Reconstruction of transcription control networks in Mollicutes by high-throughput identification of promoters
Bacteria of the class Mollicutes have significantly reduced genomes and gene expression control systems. They are also efficient pathogens that can colonize a broad range of hosts including plants and animals. Despite their simplicity, Mollicutes demonstrate complex transcriptional responses to vari...
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2016-12-01
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doaj-22d6b658321d403192b4286db1a6d7c52020-11-24T23:58:36ZengFrontiers Media S.A.Frontiers in Microbiology1664-302X2016-12-01710.3389/fmicb.2016.01977222692Reconstruction of transcription control networks in Mollicutes by high-throughput identification of promotersGleb Y Fisunov0Irina A Garanina1Daria V Evsyutina2Tatiana A Semashko3Anastasia S Nikitina4Vadim Markovich Govorun5Federal Research and Clinical Centre of Physical-Chemical MedicineFederal Research and Clinical Centre of Physical-Chemical MedicineFederal Research and Clinical Centre of Physical-Chemical MedicineFederal Research and Clinical Centre of Physical-Chemical MedicineFederal Research and Clinical Centre of Physical-Chemical MedicineFederal Research and Clinical Centre of Physical-Chemical MedicineBacteria of the class Mollicutes have significantly reduced genomes and gene expression control systems. They are also efficient pathogens that can colonize a broad range of hosts including plants and animals. Despite their simplicity, Mollicutes demonstrate complex transcriptional responses to various conditions, which contradicts their reduction in gene expression regulation mechanisms. We analyzed the conservation and distribution of transcription regulators across the 50 Mollicutes species. The majority of the transcription factors regulate transport and metabolism, and there are four transcription factors that demonstrate significant conservation across the analyzed bacteria. These factors include repressors of chaperone HrcA, cell cycle regulator MraZ and two regulators with unclear function from the WhiA and YebC/PmpR families. We then used three representative species of the major clades of Mollicutes (Acholeplasma laidlawii, Spiroplasma melliferum and Mycoplasma gallisepticum) to perform promoters mapping and activity quantitation. We revealed that Mollicutes evolved towards a promoter architecture simplification that correlates with a diminishing role of transcription regulation and an increase in transcriptional noise. Using the identified operons structure and a comparative genomics approach, we reconstructed the transcription control networks for these three species. The organization of the networks reflects the adaptation of bacteria to specific conditions and hosts.http://journal.frontiersin.org/Journal/10.3389/fmicb.2016.01977/fullAcholeplasmaMycoplasmaSpiroplasmaPromoterTranscriptomicsMollicutes |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Gleb Y Fisunov Irina A Garanina Daria V Evsyutina Tatiana A Semashko Anastasia S Nikitina Vadim Markovich Govorun |
spellingShingle |
Gleb Y Fisunov Irina A Garanina Daria V Evsyutina Tatiana A Semashko Anastasia S Nikitina Vadim Markovich Govorun Reconstruction of transcription control networks in Mollicutes by high-throughput identification of promoters Frontiers in Microbiology Acholeplasma Mycoplasma Spiroplasma Promoter Transcriptomics Mollicutes |
author_facet |
Gleb Y Fisunov Irina A Garanina Daria V Evsyutina Tatiana A Semashko Anastasia S Nikitina Vadim Markovich Govorun |
author_sort |
Gleb Y Fisunov |
title |
Reconstruction of transcription control networks in Mollicutes by high-throughput identification of promoters |
title_short |
Reconstruction of transcription control networks in Mollicutes by high-throughput identification of promoters |
title_full |
Reconstruction of transcription control networks in Mollicutes by high-throughput identification of promoters |
title_fullStr |
Reconstruction of transcription control networks in Mollicutes by high-throughput identification of promoters |
title_full_unstemmed |
Reconstruction of transcription control networks in Mollicutes by high-throughput identification of promoters |
title_sort |
reconstruction of transcription control networks in mollicutes by high-throughput identification of promoters |
publisher |
Frontiers Media S.A. |
series |
Frontiers in Microbiology |
issn |
1664-302X |
publishDate |
2016-12-01 |
description |
Bacteria of the class Mollicutes have significantly reduced genomes and gene expression control systems. They are also efficient pathogens that can colonize a broad range of hosts including plants and animals. Despite their simplicity, Mollicutes demonstrate complex transcriptional responses to various conditions, which contradicts their reduction in gene expression regulation mechanisms. We analyzed the conservation and distribution of transcription regulators across the 50 Mollicutes species. The majority of the transcription factors regulate transport and metabolism, and there are four transcription factors that demonstrate significant conservation across the analyzed bacteria. These factors include repressors of chaperone HrcA, cell cycle regulator MraZ and two regulators with unclear function from the WhiA and YebC/PmpR families. We then used three representative species of the major clades of Mollicutes (Acholeplasma laidlawii, Spiroplasma melliferum and Mycoplasma gallisepticum) to perform promoters mapping and activity quantitation. We revealed that Mollicutes evolved towards a promoter architecture simplification that correlates with a diminishing role of transcription regulation and an increase in transcriptional noise. Using the identified operons structure and a comparative genomics approach, we reconstructed the transcription control networks for these three species. The organization of the networks reflects the adaptation of bacteria to specific conditions and hosts. |
topic |
Acholeplasma Mycoplasma Spiroplasma Promoter Transcriptomics Mollicutes |
url |
http://journal.frontiersin.org/Journal/10.3389/fmicb.2016.01977/full |
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