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Nakamura, T., Naito, K., Yokota, N., Sugita, C., and Sugita, M. (2007) A cyanobacterial non-coding RNA, Yfr1, is required
for growth under multiple stress conditions.
Plant Cell Physiol
48:
1309-1318.
Nakamura, Y., Kaneko, T., and Tabata, S. (2000) CyanoBase, the genome database for
Synechocystis
sp. PCC 6803: Status for
the year 2000.
Nucleic Acids Res
28:
72.
Nakamura, Y., Kaneko, T., Sato, S., Ikeuchi, M., Katoh, H., Sasamoto, S., Watanabe, A., Iriguchi, M., Kawashima, K., Kimura,
T., Yishida, Y., Kiyokawa, M., Matsumoto, M., Matsuno, A., Nakazaki, N., Shimpo, S., Sugimoto, M., Takeuchi, C.,
Yamada, M., and Tabata, S. (2002) Complete genome structure of the thermophilic cyanobacterium
Thermosynechococcus
elongatus
BP-1.
DNA Res
9:
123-130.
Nakamura, Y., Kaneko, T., Sato, S., Minuro, M., Miyashita, H., Tsuchiya, T., Sasamoto, S., Watanabe, A., Kawashima, K.,
Kishida, Y., Kiyokawa, C., Kohara, M., Matsumoto, M., Matsuno, A., Nakazaki, N., Shimpo, S., Takeuchi, C., Yamada,
M., and Tabata, S. (2003) Complete genome structure of
Gloeobacter violaceus
PCC 7421, a cyanobacterium that lacks
thylakoids.
DNA Res
10:
137-145.
Neuwald, A. F., Liu, J. S., Lipman, D. J., and Lawrence, C. E. (1997) Extracting protein alignment models from the sequence
database.
Nucleic Acids
Res
25:
1665-1677.
Ochoa de Alda, J. A. G., and Houmard, J. (2000) Genomic survey of cAMP and cGMP signaling components in the
cyanobacterium
Synechocystis
PCC 6803.
Microbiology
146:
3183-3194.
Ochoa de Alda, J. A. G., Ajlani, G., and Houmard, J. (2000).
The
Synechocystis
PCC 6803
cya
2, a prokaryotic gene that encodes
a guanylyl cyclase.
J Bacteriol
182:
3839-3842.
Ohkubo, S., Miyashita, H., Murakami, A., Takeyama, H., Tsuchiya, T., and Mimuro, M. (2006). Molecular detection of epiphytic
Acaryochloris
spp. on marine macroalgae.
Appl Environ Microbiol
72:
7912-7915.
Oliveira, P., and Lindblad, P. (2005) LexA, a transcription regulator binding in the promoter region of the bidirectional
hydrogenase in the cyanobacterium
Synechocystis
sp. PCC 6803.
FEMS Microbiol Lett
251:
59-66.
Olmstead, R. G., and Palmer, J. D. (1994) Chloroplast DNA systematics: A review of methods and data analysis.
Am J Bot
81:
1205-1224.
Overbeek, R., Fonstein, M., D'Souza, M., Pusch, G. D., and Maltsev, N. (1999) The use of gene clusters to infer functional
coupling.
Proc Natl Acad Sci USA
96:
2896-2901.
Palenik, B., Brahamsha, B., Larimer, F. W., Land, M., Hauser, L., Chain, P., Lamerdin, J., Regala, W., Allen, E. E., NcCarren, J.,
Paulsen, I., Dufresne, A., Pratensky, F., Webb, E. G., and Waterbury, J. (2003) The genome of a motile marine
Synechococcus
.
Nature
(London)
424:
1037-1042.
Palenik, B., Ren, Q., Dupont, C. L., Myers, G. S., Heidelberg, J. F., Badger, J. H., Madupu, R., Nelson, W. L., Brinkac, L. M.,
Dadson, R. L., Durkin, A. S., Daugherty, S. C., Sullivan, S. A., Khouri, H., Mohamoud, Y., Halpin, R., and Paulsen, I. T.
(2006) Genome sequence of
Synechococcus
CC9311: Insights into adaptation to a coastal environment.
Proc Natl Acad
Sci USA
103:
13555-13559.
Patterson-Fortin, L. M., and Owttrim, G. W. (2008) A
Synechocystis
LexA-orthologue binds direct repeats in target genes.
FEBS Lett
582:
2424-2430.
Ran, L., Larsson, J., Vigil-Stenman, T., Nylander, J. A. A., Ininbergs, K., Zheng, W-W., Lapidus, A., Lowry, S., Haselkorn,
R., and Berman, B. (2010) Genome erosion in a nitrogen-fi xing vertically transmitted endosymbiotic multicellular
cyanobacterium.
PLoS ONE
5:
e11486. doi:10.1371/journal.pone.0011486
Raubeson, L. A., and Jansen, R. K. (1992) Chloroplast DNA: Evidence on the ancient evolutionary split in vascular land
plants.
Science
255:
1697-1699.
Reitzer, L. (2003) Nitrogen assimilation and global regulation in
Escherichia coli
.
Annu Rev Microbiol
57:
155-176.
Riley, M. (1993) Functions of the gene products of
Escherichia coli
.
Microbiol Rev
57:
862-952.
Rocap, G., Larimer, F. W., Lamerdin, J., Malfatti, S., Chain, P., Ahlgren, N. A., Arellano, A., Coleman, M., Hauser, L., Hess, W.
R., Johnson, Z. I., Land, M., Lindell, D., Post, A. F., Regala, W., Shal, M., Shaw, S. L., Steglich, C., Sullivan, M. B., Ting, C.
S., Tolonen, A., Webb, E. A., Zinser, E. R., and Chisholm, S. W. (2003) Genome divergence in two
Prochlorococcus
ecotypes
refl ects oceanic niche differentiation.
Nature
(London)
424:
1042-1047.
Sabatti, C., Rohlin, L., Oh, M. K., and Liao, J. C. (2002) Co-expression pattern from DNA microarray experiments as a tool
for operon prediction.
Nucleic Acids Res
30:
2886-2893.
Salgado, H., Moreno-Hagelsieb, G., Smith, T. F., Collado-Vides, J. (2000) Operons in
Escherichia coli
: Genomic analyses and
predictions.
Proc Natl Acad Sci USA
97:
6652-6657.
Salzberg, S. L., Delcher, A. L., Kasif, S., and White, O. (1998) Microbial gene identifi cation using interpolated Markov models.
Nucleic Acids
Res
26:
544-548.
Sato, N. (2003) Gclust: Genome-wide clustering of protein sequences for identifi cation of photosynthesis-related genes
resulting from massive horizontal gene transfer.
Genome Informatics
14:
585-586.
Satoh, S., and Tanaka, A. (2006) Identifi cation of chlorophyllide
a
oxygenase in the
Prochlorococcus
genome by a comparative
genome approach.
Plant Cell Physiol
47:
1622-1629. doi:10.1093/pep/pcl026