Bacterial proteins belonging to the YczE family are predicted to be membrane proteins of yet unknown function. In many bacterial species, the yczE gene coding for the YczE protein is divergently transcribed with respect to an adjacent transcriptional regulator of the MocR family. According to in-silico predictions, proteins named YczR are supposed to regulate the expression of yczE genes. These regulators linked to the yczE genes are predicted to constitute a subfamily within the MocR family. To put forward hypotheses amenable to experimental testing about the possible function of the YczE proteins, a phylogenetic profile strategy was applied. This strategy consists in searching for those genes that, within a set of genomes, co-occur exclusively with a certain gene of interest. Co-occurrence can be suggestive of a functional link. A set of 30 Mycobacterium complete proteomes were collected. Of these, only sixteen contained YczE proteins. In all cases, each yczE gene was divergently transcribed with respect to a yczR gene. Two orthology clustering procedure were applied to find proteins co-occurring exclusively with the YczE proteins. Results suggests that YczE may be involved in the membrane translocation and metabolism of sulfur-containing compounds.
A comprehensive computational analysis of Mycobacterium genomes pinpoints the genes co-occurring with ycze, a membrane protein coding gene under the putative control of a mocr, and predicts its function / Milano, Teresa; Angelaccio, Sebastiana; Tramonti, Angela; DI SALVO, Martino Luigi; Nogues, Isabel; Contestabile, Roberto; Pascarella, Stefano. - In: INTERDISCIPLINARY SCIENCES: COMPUTATIONAL LIFE SCIENCES. - ISSN 1913-2751. - ELETTRONICO. - (2018), pp. 111-125. [10.1007/s12539-017-0266-z]
A comprehensive computational analysis of Mycobacterium genomes pinpoints the genes co-occurring with ycze, a membrane protein coding gene under the putative control of a mocr, and predicts its function
Teresa MilanoMethodology
;Sebastiana AngelaccioWriting – Review & Editing
;Angela TramontiWriting – Original Draft Preparation
;Martino Luigi Di SalvoMembro del Collaboration Group
;Roberto ContestabileMembro del Collaboration Group
;Stefano Pascarella
Supervision
2018
Abstract
Bacterial proteins belonging to the YczE family are predicted to be membrane proteins of yet unknown function. In many bacterial species, the yczE gene coding for the YczE protein is divergently transcribed with respect to an adjacent transcriptional regulator of the MocR family. According to in-silico predictions, proteins named YczR are supposed to regulate the expression of yczE genes. These regulators linked to the yczE genes are predicted to constitute a subfamily within the MocR family. To put forward hypotheses amenable to experimental testing about the possible function of the YczE proteins, a phylogenetic profile strategy was applied. This strategy consists in searching for those genes that, within a set of genomes, co-occur exclusively with a certain gene of interest. Co-occurrence can be suggestive of a functional link. A set of 30 Mycobacterium complete proteomes were collected. Of these, only sixteen contained YczE proteins. In all cases, each yczE gene was divergently transcribed with respect to a yczR gene. Two orthology clustering procedure were applied to find proteins co-occurring exclusively with the YczE proteins. Results suggests that YczE may be involved in the membrane translocation and metabolism of sulfur-containing compounds.File | Dimensione | Formato | |
---|---|---|---|
Milano_AComprehensiveComputational_2018.pdf
solo gestori archivio
Tipologia:
Versione editoriale (versione pubblicata con il layout dell'editore)
Licenza:
Tutti i diritti riservati (All rights reserved)
Dimensione
2.35 MB
Formato
Adobe PDF
|
2.35 MB | Adobe PDF | Contatta l'autore |
I documenti in IRIS sono protetti da copyright e tutti i diritti sono riservati, salvo diversa indicazione.