Rhizobium etli CFN42 proteomes showed isoenzymes in free-living and symbiosis with a different transcriptional regulation inferred from a transcriptional regulatory network
Por:
Taboada-Castro, Hermenegildo, Gil, Jeovanis, Gomez-Caudillo, Leopoldo, Escorcia-Rodríguez J.M., Freyre-González J.A., Encarnacion-Guevara, Sergio
Publicada:
13 oct 2022
Resumen:
A comparative proteomic study at 6 h of growth in minimal medium (MM)
and bacteroids at 18 days of symbiosis of Rhizobium etli CFN42 with the
Phaseolus vulgaris leguminous plant was performed. A gene ontology
classification of proteins in MM and bacteroid, showed 31 and 10
pathways with higher or equal than 30 and 20% of proteins with respect
to genome content per pathway, respectively. These pathways were for
energy and environmental compound metabolism, contributing to understand
how Rhizobium is adapted to the different conditions. Metabolic maps
based on orthology of the protein profiles, showed 101 and 74 functional
homologous proteins in the MM and bacteroid profiles, respectively,
which were grouped in 34 different isoenzymes showing a great impact in
metabolism by covering 60 metabolic pathways in MM and symbiosis. Taking
advantage of co-expression of transcriptional regulators (TF's) in the
profiles, by selection of genes whose matrices were clustered with
matrices of TF's, Transcriptional Regulatory networks (TRN ` s) were
deduced by the first time for these metabolic stages. In these clustered
TF-MM and clustered TF-bacteroid networks, containing 654 and 246
proteins, including 93 and 46 TFs, respectively, showing valuable
information of the TF's and their regulated genes with high stringency.
Isoenzymes were specific for adaptation to the different conditions and
a different transcriptional regulation for MM and bacteroid was deduced.
The parameters of the TRNs of these expected biological networks and
biological networks of E. coli and B. subtilis segregate from the random
theoretical networks. These are useful data to design experiments on TF
gene-target relationships for bases to construct a TRN.
Filiaciones:
Taboada-Castro, Hermenegildo:
Proteomics Laboratory, Program of Functional Genomics of Prokaryotes, Center for Genomic Sciences, National Autonomous University of Mexico, Morelos, Cuernavaca, Mexico
Gil, Jeovanis:
Division of Oncology, Section for Clinical Chemistry, Department of Translational Medicine, Lund University, Lund, Sweden
Gomez-Caudillo, Leopoldo:
Proteomics Laboratory, Program of Functional Genomics of Prokaryotes, Center for Genomic Sciences, National Autonomous University of Mexico, Morelos, Cuernavaca, Mexico
Escorcia-Rodríguez J.M.:
Regulatory Systems Biology Research Group, Program of Systems Biology, Center for Genomic Sciences, National Autonomous University of Mexico, Mexico City, Mexico
Freyre-González J.A.:
Regulatory Systems Biology Research Group, Program of Systems Biology, Center for Genomic Sciences, National Autonomous University of Mexico, Mexico City, Mexico
Encarnacion-Guevara, Sergio:
Proteomics Laboratory, Program of Functional Genomics of Prokaryotes, Center for Genomic Sciences, National Autonomous University of Mexico, Morelos, Cuernavaca, Mexico
gold, Green Published, All Open Access, Gold, Green
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