TAXONOMY, PHYLOGENY AND EVOLUTION - Cyanobacteria - page 65

Hoffmann L., Kaštovský J., and Komárek, J. (2005) Proposal of cyanobacterial system, 2004. In: Komárek J., and Anagnostidis
K. (2005): Cyanoprokaryota, 2. Teil/2nd Part: Oscillatoriales. In: Büdel B., Krienitz L., Gärtner G., and Schagerl, M. (Eds.)
Süsswasserfl ora von Mitteleuropa 19/2, Elsevier/Spektrum, Heidelberg, Germany. pp. 657-660.
Holben, W. E., Feris, K. P., Kettunen, A., and Apajalahti, J. H. A. (2004) GC Fractionation enhances microbial community
diversity assessment and detection of minority populations of bacteria by denaturing gradient gel electrophoresis. Appl
Environ Microbiol 70: 2263-2270.
Holt, J. G. (1979). International Committee on Systematic Bacteriology. Judicial Commission. Minutes of the Meeting, 3
September 1978, Munich, West Germany. Int J Syst Bacteriol 29 , 267-269.
Holt, J. G., Krieg, N. R., Sneath, P. H. A., Staley, J. T., and Williams, S. T. (1994) Group 11. Oxygenic phototrophic bacteria.
In: Holt, J. G. (Ed.) Bergey ' s Manual of Determinative Bacteriology , 9th edn., Williams & Wilkins, Baltimore, MD, USA.
pp. 377-425.
Honda, D., Yokota, A., and Sugiyama, J. (1999) Detection of seven major evolutionary lineages in cyanobacteria based on the
16S rRNA gene sequence analysis with new sequences of fi ve marine Synechococcus strains. J Mol Evol 48: 723-739.
Horz, H., Yimga, M. T., and Liesack, W. (2001) Detection of methanotroph diversity on roots of submerged rice plants by
molecular retrieval of pmoA , mmoX , mxaF , and 16S rRNA and ribosomal DNA, including pmoA -based terminal restriction
fragment length polymorphism profi ling. Appl Environ Microbiol 67: 4177-4185.
Hull, D. L. (1997) Species: the units of biodiversity. The ideal species concept—and why we can't get it . Chapman and Hall, London,
UK.
Hulton, C. S. J., Higgins, C. F., and Sharp, M. P. (1991). ERIC sequences: a novel family of repetitive elements in the genomes
of Escherichia coli , Salmonella typhimurium and other enterobacteria. Mol Microbiol 5: 825-834.
Huys, G., Coopman, R., Janssen, P., and Kersters, K. (1996) High resolution genotypic analysis of the genus Aeromonas by
AFLP fi ngerprinting. Intl J Syst Bacteriol 46: 572-580.
Ishida, T., Yokota, A., and Sugiyama, J. (1997) Phylogenetic relationships of fi lamentous cyanobacterial taxa inferred from
16S rRNA sequence divergence. J Gen Appl Microbiolol 43: 237-241.
Iteman, I., Rippka, R., Tandeau de Marsac, N., and Herdman, M. (2000) Comparison of conserved structural and regulatory
domains within divergent 16S rRNA-23S rRNA spacer sequences of cyanobacteria. Microbiology 146: 1275-1286.
Iteman, I., Rippka, R., Tandeau de Marsac, N., and Herdman, M. (2002) rDNA analyses of planktonic heterocystous
cyanobacteria including members of the genera Anabaenopsis and Cyanospira . Microbiology 148: 481-496.
Iyer, L.M., Koonin, E.V. and Aravind, L. (2004) Evolution of bacterial RNA polymerase: implications for large-scale bacterial
phylogeny, domain accretion, and horizontal gene transfer. Gene 335: 73-88.
Jain, R., Rivera, M.C., and Lake, J.A. (1999) Horizontal gene transfer among genomes: The complexity hypothesis. Proc Natl
Acad Sci USA 96: 3801-3806.
Janse, I., Meima, M., Kardinaal, W. E. A., and Zwart, G. (2003) High-resolution differentiation of cyanobacteria by using
rRNA-internal transcribed spacer denaturing gradient gel electrophoresis. Appl Environ Microbiol 69: 6634-6643.
Janson, S., Bergman, B., Carpenter, E. J., Giovannoni, S., and Vergin, K. 1999 Genetic analysis of natural populations of the
marine diazotrophic cyanobacterium Trichodesmium . FEMS Microbiol Ecol 30: 57-65.
Janson, S., Siddiqui, P. J. A., Walsby, A. E., Romans, K. M., Carpenter, E. J., and Bergman, B. (1995) Cytomorphological
characterization of the planktonic diazotrophic cyanobacteria Trichodesmium spp. from the Indian Ocean and Caribbean
and Sargasso Seas. J Phycol 31: 463-477.
Janssen, P., Coopman, R., Huys, G., Swings, J., Bleeker, H., Vos, P., Zabeau, M., and Kersters, K. (1996) Evaluation of the DNA
fi ngerprinting methods: AFLP as a new tool in bacterial taxonomy. Microbiology 142: 1881-1893.
Jaspers, E., and Overmann , K. (2004) Ecological signifi cance of microdiversity: identical 16S rRNA gene sequences can be
found in bacteria with highly divergent genomes and ecophysiologies. Appl Environ Microbiol 70: 4831-4839.
Jungblut, A-D., Hawes, I., Mountfort, D., Hitzfeld, B., Dietrich, D. R., Burns, B. P., and Neilan, B. A. (2005) Diversity with
in cyanobacterial mat communities in variable salinity meltwater ponds of McMurdo Ice Shelf, Antarctica. Environ
Microbiol 7: 519-529. doi: 10.1111/j.1462-2920.2005.00717.x
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 PCC 6803. II. Sequence determination of the entire genome and assignment of
potential protein-coding regions. DNA Res 3: 109-136.
Kardinaal, W. E. A., Janse, I., Kamst-van Agterveld, M., Meima, M., Snoek, J., Mur, L. R., Huisman, J., Zwart, G., and Visser,
P. M. (2007) Microcystis genotype succession in relation to microcystin concentrations in freshwater lakes. Aquat Microb
Ecol 48: 1-12.
Karlin, S., and Burge, C. (1995) Dinucleotide relative abundance extremes: a genomic signature. Trends Genet 11: 283-290.
Keswani, J., and Whitman, W. B. (2001) Relationship of 16S rRNA sequence similarity to DNA hybridization in prokaryotes.
Int J Syst Evol Microbiol 51: 667-678.