Abstract
At 600 kb, the genome of Mycoplasma genitalium is among the smallest known for cellular organisms capable of independent replication. As such, elucidation of the genetic makeup and chromosome architecture of this organism is of considerable interest. We have located 631 markers on the physical map of M. genitalium. The clones have been mapped by hybridizing 20 overlapping cosmid and lambda clones which encompass the entire M. genitalium chromosome to replica filters containing 856 genomic DNA clones. Three hundred fifty-six of these clones represent sequence tag sites, which were previously characterized by database searches. The remaining markers represent clones with an average size of 2.5 kb derived from Sau3A1 partial digestion of genomic DNA. The hybridization data can be divided into three classes: clones which hybridized to only one cosmid; clones which hybridized to two adjacent and overlapping cosmids; and clones which hybridized to several cosmids, which represent repetitive DNA. This rapid approach for placing clones on the physical map has allowed useful comparisons to be made with other bacterial chromosomes, especially that of the closely related organism M. pneumoniae, and has provided insight to the types of events which may have led to the reduction in size of this genome. Future use of these data is discussed.
Full Text
The Full Text of this article is available as a PDF (253.8 KB).
Selected References
These references are in PubMed. This may not be the complete list of references from this article.
- Bailey C. C., Bott K. F. An unusual gene containing a dnaJ N-terminal box flanks the putative origin of replication of Mycoplasma genitalium. J Bacteriol. 1994 Sep;176(18):5814–5819. doi: 10.1128/jb.176.18.5814-5819.1994. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Baseman J. B., Dallo S. F., Tully J. G., Rose D. L. Isolation and characterization of Mycoplasma genitalium strains from the human respiratory tract. J Clin Microbiol. 1988 Nov;26(11):2266–2269. doi: 10.1128/jcm.26.11.2266-2269.1988. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Clyde W. A., Jr, Hu P. C. Antigenic determinants of the attachment protein of Mycoplasma pneumoniae shared by other pathogenic Mycoplasma species. Infect Immun. 1986 Feb;51(2):690–692. doi: 10.1128/iai.51.2.690-692.1986. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Colman S. D., Hu P. C., Litaker W., Bott K. F. A physical map of the Mycoplasma genitalium genome. Mol Microbiol. 1990 Apr;4(4):683–687. doi: 10.1111/j.1365-2958.1990.tb00638.x. [DOI] [PubMed] [Google Scholar]
- Fujita M. Q., Yoshikawa H., Ogasawara N. Structure of the dnaA region of Pseudomonas putida: conservation among three bacteria, Bacillus subtilis, Escherichia coli and P. putida. Mol Gen Genet. 1989 Feb;215(3):381–387. doi: 10.1007/BF00427033. [DOI] [PubMed] [Google Scholar]
- Inamine J. M., Ho K. C., Loechel S., Hu P. C. Evidence that UGA is read as a tryptophan codon rather than as a stop codon by Mycoplasma pneumoniae, Mycoplasma genitalium, and Mycoplasma gallisepticum. J Bacteriol. 1990 Jan;172(1):504–506. doi: 10.1128/jb.172.1.504-506.1990. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Itaya M., Tanaka T. Complete physical map of the Bacillus subtilis 168 chromosome constructed by a gene-directed mutagenesis method. J Mol Biol. 1991 Aug 5;220(3):631–648. doi: 10.1016/0022-2836(91)90106-g. [DOI] [PubMed] [Google Scholar]
- Krause D. C., Lee K. K. Juxtaposition of the genes encoding Mycoplasma pneumoniae cytadherence-accessory proteins HMW1 and HMW3. Gene. 1991 Oct 30;107(1):83–89. doi: 10.1016/0378-1119(91)90300-z. [DOI] [PubMed] [Google Scholar]
- Krause D. C., Mawn C. B. Physical analysis and mapping of the Mycoplasma pneumoniae chromosome. J Bacteriol. 1990 Sep;172(9):4790–4797. doi: 10.1128/jb.172.9.4790-4797.1990. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Krawiec S., Riley M. Organization of the bacterial chromosome. Microbiol Rev. 1990 Dec;54(4):502–539. doi: 10.1128/mr.54.4.502-539.1990. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Lind K., Lindhardt B. O., Schütten H. J., Blom J., Christiansen C. Serological cross-reactions between Mycoplasma genitalium and Mycoplasma pneumoniae. J Clin Microbiol. 1984 Dec;20(6):1036–1043. doi: 10.1128/jcm.20.6.1036-1043.1984. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Loechel S., Inamine J. M., Hu P. C. Nucleotide sequence of the tuf gene from Mycoplasma genitalium. Nucleic Acids Res. 1989 Dec 11;17(23):10127–10127. doi: 10.1093/nar/17.23.10127. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Lucier T. S., Hu P. Q., Peterson S. N., Song X. Y., Miller L., Heitzman K., Bott K. F., Hutchison C. A., 3rd, Hu P. C. Construction of an ordered genomic library of Mycoplasma genitalium. Gene. 1994 Dec 2;150(1):27–34. doi: 10.1016/0378-1119(94)90853-2. [DOI] [PubMed] [Google Scholar]
- Maniloff J. Evolution of wall-less prokaryotes. Annu Rev Microbiol. 1983;37:477–499. doi: 10.1146/annurev.mi.37.100183.002401. [DOI] [PubMed] [Google Scholar]
- Morowitz H. J. The completeness of molecular biology. Isr J Med Sci. 1984 Sep;20(9):750–753. [PubMed] [Google Scholar]
- Ogasawara N., Moriya S., Yoshikawa H. Structure and function of the region of the replication origin of the Bacillus subtilis chromosome. IV. Transcription of the oriC region and expression of DNA gyrase genes and other open reading frames. Nucleic Acids Res. 1985 Apr 11;13(7):2267–2279. doi: 10.1093/nar/13.7.2267. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Ohkubo S., Muto A., Kawauchi Y., Yamao F., Osawa S. The ribosomal protein gene cluster of Mycoplasma capricolum. Mol Gen Genet. 1987 Dec;210(2):314–322. doi: 10.1007/BF00325700. [DOI] [PubMed] [Google Scholar]
- Peterson S. N., Hu P. C., Bott K. F., Hutchison C. A., 3rd A survey of the Mycoplasma genitalium genome by using random sequencing. J Bacteriol. 1993 Dec;175(24):7918–7930. doi: 10.1128/jb.175.24.7918-7930.1993. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Peterson S. N., Schramm N., Hu P. C., Bott K. F., Hutchison C. A., 3rd A random sequencing approach for placing markers on the physical map of Mycoplasma genitalium. Nucleic Acids Res. 1991 Nov 11;19(21):6027–6031. doi: 10.1093/nar/19.21.6027. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Pyle L. E., Taylor T., Finch L. R. Genomic maps of some strains within the Mycoplasma mycoides cluster. J Bacteriol. 1990 Dec;172(12):7265–7268. doi: 10.1128/jb.172.12.7265-7268.1990. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Rogers M. J., Simmons J., Walker R. T., Weisburg W. G., Woese C. R., Tanner R. S., Robinson I. M., Stahl D. A., Olsen G., Leach R. H. Construction of the mycoplasma evolutionary tree from 5S rRNA sequence data. Proc Natl Acad Sci U S A. 1985 Feb;82(4):1160–1164. doi: 10.1073/pnas.82.4.1160. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Simoneau P., Li C. M., Loechel S., Wenzel R., Herrmann R., Hu P. C. Codon reading scheme in Mycoplasma pneumoniae revealed by the analysis of the complete set of tRNA genes. Nucleic Acids Res. 1993 Oct 25;21(21):4967–4974. doi: 10.1093/nar/21.21.4967. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Taylor-Robinson D., Furr P. M., Tully J. G. Serological cross-reactions between Mycoplasma genitalium and M. pneumoniae. Lancet. 1983 Mar 5;1(8323):527–527. doi: 10.1016/s0140-6736(83)92212-2. [DOI] [PubMed] [Google Scholar]
- Ventra L., Weiss A. S. Transposon-mediated restriction mapping of the Bacillus subtilis chromosome. Gene. 1989 May 15;78(1):29–36. doi: 10.1016/0378-1119(89)90311-9. [DOI] [PubMed] [Google Scholar]
- Weisburg W. G., Tully J. G., Rose D. L., Petzel J. P., Oyaizu H., Yang D., Mandelco L., Sechrest J., Lawrence T. G., Van Etten J. A phylogenetic analysis of the mycoplasmas: basis for their classification. J Bacteriol. 1989 Dec;171(12):6455–6467. doi: 10.1128/jb.171.12.6455-6467.1989. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Wenzel R., Herrmann R. Cloning of the complete Mycoplasma pneumoniae genome. Nucleic Acids Res. 1989 Sep 12;17(17):7029–7043. doi: 10.1093/nar/17.17.7029. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Wenzel R., Pirkl E., Herrmann R. Construction of an EcoRI restriction map of Mycoplasma pneumoniae and localization of selected genes. J Bacteriol. 1992 Nov;174(22):7289–7296. doi: 10.1128/jb.174.22.7289-7296.1992. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Woese C. R., Maniloff J., Zablen L. B. Phylogenetic analysis of the mycoplasmas. Proc Natl Acad Sci U S A. 1980 Jan;77(1):494–498. doi: 10.1073/pnas.77.1.494. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Yamao F., Muto A., Kawauchi Y., Iwami M., Iwagami S., Azumi Y., Osawa S. UGA is read as tryptophan in Mycoplasma capricolum. Proc Natl Acad Sci U S A. 1985 Apr;82(8):2306–2309. doi: 10.1073/pnas.82.8.2306. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Ye F., Laigret F., Whitley J. C., Citti C., Finch L. R., Carle P., Renaudin J., Bové J. M. A physical and genetic map of the Spiroplasma citri genome. Nucleic Acids Res. 1992 Apr 11;20(7):1559–1565. doi: 10.1093/nar/20.7.1559. [DOI] [PMC free article] [PubMed] [Google Scholar]