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Halovirus HF2 Intergenic Repeat Sequences Carry Promoters
Halovirus HF2 was the first member of the Haloferacalesvirus genus to have its genome fully sequenced, which revealed two classes of intergenic repeat (IR) sequences: class I repeats of 58 bp in length, and class II repeats of 29 bp in length. Both classes of repeat contain AT-rich motifs that were...
Autores principales: | , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
MDPI
2021
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8707807/ https://www.ncbi.nlm.nih.gov/pubmed/34960657 http://dx.doi.org/10.3390/v13122388 |
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author | Russ, Brendan Pfeiffer, Friedhelm Dyall-Smith, Mike |
author_facet | Russ, Brendan Pfeiffer, Friedhelm Dyall-Smith, Mike |
author_sort | Russ, Brendan |
collection | PubMed |
description | Halovirus HF2 was the first member of the Haloferacalesvirus genus to have its genome fully sequenced, which revealed two classes of intergenic repeat (IR) sequences: class I repeats of 58 bp in length, and class II repeats of 29 bp in length. Both classes of repeat contain AT-rich motifs that were conjectured to represent promoters. In the present study, nine IRs were cloned upstream of the bgaH reporter gene, and all displayed promoter activity, providing experimental evidence for the previous conjecture. Comparative genomics showed that IR sequences and their relative genomic positions were strongly conserved among other members of the same virus genus. The transcription of HF2 was also examined by the reverse-transcriptase-PCR (RT-PCR) method, which demonstrated very long transcripts were produced that together covered most of the genome, and from both strands. The presence of long counter transcripts suggests a regulatory role or possibly unrecognized coding potential. |
format | Online Article Text |
id | pubmed-8707807 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | MDPI |
record_format | MEDLINE/PubMed |
spelling | pubmed-87078072021-12-25 Halovirus HF2 Intergenic Repeat Sequences Carry Promoters Russ, Brendan Pfeiffer, Friedhelm Dyall-Smith, Mike Viruses Article Halovirus HF2 was the first member of the Haloferacalesvirus genus to have its genome fully sequenced, which revealed two classes of intergenic repeat (IR) sequences: class I repeats of 58 bp in length, and class II repeats of 29 bp in length. Both classes of repeat contain AT-rich motifs that were conjectured to represent promoters. In the present study, nine IRs were cloned upstream of the bgaH reporter gene, and all displayed promoter activity, providing experimental evidence for the previous conjecture. Comparative genomics showed that IR sequences and their relative genomic positions were strongly conserved among other members of the same virus genus. The transcription of HF2 was also examined by the reverse-transcriptase-PCR (RT-PCR) method, which demonstrated very long transcripts were produced that together covered most of the genome, and from both strands. The presence of long counter transcripts suggests a regulatory role or possibly unrecognized coding potential. MDPI 2021-11-29 /pmc/articles/PMC8707807/ /pubmed/34960657 http://dx.doi.org/10.3390/v13122388 Text en © 2021 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/). |
spellingShingle | Article Russ, Brendan Pfeiffer, Friedhelm Dyall-Smith, Mike Halovirus HF2 Intergenic Repeat Sequences Carry Promoters |
title | Halovirus HF2 Intergenic Repeat Sequences Carry Promoters |
title_full | Halovirus HF2 Intergenic Repeat Sequences Carry Promoters |
title_fullStr | Halovirus HF2 Intergenic Repeat Sequences Carry Promoters |
title_full_unstemmed | Halovirus HF2 Intergenic Repeat Sequences Carry Promoters |
title_short | Halovirus HF2 Intergenic Repeat Sequences Carry Promoters |
title_sort | halovirus hf2 intergenic repeat sequences carry promoters |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8707807/ https://www.ncbi.nlm.nih.gov/pubmed/34960657 http://dx.doi.org/10.3390/v13122388 |
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