The complete genome of Bacillus subtilis: From sequence annotation to data management and analysis

FEBS Letters

Volumn 430, Issue 1-2, 1998, Pages 28-36

  Moszer, Ivan ^a  

^a INSTITUT PASTEUR   (France)

Author keywords

Bacillus subtilis; Complete genome; DNA sequence analysis; Genomic database; Sequence annotation

Indexed keywords

BACILLUS SUBTILIS; CONFERENCE PAPER; DATA BASE; DNA SEQUENCE; GENE EXPRESSION; GENE FUNCTION; GENE MAPPING; NONHUMAN; OPERON; PRIORITY JOURNAL;

AMINO ACID SEQUENCE; BACILLUS SUBTILIS; COMPUTER COMMUNICATION NETWORKS; DATABASES, FACTUAL; GENOME, BACTERIAL; HUMANS; MOLECULAR SEQUENCE DATA; SEQUENCE ANALYSIS, DNA;

EID: 0032560491     PISSN: 00145793     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0014-5793(98)00620-6     Document Type: Conference Paper

References (48)

1. Harwood C.R. Trends Biotechnol. 10:1992;247-256.
2. Sonenshein, A.L., Hoch, J.A. and Losick, R. (1993) Bacillus subtilis and other Gram-positive Bacteria: Biochemistry, Physiology, and Molecular Genetics, American Society for Microbiology, Washington, DC.
3. Stragier P., Losick R. Annu. Rev. Genet. 30:1996;297-341.
4. Moir A., Kemp E.H., Robinson C., Corfe B.M. J. Appl. Bacteriol. 76:1994;9S-16S.
5. Dubnau D. Microbiol. Rev. 55:1991;395-424.
6. Grossman A.D. Annu. Rev. Genet. 29:1995;477-508.
7. Biaudet V., Samson F., Anagnostopoulos C., Ehrlich S.D., Bessières P. Microbiology. 142:1996;2669-2729.
8. Itaya M., Tanaka T. J. Mol. Biol. 220:1991;631-648.
9. Goffeau A., Barrell B.G., Bussey H., Davis R.W., Dujon B., Feldmann H., Galibert F., Hoheisel J.D., Jacq C., Johnston M., Louis E.J., Mewes H.W., Murakami Y., Philippsen P., Tettelin H., Oliver S.G. Science. 274:1996;546-567.
10. Kunst F., Devine K.M. Res. Microbiol. 142:1991;905-912.
11. Devine K.M. Trends Biotechnol. 13:1995;210-216.
12. Harwood C.R., Wipat A. FEBS Lett. 389:1996;84-87.
13. Kunst F., Vassarotti A., Danchin A. Microbiology. 141:1995;249-255.
14. Moszer I., Kunst F., Danchin A. Microbiology. 142:1996;2987-2991.
15. Ogasawara N., Fujita Y., Kobayashi Y., Sadaie Y., Tanaka T., Takahashi H., Yamane K., Yoshikawa H. Microbiology. 141:1995;257-259.
16. Ogasawara N., Yoshikawa H. Microbiology. 142:1996;2993-2994.
17. Kunst F., Ogasawara N., Moszer I., Albertini A.M., Alloni G., Azevedo V., Bertero M.G., Bessières P., Bolotin A., Borchert S., Borriss R., Boursier L., Brans A., Braun M., Brignell S.C., Bron S., Brouillet S., Bruschi C.V., Caldwell B., Capuano V., Carter N.M., Choi S.-K., Codani J.-J., Connerton I.F., Cummings N.J., Daniel R.A., Denizot F., Devine K.M., Düsterhöft A., Ehrlich S.D., Emmerson P.T., Entian K.D., Errington J., Fabret C., Ferrari E., Foulger D., Fritz C., Fujita M., Fujita Y., Fuma S., Galizzi A., Galleron N., Ghim S.-Y., Glaser P., Goffeau A., Golightly E.J., Grandi G., Guiseppi G., Guy B.J., Haga K., Haiech J., Harwood C.R., Hénaut A., Hilbert H., Holsappel S., Hosono S., Hullo M.-F., Itaya M., Jones L., Joris B., Karamata D., Kasahara Y., Klaerr-Blanchard M., Klein C., Kobayashi Y., Koetter P., Koningstein G., Krogh S., Kumano M., Kurita K., Lapidus A., Lardinois S., Lauber J., Lazarevic V., Lee S.-M., Levine A., Liu H., Masuda S., Mauël C., Médigue C., Medina N., Mellado R.P., Mizuno M., Moestl D., Nakai S., Noback M., Noone D., O'Reilly M., Ogawa K., Ogiwara A., Oudega B., Park S.-H., Parro V., Pohl T.M., Portetelle D., Porwollik S., Prescott A.M., Presecan E., Pujic P., Purnelle B., Rapoport G., Rey M., Reynolds S., Rieger M., Rivolta C., Rocha E., Roche B., Rose M., Sadaie Y., Sato T., Scanlan E., Schleich S., Schroeter R., Scoffone F., Sekiguchi J., Sekowska A., Seror S.J., Serror P., Shin B.-S., Soldo B., Sorokin A., Tacconi E., Takagi T., Takahashi H., Takemaru K., Takeuchi M., Tamakoshi A., Tanaka T., Terpstra P., Tognoni A., Tosato V., Uchiyama S., Vandenbol M., Vannier F., Vassarotti A., Viari A., Wambutt R., Wedler E., Wedler H., Weitzenegger T., Winters P., Wipat A., Yamamoto H., Yamane K., Yasumoto K., Yata K., Yoshida K., Yoshikawa H.-F., Zumstein E., Yoshikawa H., Danchin A. Nature. 390:1997;249-256.
18. Médigue C., Moszer I., Viari A., Danchin A. Gene. 165:1995;GC37-GC51.
19. Médigue, C., Rechenmann, F., Danchin, A. and Viari, A. (1998) Bioinformatics, submitted.
20. Muralikrishna P., Suryanarayana T. Biochem. Int. 11:1985;691-699.
21. Borodovsky M., McIninch J.D. Comput. Chem. 17:1993;123-133.
22. Salzberg S.L., Delcher A.L., Kasif S., White O. Nucleic Acids Res. 26:1998;544-548.
23. Altschul S.F., Madden T.L., Schaffer A.A., Zhang J., Zhang Z., Miller W., Lipman D.J. Nucleic Acids Res. 25:1997;3389-3402.
24. Fichant G.A., Burks C. J. Mol. Biol. 220:1991;659-671.
25. Billoud B., Kontic M., Viari A. Nucleic Acids Res. 24:1996;1395-1403.
26. d'Aubenton Carafa Y., Brody E., Thermes C. J. Mol. Biol. 216:1990;835-858.
27. Bairoch A., Apweiler R. Nucleic Acids Res. 26:1998;38-42.
28. Comet, J.-P., Aude, J.-C., Glémet, E., Risler, J.-L., Hénaut, A. and Codani, J.-J. (1998) Comput. Chem., submitted.
29. Moszer I., Glaser P., Danchin A. Microbiology. 141:1995;261-268.
30. Biaudet V., Samson F., Bessières P. Comput. Appl. Biosci. 13:1997;431-438.
31. Perrière G., Gouy M., Gojobori T. Nucleic Acids Res. 26:1998;60-62.
32. Rocha E.P.C., Viari A., Danchin A. Nucleic Acids Res. 26:1998;2971-2980.
33. Lobry J.R. Mol. Biol. Evol. 13:1996;660-665.
34. Burge C., Campbell A.M., Karlin S. Proc. Natl. Acad. Sci. USA. 89:1992;1358-1362.
35. Karlin S., Cardon L.R. Annu. Rev. Microbiol. 48:1994;619-654.
36. Schbath S., Prum B., de Turkheim E.J. J. Comput. Biol. 2:1995;417-437.
37. Karlin S., Burge C., Campbell A.M. Nucleic Acids Res. 20:1992;1363-1370.
38. Gelfand M.S., Koonin E.V. Nucleic Acids Res. 25:1997;2430-2439.
39. Hénaut, A. and Danchin, A. (1996) in: Escherichia coli and Salmonella: Cellular and Molecular Biology, Vol. 2, (Neidhardt, F., Curtiss, R. III, Ingraham, J., Lin, E., Brooks Low, K., Magasanik, B., Reznikoff, W., Riley, M., Schaechter, M. and Umbarger, H., Eds.) pp. 2047-2066, American Society for Microbiology, Washington, DC.
40. Hénaut A., Lisacek F., Nitschké P., Moszer I., Danchin A. Electrophoresis. 19:1998;515-527.
41. Karlin, S. and Ost, F. (1985) in: Proceedings of the Berkeley Conference in Honor of Jerzy Neyman and Jack Kiefer, Vol. 1 (LeCam, L.M. and Olshen, R.A., Eds.), pp. 225-243, Wadsworth, Belmont.
42. Popham D.L., Setlow P. J. Bacteriol. 176:1994;7197-7205.
43. Presecan E., Moszer I., Boursier L., Cruz Ramos H., de la Fuente V., Hullo M.-F., Lelong C., Schleich S., Sekowska A., Song B.H., Villani G., Kunst F., Danchin A., Glaser P. Microbiology. 143:1997;3313-3328.
44. Kasahara Y., Nakai S., Ogasawara N. DNA Res. 4:1997;155-159.
45. Berg O.G., Kurland C.G. J. Mol. Biol. 270:1997;544-550.
46. Hill M.O. Appl. Statist. 23:1974;340-353.
47. Delorme M.-O., Hénaut A. Comput. Appl. Biosci. 4:1988;453-458.
48. Shields D.C., Sharp P.M. Nucleic Acids Res. 15:1987;8023-8040.