M9 minimal medium (M9)

The M9 minimal medium (M9) in silico definition consists of all compounds described by Sigma-Aldrich. M9 is a minimal medium commonly used in microbiology and was developed in 1988[1]. Since then, M9 has been adapted with different kinds of additives and used to gather insight into carbon or nitrogen sources[2]. The medium definition used in this study is based on the provider reference[3] and was further supplemented with MgSO₄* 7H₂O, CaCl₂* 2H₂O and Glucose[4][5].

Table 6 M9 composition

BiGG ID	Compound name
ca2	Ca2+
cl	Cl-
cobalt2	Co2+
cu2	Cu2+
fe2	Fe2+
fe3	Fe3+
glc__D	D-Glucose
h2o	H2O
h	H+
k	K+
mg2	Mg
mn2	Mn2+
mobd	Molybdate
na1	Na+
nh4	Ammonium
ni2	Ni2+
o2	O2
pi	Phosphate
so4	Sulfate
zn2	Zn2+

[1]

G. Bécard and J. A. Fortin. Early events of vesicular–arbuscular mycorrhiza formation on Ri T-DNA transformed roots. New Phytologist, 108(2):211–218, 1988. doi:10.1111/j.1469-8137.1988.tb03698.x.

[2]

Jane Hawkey, Ben Vezina, Jonathan M. Monk, Louise M. Judd, Taylor Harshegyi, Sebastián López-Fernández, Carla Rodrigues, Sylvain Brisse, Kathryn E. Holt, and Kelly L. Wyres. A curated collection of Klebsiella metabolic models reveals variable substrate usage and gene essentiality. Genome Research, 32(5):1004–1014, 2022. URL: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9104693/ (visited on 2022-07-19), arXiv:35277433, doi:10.1101/gr.276289.121.

[3]

M9-minimalsalze, 5x powder, minimal microbial growth medium | sigma-aldrich. URL: http://www.sigmaaldrich.com/ (visited on 2023-03-24).

[4]

Famke Bäuerle. C_striatum_wetlab. https://github.com/draeger-lab/C_striatum_wetlab, 2023. URL: https://github.com/draeger-lab/C_striatum_wetlab/blob/main/supporting_experiments/metadata/PROTOCOL_M9_prep.md (visited on 2023-11-07).

[5]

Famke Bäuerle, Gwendolyn O. Döbel, Laura Camus, Simon Heilbronner, and Andreas Dräger. Genome-scale metabolic models consistently predict in vitro characteristics of Corynebacterium striatum. Front. Bioinform., oct 2023. doi:10.3389/fbinf.2023.1214074.