The influence of transcriptional regulatory networks on the evolution of bacterial pangenomes has not yet been elucidated, even though the role of transcriptional regulation is widely recognized. Using the model symbiont Sinorhizobium meliloti we have predicted the regulatory targets of 41 transcription factors in 51 strains and 5 other rhizobial species, showing a correlation between regulon diversity and pangenome evolution, through upstream sequence diversity and accessory genome composition. We have also shown that genes not wired to the regulatory network are more likely to belong to the accessory genome, thus suggesting that inclusion in the regulatory circuits may be an indicator of gene conservation. We have also highlighted a series of transcription factors that preferentially regulate genes belonging to one of the three replicons of this species, indicating the presence of replicon-specific regulatory modules, with peculiar functional signatures. At the same time the chromid shares a significant part of the regulatory network with the chromosome, indicating an additional way by which this replicon integrates itself in the pangenome.

Evolution of intra-specific regulatory networks in a multipartite bacterial genome / M. Galardini, M. Brilli, G. Spini, M. Rossi, B. Roncaglia, A. Bani, M. Chiancianesi, M. Moretto, K.A. Engelen, G. Bacci, F. Pini, E.G. Biondi, M. Bazzicalupo, A. Mengoni. - In: PLOS COMPUTATIONAL BIOLOGY. - ISSN 1553-734X. - 11:9(2015), pp. e1004478.1-e1004478.24. [10.1371/journal.pcbi.1004478]

Evolution of intra-specific regulatory networks in a multipartite bacterial genome

M. Brilli;
2015

Abstract

The influence of transcriptional regulatory networks on the evolution of bacterial pangenomes has not yet been elucidated, even though the role of transcriptional regulation is widely recognized. Using the model symbiont Sinorhizobium meliloti we have predicted the regulatory targets of 41 transcription factors in 51 strains and 5 other rhizobial species, showing a correlation between regulon diversity and pangenome evolution, through upstream sequence diversity and accessory genome composition. We have also shown that genes not wired to the regulatory network are more likely to belong to the accessory genome, thus suggesting that inclusion in the regulatory circuits may be an indicator of gene conservation. We have also highlighted a series of transcription factors that preferentially regulate genes belonging to one of the three replicons of this species, indicating the presence of replicon-specific regulatory modules, with peculiar functional signatures. At the same time the chromid shares a significant part of the regulatory network with the chromosome, indicating an additional way by which this replicon integrates itself in the pangenome.
Settore BIO/19 - Microbiologia Generale
Article (author)
File in questo prodotto:
File Dimensione Formato  
PLOS Comput Biol 2015_Galardini et al.PDF

accesso aperto

Dimensione 1.53 MB
Formato Adobe PDF
1.53 MB Adobe PDF Visualizza/Apri
Pubblicazioni consigliate

Caricamento pubblicazioni consigliate

I documenti in IRIS sono protetti da copyright e tutti i diritti sono riservati, salvo diversa indicazione.

Utilizza questo identificativo per citare o creare un link a questo documento: http://hdl.handle.net/2434/620667
Citazioni
  • ???jsp.display-item.citation.pmc??? 22
  • Scopus 28
  • ???jsp.display-item.citation.isi??? 31
social impact