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Functional Genomics in Synechocystis sp. PCC6803: Resources for Comprehensive Studies of Gene Function and Regulation

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Regulation of Photosynthesis

Part of the book series: Advances in Photosynthesis and Respiration ((AIPH,volume 11))

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Summary

The nucleotide sequence of the entire genome of the cyanobacterium Synechocystis sp. PCC6803 has been determined. The primary structures and the positions of all the genes in this genome can be obtained from the genome information database called CyanoBase. The information in the CyanoBase allows a variety of experimental methods to be utilized for the elucidation of the function of each gene and for the unraveling of the regulatory network controlling gene expression. Systematic gene disruption projects employing the natural transformation ability of this organism are in progress and the results are compiled in the database CyanoMutants, which is closely linked to CyanoBase. Further, CyanoBase permits the use of proteome and transcriptome technologies for the study of Synechocystis gene expression and regulation at the genome-wide level. These technologies can significantly accelerate screening of the transcription and translation of genes under various conditions. The combination of all these resources should allow us to rapidly and comprehensively identify the functions of all the Synechocystis genes, thus permitting the level of understanding of the functional and regulatory mechanisms of the Synechocystis genome that was not previously possible.

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References

  • Borodovsky M and McIninch JD (1993) GENEMARK: Parallel gene recognition for both DNA strands. Comput Chem 17: 123–133

    Article  CAS  Google Scholar 

  • Brown PO and Botstein D (1999) Exploring the new world of the genome with DNA microarrays. Nat Genet 21: 33–37

    Article  CAS  PubMed  Google Scholar 

  • Dujon B (1998) European Functional Analysis Network (EUROFAN) and the functional analysis of the Saccharomyces cerevisiae genome. Electrophoresis 19: 617–624

    Article  CAS  PubMed  Google Scholar 

  • Fernandez-Gonzalez B, Sandmann G and Vioque A (1997) A new type of asymmetrically acting beta-carotene ketolase is required for the synthesis of echinenone in the cyanobacterium Synechocystis sp. PCC 6803. J Biol Chem 272: 9728–9733

    CAS  PubMed  Google Scholar 

  • Fleischmann RD, Adams MD, White O, Clayton RA, Kirkness EF, Kerlavage AR, Bult CJ, Tomb JF, Dougherty BA, Merrick JM, McKenney K, Sutton G, FitzHugh W, Fields C, Gocayne JD, Scott J, Shirley R, Liu L, Glodek A, Kelly JM, Weidman JF, Phillips CA, Spriggs T, Hedblom E, Cotton MD, Utterback TR, Hanna MC, Nguyen DT, Saudek DM, Brandon RC, Fine LD, Fuhrmann JL, Geoghagen NSM, Gnehm CL, McDonald LA, Small KV, Frazer CM, Smith HO and Venter JC (1995) Whole-genome random sequencing and assembly of Haemophilus influenzae Rd. Science 269: 496–512

    CAS  PubMed  Google Scholar 

  • Hughes J, Lamparter T, Mittmann F, Hartmann E, Gärtner W, Wilde A and Börner T (1997) A prokaryotic phytochrome Nature 386: 663

    Article  CAS  PubMed  Google Scholar 

  • Kaneko T, Sato S, Kotani H, Tanaka A, Asamizu E, Nakamura Y, Miyajima N, Hirosawa M, Sugiura M, Sasamoto S, Kimura T, Hosouchi T, Matsuno A, Muraki A, Nakazaki N, Naruo K, Okumura S, Shimpo S, Takeuchi C, Wada T, Watanabe A, Yamada M, Yasuda M and Tabata S (1996) Sequence analysis of the genome of the unicellular cyanobacterium Synechocystis sp. strain PCC6803. II. Sequence determination of the entire genome and assignment of potential protein-coding regions. DNA Res 3: 109–136

    CAS  PubMed  Google Scholar 

  • Kehoe DM, Villand P and Sommerville S (1999) DNA microarrays for studies of higher plants and other photosynthetic organisms. Trends in Plant Science 4: 38–41

    Article  PubMed  Google Scholar 

  • Masamoto K, Misawa N, Kaneko T, Kikuno R and Toh H (1998) Beta-carotene hydroxylase gene from the cyanobacterium Synechocystis sp. PCC6803. Plant Cell Physiol 39: 560–564

    CAS  PubMed  Google Scholar 

  • Mohamed A and Jansson C (1991) Photosynthetic electron transport controls degradation but not production of psbA transcripts in the cyanobacterium Synechocystis 6803. Plant Mol Biol 16: 891–897

    Article  CAS  PubMed  Google Scholar 

  • Nakamura Y, Kaneko T, Hirosawa M, Miyajima N and Tabata S (1998) CyanoBase, a www database containing the complete nucleotide sequence of the genome of Synechocystis sp. strain PCC6803. Nucleic Acids Res 26: 63–67

    CAS  PubMed  Google Scholar 

  • Nakamura Y, Kaneko T, Miyajima N and Tabata S (1999) Extension of CyanoBase. CyanoMutants: Repository of mutant information on Synechocystis sp. strain PCC6803. Nucleic Acids Res 27: 66–68

    CAS  PubMed  Google Scholar 

  • Okada K, Minehira M, Zhu X, Suzuki K, Nakagawa T, Matsuda H and Kawamukai M (1997) The ispB gene encoding octaprenyl diphosphate synthase is essential for growth of Escherichia coli. J Bacteriol 179: 3058–3060

    CAS  PubMed  Google Scholar 

  • Fallen MJ (1999) Microbial genomes. Mol Microbiol 32: 907–912

    Google Scholar 

  • Sazuka T and Ohara O (1997) Towards a proteome project of cyanobacterium Synechocystis sp. strain PCC6803: Linking 130 protein spots with their respective genes. Electrophoresis 18: 1252–1528

    Article  CAS  PubMed  Google Scholar 

  • Sazuka T, Yamaguchi M and Ohara O (1999) Cyano 2D base updated: Linkage of 234 protein spots to corresponding genes through N-terminal microsequencing Electrophoresis 20: 2160–2171

    Article  CAS  PubMed  Google Scholar 

  • Williams JGK (1988) Construction of specific mutations in Photosystem II photosynthetic reaction center by genetic engineering methods in Synechocystis 6803. Methods Enzymol 167: 766–778

    CAS  Google Scholar 

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© 2001 Kluwer Academic Publishers

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Kaneko, T., Tabata, S. (2001). Functional Genomics in Synechocystis sp. PCC6803: Resources for Comprehensive Studies of Gene Function and Regulation. In: Aro, EM., Andersson, B. (eds) Regulation of Photosynthesis. Advances in Photosynthesis and Respiration, vol 11. Springer, Dordrecht. https://doi.org/10.1007/0-306-48148-0_31

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  • DOI: https://doi.org/10.1007/0-306-48148-0_31

  • Publisher Name: Springer, Dordrecht

  • Print ISBN: 978-0-7923-6332-3

  • Online ISBN: 978-0-306-48148-2

  • eBook Packages: Springer Book Archive

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