Characterizing metabolic stress-induced phenotypes of Synechocystis PCC6803 with Raman spectroscopy

PeerJ

article

Imen Tanniche¹  Eva Collakova²  Cynthia Denbow²  Ryan S. Senger¹ 

[1] Department of Biological Systems Engineering, Virginia Polytechnic Institute and State University;School of Plant & Environmental Sciences, Virginia Polytechnic Institute and State University;Department of Chemical Engineering, Virginia Polytechnic Institute and State University

关键词: Raman spectroscopy;    Cyanobacteria;    Synechocystis;    Microbial phenotyping;    Rametrix™;    Principal component analysis;    Discriminant analysis;   

DOI  :  10.7717/peerj.8535

学科分类：社会科学、人文和艺术（综合）

来源: Inra

【 摘 要 】

BackgroundDuring their long evolution, Synechocystis sp. PCC6803 developed a remarkable capacity to acclimate to diverse environmental conditions. In this study, Raman spectroscopy and Raman chemometrics tools (RametrixTM) were employed to investigate the phenotypic changes in response to external stressors and correlate specific Raman bands with their corresponding biomolecules determined with widely used analytical methods.MethodsSynechocystis cells were grown in the presence of (i) acetate (7.5–30 mM), (ii) NaCl (50–150 mM) and (iii) limiting levels of MgSO4 (0–62.5 mM) in BG-11 media. Principal component analysis (PCA) and discriminant analysis of PCs (DAPC) were performed with the RametrixTM LITE Toolbox for MATLABⓇ. Next, validation of these models was realized via RametrixTM PRO Toolbox where prediction of accuracy, sensitivity, and specificity for an unknown Raman spectrum was calculated. These analyses were coupled with statistical tests (ANOVA and pairwise comparison) to determine statistically significant changes in the phenotypic responses. Finally, amino acid and fatty acid levels were measured with well-established analytical methods. The obtained data were correlated with previously established Raman bands assigned to these biomolecules.ResultsDistinguishable clusters representative of phenotypic responses were observed based on the external stimuli (i.e., acetate, NaCl, MgSO4, and controls grown on BG-11 medium) or its concentration when analyzing separately. For all these cases, RametrixTM PRO was able to predict efficiently the corresponding concentration in the culture media for an unknown Raman spectra with accuracy, sensitivity and specificity exceeding random chance. Finally, correlations (R 0.7) were observed for all amino acids and fatty acids between well-established analytical methods and Raman bands.

【 授权许可】

CC BY