scholarly journals Mycobacterium tuberculosis Transcriptome Profiling in Mice with Genetically Different Susceptibility to Tuberculosis

Acta Naturae ◽  
2013 ◽  
Vol 5 (2) ◽  
pp. 62-69 ◽  
Author(s):  
T. A. Skvortsov ◽  
D. V. Ignatov ◽  
K. B. Majorov ◽  
A. S. Apt ◽  
T. L. Azhikina
Keyword(s):  
Transcriptional Profiling ◽  
Anaerobic Respiration ◽  
Bacterial Pathogen ◽  
Transcriptome Profiling ◽  
Relevant Information ◽  
Mouse Strains ◽  
Host Immune System ◽  
Cell Processes ◽  
Upregulated Genes

Whole transcriptome profiling is now almost routinely used in various fields of biology, including microbiology. In vivo transcriptome studies usually provide relevant information about the biological processes in the organism and thus are indispensable for the formulation of hypotheses, testing, and correcting. In this study, we describe the results of genome-wide transcriptional profiling of the major human bacterial pathogen M. tuberculosis during its persistence in lungs. Two mouse strains differing in their susceptibility to tuberculosis were used for experimental infection with M. tuberculosis. Mycobacterial transcriptomes obtained from the infected tissues of the mice at two different time points were analyzed by deep sequencing and compared. It was hypothesized that the changes in the M. tuberculosis transcriptome may attest to the activation of the metabolism of lipids and amino acids, transition to anaerobic respiration, and increased expression of the factors modulating the immune response. A total of 209 genes were determined whose expression increased with disease progression in both host strains (commonly upregulated genes, CUG). Among them, the genes related to the functional categories of lipid metabolism, cell wall, and cell processes are of great interest. It was assumed that the products of these genes are involved in M. tuberculosis adaptation to the host immune system defense, thus being potential targets for drug development.

Use of immunological manipulations in studying genetically controlled responses to Leishmania donovani infection in mice

Parasitology ◽  
1984 ◽  
Vol 88 (4) ◽  
pp. 677-679 ◽  
Author(s):  
Jenefer M. Blackwell
Keyword(s):  
Immune System ◽  
Leishmania Donovani ◽  
Inbred Mouse ◽  
Parasitic Infection ◽  
Preceding Paper ◽  
Mouse Strains ◽  
Host Immune System ◽  
Inbred Mouse Strains

In the preceding paper Howard (p. 665) has given a very elegant presentation on ways in which the host immune system may be manipulated to provide valuable information about immunoregulation of parasitic infection in vivo. In our laboratory we have used some of the same manoeuvres to study immunoregulation of genetically controlled responses to Leishmania donovani infection in inbred mouse strains (Ulczak & Blackwell, 1983; Crocker, Blackwell & Bradley, 1984). As has been Howard's experience, the results obtained have not always been as one might have predicted at the outset.

scholarly journals Oxidative respiration through the bd-I and cbb3 oxidases is required for Vibrio cholerae pathogenicity and proliferation in vivo.

2021 ◽  
Author(s):  
Andrew John Van Alst ◽  
Lucas Maurice Demey ◽  
Victor DiRita
Keyword(s):  
Vibrio Cholerae ◽  
Anaerobic Respiration ◽  
Bacterial Pathogen ◽  
Population Expansion ◽  
Amplicon Sequencing ◽  
Electron Acceptors ◽  
Infant Mouse ◽  
Small Intestinal ◽  
Oxidative Respiration

Vibrio cholerae respires both aerobically and anaerobically and, while oxygen may be available to it during infection, other terminal electron acceptors are proposed for population expansion during infection. Unlike gastrointestinal pathogens that stimulate significant inflammation leading to elevated levels of oxygen or alternative terminal electron acceptors, V. cholerae infections are not understood to induce a notable inflammatory response. To ascertain the respiration requirements of V. cholerae during infection, we used Multiplex Genome Editing by Natural Transformation (MuGENT) to create V. cholerae strains lacking aerobic or anaerobic respiration. V. cholerae strains lacking aerobic respiration were attenuated in infant mice 10 5 -fold relative to wild type, while strains lacking anaerobic respiration had no colonization defect, contrary to earlier work suggesting a role for anaerobic respiration during infection. Using several approaches, including one we developed for this work termed Comparative Multiplex PCR Amplicon Sequencing (CoMPAS), we determined that the bd-I and cbb3 oxidases are essential for small intestinal colonization of V. cholerae in the infant mouse. The bd-I oxidase was also determined as the primary oxidase during growth outside the host, making V. cholerae the only example of a Gram-negative bacterial pathogen in which a bd-type oxidase is the primary oxidase for energy acquisition inside and outside of a host.

scholarly journals Forecasting bacterial survival-success and adaptive evolution through multi-omics stress-response mapping, network analyses and machine learning

2018 ◽  
Author(s):  
Zeyu Zhu ◽  
Defne Surujon ◽  
Aidan Pavao ◽  
José Bento ◽  
Tim van Opijnen
Keyword(s):  
Machine Learning ◽  
Antibiotic Resistance ◽  
Bacterial Pathogen ◽  
Transcriptional Response ◽  
Host Immune System ◽  
Bacterial Survival ◽  
Term Survival ◽  
Network Analyses ◽  
Infectious Disease Diagnostics

ABSTRACTWhether a bacterial pathogen establishes an infection and/or evolves antibiotic resistance depends on successful survival while experiencing stress from for instance the host immune system and/or antibiotics. Predictions on bacterial survival and adaptive outcomes could thus have great prognostic value. However, it is unknown what information is required to enable such predictions. By developing a novel network-based analysis method, a bacterium's phenotypic and transcriptional response can be objectively quantified in temporal 3D-feature space. The resulting trajectories can be interpreted as a degree of coordination, where a focused and coordinated response predicts bacterial survival-success, and a random uncoordinated response predicts survival-failure. These predictions extend to both antibiotic resistance and in vivo infection conditions and are applicable to both Gram-positive and Gram-negative bacteria. Moreover, through experimental evolution we show that the degree of coordination is an adaptive outcome - an uncoordinated response evolves into a coordinated response when a bacterium adapts to its environment. Most surprisingly, it turns out that phenotypic and transcriptional response data, network features and genome plasticity data can be used to train a machine learning model that is able to predict which genes in the genome will adapt under nutrient or antibiotic selection. Importantly, this suggests that deterministic factors help drive adaptation and that evolution is, at least partially, predictable. This work demonstrates that with the right information predictions on bacterial short-term survival and long-term adaptive outcomes are feasible, which underscores that personalized infectious disease diagnostics and treatments are possible, and should be developed.

Distinct courses of infection withLeishmania(L.)amazonensisare observed in BALB/c, BALB/c nude and C57BL/6 mice

Parasitology ◽  
2016 ◽  
Vol 143 (6) ◽  
pp. 692-703 ◽  
Author(s):  
LEONARDO G. VELASQUEZ ◽  
MARIANA K. GALUPPO ◽  
ELOIZA DE REZENDE ◽  
WESLEY N. BRANDÃO ◽  
JEAN PIERRE PERON ◽  
...  
Keyword(s):  
Parasite Burden ◽  
Inflammatory Cells ◽  
The Body ◽  
Mouse Strains ◽  
Host Immune System ◽  
Cutaneous Form ◽  
Inflammatory Infiltrates

SUMMARYLeishmania(L.)amazonensis[L.(L.)amazonensis] is widely distributed in Brazil and its symptomatic infections usually lead to few localized lesions and sometimes to diffuse cutaneous form, with nodules throughout the body, anergy to parasite antigens and poor therapeutic response. The variability of these manifestations draws attention to the need for studies on the pathophysiology of infection by this species. In this study, we analysed the course and immunological aspects ofL.(L.)amazonensisinfection in BALB/c and C57BL/6 strains, both susceptible, but displaying different clinical courses, and athymic BALB/c nude, to illustrate the role of T cell dependent responses. We analysed footpad thickness and parasite burden byin vivoimaging. Furthermore, we evaluated the cellular profile and cytokine production in lymph nodes and the inflammatory infiltrates of lesions. Nude mice showed delayed lesion development and less inflammatory cells in lesions, but higher parasite burden than BALB/c and C57BL/6. BALB/c and C57BL/6 mice had similar parasite burdens, lesion sizes and infiltrates until 6 weeks after infection, and after that C57BL/6 mice controlled the infection. Small differences in parasite numbers were observed in C57BL/6 macrophagesin vitro, indicating thatin vivomilieu accounts for most differences in infection. We believe our results shed light on the role of host immune system in the course ofL.(L.)amazonensisinfection by comparing three mouse strains that differ in parasitaemia and inflammatory cells.

scholarly journals Modulation of Intestinal Goblet Cell Function during Infection by an Attaching and Effacing Bacterial Pathogen

2007 ◽  
Vol 76 (2) ◽  
pp. 796-811 ◽  
Author(s):  
Kirk S. B. Bergstrom ◽  
Julian A. Guttman ◽  
Mohammad Rumi ◽  
Caixia Ma ◽  
Saied Bouzari ◽  
...  
Keyword(s):  
Immune System ◽  
Goblet Cell ◽  
Cell Function ◽  
Bacterial Pathogen ◽  
Goblet Cells ◽  
Cell Depletion ◽  
Intestinal Lumen ◽  
Host Immune System ◽  
Immunocompetent Mice

ABSTRACT The attaching and effacing (A/E) bacterial pathogens enteropathogenic Escherichia coli and enterohemorrhagic E. coli and the related mouse pathogen Citrobacter rodentium colonize their hosts' intestines by infecting the apical surfaces of enterocytes, subverting their function, and they ultimately cause diarrhea. Surprisingly, little is known about the interactions of these organisms with goblet cells, which are specialized epithelial cells that secrete the protective molecules Muc2 and trefoil factor 3 (Tff3) into the intestinal lumen. C. rodentium infection leads to dramatic goblet cell depletion within the infected colon, yet it is not clear whether C. rodentium infects goblet cells or if this pathology is pathogen or host mediated. As determined by immunostaining and PCR, both the number of goblet cells and the expression of genes encoding Muc2 and Tff3 were significantly reduced by day 10 postinfection. While electron microscopy and immunostaining revealed that C. rodentium directly infected a fraction of colonic goblet cells, C. rodentium localization did not correlate with goblet cell depletion. To assess the role of the host immune system in these changes, Rag1 knockout (KO) (T- and B-cell-deficient) mice were infected with C. rodentium. Rag1 KO mice did not exhibit the reduction in the number of goblet cells or in mediator (Muc2 and Tff3) expression observed in infected immunocompetent mice. However, reconstitution of Rag1 KO mice with T and B lymphocytes from C57BL/6 mice restored the goblet cell depletion phenotype during C. rodentium infection. In conclusion, these studies demonstrated that while colonic goblet cells can be subject to direct infection and potential subversion by A/E pathogens in vivo, it is the host immune system that primarily modulates the function of these cells during infection.

Kinase Targets for Mycolic Acid Biosynthesis in Mycobacterium tuberculosis

2019 ◽  
Vol 12 (1) ◽  
pp. 27-49 ◽  
Author(s):  
Shahinda S.R. Alsayed ◽  
Chau C. Beh ◽  
Neil R. Foster ◽  
Alan D. Payne ◽  
Yu Yu ◽  
...  
Keyword(s):  
Mycobacterium Tuberculosis ◽  
Enzymatic Activity ◽  
Bacterial Pathogen ◽  
Building Blocks ◽  
Mycolic Acid ◽  
Adaptive Responses ◽  
Mycolic Acids ◽  
Hydroxylated Fatty Acids

Background:Mycolic acids (MAs) are the characteristic, integral building blocks for the mycomembrane belonging to the insidious bacterial pathogen Mycobacterium tuberculosis (M.tb). These C60-C90 long α-alkyl-β-hydroxylated fatty acids provide protection to the tubercle bacilli against the outside threats, thus allowing its survival, virulence and resistance to the current antibacterial agents. In the post-genomic era, progress has been made towards understanding the crucial enzymatic machineries involved in the biosynthesis of MAs in M.tb. However, gaps still remain in the exact role of the phosphorylation and dephosphorylation of regulatory mechanisms within these systems. To date, a total of 11 serine-threonine protein kinases (STPKs) are found in M.tb. Most enzymes implicated in the MAs synthesis were found to be phosphorylated in vitro and/or in vivo. For instance, phosphorylation of KasA, KasB, mtFabH, InhA, MabA, and FadD32 downregulated their enzymatic activity, while phosphorylation of VirS increased its enzymatic activity. These observations suggest that the kinases and phosphatases system could play a role in M.tb adaptive responses and survival mechanisms in the human host. As the mycobacterial STPKs do not share a high sequence homology to the human’s, there have been some early drug discovery efforts towards developing potent and selective inhibitors.Objective:Recent updates to the kinases and phosphatases involved in the regulation of MAs biosynthesis will be presented in this mini-review, including their known small molecule inhibitors.Conclusion:Mycobacterial kinases and phosphatases involved in the MAs regulation may serve as a useful avenue for antitubercular therapy.

scholarly journals Transcriptional Profiling of Porcine Blastocysts Produced In Vitro in a Chemically Defined Culture Medium

Animals ◽  
2021 ◽  
Vol 11 (5) ◽  
pp. 1414
Author(s):  
Josep M. Cambra ◽  
Emilio A. Martinez ◽  
Heriberto Rodriguez-Martinez ◽  
Maria A. Gil ◽  
Cristina Cuello
Keyword(s):  
Culture Medium ◽  
Embryo Quality ◽  
Transcriptional Profiling ◽  
Defined Medium ◽  
Platelet Factor ◽  
Defined Media ◽  
Defined Culture ◽  
The Impact

The development of chemically defined media is a growing trend in in vitro embryo production (IVP). Recently, traditional undefined culture medium with bovine serum albumin (BSA) has been successfully replaced by a chemically defined medium using substances with embryotrophic properties such as platelet factor 4 (PF4). Although the use of this medium sustains IVP, the impact of defined media on the embryonic transcriptome has not been fully elucidated. This study analyzed the transcriptome of porcine IVP blastocysts, cultured in defined (PF4 group) and undefined media (BSA group) by microarrays. In vivo-derived blastocysts (IVV group) were used as a standard of maximum embryo quality. The results showed no differentially expressed genes (DEG) between the PF4 and BSA groups. However, a total of 2780 and 2577 DEGs were detected when comparing the PF4 or the BSA group with the IVV group, respectively. Most of these genes were common in both in vitro groups (2132) and present in some enriched pathways, such as cell cycle, lysosome and/or metabolic pathways. These results show that IVP conditions strongly affect embryo transcriptome and that the defined culture medium with PF4 is a guaranteed replacement for traditional culture with BSA.

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