Comparative genomics of DNA-binding transcription factors in archaeal and bacterial organisms.

Archaea represent a diverse phylogenetic group that includes free-living, extremophile, mesophile, symbiont, and opportunistic organisms. These prokaryotic organisms share a high significant similarity with the basal transcriptional machinery of Eukarya, and they share regulatory mechanisms with Bac...

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Autores principales:	Luis Martinez-Liu, Rafael Hernandez-Guerrero, Nancy Rivera-Gomez, Mario Alberto Martinez-Nuñez, Pedro Escobar-Turriza, Eveline Peeters, Ernesto Perez-Rueda
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/eafbebc699314efabf1b9d93f8a27839
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spelling	oai:doaj.org-article:eafbebc699314efabf1b9d93f8a278392021-12-02T20:09:41ZComparative genomics of DNA-binding transcription factors in archaeal and bacterial organisms.1932-620310.1371/journal.pone.0254025https://doaj.org/article/eafbebc699314efabf1b9d93f8a278392021-01-01T00:00:00Zhttps://doi.org/10.1371/journal.pone.0254025https://doaj.org/toc/1932-6203Archaea represent a diverse phylogenetic group that includes free-living, extremophile, mesophile, symbiont, and opportunistic organisms. These prokaryotic organisms share a high significant similarity with the basal transcriptional machinery of Eukarya, and they share regulatory mechanisms with Bacteria, such as operonic organization and DNA-binding transcription factors (TFs). In this work, we identified the repertoire of TFs in 415 archaeal genomes and compared them with their counterparts in bacterial genomes. The comparisons of TFs, at a global level and per family, allowed us to identify similarities and differences between the repertoires of regulatory proteins of bacteria and archaea. For example, 11 of 62 families are more highly abundant in archaea than bacteria, and 13 families are abundant in bacteria but not in archaea and 38 families have similar abundances in the two groups. In addition, we found that archaeal TFs have a lower isoelectric point than bacterial proteins, i.e., they contain more acidic amino acids, and are smaller than bacterial TFs. Our findings suggest a divergence occurred for the regulatory proteins, even though they are common to archaea and bacteria. We consider that this analysis contributes to the comprehension of the structure and functionality of regulatory proteins of archaeal organisms.Luis Martinez-LiuRafael Hernandez-GuerreroNancy Rivera-GomezMario Alberto Martinez-NuñezPedro Escobar-TurrizaEveline PeetersErnesto Perez-RuedaPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 16, Iss 7, p e0254025 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Luis Martinez-Liu Rafael Hernandez-Guerrero Nancy Rivera-Gomez Mario Alberto Martinez-Nuñez Pedro Escobar-Turriza Eveline Peeters Ernesto Perez-Rueda Comparative genomics of DNA-binding transcription factors in archaeal and bacterial organisms.
description	Archaea represent a diverse phylogenetic group that includes free-living, extremophile, mesophile, symbiont, and opportunistic organisms. These prokaryotic organisms share a high significant similarity with the basal transcriptional machinery of Eukarya, and they share regulatory mechanisms with Bacteria, such as operonic organization and DNA-binding transcription factors (TFs). In this work, we identified the repertoire of TFs in 415 archaeal genomes and compared them with their counterparts in bacterial genomes. The comparisons of TFs, at a global level and per family, allowed us to identify similarities and differences between the repertoires of regulatory proteins of bacteria and archaea. For example, 11 of 62 families are more highly abundant in archaea than bacteria, and 13 families are abundant in bacteria but not in archaea and 38 families have similar abundances in the two groups. In addition, we found that archaeal TFs have a lower isoelectric point than bacterial proteins, i.e., they contain more acidic amino acids, and are smaller than bacterial TFs. Our findings suggest a divergence occurred for the regulatory proteins, even though they are common to archaea and bacteria. We consider that this analysis contributes to the comprehension of the structure and functionality of regulatory proteins of archaeal organisms.
format	article
author	Luis Martinez-Liu Rafael Hernandez-Guerrero Nancy Rivera-Gomez Mario Alberto Martinez-Nuñez Pedro Escobar-Turriza Eveline Peeters Ernesto Perez-Rueda
author_facet	Luis Martinez-Liu Rafael Hernandez-Guerrero Nancy Rivera-Gomez Mario Alberto Martinez-Nuñez Pedro Escobar-Turriza Eveline Peeters Ernesto Perez-Rueda
author_sort	Luis Martinez-Liu
title	Comparative genomics of DNA-binding transcription factors in archaeal and bacterial organisms.
title_short	Comparative genomics of DNA-binding transcription factors in archaeal and bacterial organisms.
title_full	Comparative genomics of DNA-binding transcription factors in archaeal and bacterial organisms.
title_fullStr	Comparative genomics of DNA-binding transcription factors in archaeal and bacterial organisms.
title_full_unstemmed	Comparative genomics of DNA-binding transcription factors in archaeal and bacterial organisms.
title_sort	comparative genomics of dna-binding transcription factors in archaeal and bacterial organisms.
publisher	Public Library of Science (PLoS)
publishDate	2021
url	https://doaj.org/article/eafbebc699314efabf1b9d93f8a27839
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Comparative genomics of DNA-binding transcription factors in archaeal and bacterial organisms.

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