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. 2020 Jun 8;20:149. doi: 10.1186/s12866-020-01835-2

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© The Author(s) 2020

Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated in a credit line to the data.

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Fig. 6 — a Overview of the statistically significantly overexpressed reaction (green) involved in glutamate metabolism during CO₂ limitation. ACN, aconitase; AS, aspargine synthase (CDQ83_RS08075); ASAT, aspartate transaminase (CDQ83_RS04665); AT, ammonium transporter (CDQ83_RS02905); CS, citrate synthase; DAPAT, l,l-diaminopimelate aminotransferase (CDQ83_RS05135); DAPDC, diaminopimelate decarboxylase; DAPE, diaminopimelate epimerase (CDQ83_RS05140); GOGAT, ferredoxin-dependent glutamate synthase (CDQ83_RS06935–40); GS, glutamine synthethase (CDQ83_RS15275 & CDQ83_RS16740); ICD, isocitrate dehydrogenase; OOR, 2-oxoglutarate:ferredoxin oxidoreductase. b Results from differential expression analysis for the genes involved in the highlighted reactions in A. Positive fold change represents an increase of mRNA coverage during CO₂ limitation (i.e. 1% versus 20% CO₂). In the volcano plots, green data points depict genes with a statistically significant increase (i.e. q-value < 0.05) during CO₂ limitation and red data points those with a statistically significant decrease in coverage during CO₂ limitation. Yellow data points correspond to the genes presented in the accompanying bar graph. In the bar graphs, the wide bars display the log2(fold change) and the narrow (yellow) bars display the mean coverage in FPKM during 1% CO₂