MATĚJKOVÁ, Petra, David ŠMAJS, SJ NORRIS and GM WEINSTOCK. Comparative genomics of pathogenic Treponema pallidum species. In Sborník příspěvků VII. Pracovní setkání biochemiků a molekulárních biologů. 2003. vyd. Brno: Masarykova univerzita, 2003. p. 3 - 4, 1 pp. ISBN 80-210-3053-4.
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Basic information
Original name Comparative genomics of pathogenic Treponema pallidum species
Name in Czech Komparativní genomika patogenních druhů Treponema pallidum
Name (in English) Comparative genomics of pathogenic Treponema pallidum species
Authors MATĚJKOVÁ, Petra (203 Czech Republic), David ŠMAJS (203 Czech Republic, guarantor), SJ NORRIS (840 United States of America) and GM WEINSTOCK (840 United States of America).
Edition 2003. vyd. Brno, Sborník příspěvků VII. Pracovní setkání biochemiků a molekulárních biologů, p. 3 - 4, 1 pp. 2003.
Publisher Masarykova univerzita
Other information
Original language Czech
Type of outcome Proceedings paper
Field of Study Genetics and molecular biology
Country of publisher Czech Republic
Confidentiality degree is not subject to a state or trade secret
RIV identification code RIV/00216224:14110/03:00012306
Organization unit Faculty of Medicine
ISBN 80-210-3053-4
Keywords in English comparative genomics; Treponema pallidum
Tags comparative genomics, Treponema pallidum
Changed by Changed by: prof. MUDr. David Šmajs, Ph.D., učo 1116. Changed: 31/5/2005 09:29.
Abstract
Spirochaetal genus Treponema includes several pathogenic spirochetes (e.g. Treponema pallidum subsp. pallidum is the causative agent of syphilis, T. pallidum subsp. pertenue causes yaws). Recent serological tests are negative in early stages of treponemal infection and cannot distinguish between syphilis and yaws. The complete genome sequence, construction of a microarray chip with all 1039 predicted ORF PCR products, together with the findings that there is a high degree of sequence homology among pathogenic treponemes, enables comparative genomic analyses based on DNA-microarray techniques. Identification of chromosomal sequences specific for these pathogens can be used for selective PCR diagnostics of treponemal diseases. DNA of Treponema pallidum subsp. pallidum Nichols strain was compared to DNA isolated from three different strains of T. pallidum subsp. pertenue (strain Gauthier, Samoan D, CDC-2). As a result of DNA microarray comparisons, 25 genes (13 with stronger and 6 with weaker signal in pertenue strains and 6 control genes with similar signal in both subspecies examined) were selected and sequenced. Altogether, 24083 nucleotides (2.12% of the genome) were sequenced in 3 pertenue strains and control Nichols. No region of extensive sequence heterogeneity was detected. However, 15 different single nucleotide polymorfisms (SNP) were identified: 3 SNPs in Gauthier strain, 14 in Samoan D and 15 SNPs in CDC-2. Ten (out of 15) SNPs cause amino acid changes. SNPs common for all pertenue strains as well as SNPs specific for each individual strain will allow to use these nucleotide polymorfisms to design sequence specific PCR diagnostics of these strains.
Abstract (in English)
Spirochaetal genus Treponema includes several pathogenic spirochetes (e.g. Treponema pallidum subsp. pallidum is the causative agent of syphilis, T. pallidum subsp. pertenue causes yaws). Recent serological tests are negative in early stages of treponemal infection and cannot distinguish between syphilis and yaws. The complete genome sequence, construction of a microarray chip with all 1039 predicted ORF PCR products, together with the findings that there is a high degree of sequence homology among pathogenic treponemes, enables comparative genomic analyses based on DNA-microarray techniques. Identification of chromosomal sequences specific for these pathogens can be used for selective PCR diagnostics of treponemal diseases. DNA of Treponema pallidum subsp. pallidum Nichols strain was compared to DNA isolated from three different strains of T. pallidum subsp. pertenue (strain Gauthier, Samoan D, CDC-2). As a result of DNA microarray comparisons, 25 genes (13 with stronger and 6 with weaker signal in pertenue strains and 6 control genes with similar signal in both subspecies examined) were selected and sequenced. Altogether, 24083 nucleotides (2.12% of the genome) were sequenced in 3 pertenue strains and control Nichols. No region of extensive sequence heterogeneity was detected. However, 15 different single nucleotide polymorfisms (SNP) were identified: 3 SNPs in Gauthier strain, 14 in Samoan D and 15 SNPs in CDC-2. Ten (out of 15) SNPs cause amino acid changes. SNPs common for all pertenue strains as well as SNPs specific for each individual strain will allow to use these nucleotide polymorfisms to design sequence specific PCR diagnostics of these strains.
Links
NI7351, research and development projectName: Komparativní genomika patogenních spirochet rodu Treponema: cesta k sekvenčně specifické diagnostice
Investor: Ministry of Health of the CR, Infectious Diseases, Microbiology, Epidemiology and Immunology
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