response' is being progressively refined as it becomes clear that immune mechanisms cannot be understood in isolation, but need to be considered in a more global context with other cellular and physiological processes. In part, this reflects the deployment by pathogens of virulence factors that target diverse cellular processes, such as translation or mitochondrial respiration, often with great molecular specificity. It also reflects molecular cross-talk between a broad range of host signalling pathways. Studies with the model animal C. elegans have uncovered a range of examples wherein innate immune responses are intimately connected with different homeostatic mechanisms, and can influence reproduction, ageing and neurodegeneration, as well as various other aspects of its biology. Here we provide a short overview of a number of such connections, highlighting recent discoveries that further the construction of a fully integrated view of innate immunity.
Collapse
|