An in silico evaluation of Tn916 as a tool for generalized mutagenesis in Haemophilus influenzae Rd.
The transposon Tn916 was evaluated as a tool for generalized mutagenesis of the genome of Haemophilus influenzae. This was achieved in silico by searching the genome sequence of H. influenzae Rd for the published Tn916 target site consensus sequence 5' TT/ATTTT(N)6AAAAAA/TA. This search identif...
| Auteurs principaux: | , , , , , |
|---|---|
| Format: | Journal article |
| Langue: | English |
| Publié: |
1998
|
| _version_ | 1826281471198887936 |
|---|---|
| author | Hosking, S Deadman, M Moxon, E Peden, J Saunders, N High, N |
| author_facet | Hosking, S Deadman, M Moxon, E Peden, J Saunders, N High, N |
| author_sort | Hosking, S |
| collection | OXFORD |
| description | The transposon Tn916 was evaluated as a tool for generalized mutagenesis of the genome of Haemophilus influenzae. This was achieved in silico by searching the genome sequence of H. influenzae Rd for the published Tn916 target site consensus sequence 5' TT/ATTTT(N)6AAAAAA/TA. This search identified 16 putative target sites. In subsequent experiments, integration of Tn916 did not occur at any of these sites. Using the nucleotide sequences of these observed integration sites, a new consensus sequence, 5' TTTTT(N)xAAAAA (4 < or = x < or = 7), was derived. This sequence reflects the curve-twist-curve DNA topology which is a feature common to all Tn916 integration sites. A search of the H. influenzae Rd genome using the new consensus sequence identified 167 potential target sites, representing approximately 1% of the total genome. Only 80 of these sites were located within ORFs. The presence of such a limited number of target sites places severe constraints on the use of Tn916 as a tool for generalized mutagenesis of the genome of H. influenzae. |
| first_indexed | 2024-03-07T00:29:18Z |
| format | Journal article |
| id | oxford-uuid:7f3819d7-b722-4c9e-8a22-c1d658431d6c |
| institution | University of Oxford |
| language | English |
| last_indexed | 2024-03-07T00:29:18Z |
| publishDate | 1998 |
| record_format | dspace |
| spelling | oxford-uuid:7f3819d7-b722-4c9e-8a22-c1d658431d6c2022-03-26T21:15:25ZAn in silico evaluation of Tn916 as a tool for generalized mutagenesis in Haemophilus influenzae Rd.Journal articlehttp://purl.org/coar/resource_type/c_dcae04bcuuid:7f3819d7-b722-4c9e-8a22-c1d658431d6cEnglishSymplectic Elements at Oxford1998Hosking, SDeadman, MMoxon, EPeden, JSaunders, NHigh, NThe transposon Tn916 was evaluated as a tool for generalized mutagenesis of the genome of Haemophilus influenzae. This was achieved in silico by searching the genome sequence of H. influenzae Rd for the published Tn916 target site consensus sequence 5' TT/ATTTT(N)6AAAAAA/TA. This search identified 16 putative target sites. In subsequent experiments, integration of Tn916 did not occur at any of these sites. Using the nucleotide sequences of these observed integration sites, a new consensus sequence, 5' TTTTT(N)xAAAAA (4 < or = x < or = 7), was derived. This sequence reflects the curve-twist-curve DNA topology which is a feature common to all Tn916 integration sites. A search of the H. influenzae Rd genome using the new consensus sequence identified 167 potential target sites, representing approximately 1% of the total genome. Only 80 of these sites were located within ORFs. The presence of such a limited number of target sites places severe constraints on the use of Tn916 as a tool for generalized mutagenesis of the genome of H. influenzae. |
| spellingShingle | Hosking, S Deadman, M Moxon, E Peden, J Saunders, N High, N An in silico evaluation of Tn916 as a tool for generalized mutagenesis in Haemophilus influenzae Rd. |
| title | An in silico evaluation of Tn916 as a tool for generalized mutagenesis in Haemophilus influenzae Rd. |
| title_full | An in silico evaluation of Tn916 as a tool for generalized mutagenesis in Haemophilus influenzae Rd. |
| title_fullStr | An in silico evaluation of Tn916 as a tool for generalized mutagenesis in Haemophilus influenzae Rd. |
| title_full_unstemmed | An in silico evaluation of Tn916 as a tool for generalized mutagenesis in Haemophilus influenzae Rd. |
| title_short | An in silico evaluation of Tn916 as a tool for generalized mutagenesis in Haemophilus influenzae Rd. |
| title_sort | in silico evaluation of tn916 as a tool for generalized mutagenesis in haemophilus influenzae rd |
| work_keys_str_mv | AT hoskings aninsilicoevaluationoftn916asatoolforgeneralizedmutagenesisinhaemophilusinfluenzaerd AT deadmanm aninsilicoevaluationoftn916asatoolforgeneralizedmutagenesisinhaemophilusinfluenzaerd AT moxone aninsilicoevaluationoftn916asatoolforgeneralizedmutagenesisinhaemophilusinfluenzaerd AT pedenj aninsilicoevaluationoftn916asatoolforgeneralizedmutagenesisinhaemophilusinfluenzaerd AT saundersn aninsilicoevaluationoftn916asatoolforgeneralizedmutagenesisinhaemophilusinfluenzaerd AT highn aninsilicoevaluationoftn916asatoolforgeneralizedmutagenesisinhaemophilusinfluenzaerd AT hoskings insilicoevaluationoftn916asatoolforgeneralizedmutagenesisinhaemophilusinfluenzaerd AT deadmanm insilicoevaluationoftn916asatoolforgeneralizedmutagenesisinhaemophilusinfluenzaerd AT moxone insilicoevaluationoftn916asatoolforgeneralizedmutagenesisinhaemophilusinfluenzaerd AT pedenj insilicoevaluationoftn916asatoolforgeneralizedmutagenesisinhaemophilusinfluenzaerd AT saundersn insilicoevaluationoftn916asatoolforgeneralizedmutagenesisinhaemophilusinfluenzaerd AT highn insilicoevaluationoftn916asatoolforgeneralizedmutagenesisinhaemophilusinfluenzaerd |