DXA
RESEARCH
3.
Supplement. 185-209 (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 (Supplement)
Shusei SATO. 1 Hirokazu KOTANI. 1 Ayako TANAKA. 1 Erika ASAMIZU. 1
Yasukazu XAKAMURA. Nobuyuki MIYAJIMA. 1 Makoto HIROSAWA. 1 Masahiro SUGIURA. 2 Shigcmi SASAMOTO. 1
Takaharu KIMURA. 1 Tsutomu HOSOUCHI. 1 Ai MATSUNO, 1 Akiko MURAKI, 1 Naomi NAKAZAKI. 1 Kaoru NARUO. 1
Satomi OKUMURA. 1 Sayaka SHIMPO, 1 Chie TAKEUCHI, 1 Tsuyuko WADA. 1 Akiko WATANABE. 1
Manabu YAMADA. 1 Miho YASUDA. 1 and Satoshi T A B A T A . 1 *
Kazusa DNA Research Institute, 1532-3 Yana, Kisarazu.
Chiba 292. Japan1 and Center for Gene Research, Nagoya University.
Furho-cho, Nagoya 464-01, Japan2
Takakazu
KANEKO. 1
1
(Received 19 June. 1996)
The circular genome of Synechocystis sp. strain
PCC6803. which contains 3.573.470 bp. was opened at
the junction of Asc I-E and Asc I-F fragments.1 and
is represented by a linear map starting from this junction (map position 0/100). Under the linear map indicating the nucleotide positions with numerals in Kb.
the regions covered by cosmid clones (cs). A clones (Is)
and long PCR products (ps) used for sequence analysis
are indicated by bars. The thick portions of the bars
represent the regions where the sequences were actually
taken, although the thin bar portions have also been sequenced. All the information on the 1-Mb region previously reported 2 was incorporated into the map. The
nucleotide positions of the 1-Mb region. 1 to 1,003.450.
correspond to 2.267.260 to 3.270.709 in the present map.
Below the physical maps, the potential protein-coding
regions (ORFs). assigned on the basis of ORF analysis,
similarity search to DNA and protein databases and GeneMark analysis are indicated by boxes with arrowheads,
indicating the reading direction. The detailed assignment procedures were described in the main article in
this issue (ppOO-ppOO). The ORFs of which the function
could be evaluated by similarity search were classified
into 14 functional categories.3 and indicated by different color codes. The two ribosomal RNA operons are
shown by closed boxes, and postulated IS-like elements
by dotted boxes. The sequence data analysed have been
registered in the DDBJ by dividing into 27 entries. The
accession numbers are as follows: D90899 (nucleotide positions 1 133.859). D90900 (133.860-271,599). D90901
(271.600 402.289). D90902 (402,290-524.345). D90903
(524.346-630.554). D90904 (630.555-781.448). D90905
(781.449 920.915). D90906 (920.916 1.056.466). D90907
*
To whom correspondence should be addressed. Tel. +81-43852-3933. Fax. +81-438-52-3934. E-mail: [email protected]
(1.056.467 1.188.885). D90908 (1.188.886 1. 311.234),
D90909 (1.311,235-1.430,418). D90910 (1 .430,419
1.576.592). D90911 (1.576.593 1.719.643), D90912
(1,719.644 1,848,241). D90913 (1.848.242-1, 991.549),
D90914 (1,991.550-2,137,258). D90915 (2 ,137.259
2.267.259), D63999 (2,267,260-2.392.728), D64000
(2.392.729-2.538.999). D64001 (2.539.000-2, 644.794).
D64002 (2.644.795-2.755.702), D64003 (2 .755.703
2.868.766). D64004 (2.868.767 3,002.965). D64005
(3.002.966-3.138.603). D64006 (3.138.604-3. 270.709).
D90916 (3,270.710-3.418.851). and D90917 (3 .418.852
3.573.470).
References
Kotani. H.. Kaneko. T.. Matsubayashi. T.. Sato. S..
Sugiura. M., and Tabata. S. 1994. A physical map of
the genome of a unicellular Cyanobacterium Synechocystis sp. strain PCC6803, DNA Res., 1, 303-307.
Kaneko, T.. Tanaka, A.. Sato, S. et al. 1995. Sequence
analysis of the genome of the unicellular cyanobacterium
Synechocystis sp. strain PCC6803 I. Sequence features in
the 1 Mb region from map positions 64% to 92% of the
genome, DNA Res.. 2. 153-166.
Riley. M. 1993. Functions of the gene products of Escherichia coll. Microbiol. Rev.. 57. 862-952.
186
Supplement
Potential Protein-coding Regions on the Synechocystis Genome
[Vol. 3.
10
—I—
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No. 3]
T. Karieko et al.
Supplement
160
150
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187
188— Supplement
Potential Protein-coding Regions on the Synechocystis Genome
300
[Vol. 3.
310
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No. 3]
T. Kaneko et al.
Supplement — 189
450
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Potential Protein-coding Regions on the Synechocystis Genome
190— Supplement
[Vol. 3.
610
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No. 3]
Supplement
T. Kaneko et al.
750
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192
Supplement
Potential Protein-coding Regions on the Synechocystis Genome
900
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910
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Xo. 31
Supplement - - 193
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Potential Protein-coding Regions on the Synechocystis Genome
194— Supplement
1210
1200
PS0043
Slr1856
[Vol. 3.
csO838
slr1861
sll-1857 Slr1859 slr1860
Slr1862
Slr1863
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Xo. 3]
T. Kaneko et al.
Supplement
1350
1360
CS0067
slrt>861
sltO862 SIKJ863
slrO864
slrO868
slrO867
slrOB65
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195
196
Potential Protein-coding Regions on the Synechocystis Genome
Supplement
1500
[Vol. 3.
1510
—I
CS1085
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No. 3]
Supplement
T. Kaneko et al.
1650
1660
—I—
CS0685
Slr2130
slr2131
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- 197
198
Supplement
Potential Protein-coding Regions on the Synechocystis Genome
1800
1810
lsOO14
PS0047
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[Vol. 3.
D
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sill 869
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1830
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No. 3]
T. Kaneko et al.
Supplement -
1960
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1950
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slri 174
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1980
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slr1635 s!r1637slr1639
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199
200— Supplement
Potential Protein-coding Regions on the Synechocystis Genome
[Vol. 3.
2110
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No. 3]
Supplement
T. Kaneko et al.
2250
1
2260
ls0002
PS0036
ssr3304
Slr1942
slr1943
slr1944
s!rl945
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201
Potential Protein-coding Regions on the Synechocystis Genome
202 - Supplement
2400
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2410
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No. 3]
T. Kaneko et al.
Supplement
2550
1
2560
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203
Potential Protein-coding Regions on the Synechocystis Genome
204— Supplement
2700
1—
[Vol. 3.
2710
—I
CS0499
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slrO42O
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Xo. 3]
T. Kaneko et al.
Supplement — 205
2850
—I
2860
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206
Potential Protein-coding Regions on the Synechocystis Genome
Supplement
3000
1—
[Vol. 3.
3010
CS0354
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T. Kaneko et al.
Xo. 3]
Supplement
3150
3160
CS0415
Slr0023
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slr0033
slr0032
slr0039
slr0038
SJT0036
D
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o
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••- 2 0 7
208— Supplement
Potential Protein-coding Regions on the Synechocystis Genome
3300
3310
—I
IS0005
CS0578
ls0004
Slr1452 Slr1453
s i n 457
SS'2439 s i n 454 s i n 455 sin456
SIM459
a
oa
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D
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[Vol. 3.
sin 462
sir 1463
sir 1464
a
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3320
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3330
3340
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3430
h
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3420
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\o. 3]
T. Kaneko et al.
Supplement
3450
3460
PS0020
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ac
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3470
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Amino acid biosynthesis
| j " ''. ''..] Regulatory functions
Biosynthesis of cofactors, prosthetic groups, and curriers
^ ^ ^ | DNA repiicatlon, restriction, modification,
recombination and repair
Transcription
Cellular processes
0»>D
slrt)605
a
SII0564
SII0565
Cell envelope
s!rO6O7
slrO6O9
slr0606
slrOeOS
slrO6IO
slrO6O4
ll Translation
Central intermediary metabolism
Energy metabolism
Fatly acid, pnospholipid and sterol metabolism
| Photosynthesis and respiration
| Purines, pyrimidines, nucleosides, and nurleotides
[. . ..
I Transport and binding proteins
^ ^ ^ ^ | Other categories
^ ^ ^ S Similar to hypothetical genes
|
I Function not known
209