Proteomic properties reveal phyloecological clusters of Archaea.

In this study, we propose a novel way to describe the variety of environmental adaptations of Archaea. We have clustered 57 Archaea by using a non-redundant set of proteomic features, and verified that the clusters correspond to environmental adaptations to the archaeal habitats. The first cluster c...

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Autores principales:	Nela Nikolic, Zlatko Smole, Anita Krisko
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2012
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/6c0ffb37a1974a41993b710e77738f3e
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spelling	oai:doaj.org-article:6c0ffb37a1974a41993b710e77738f3e2021-11-18T08:10:56ZProteomic properties reveal phyloecological clusters of Archaea.1932-620310.1371/journal.pone.0048231https://doaj.org/article/6c0ffb37a1974a41993b710e77738f3e2012-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/23133575/?tool=EBIhttps://doaj.org/toc/1932-6203In this study, we propose a novel way to describe the variety of environmental adaptations of Archaea. We have clustered 57 Archaea by using a non-redundant set of proteomic features, and verified that the clusters correspond to environmental adaptations to the archaeal habitats. The first cluster consists dominantly of hyperthermophiles and hyperthermoacidophilic aerobes. The second cluster joins together halophilic and extremely halophilic Archaea, while the third cluster contains mesophilic (mostly methanogenic) Archaea together with thermoacidophiles. The non-redundant subset of proteomic features was found to consist of five features: the ratio of charged residues to uncharged, average protein size, normalized frequency of beta-sheet, normalized frequency of extended structure and number of hydrogen bond donors. We propose this clustering to be termed phyloecological clustering. This approach could give additional insights into relationships among archaeal species that may be hidden by sole phylogenetic analysis.Nela NikolicZlatko SmoleAnita KriskoPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 7, Iss 10, p e48231 (2012)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Nela Nikolic Zlatko Smole Anita Krisko Proteomic properties reveal phyloecological clusters of Archaea.
description	In this study, we propose a novel way to describe the variety of environmental adaptations of Archaea. We have clustered 57 Archaea by using a non-redundant set of proteomic features, and verified that the clusters correspond to environmental adaptations to the archaeal habitats. The first cluster consists dominantly of hyperthermophiles and hyperthermoacidophilic aerobes. The second cluster joins together halophilic and extremely halophilic Archaea, while the third cluster contains mesophilic (mostly methanogenic) Archaea together with thermoacidophiles. The non-redundant subset of proteomic features was found to consist of five features: the ratio of charged residues to uncharged, average protein size, normalized frequency of beta-sheet, normalized frequency of extended structure and number of hydrogen bond donors. We propose this clustering to be termed phyloecological clustering. This approach could give additional insights into relationships among archaeal species that may be hidden by sole phylogenetic analysis.
format	article
author	Nela Nikolic Zlatko Smole Anita Krisko
author_facet	Nela Nikolic Zlatko Smole Anita Krisko
author_sort	Nela Nikolic
title	Proteomic properties reveal phyloecological clusters of Archaea.
title_short	Proteomic properties reveal phyloecological clusters of Archaea.
title_full	Proteomic properties reveal phyloecological clusters of Archaea.
title_fullStr	Proteomic properties reveal phyloecological clusters of Archaea.
title_full_unstemmed	Proteomic properties reveal phyloecological clusters of Archaea.
title_sort	proteomic properties reveal phyloecological clusters of archaea.
publisher	Public Library of Science (PLoS)
publishDate	2012
url	https://doaj.org/article/6c0ffb37a1974a41993b710e77738f3e
work_keys_str_mv	AT nelanikolic proteomicpropertiesrevealphyloecologicalclustersofarchaea AT zlatkosmole proteomicpropertiesrevealphyloecologicalclustersofarchaea AT anitakrisko proteomicpropertiesrevealphyloecologicalclustersofarchaea
_version_	1718422113678786560

Proteomic properties reveal phyloecological clusters of Archaea.

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