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Helicobacter

Helicobacter is a genus of Gram-negative, spiral-shaped bacteria commonly found in the human stomach and upper gastrointestinal tract.
These microorganisms are known to cause various gastrointestinal disorders, including peptic ulcers, gastritis, and stomach cancer.
Helicobacter pylori is the most well-known species within this genus and has been extensively studied due to its significant impact on human health.
Researchers can leverage PubCompare.ai's powerful AI-driven platform to optimize their Helicobacter research, easily locate protocols from literature, pre-prints, and patents, and identify the best protocols and products for thier studies.
Experince seamless research with PubCompare.ai's intuitive tools and enhance the reproducibility and accuracy of your Helicobacter-related investigations.

Most cited protocols related to «Helicobacter»

1
Germfree Mice Mono-associated with MNV
Germfree (GF) mice on a C57BL/6J background were bred and housed in flexible film isolators in the New York University School of Medicine Gnotobiotics Animal Facility29 . Absence of fecal bacteria and fungi was confirmed by aerobic culture in brain heart infusion, sabaraud, and nutrient broth (Sigma) and qPCR for bacterial 16S (UniF340 5′-ACTCCTACGGGAGGCAGCAGT-3′; UniR514 5′-ATTACCGCGGCTGCTGGC-3′) and eukaryotic 18S ribosomal RNA genes (B2F 5′-ACTTCGATGGTAGGATAG-3′; B4R 5′-TGATCGTCTTCGATCCCCTA-3′) through sampling of stool from individual cages in each isolator on a monthly basis. Mono-association with MNV as described in Extended data figure 1 was performed within a dedicated isolator by inoculating 3 male and 3 female GF mice with 3×106 plaque forming units (pfu) of MNV.CR6 from an endotoxin-free stock prepared as described below. MNV mono-associated GF mice (GF+MNV) were bred to each other (F0 generation), and successful transmission to offspring was confirmed by performing a plaque assay on stool collected from 8-10 week old adult progeny (4-5 weeks after weaning) (Extended data figure 1). Progeny (F1) was used for experimental analyses or further breeding to generate additional mice for analyses (F2). Absence of bacteria and fungi was confirmed as described above. Control GF mice were bred and maintained in a separate isolator free of MNV. Unless stated otherwise, GF and GF+MNV mice remained in isolators until the time of analyses.
Conventional C57BL/6J wild-type and IFNAR1−/− (B6.129S2-Ifnar1tm1Agt/Mmjax) mice were purchased from Jackson Laboratories and bred onsite in a MNV and Helicobacter-negative specific pathogen free (SPF) animal facility. The absence of segmented filamentous bacteria (SFB) was determined by PCR (SFB736F 5′-GACGCTGAGGCATGAGAGCAT-3′; SFB844R 5′-GACGGCACGGATTGTTATTCA-3′). Age (6-9 weeks) and gender-matched mice were used in all experiments and assigned randomly to experimental groups. Sample size for animal experiments was chosen based on prior data generated in the laboratory. All animal studies were performed according to protocols approved by the NYU School of Medicine Institutional Animal Care and Use Committee (IACUC).
Kernbauer E., Ding Y, & Cadwell K. (2014). An enteric virus can replace the beneficial function of commensal bacteria. Nature, 516(7529), 94-98.
Publication 2014
Adult Children Animals Bacteria Bacteria, Aerobic Biological Assay Brain Cytoskeletal Filaments Dental Plaque Endotoxins Eukaryota Feces Females Fungi Genes Heart Helicobacter Institutional Animal Care and Use Committees Males Mice, House Mice, Inbred C57BL Nutrients Pharmaceutical Preparations RNA, Ribosomal, 18S Specific Pathogen Free Transmission, Communicable Disease
2
Germfree Mice Mono-associated with MNV
Germfree (GF) mice on a C57BL/6J background were bred and housed in flexible film isolators in the New York University School of Medicine Gnotobiotics Animal Facility29 . Absence of fecal bacteria and fungi was confirmed by aerobic culture in brain heart infusion, sabaraud, and nutrient broth (Sigma) and qPCR for bacterial 16S (UniF340 5′-ACTCCTACGGGAGGCAGCAGT-3′; UniR514 5′-ATTACCGCGGCTGCTGGC-3′) and eukaryotic 18S ribosomal RNA genes (B2F 5′-ACTTCGATGGTAGGATAG-3′; B4R 5′-TGATCGTCTTCGATCCCCTA-3′) through sampling of stool from individual cages in each isolator on a monthly basis. Mono-association with MNV as described in Extended data figure 1 was performed within a dedicated isolator by inoculating 3 male and 3 female GF mice with 3×106 plaque forming units (pfu) of MNV.CR6 from an endotoxin-free stock prepared as described below. MNV mono-associated GF mice (GF+MNV) were bred to each other (F0 generation), and successful transmission to offspring was confirmed by performing a plaque assay on stool collected from 8-10 week old adult progeny (4-5 weeks after weaning) (Extended data figure 1). Progeny (F1) was used for experimental analyses or further breeding to generate additional mice for analyses (F2). Absence of bacteria and fungi was confirmed as described above. Control GF mice were bred and maintained in a separate isolator free of MNV. Unless stated otherwise, GF and GF+MNV mice remained in isolators until the time of analyses.
Conventional C57BL/6J wild-type and IFNAR1−/− (B6.129S2-Ifnar1tm1Agt/Mmjax) mice were purchased from Jackson Laboratories and bred onsite in a MNV and Helicobacter-negative specific pathogen free (SPF) animal facility. The absence of segmented filamentous bacteria (SFB) was determined by PCR (SFB736F 5′-GACGCTGAGGCATGAGAGCAT-3′; SFB844R 5′-GACGGCACGGATTGTTATTCA-3′). Age (6-9 weeks) and gender-matched mice were used in all experiments and assigned randomly to experimental groups. Sample size for animal experiments was chosen based on prior data generated in the laboratory. All animal studies were performed according to protocols approved by the NYU School of Medicine Institutional Animal Care and Use Committee (IACUC).
Kernbauer E., Ding Y, & Cadwell K. (2014). An enteric virus can replace the beneficial function of commensal bacteria. Nature, 516(7529), 94-98.
Publication 2014
Adult Children Animals Bacteria Bacteria, Aerobic Biological Assay Brain Cytoskeletal Filaments Dental Plaque Endotoxins Eukaryota Feces Females Fungi Genes Heart Helicobacter Institutional Animal Care and Use Committees Males Mice, House Mice, Inbred C57BL Nutrients Pharmaceutical Preparations RNA, Ribosomal, 18S Specific Pathogen Free Transmission, Communicable Disease
3
Amplification and Detection of Helicobacter in Liver
The prokaryotic 16S rRNA (V3-V4 region) [20 (link)] was amplified from directly frozen samples and from material after culture in thioglycollate broth using V3-V4 primers as presented in Table 1. After amplification, the PCR products were purified individually using a clean-up kit (Gene JET PCR Purification kit, Thermo Scientific). Quality and concentration of amplified DNA were checked using gel electrophoresis. PCR products from individual samples were pooled by group and stored at −80°C until analysis.
Attempts to amplify the V3-V4 region directly from DNA from frozen liver were unsuccessful. However, three of the frozen samples yielded a band when amplified using Helicobacter genus-specific primers (C97 and C98). These PCR products, when re-amplified using the V3-V4 region primers yielded new bands (Fig 1, S2 Fig). Helicobacter pylori DNA (LMG 8775 DMST 20165 type strain) was obtained from the National Institute of Health, Department of Medical Sciences, Ministry of Public Health, Thailand and was used as a positive control. PCR amplification was performed with a thermal cycler and an Expand High-Fidelity PCR system (Bio Rad C100™thermal cycler). Each reaction (20 μl) contained 1× Expand High-Fidelity buffer, 1U Platinum Taq DNA polymerase, a 5 μM concentration of primers, a 10 mM concentration of each deoxyribonucleotide triphosphate, and 50 mM MgCl2. Amplification conditions are shown in Table 1.
Liver samples yielding a positive PCR result for the genus Helicobacter were further investigated for the presence of H. pylori using species-specific ureA gene primers following the protocol in Table 1.
Itthitaetrakool U., Pinlaor P., Pinlaor S., Chomvarin C., Dangtakot R., Chaidee A., Wilailuckana C., Sangka A., Lulitanond A, & Yongvanit P. (2016). Chronic Opisthorchis viverrini Infection Changes the Liver Microbiome and Promotes Helicobacter Growth. PLoS ONE, 11(11), e0165798.
Publication 2016
Buffers Deoxyribonucleotides Electrophoresis Freezing Genes Helicobacter Helicobacter pylori Liver Magnesium Chloride Oligonucleotide Primers Platinum Prokaryotic Cells RNA, Ribosomal, 16S Strains Taq Polymerase Thioglycolates triphosphate Urea
4
Generating Genetically Modified Mouse Models

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Publication 2016
Diphtheria Toxin Helicobacter Institutional Animal Care and Use Committees Mice, Laboratory RAG-1 Gene Specific Pathogen Free
5
Comparative Genomics of Campylobacter Identification
For the identification of species-specific (Table S7) and strain-specific (Table S5) ORFs, all predicted proteins (excluding pseudogenes) from the four TIGR-sequenced Campylobacter genomes and C. jejuni NCTC 11168 [28 (link)] were searched against an in-house database composed of 734,467 protein sequences encoded by 19 archaeal, 192 bacterial, 146 eukaryotic, three phage, and 17 virus chromosomes, as well as 145 plasmid, 29 mitochondrial, 17 plastid, and three nucleomorph genomes, using WU-BLASTP (http://blast.wustl.edu) [97 (link)]. To identify genus-specific ORFs, the protein sequences from the above five Campylobacter genomes plus three Helicobacter genomes (H. pylori 26695 [98 (link)], H. pylori J99 [99 (link)], and H. hepaticusATCC 51449 [44 (link)]) and the genome of W. succinogenes DSMZ1740 [100 (link)] were compared. Specifically, only bidirectional best matches that met the following prerequisites were scored: a p-value less than or equal to 10−5, identity of 35% or more, and match lengths of at least 75% of the length of both query and subject sequence. Match tables were created that were later used to generate the Venn diagrams (Tables S8 and S9). Novel ORFs encoded proteins that had no WU-BLASTP match. Regions of synteny were identified by first finding the maximum unique matches with a minimum length of five amino acids using PROmer, followed by visualization of the data using MUMmerplot (http://www.tigr.org) and Gnuplot version 4.0 (http://www.gnuplot.info/).
Fouts D.E., Mongodin E.F., Mandrell R.E., Miller W.G., Rasko D.A., Ravel J., Brinkac L.M., DeBoy R.T., Parker C.T., Daugherty S.C., Dodson R.J., Durkin A.S., Madupu R., Sullivan S.A., Shetty J.U., Ayodeji M.A., Shvartsbeyn A., Schatz M.C., Badger J.H., Fraser C.M, & Nelson K.E. (2005). Major Structural Differences and Novel Potential Virulence Mechanisms from the Genomes of Multiple Campylobacter Species. PLoS Biology, 3(1), e15.
Publication 2005
Amino Acids Amino Acid Sequence Archaea Bacteria Bacteriophages Campylobacter Chromosomes Eukaryota Genome Helicobacter Helicobacter pylori Mitochondria Open Reading Frames Plasmids Plastids Proteins Pseudogenes Strains Synteny Virus

Most recents protocols related to «Helicobacter»

1
Helicobacter pylori and Pancreatic Cancer
Electronic searches were conducted in PubMed, Embase, and Web of Science from
inception through 30 August 2022. The search strategy for PubMed was as follows:
(‘helicobacter’ [MeSH Terms] OR ‘helicobacter’ [All Fields] OR ‘helicobacter
pylori’ [MeSH Terms] OR ‘helicobacter pylori’ [All Fields] OR ‘helicobacter
infections’ [MeSH Terms] OR H. pylori [All Fields] OR HP [All Fields] OR
‘campylobacter pylori’ [All Fields]) AND ((‘pancreas’ [MeSH Terms] OR ‘pancreas’
[All Fields]) OR (‘pancreatic’ [All Fields])) AND ((‘neoplasms’ [MeSH Terms] OR
‘neoplasms’ [All Fields] OR ‘neoplasm’ [All Fields]) OR (‘cancer’ [All Fields]
OR ‘cancers’ [All Fields]) OR (‘tumour’ [All Fields] OR ‘tumor’ [All Fields]) OR
(‘tumours’ [All Fields] OR ‘tumors’ [All Fields]) OR (‘carcinoma’ [MeSH Terms]
OR ‘carcinoma’ [All Fields]) OR (‘adenocarcinoma’ [MeSH Terms] OR
‘adenocarcinoma’ [All Fields])). In addition, manual searches would also be
performed by reviewing the reference lists of relevant studies to locate further
resources. We used appropriate Medical Subject Heading terms in conjunction with
text word searching. There is no language restriction. The search terms of the
remaining databases (EMBASE and Web of Science) were presented in the Online Supplementary Materials Table S1.
Zhou B.G., Mei Y.Z., Wang J.S., Xia J.L., Jiang X., Ju S.Y, & Ding Y.B. (2023). Is Helicobacter pylori infection associated with pancreatic cancer? A systematic review and meta-analysis of observational studies. Therapeutic Advances in Chronic Disease, 14, 20406223231155119.
Publication 2023
Adenocarcinoma Carcinoma Helicobacter Helicobacter pylori Malignant Neoplasms Neoplasms Pancreas
2
Helicobacter pylori Isolates Characterization
As reference samples for the assessment of Vac s and m region, H. pylori Tx-30a (ATCC 51932) (CagPAI negative, s2m2) and H. pylori 26695 (CagA positive, s1m1) were cultured and used as positive controls for the experiment. Similarly, for CagA, Kenyan isolate 78 (CagA positive, s1m1) and H. pylori 26695 (CagA positive, s1m1). These isolates were inoculated under a biological safety cabinet onto a Helicobacter selective Agar medium (Nissui Pharmaceutical co., Ltd., Tokyo, Japan) and incubated for 10 days. The colonies growing on the plates were identified and sub cultured for 3–4 days at 37°C in microaerophilic conditions (10% CO2, 5% O2, and 85% N2). Sub culture was on Brucella Agar plates (Becton Dickinson, Sparks, MD, USA), supplemented with 7% horse serum (Nippon Biotest Laboratories Inc., Tokyo, Japan). The colonies were identified as small, round, translucent and the organisms were gram-negative and positive for the urease test.
Njenga P., Njau A., Moloo Z., Revathi G., Tshibangu E, & Yamaoka Y. (2023). Pattern and trends of Helicobacter pylori genotypes in gastric cancer: A Kenyan 8-year study. Frontiers in Medicine, 10, 1119513.
Publication 2023
Agar Biopharmaceuticals Brucella Equus caballus Helicobacter Helicobacter pylori Pharmaceutical Preparations Safety Serum Urease
3
Helicobacter pylori Infection in Mice
Thirty-nine C57BL/6N female mice certified as Helicobacter spp-free were acquired from Harlan Laboratories® and housed at the Laboratorio de Ensayos Biológicos (LEBi), University of Costa Rica, at standard temperature (25.5°C ± 1.20°C) and humidity (50–70%), and maintained on a 12-h light/dark cycle (lights off at 6:00 p.m). Water and food (LabDiet 5010.) were provided ad libitum. Mice were distributed into 7 experimental groups, each consisting of 5-7 animals per cage (Figure 1) and were moved to an experimental section one week before they were inoculated with H. pylori. Experimental procedures and methods were carried out in accordance with the guidelines of the Costa Rican Ministry of Science and Technology and were approved by the Institutional Committee for Animal Care and Use of Animals (CICUA) of the University of Costa Rica (permission number CICUA-031-17).
Malespín-Bendaña W., Alpízar-Alpízar W., Figueroa-Protti L., Reyes L., Molina-Castro S., Une C, & Ramírez-Mayorga V. (2023). Helicobacter pylori infection induces gastric precancerous lesions and persistent expression of Angpt2, Vegf-A and Tnf-A in a mouse model. Frontiers in Oncology, 13, 1072802.
Publication 2023
Animals Females Food Helicobacter Helicobacter pylori Humidity Light Mice, House Mice, Inbred C57BL Ribs
4
Genotyping and Housing of C57BL/6J Mice
The experiments were performed using C57BL/6J wild-type mice of the B6;Cg-Fgf-2tm1Zll strain [61 (link)]. Since the genetic background is not standardized, wild-type mice were generated by own breeding. Genotyping was performed as previously described [15 (link)].
Male mice (n = 20) were bred at Hannover Medical School (Germany) and kept in the same temperature- and humidity-controlled room on a 14 h light/10 h dark schedule and housed in open cages in groups of four to five with food and water available ad libitum. Starting one-week prior to the drinking experiment, animals were individually housed. The hygienic status was routinely monitored in accordance with the FELASA recommendations [62 (link)]. No evidence of infectious agents was revealed except for occasional positive tests for Rodentibacter pneumotropica and Helicobacter spp.
Herburg L., Rhein M., Kubinski S., Kefalakes E., Levin Greenwald M., Gielman S., Barak S., Frieling H, & Grothe C. (2023). Chronic Voluntary Alcohol Consumption Alters Promoter Methylation and Expression of Fgf-2 and Fgfr1. International Journal of Molecular Sciences, 24(4), 3336.
Publication 2023
Animals Food Genetic Background Helicobacter Humidity Infection Light Males Mice, House Mice, Inbred C57BL Strains
5
Analytical Sensitivity of Helicobacter Multiplex
As positive control, plasmid-DNA was extracted from a dam+, dcm+E. coli strain containing the selected bacterial target sequences (Eurofins, Ebersberg, Germany) as described before [29 (link)]. The copy number/unit mass was calculated by assuming that 1 bp weighs about 660 Da. Concentration of plasmid-DNA was measured with the NanoDrop 1000. Knowledge of the concentration of the purified DNA preparations allowed computing the number of plasmid/µL that was used to determine the analytical sensitivity of Helicobacter multiplex DNA finder. For internal quality control of mouse DNA, polymerase A gene was co-detected in the Helicobacter multiplex DNA finder.
In all multiplex PCR and hybridization runs, reactions without template DNA were used as assay negative controls indicating reagent contamination.
To check the assay’s specificity, whole genomes of three closely related bacteria (H. canis (ATCC 51402), C. lari (DSM 11375-0313-001), C. coli (ATCC 4994)) as well as Helicobacter-negative murine fecal samples were applied to the Helicobacter multiplex DNA finder.
Butt J., Schmitz M., Berkus B., Schmidt K, & Höfler D. (2023). Validation of Multiplex PCR and Serology Detecting Helicobacter Species in Mice. Microorganisms, 11(2), 249.
Publication 2023
Bacteria Biological Assay Crossbreeding Escherichia coli Feces Genes Genome, Bacterial Helicobacter Hypersensitivity Mice, House Multiplex Polymerase Chain Reaction Mus Plasmids Strains

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1
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2
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3
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More about "Helicobacter"

Helicobacter is a genus of spiral-shaped, Gram-negative bacteria commonly found in the human stomach and upper gastrointestinal tract.
The most well-known species within this genus is Helicobacter pylori, which has been extensively studied due to its significant impact on human health.
These microorganisms are known to cause various gastrointestinal disorders, including peptic ulcers, gastritis, and stomach cancer.
Researchers can leverage PubCompare.ai's powerful AI-driven platform to optimize their Helicobacter-related research.
The platform allows researchers to easily locate protocols from literature, pre-prints, and patents, and identify the best protocols and products for their studies.
This can be particularly useful when working with animal models such as C57BL/6J mice, C57BL/6 mice, Rag1−/− mice, and C57BL/6J male mice, which are commonly used in Helicobacter research.
Additionally, researchers can utilize tools like the QIAamp DNA Stool Mini Kit to extract and purify DNA from Helicobacter samples, and Columbia blood agar base to culture and isolate these bacteria.
The platform also provides valuable insights for researchers working with Ifngr1−/− mice, which are commonly used to study the immune response to Helicobacter infections.
By leveraging PubCompare.ai's intuitive tools and AI-driven comparisons, researchers can enhance the reproducibility and accuracy of their Helicobacter-related investigations, leading to more impactful and meaningful research outcomes.
Experience seamless research with PubCompare.ai and stay ahead of the curve in the field of Helicobacter studies.