title: Ribosome profiling reveals an adaptation strategy of reduced bacterium to acute stress.
abstract: Bacteria of class Mollicutes (mycoplasmas) feature significant genome reduction which makes them good model organisms for systems biology studies. Previously we demonstrated, that drastic transcriptional response of mycoplasmas to stress results in a very limited response on the level of protein. In this study we used heat stress model of M. gallisepticum and ribosome profiling to elucidate the process of genetic information transfer under stress. We found that under heat stress ribosomes demonstrate selectivity towards mRNA binding. We identified that heat stress response may be divided into two groups on the basis of absolute transcript abundance and fold-change in the translatome. One represents a noise-like response and another is likely an adaptive one. The latter include ClpB chaperone, cell division cluster, homologs of immunoblocking proteins and short ORFs with unknown function. We found that previously identified read-through of terminators contributes to the upregulation of transcripts in the translatome as well. In addition we identified that ribosomes of M. gallisepticum undergo reorganization under the heat stress. The most notable event is decrease of the amount of associated HU protein. In conclusion, only changes of few adaptive transcripts significantly impact translatome, while widespread noise-like transcription plays insignificant role in translation during stress.
authors.affiliation: Federal Research and Clinical Centre of Physical-Chemical Medicine, Malaya Pirogovskaya 1a, Moscow 119992, Russian Federation. Electronic address: herr.romanoff@gmail.com.
authors.forename: Gleb Y
authors.initials: GY
authors.lastname: Fisunov
authors.affiliation: Federal Research and Clinical Centre of Physical-Chemical Medicine, Malaya Pirogovskaya 1a, Moscow 119992, Russian Federation; Department of Bioengineering and Bioinformatics, Lomonosov Moscow State University, Leninskiye Gory, GSP-1, 73, Moscow 119234, Russian Federation.
authors.forename: Daria V
authors.initials: DV
authors.lastname: Evsyutina
authors.affiliation: Federal Research and Clinical Centre of Physical-Chemical Medicine, Malaya Pirogovskaya 1a, Moscow 119992, Russian Federation; Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry of the Russian Academy of Sciences, Miklukho-Maklaya 16/10, Moscow 117997, Russian Federation.
authors.forename: Irina A
authors.initials: IA
authors.lastname: Garanina
authors.affiliation: Federal Research and Clinical Centre of Physical-Chemical Medicine, Malaya Pirogovskaya 1a, Moscow 119992, Russian Federation.
authors.forename: Alexander A
authors.initials: AA
authors.lastname: Arzamasov
authors.affiliation: Federal Research and Clinical Centre of Physical-Chemical Medicine, Malaya Pirogovskaya 1a, Moscow 119992, Russian Federation.
authors.forename: Ivan O
authors.initials: IO
authors.lastname: Butenko
authors.affiliation: Federal Research and Clinical Centre of Physical-Chemical Medicine, Malaya Pirogovskaya 1a, Moscow 119992, Russian Federation.
authors.forename: Ilya A
authors.initials: IA
authors.lastname: Altukhov
authors.affiliation: Federal Research and Clinical Centre of Physical-Chemical Medicine, Malaya Pirogovskaya 1a, Moscow 119992, Russian Federation; Moscow Institute of Physics and Technology, Institutsky 9, Dolgoprudny 141700, Russian Federation.
authors.forename: Anastasia S
authors.initials: AS
authors.lastname: Nikitina
authors.affiliation: Federal Research and Clinical Centre of Physical-Chemical Medicine, Malaya Pirogovskaya 1a, Moscow 119992, Russian Federation; Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry of the Russian Academy of Sciences, Miklukho-Maklaya 16/10, Moscow 117997, Russian Federation; Moscow Institute of Physics and Technology, Institutsky 9, Dolgoprudny 141700, Russian Federation.
authors.forename: Vadim M
authors.initials: VM
authors.lastname: Govorun
mesh_terms: D000222:Adaptation, Physiological / Q000235:genetics*; D001426:Bacterial Proteins / Q000235:genetics / Q000378:metabolism; D001483:Base Sequence; D002851:Chromatography, High Pressure Liquid; D020869:Gene Expression Profiling / Q000379:methods; D015964:Gene Expression Regulation, Bacterial; D018869:Heat-Shock Response / Q000235:genetics*; D006358:Hot Temperature; D045686:Mycoplasma gallisepticum / Q000235:genetics* / Q000378:metabolism; D014176:Protein Biosynthesis / Q000235:genetics; D012333:RNA, Messenger / Q000235:genetics / Q000378:metabolism; D012270:Ribosomes / Q000235:genetics* / Q000378:metabolism; D013312:Stress, Physiological; D053719:Tandem Mass Spectrometry
chemical_list: D001426:Bacterial Proteins; D012333:RNA, Messenger
keywords: Mollicutes; Mycoplasma; Proteome; Ribosome profiling; Stress