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Proteome and membrane fatty acid analyses on Oligotropha carboxidovorans OM5 grown under chemolithoautotrophic and heterotrophic conditions.

Paul D, Kumar R, Nanduri B, French T, Pendarvis K, Brown A, Lawrence ML, Burgess SC - PLoS ONE (2011)

Bottom Line: Here we characterize how the O. carboxidovorans proteome adapts to different lifestyles of chemolithoautotrophy and heterotrophy.Quantitative shotgun proteomic analysis of O. carboxidovorans grown in the presence of acetate and syngas showed production of proteins encoded on the megaplasmid for assimilating CO and H(2) as well as proteins encoded on the chromosome that might have contributed to fatty acid and acetate metabolism.We found that adaptation to chemolithoautotrophic growth involved adaptations in cell envelope, oxidative homeostasis, and metabolic pathways such as glyoxylate shunt and amino acid/cofactor biosynthetic enzymes.

View Article: PubMed Central - PubMed

Affiliation: College of Veterinary Medicine, Mississippi State University, Mississippi State, Mississippi, United States of America.

ABSTRACT
Oligotropha carboxidovorans OM5 T. (DSM 1227, ATCC 49405) is a chemolithoautotrophic bacterium able to utilize CO and H(2) to derive energy for fixation of CO(2). Thus, it is capable of growth using syngas, which is a mixture of varying amounts of CO and H(2) generated by organic waste gasification. O. carboxidovorans is capable also of heterotrophic growth in standard bacteriologic media. Here we characterize how the O. carboxidovorans proteome adapts to different lifestyles of chemolithoautotrophy and heterotrophy. Fatty acid methyl ester (FAME) analysis of O. carboxidovorans grown with acetate or with syngas showed that the bacterium changes membrane fatty acid composition. Quantitative shotgun proteomic analysis of O. carboxidovorans grown in the presence of acetate and syngas showed production of proteins encoded on the megaplasmid for assimilating CO and H(2) as well as proteins encoded on the chromosome that might have contributed to fatty acid and acetate metabolism. We found that adaptation to chemolithoautotrophic growth involved adaptations in cell envelope, oxidative homeostasis, and metabolic pathways such as glyoxylate shunt and amino acid/cofactor biosynthetic enzymes.

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Metabolic network showing the number of O. carboxidovorans proteins identified in each COG category in the current study.Proteins (referred by locus tag number OCAR_xxxx) listed on lines connecting COG categories are classified in both COG categories. Proteins that showed significantly increased expression in syngas and acetate medium compared to TSB medium are colored red, and proteins that had significantly decreased expression in syngas and actetate medium are green. The size of the circles represents the number of proteins in that COG. Protein names and COG groups along with their GI and other details can be accessed from NCBI (http://www.ncbi.nlm.nih.gov/genome?Db=genome&Cmd=Retrieve&dopt=ProteinTable&list_uids=23052). The COG categories indicated are the same as in Figure 2. *Indicates additional proteins classified in both COG categories not shown in the figure.
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pone-0017111-g003: Metabolic network showing the number of O. carboxidovorans proteins identified in each COG category in the current study.Proteins (referred by locus tag number OCAR_xxxx) listed on lines connecting COG categories are classified in both COG categories. Proteins that showed significantly increased expression in syngas and acetate medium compared to TSB medium are colored red, and proteins that had significantly decreased expression in syngas and actetate medium are green. The size of the circles represents the number of proteins in that COG. Protein names and COG groups along with their GI and other details can be accessed from NCBI (http://www.ncbi.nlm.nih.gov/genome?Db=genome&Cmd=Retrieve&dopt=ProteinTable&list_uids=23052). The COG categories indicated are the same as in Figure 2. *Indicates additional proteins classified in both COG categories not shown in the figure.

Mentions: In all, 1317 proteins were identified in TSB-grown bacteria, 1091 in acetate-grown, and 634 in syngas-grown. Although O. carboxidovorans metabolism is likely to be quite different when it grows in nutrient rich TSB medium versus growth in minimal medium with acetate as a sole carbon source, there were 668 proteins expressed during both of these heterotrophic growth conditions. By contrast, there were many fewer proteins shared between growth in syngas and the other two growth conditions. Of the total 1977 proteins identified, only 190 were present in all three growth conditions, demonstrating the greater degree of change in the proteome required when O. carboxidovorans adapts from heterotrophy to chemolithoautotrophy. Figure 2 shows the distribution of identified proteins in various COG categories. Figure 3 shows a metabolic network of various proteins that interconnect these COG categories and also highlights a few that were important to this study.


Proteome and membrane fatty acid analyses on Oligotropha carboxidovorans OM5 grown under chemolithoautotrophic and heterotrophic conditions.

Paul D, Kumar R, Nanduri B, French T, Pendarvis K, Brown A, Lawrence ML, Burgess SC - PLoS ONE (2011)

Metabolic network showing the number of O. carboxidovorans proteins identified in each COG category in the current study.Proteins (referred by locus tag number OCAR_xxxx) listed on lines connecting COG categories are classified in both COG categories. Proteins that showed significantly increased expression in syngas and acetate medium compared to TSB medium are colored red, and proteins that had significantly decreased expression in syngas and actetate medium are green. The size of the circles represents the number of proteins in that COG. Protein names and COG groups along with their GI and other details can be accessed from NCBI (http://www.ncbi.nlm.nih.gov/genome?Db=genome&Cmd=Retrieve&dopt=ProteinTable&list_uids=23052). The COG categories indicated are the same as in Figure 2. *Indicates additional proteins classified in both COG categories not shown in the figure.
© Copyright Policy
Related In: Results  -  Collection

Show All Figures
getmorefigures.php?uid=PMC3046131&req=5

pone-0017111-g003: Metabolic network showing the number of O. carboxidovorans proteins identified in each COG category in the current study.Proteins (referred by locus tag number OCAR_xxxx) listed on lines connecting COG categories are classified in both COG categories. Proteins that showed significantly increased expression in syngas and acetate medium compared to TSB medium are colored red, and proteins that had significantly decreased expression in syngas and actetate medium are green. The size of the circles represents the number of proteins in that COG. Protein names and COG groups along with their GI and other details can be accessed from NCBI (http://www.ncbi.nlm.nih.gov/genome?Db=genome&Cmd=Retrieve&dopt=ProteinTable&list_uids=23052). The COG categories indicated are the same as in Figure 2. *Indicates additional proteins classified in both COG categories not shown in the figure.
Mentions: In all, 1317 proteins were identified in TSB-grown bacteria, 1091 in acetate-grown, and 634 in syngas-grown. Although O. carboxidovorans metabolism is likely to be quite different when it grows in nutrient rich TSB medium versus growth in minimal medium with acetate as a sole carbon source, there were 668 proteins expressed during both of these heterotrophic growth conditions. By contrast, there were many fewer proteins shared between growth in syngas and the other two growth conditions. Of the total 1977 proteins identified, only 190 were present in all three growth conditions, demonstrating the greater degree of change in the proteome required when O. carboxidovorans adapts from heterotrophy to chemolithoautotrophy. Figure 2 shows the distribution of identified proteins in various COG categories. Figure 3 shows a metabolic network of various proteins that interconnect these COG categories and also highlights a few that were important to this study.

Bottom Line: Here we characterize how the O. carboxidovorans proteome adapts to different lifestyles of chemolithoautotrophy and heterotrophy.Quantitative shotgun proteomic analysis of O. carboxidovorans grown in the presence of acetate and syngas showed production of proteins encoded on the megaplasmid for assimilating CO and H(2) as well as proteins encoded on the chromosome that might have contributed to fatty acid and acetate metabolism.We found that adaptation to chemolithoautotrophic growth involved adaptations in cell envelope, oxidative homeostasis, and metabolic pathways such as glyoxylate shunt and amino acid/cofactor biosynthetic enzymes.

View Article: PubMed Central - PubMed

Affiliation: College of Veterinary Medicine, Mississippi State University, Mississippi State, Mississippi, United States of America.

ABSTRACT
Oligotropha carboxidovorans OM5 T. (DSM 1227, ATCC 49405) is a chemolithoautotrophic bacterium able to utilize CO and H(2) to derive energy for fixation of CO(2). Thus, it is capable of growth using syngas, which is a mixture of varying amounts of CO and H(2) generated by organic waste gasification. O. carboxidovorans is capable also of heterotrophic growth in standard bacteriologic media. Here we characterize how the O. carboxidovorans proteome adapts to different lifestyles of chemolithoautotrophy and heterotrophy. Fatty acid methyl ester (FAME) analysis of O. carboxidovorans grown with acetate or with syngas showed that the bacterium changes membrane fatty acid composition. Quantitative shotgun proteomic analysis of O. carboxidovorans grown in the presence of acetate and syngas showed production of proteins encoded on the megaplasmid for assimilating CO and H(2) as well as proteins encoded on the chromosome that might have contributed to fatty acid and acetate metabolism. We found that adaptation to chemolithoautotrophic growth involved adaptations in cell envelope, oxidative homeostasis, and metabolic pathways such as glyoxylate shunt and amino acid/cofactor biosynthetic enzymes.

Show MeSH
Related in: MedlinePlus