Abstract
Cyanobacteria are the only prokaryotes that can utilize energy sources from sunlight, electrons from water, carbon from the air, and have the capability of fixing nitrogen. The characterization of various cyanobacteria reveals the performance as well as growth differences when compared among different genus of cyanobacteria, which emphasizes the value of characterization in the cellular grounds. In this paper, we have performed a comparative study on the morphology, growth pattern, physiochemical properties as well as structural features of Spirulina sp. NCIM 5143 and Nostoc ellipsosporum NCIM 2786. The comparison is performed through microscopic images, FESEM and statistical study of cell growth by ANOVA. In silico approach was also carried out on the two enzymes present in both the cyanobacteria, Cyanophycin synthestase (EC: 6.3.2.29) and Nitrate reductase (EC: 1.7.1.1) by studying the physicochemical properties, sequential features and structural modeling. A descriptive profile study was completed on these microorganisms and their proteins that may help to interpret the molecular mechanism of the enzymatic reaction of 1, 3-Propanediol (PDO) production in the future.
Similar content being viewed by others
References
Anastas PT, Warner JC (1998) Principles of green chemistry. Green Chem Front pp 29–56
Angermayr SA, Rovira AG, Hellingwerf KJ (2015) Metabolic engineering of cyanobacteria for the synthesis of commodity products. Trends Biotechnol 33:352–361. https://doi.org/10.1016/j.tibtech.2015.03.009
Biasini M, Bienert S, Waterhouse A, Arnold K, Studer G, Schmidt T, Schwede T (2014) SWISS-MODEL: modelling protein tertiary and quaternary structure using evolutionary information. Nucleic Acids Res 42(1):252–258. https://doi.org/10.1093/nar/gku340
Camacho C, Coulouris G, Avagyan V, Ma N, Papadopoulos J, Bealer K, Madden TL (2009) BLAST+: architecture and applications. BMC Bioinforma 10(1):421. https://doi.org/10.1186/1471-2105-10-421
Castenholz RW, Wilmotte A, Herdman M, Rippka R, Waterbury JB, Iteman I, Hoffmann L (2001) Phylum BX cyanobacteria. In: Bergey’s manual of systematic bacteriology. Springer, New York, pp 473–599
Combet C, Blanchet C, Geourjon C, Deleage G (2000) NPS@: network protein sequence analysis. Trends Biochem Sci 25(3):147–150. https://doi.org/10.1016/S0968-0004(99)01540-6
Gasteiger E, Hoogland C, Bairoch A (2005) Protein identification and analysis tools on the ExPASy server. Humana Press, New York, pp 571–607
Geourjon C, Deleage G (1995) SOPMA: significant improvements in protein secondary structure prediction by consensus prediction from multiple alignments. Bioinformatics 11(6):681–684. https://doi.org/10.1093/bioinformatics/11.6.681
Gill SC, Von Hippel PH (1989) Calculation of protein extinction coefficients from amino acid sequence data. Anal Biochem 182(2):319–326. https://doi.org/10.1016/0003-2697(89)90602-7
Guruprasad K, Reddy BB, Pandit MW (1990) Correlation between stability of a protein and its dipeptide composition: a novel approach for predicting in vivo stability of a protein from its primary sequence. Protein Eng Des Sel 4(2):155–161. https://doi.org/10.1093/protein/4.2.155
Hai T, Oppermann-Sanio FB, Steinbüchel A (2002) Molecular characterization of a thermostable cyanophycin synthetase from the thermophilic cyanobacterium Synechococcus sp. strain MA19 and in vitro synthesis of cyanophycin and related polyamides. Appl Environ Microbiol 68(1):93–101. https://doi.org/10.1128/AEM.68.1.93-101.2002
Hirokawa Y, Maki Y, Tatsuke T, Hanai T (2016) Cyanobacterial production of 1, 3-propanediol directly from carbon dioxide using a synthetic metabolic pathway. Metab Eng 34:97–103. https://doi.org/10.1016/j.ymben.2015.12.008
Hirokawa Y, Matsuo S, Hamada H, Matsuda F, Hanai T (2017) Metabolic engineering of Synechococcus elongatus PCC 7942 for improvement of 1, 3-propanediol and glycerol production based on in silico simulation of metabolic flux distribution. Microb Cell Factories 16:212. https://doi.org/10.1186/s12934-017-0824-4
Ikai A (1980) Thermostability and aliphatic index of globular proteins. J Biochem 88(6):1895–1898. https://doi.org/10.1093/oxfordjournals.jbchem.a133168
Krehenbrink M, Oppermann-Sanio FB, Steinbüchel A (2002) Evaluation of non-cyanobacterial genome sequences for occurrence of genes encoding proteins homologous to cyanophycin synthetase and cloning of an active cyanophycin synthetase from Acinetobacter sp. strain DSM 587. Arch Microbiol 177(5):371–380. https://doi.org/10.1007/s00203-001-0396-9
Kyte J, Doolittle RF (1982) A simple method for displaying the hydropathic character of a protein. J Mol Biol 157(1):105–132. https://doi.org/10.1016/0022-2836(82)90515-0
Marbach D, Schaffter T, Mattiussi C, Floreano D (2009) Generating realistic in silico gene networks for performance assessment of reverse engineering methods. J Comput Biol 16(2):229–239. https://doi.org/10.1089/cmb.2008.09TT
Oliver JW, Atsumi S (2014) Metabolic design for cyanobacterial chemical synthesis. Photosynth Res 120(3):249–261. https://doi.org/10.1007/s11120-014-9997-4
Oliver NJ, Rabinovitch-Deere CA, Carroll AL, Nozzi NE, Case AE, Atsumi S (2016) Cyanobacterial metabolic engineering for biofuel and chemical production. Curr Opin Chem Biol 35:43–50. https://doi.org/10.1016/j.cbpa.2016.08.023
Olson JM (2006) Photosynthesis in the Archean era. Photosynth Res 88:109–117. https://doi.org/10.1007/s11120-006-9040-5
Pate R, Klise G, Wu B (2011) Resource demand implications for US algae biofuels production scale-up. Appl Energy 88:3377–3388. https://doi.org/10.1016/j.apenergy.2011.04.023
Remmert M, Biegert A, Hauser A, Söding J (2012) HHblits: lightning-fast iterative protein sequence searching by HMM-HMM alignment. Nat Methods 9(2):173. https://doi.org/10.1038/nmeth.1818
Sakamoto T, Inoue-Sakamoto K, Bryant DA (1999) A novel nitrate/nitrite Permease in the marine Cyanobacterium Synechococcus sp. strain PCC 7002. J Bacteriol Res 181(23):7363–7372. https://doi.org/10.1128/JB.181.23.7363-7372.1999
Saxena RK, Anand P, Saran S, Isar J (2009) Microbial production of 1, 3-propanediol: recent developments and emerging opportunities. Biotechnol Adv 27:895–913. https://doi.org/10.1016/j.biotechadv.2009.07.003
Schirrmeister BE, de Vos JM, Antonelli A, Bagheri HC (2013) Evolution of multicellularity coincided with increased diversification of cyanobacteria and the great oxidation event. PNAS 110(5):1791–1796. https://doi.org/10.1073/pnas.1209927110
Sharma NK, Rai AK, Stal LJ (2013) Cyanobacteria: an economic perspective. John Wiley & Sons. https://doi.org/10.1002/9781118402238
Stanier RY, Cohen-Bazire G (1977) Phototrophic prokaryotes: the cyanobacteria. Annu Rev Microbiol 31:225–274
Wang Y, Tao F, Ni J, Li C, Xu P (2015) Production of C3 platform chemicals from CO2 by genetically engineered cyanobacteria. Green Chem 17(5):3100–3110. https://doi.org/10.1039/C5GC00129C
Waterbury JB (2006) The cyanobacteria—isolation, purification and identification. The prokaryotes: Bacteria, Firmicutes, cyanobacteria, 3rd edn. Springer pp 1053-1073
Whitton BA, Potts M (2007) The ecology of cyanobacteria: their diversity in time and space. Springer, London
Acknowledgments
The authors are thankful to Central Instrumentation Facility (CIF), Birla Institute of Technology Mesra, Ranchi, Jharkhand for providing all the facilities to carry out this work.
Author information
Authors and Affiliations
Contributions
All authors contributed to the study conception and design. Material preparation, data collection and analysis were performed by Shreya Anand, Koel Mukherjee and Padmini Padmanabhan. The first draft of the manuscript was written by Shreya Anand and all authors commented on previous versions of the manuscript. All authors read and approved the final manuscript.
Corresponding author
Ethics declarations
Conflict of interest
The authors declare no potential conflicts of interest.
Human and animal rights
The research did not involve Human participations and /or Animals.
Additional information
Publisher’s note
Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.
Rights and permissions
About this article
Cite this article
Anand, S., Mukherjee, K. & Padmanabhan, P. Morphological analysis of Spirulina sp. NCIM 5143 and Nostoc ellipsosporum NCIM 2786 and comparative characterization of associated enzymes through in silico approach. Biologia 75, 1553–1561 (2020). https://doi.org/10.2478/s11756-020-00526-7
Received:
Accepted:
Published:
Issue Date:
DOI: https://doi.org/10.2478/s11756-020-00526-7