A Galleria mellonella Oral Administration Model to Study Commensal-Induced Innate Immune Responses

Summary

Here, we provide a detailed protocol for an oral administration model using Galleria mellonella larvae and how to characterize induced innate immune responses. Using this protocol, researchers without practical experience will be able to use the G. mellonella force-feeding method.

Abstract

The investigation of the immunogenic potential of commensal bacteria on the host immune system is one essential component when studying intestinal host-microbe interactions. It is well established that different commensals exhibit a different potential to stimulate the host intestinal immune system. Such investigations involve vertebrate animals, especially rodents. Since increasing ethical concerns are linked with experiments involving vertebrates, there is a high demand for invertebrate replacements models.

Here, we provide a Galleria mellonella oral administration model using commensal non-pathogenic bacteria and the possible assessment of the immunogenic potential of commensals on the G. mellonella immune system. We demonstrate that G. mellonella is a useful alternative invertebrate replacement model that allows the analysis of commensals with different immunogenic potential such as Bacteroides vulgatus and Escherichia coli. Interestingly, the bacteria exhibited no killing effect on the larvae, which is similar to mammals. The immune responses of G. mellonella were comparable with vertebrate innate immune responses and involve recognition of the bacteria and production of antimicrobial molecules. We propose that G. mellonella was able to restore previous microbiota balance, which is well known from healthy mammalian individuals. Although providing comparable innate immune responses in both G. mellonella and vertebrates, G. mellonella does not harbor an adaptive immune system. Since the investigated components of the innate immune system are evolutionary conserved, the model allows a prescreening and first analysis of bacterial immunogenic properties.

Introduction

The intestinal microbiome is an essential component for maintenance of homeostasis, and involves both innate and adaptive immune responses^1,2. The commensal microbiota community is characterized by different main commensal constituents: symbionts that confer beneficial effects by important immunomodulatory functions, and pathobionts that can have detrimental effects in genetically predisposed hosts and promote and trigger intestinal inflammation^3,4. Many studies on symbionts and pathobionts and their influence on the host immune system have been published mainly studying adaptive immune responses.

Since these studies involve many animals for the investigations and the protection and replacement of animals used for experimentation is of increasing public interest, we seek to find a replacement model to allow for a screening of different bacterial immunogenic properties. Insects, especially Galleria mellonella, are a widely used replacement model in infection research. G. mellonella combines different advantages such as low costs and high throughput; it allows oral administration of bacteria, which is the natural exposure route, and it allows for systemic infection^5,6. G. mellonella further enables incubation at 37 °C, which is the physiological body temperature of mammals and the optimum for bacterial virulence factor expression⁵. The main advantage of G. mellonella is the conserved innate immune system that enables the discrimination of self from non-self and encodes a variety of pattern recognition receptors like apolipophorin or the opsonin hemolin^6,7. Upon microbe recognition, G. mellonella can trigger different downstream humoral immune responses. It can induce oxidative stress responses and secrete reactive oxygen species (ROS) which involves the activity of NOS (nitric oxidase synthase) and NOX (NADPH oxidase)^6,8. In addition, G. mellonella activates a potent antimicrobial peptide (AMP) response, which results in the secretion of a mixture of different AMPs such as gloverin, moricin, cecropin or the defensin-like gallerimycin^6,8,9,10. Generally, AMPs have quite broad host specificity against Gram-positive and Gram-negative bacteria and fungi and have to provide an potent response since insects are lacking any adaptive response¹⁰. Gloverin is an AMP active against bacteria and fungi and inhibits outer membrane formation^6,11. Moricins exhibit their antimicrobial function against Gram-positive and Gram-negative bacteria by penetrating the membrane and forming a pore^9,11. Cecropins provide activity against bacteria and fungi and permeabilize the membrane similarly like moricins^9,10. Gallerimycin is a defensin-like peptide with anti-fungal properties⁹. Interestingly, it was found that the combination of cecropin and gallerimycin had a synergistic activity against E. coli¹⁰.

Due to their easy-to-use character G. mellonella larvae are an often used infection model to assess bacterial pathogenicity. In particular, studies in which data obtained from G. mellonella correlate with data obtained from mice support the strength of this alternative host model. It was found that the most pathogenic serotypes of Listeria monocytogenes in a mouse infection model lead also to higher mortality rates in G. mellonella after systemic infection. Further, less virulent serotypes turned out to be also less virulent in the G. mellonella model¹². Similar observations have been made with the human pathogenic fungi Candida albicans. Virulence of different C. albicans strains has been assessed by systemic infection and subsequent monitoring of larval survival. Mouse avirulent strains were also avirulent or exhibited reduced virulence in G. mellonella, whereas the mouse virulent strains lead also to high larval mortality¹³. The G. mellonella model could further be used to identify type 3 secretion system pathogenicity factors of Pseudomonas aeruginosa¹⁴.

Since most investigations involving G. mellonella were focused on virulence factors using the systemic infection approach we were especially interested in providing a method suitable for the analysis of intestinal commensals in an oral force-feeding model in which we can apply a distinct dosage of bacteria per larvae and not only observe the larval mortality rate but analyze different hallmarks of innate immune responses to maintain intestinal homeostasis.

Our method helps to increase the use of G. mellonella as a replacement model since we combine the application of bacteria and the analysis of RNA expression. It is not only useful to strengthen the meaning of bacterial pathogenesis studies when including the analysis of immune responses after oral administration and not only the observation of mortality rates after systemic infection. Our methods allows for the analysis of immunogenic properties of bacterial non-pathogenic commensals since it is provides more complex conditions than cell culture by offering an intestinal barrier in a living organism.

Protocol

1. G. mellonella rearing and preparation of the larvae for the experiments

NOTE: The cycle from egg to last instar larva takes approximately 5-6 weeks.

1. Transfer the eggs laid by adult moths to 2 L boxes containing wax moth substrate (22% corn grits, 22% wheat meal, 17.5% beeswax, 11% skimmed milk powder, 11% honey, 11% glycerol, 5.5% dried yeast). Perform the whole breeding at 30 °C in the dark.
2. Transfer 25 g of substrate containing the larvae into fresh substrate after approximately 1-2 weeks when small and tiny larvae were visible. Synchronize the larvae after 2 weeks according to their size and keep groups of 30-40 larvae in 2 L containers on wax moth substrate for additional 2 weeks.
3. Select the larvae for experiments by weight. Use only pale and fast moving larvae with a mass of 180-200 mg.

2. Cultivation and preparation of Bacteroides vulgatus and Escherichia coli for oral administration

1. Grow the obligate anaerobic bacterium Bacteroides vulgatus mpk at 37 °C anaerobically using jars and sachets for creating an anaerobic environment (see Table of Materials)^15,16. Cultivate B. vulgatus for 2 days and grow an overnight subculture in brain heart infusion (BHI) broth.
2. Grow the facultative anaerobic bacterium Escherichia coli mpk under aerobic conditions in Luria-Bertani (LB) broth at 37 °C. Cultivate E. coli overnight in LB broth and grow subculture for 2 h at 37 °C on the day of the experiment.
3. Harvest the cultures by centrifugation at 1,700 x g for 5 min. Resuspend the bacterial pellets in DPBS (Dulbecco's Phosphate-Buffered Saline). Determine the optical density (OD) of the bacterial cultures at OD 600 nm and calculate the bacterial concentrations. The bacterial concentrations were adjusted to 10⁹/mL.

3. Force-feeding of G. mellonella larvae with bacterial suspensions

1. Force-feed each larva with 10 µL of the adjusted bacterial suspension containing 10⁷ bacteria per dose. Use an insulin syringe with a blunt-ended needle for oral application of the bacterial suspension.
   1. Fix the syringe into a microsyringe pump (Figure 1) to ensure the accuracy of the applied suspension volume to each larva (see Table of Materials). Insert the syringe carefully between their mandibles. Do not force the syringe between the mandibles. Wait for the larvae to open it mouthparts and insert then the syringe.
2. Incubate the force-fed larvae in the dark at 37 °C between 1-24 h. Use DPBS-administered larvae as mock background controls to exclude potential stress responses induced due to the handling of the larvae during force-feeding.

4. Processing of orally administered larvae and RNA isolation

1. Work under a hood and wear safety glasses. Clean the hood and spray reagent to prevent RNase contamination.
   1. Snap-freeze the living larvae after incubation in liquid nitrogen and homogenize them. Use a mortar and pistil for homogenization. Add liquid nitrogen to the mortar and grid each larval individual until powdered homogenates are produced.
   2. Pour the homogenate to a disposable weighing boat and wait for the liquid nitrogen to evaporate.
2. Mix the liquid nitrogen-free frozen powdered homogenates with 1 mL of Trizol in a 2 mL tube and incubate the mixture at room temperature for 1 h.
3. Centrifuge the mixture at 8,000 x g for 15 min at room temperature and transfer the supernatant into a fresh tube and discard the pellet. Mix the supernatant with 200 µL of 1-Bromo-3-Chloropropane (BCP). Vortex and incubate the mixture for 5 min at room temperature and for 10 min on ice.
4. Centrifuge the BCP-added reactions at 18,000 x g for 15 min at 4 °C. Transfer the upper transparent layer into a new 2 mL tube and discard the rest. Precipitate the RNA of the transferred upper layer with 500 µL isopropanol by mixing and inverting the tube for 5 min.
5. Centrifuge the tube at 18,000 x g for 15 min at 4 °C. Wash the precipitated RNA pellet with 500 µL of 75% ethanol.
6. Dry the RNA pellet for 5-10 min at RT. Take care to not over dry it as it will be hard to dissolve later.
7. Dilute ribonuclease inhibitor (1:100) in nuclease-free water and use 100 µL of the solution to resuspend the dried RNA pellet. Vortex the tube carefully until the pellet is completely dissolved.
8. Measure RNA quality and quantity. Ensure that the 260/280 ratio is approximately 2.0 and 260/230 ratio in the range of 2.0-2.2 (see Table of Materials).
9. Use 5 µg of the isolated RNA for DNase digestion. Mix 5 µL of 10x buffer, 1 µL of ribonuclease inhibitor enzyme, 2 µL of DNase enzyme, 5 µg of RNA, and fill up with nuclease-free water up to 50 µL. Incubate for 30 min at RT.
   1. Add 6 µL of inactivation reagent and incubate for 2 min at RT and vortex reaction occasionally. Centrifuge reaction at 10,000 x g for 1 min. Transfer supernatant into fresh 1.5 mL tube.
      NOTE: The RNA contains the larval RNA as well as the bacterial RNA of the respective strain used for oral administration.

5. Quantification of the bacterial 16S copy numbers after force-feeding

NOTE: The copy numbers of the expressed bacterial 16S was determined using cDNA synthesized from the RNA extracted in section 4. Final quantification is calculated with the help of a standard curve of plasmid in which the 16S PCR fragment of either B. vulgatus or E. coli was cloned.

1. Preparation of plasmid standards
   1. Amplify 16S fragments from E. coli mpk or B. vulgatus mpk genomic DNA by PCR. Mix 10 µL of 5x buffer, 1 µL of 10 mM dNTP solution, 2.5 µL of 10 µM forward primer and 2.5 µL of 10 µM reverse primer dilution, 1 µL of DMSO, 1 µL of genomic DNA template, 31.5 µL of nuclease-free water and 0.5 µL of proof-reading enzyme.
   2. Run the PCR (initial denaturation: 98 °C for 30 s, denaturation: 98 °C for 10 s, annealing: 60 °C for 30s, extension: 72 °C for 30 s, final extension: 72 °C for 5 min, repeat denaturation, annealing and extension for 30 cycles).
      1. Use 16S E. coli primers (p_forward: GTTAATACCTTTGCTCATTGA, p_reverse: ACCAGGGTATCTAATCCTGTT¹⁷, 320 bp) or 16S B. vulgatus primers (p_forward: AACCTGCCGTCTACTCTT, p_reverse: CAACTGACTTAAACATCCAT¹⁸, 400 bp) for amplification.
   3. Use the E. coli and B. vulgatus 16S PCR fragments for blunt-end cloning into a cloning vector. Set up ligation and mix 10 µL of 2x buffer, 1 µL of non-purified PCR product, 1 µL of blunt-end cloning plasmid, 7 µL of nuclease-free water and 1 µL of T4 DNA Ligase. Incubate ligation for 10 min at RT.
   4. Prepare E. coli DH5α competent cells.
      1. Inoculate 100 mL of LB medium in an Erlenmeyer flask with 1 mL of an overnight culture. Grow the culture until OD 600 nm is between 0.4-0.6. Split the resulting culture into two 50 mL tubes and incubate the cultures on ice for 10 min.
      2. Centrifuge the cultures at 1,700 x g for 10 min at 4 °C. Discard the supernatant and resuspend each pellet carefully with 5 mL of RFI solution (30 mM CH₃COOK, 100 mM KCl, 10 mM CaCl, 50 mM MnCl₂, adjust pH 5.8 with glacial acid, sterile filtered). Fill each tube with additional 45 mL of RFI solution.
      3. Centrifuge the cultures at 1,700 x g for 10 min at 4 °C. Discard the supernatant and resuspend each pellet carefully with 6 mL of RFII (10 mM MOPS, 15 mM CaCl₂, 10 mM KCl, 15% glycerol, autoclaved) solution. Pool both fractions and incubate the 12 mL suspension on ice for 15 min. Prepare cell suspension aliquots (200 µL). Store the aliquots at -80 °C.
   5. Transfer the ligation reaction to one aliquot of competent E. coli DH5α cells and leave the reaction on ice for 15 min. Heat shock the cells for 45 s at 42 °C and add 1 mL of LB medium.
      1. Incubate transformation for 45 min at 37 °C. Add 100 µL of the transformation to a LB agar plate containing ampicillin and incubate overnight at 37 °C.
   6. Perform colony PCR of 8 resulting transformants from the LB agar plate of step 5.1.5. Pick each colony with a toothpick, dip it onto a fresh LB plate containing ampicillin (master plate) and then dip the same toothpick into a well containing 5.5 µL of nuclease-free water in a PCR stripe.
      1. Add 7.5 µL of 2x PCR mix, 0.5 µL of 10 µM forward primer and 0.5 µL of 10 µM reverse primer dilution. Use the same primer pairs mentioned in section 5.1.1.
      2. Run PCR (initial denaturation: 95 °C for 5 min, denaturation: 95 °C for 1 min, annealing: 60 °C for 30s, extension: 72 °C for 1 min, final extension: 72 °C for 7 min, repeat denaturation, annealing and extension for 35 cycles).
   7. Verify the size of the 16S fragments on a 1% agarose gel. Use 0.5x Tris-Borate-EDTA (TBE) buffer to dissolve 1 g of agarose and boil it in a microwave. Add 1:50,000 dye to gel and pour it. Add the colony PCR reactions and a 100 bp DNA ladder to the gel, and run the gel for 45 min at 110 V.
   8. Inoculate a 5 mL LB overnight culture containing ampicillin with one clone from the master plate (section 5.1.6) for each E. coli and B. vulgatus 16S plasmid that contains the right insert size.
      1. Centrifuge the bacterial overnight cultures in a 2 mL tube at 1,700 x g. Discard the supernatant and resuspend the pellet in 600 µL sterile water.
      2. Add 100 µL of lysis buffer and mix by inverting the tube 6 times. Add 350 µL of cold (4°C) neutralization solution and mix thoroughly by inverting the tube.
      3. Centrifuge at maximum speed in a centrifuge for 3 min. Transfer the supernatant (~900 µL) to a spin column and centrifuge at maximum speed in a centrifuge for 15 s.
      4. Discard the flowthrough and add 200 µL of endotoxin removal wash and centrifuge at maximum speed in a centrifuge for 15 s.
      5. Add 400 µL of wash solution to the column and centrifuge at maximum speed in a centrifuge for 30 s. Transfer the column to a clean 1.5 mL tube, add 30 µL of elution buffer to the column incubate it for 1 min at room temperature.
      6. Centrifuge at maximum speed in a centrifuge for 30 s (see Table of Materials).
   9. Determine the plasmid DNA concentration by mixing 1 µL of plasmid DNA with 199 µL of working solution (1 µL of fluorescent dye per 199 µL of buffer for each reaction). Prepare two standards by mixing 10 µL of standard 1 or 10 µL of standard 2 with 190 µL. Vortex the sample and standard tubes and incubate reaction for 2 min. Measure the concentration (see Table of Materials).
   10. Prepare standard concentrations in 10-fold serial dilutions in a range of 10-100,000 copies: Calculation the mass of the single plasmid (m = (n) x (1.096x10-21 g/bp), n = plasmid size, m = mass). Calculate the mass of plasmid DNA needed to contain the desired copy numbers of interest (copy number of interest x mass of single plasmid = mass of plasmid DNA needed).
2. Preparation of samples for quantification
   1. Synthesize cDNA. Mix 2 µL of 7x buffer, 1 µL of DNase-digested RNA from section 4 and 11 µL of nuclease-free water. Incubate for 2 min at 42 °C.
      1. Place reaction immediately on ice. Mix 4 µL of 5x RT Buffer, 1 µL of RT (Reverse Transcriptase) primer mix, 1 µL of RT enzyme and the reaction of step 5.2.1. Incubate for 15 min at 42 °C. Incubate for 3 min at 95°C to inactivate RT enzyme.
   2. Quantify cDNA concentrations fluorometrically like described in step 5.1.9.
3. Measurement of bacterial load
   1. Adjust cDNA concentrations to 5 ng per 12 µL reaction for quantitative PCR. Mix 2x RT-PCR mix, 0.25 µL of 100 µM forward primer, 0.25 µL of 100 µM reverse primer (5.1.1) and 12 µL of adjusted cDNA. Run qPCR (initial denaturation: 95 °C for 5 min, denaturation: 95 °C for 10 s, annealing: 60 °C for 30 s, repeat denaturation and annealing for 35 cycles, melting: 95 °C, cool down to 4 °C).
   2. Plot log₁₀ concentrations of plasmid standard curve (10-100,000 copies), i.e. 1-5 (x-axis), against the corresponding ct-values (y-axis). Perform linear regression to obtain the regression equation. Solve the equation for x (concentration). Use the formula to calculate the log₁₀ of the copy numbers by inserting ct-value into the formula. Calculate the antilogarithm to obtain copy numbers.

6. Determination of innate immune marker gene using quantitative RT-PCR

1. Check primers for gene-specificity by PCR and subsequent agarose gel electrophoresis to verify the correct fragment size. Perform PCR like described in section 5.1.5.
   Ubiquitin 130 bp: forward TCAATGCAAGTAGTCCGGTTC, reverse CCAGTCTGCTGCTGATAAACC¹⁹ (housekeeping)
   Nox-4 159 bp: forward TGGCACGGCATCAGTTATCA, reverse ACAGCGACTGTCATGTGGAA⁸
   Nos 76 bp: forward ATGAAGGTGCTGAAGTCACAA, reverse GCCATTTTACAATCGCCACAA⁸
   Gst 156 bp: forward GACAGAAGTCCTCCGGTCAG, reverse TCCGTCTTCAAGCAAAGGCA⁸
   ApoIII 265 bp: forward AGACTTGCACGCCATCAAGA, reverse TGCATGCTGTTTGTCACTGC⁸
   hemolin 267 bp: forward CTCCCTCACGGAGGACAAAC, reverse GCCACGCACATGTATTCACC⁸
   gallerimycin 161 bp: forward GAAGTCTACAGAATCACACGA, reverse ATCGAAGACATTGACATCCA⁸
   cecropin 158 bp: forward CTGTTCGTGTTCGCTTGTGT, reverse GTAGCTGCTTCGCCTACCAC⁸
   gloverin 101 bp: forward GTGTTGAGCCCGTATGGGAA, reverse CCGTGCATCTGCTTGCTAAC⁸
   moricin 124 bp: forward GCTGTACTCGCTGCACTGAT, reverse TGGCGATCATTGCCCTCTTT⁸)
2. Assess primer efficiency to be E=2.
   1. Pool 2 µL of 5-10 different positive samples (i.e., samples that are expressing the gene for which the primer pair needs to be investigated).
   2. Prepare a 1:5 dilution series of the sample pool: standard 1 (S1): undiluted pool; S2: 2 µL of S1 + 8 µL nuclease-free water; S3: 2 µL of S2 + 8 µL nuclease-free water; S4: 2 µL of S3 + 8 µL nuclease-free water.
   3. Apply 1 µL of S1-S4 and a non-template control (nuclease-free water) to a 96-well qPCR plate. Add 5 µL of RT master mix, 0.1 µL of each 100 µM forward and reverse primer, 3.7 µL of nuclease-free water and 0.1 µL of RT mix per well.
   4. Run quantitative RT-PCR (reverse transcription: 50 °C for 10 min, initial denaturation: 95 °C for 5 min, denaturation: 95 °C for 10 s, annealing: 60 °C for 30 s, repeat denaturation and annealing for 40 cycles, melting: 95 °C, cool down to 4 °C).
   5. Plot log₁₀ of relative units for S1-S4 (1, 0.2, 0.04, 0.008) (x-axis) against the corresponding ct-values (y-axis). Perform linear regression and determine the slope of the standard curve. Calculate the efficiency E: E= 10^-(1/slope).²⁰
      NOTE: A slope of -3.32 indicates ideal reaction conditions and primer efficiency of E=2.00. This means: the amount of PCR product doubles during each cycle.
3. Use 100 ng of digested RNA (100 ng/µL) as a template for RT-PCR. Mix RT-PCR reagents and run RT-PCR like mentioned in section 6.2. Measure all bacteria- and DPBS-administered samples with both housekeeping primer pair and target primer pairs. Always run the S1-S4 dilutions with the housekeeping primer pair and S1-S4 with the target primer pair on the same plate for efficiency determination.
4. Calculate ratio (R) of RNA gene expression according to the following formula using the experimentally determined primer efficiency of both the housekeeping and the target primer pair. Normalize bacteria stimulated samples to mock controls²⁰.
   
   R: ratio
   E_target: efficiency of S1-4 measured with target primer pair
   E_housekeeping: efficiency of S1-4 measured with housekeeping primer pair
   Δct_target^{(control-sample)}: Δct of (ct of DPBS-fed sample)-(ct of bacteria-fed sample) measured with target primer pair
   Δct_housekeeping^{(control-sample)}: Δct of (ct of DPBS-fed sample)-(ct of bacteria-fed sample) measured with housekeeping primer pair

Results

The G. mellonella hemolymph infection model in widely used to analyze the virulence factors of a huge variety of pathogens. Most measurements include the analysis of larvae mortality, which is a quite easy method. Nevertheless, this method does not allow conclusions about immune responses in general and link the results of G. mellonella immune responses with vertebrate immune mechanisms. The G. mellonella oral administration model on the other hand is only rarel...

Discussion

The G. mellonella model is a frequently used model to assess bacterial virulence factors in a systemic infection approach²¹. Since many pathogens and bacteria enter the host via the oral colonization or infection route, new insights need to be found to evaluate G. mellonella as a model for oral colonization and infection.

The possibility to rear G. mellonella between 15-37 °C is a great advantage since most mammalian models maintain body ...

Materials

List of materials used in this article

Name	Company	Catalog Number	Comments
1.5 mL tubes	Eppendorf	0030120086
100 bp DNA ladder	Thermo Fisher Scientific	15628019
1-Bromo-3-Chloropropane (BCP)	Sigma-Aldrich	B9673
2 mL tubes	Eppendorf	0030120094
2x Mangomix	Bioline	BIO-25033	Colony PCR
50 mL tubes	Greiner Bio-One	210 261
Agarose	Biozym	840004
Beeswax	Mixed-Store.de	-
Brain heart infusion broth	Thermo Fisher Scientific	CM1135
CloneJET PCR Cloning Kit	Thermo Fisher Scientific	K1232	Cloning vector for 16S fragments
Corn grits	Ostermühle Naturkost GmbH	306	Organic cultivation
Difco LB Agar, Miller (Luria-Bertani)	Becton Dickinson	BD
Difoco LB Broth, Miller (Luria-Bertani)	Becton Dickinson	244610
DNA-free DNA Removal Kit	Thermo Fisher Scientific	244510	Dnase digestion
Dried yeast	Rapunzel	-	Organic cultivation
Dulbecco's Phosphate-Buffered Saline (DPBS)	Thermo Fisher Scientific	14040
Ethanol	VWR	20821.330
Glycerol	Sigma-Aldrich	W252506
Honey	Ostermühle Naturkost GmbH	487
Isopropanol	VWR	20842.330
Lightcycler 480 Instrument II	Roche Molecular Systems	5015278001
LightCycler 480 Multiwell Plate 96, white	Roche Molecular Systems	4729692001
Manual Microsyringe Pump with Digital Display	World Precision Instruments	DMP
Micro-Fine+ U-100 insulin syringe 0.3 x 8 mm	Becton Dickinson	324826	Oral administration
Mortar, unglazed	VWR	410-9327
Nanodrop	Thermo Fisher Scientific	13-400-518
Nuclease-free water	Thermo Fisher Scientific	10977035
Oxoid AnaeroGen sachets	Thermo Fisher Scientific	AN0025A	Quality and quantity of RNA
PCR stripes	Biozym	710970
Pestle, unglazed grinding surface	VWR	410-9324
Phusion proof-reading enzyme	Thermo Fisher Scientific	F553S
Primers	Biomers	-
PureYield Plasmid Miniprep System	Promega	A1222
QuantiFast SYBR Green PCR kit	Qiagen	204056	qPCR for bacterial copy number measurment
QuantiFast SYBR Green RT-PCR Kit	Qiagen	204156	qRT-PCR for gene expression measurements
QuantiTect Reverse Transcription Kit	Qiagen	205311	cDNA synthesis
Qubit Assay Tubes	Thermo Fisher Scientific	Q32856
Qubit dsHS DNA kit	Thermo Fisher Scientific	Q32851	Quantification of plasmid and cDNA samples
Qubit fluorometer	Thermo Fisher Scientific	Q33226	Quantification of plasmid and cDNA samples
RNase-ExitusPlus	AppliChem	A7153
Rnasin Ribonuclease Inhibitor	Promega	N2511
Skimmed milk powder	Sucofin	-
SYBR safe DNA Gel Stain	Thermo Fisher Scientific	S33102
TRI reagent	Sigma-Aldrich	T9424
Weighing boat	VWR	10803-148
Wheat meal	Ostermühle Naturkost GmbH	6462	Organic cultivation