Cis-regulatory evolution in prokaryotes revealed by interspecific archaeal hybrids

Abstract The study of allele-specific expression (ASE) in interspecific hybrids has played a central role in our understanding of a wide range of phenomena, including genomic imprinting, X-chromosome inactivation, and cis-regulatory evolution. However across the hundreds of studies of hybrid ASE, al...

Descripción completa

Guardado en:

Detalles Bibliográficos
Autores principales:	Carlo G. Artieri, Adit Naor, Israela Turgeman-Grott, Yiqi Zhou, Ryan York, Uri Gophna, Hunter B. Fraser
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2017
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/614b5491e89145829eb873e698502a3e
Etiquetas:	Agregar Etiqueta Sin Etiquetas, Sea el primero en etiquetar este registro!

id	oai:doaj.org-article:614b5491e89145829eb873e698502a3e
record_format	dspace
spelling	oai:doaj.org-article:614b5491e89145829eb873e698502a3e2021-12-02T16:06:44ZCis-regulatory evolution in prokaryotes revealed by interspecific archaeal hybrids10.1038/s41598-017-04278-42045-2322https://doaj.org/article/614b5491e89145829eb873e698502a3e2017-06-01T00:00:00Zhttps://doi.org/10.1038/s41598-017-04278-4https://doaj.org/toc/2045-2322Abstract The study of allele-specific expression (ASE) in interspecific hybrids has played a central role in our understanding of a wide range of phenomena, including genomic imprinting, X-chromosome inactivation, and cis-regulatory evolution. However across the hundreds of studies of hybrid ASE, all have been restricted to sexually reproducing eukaryotes, leaving a major gap in our understanding of the genomic patterns of cis-regulatory evolution in prokaryotes. Here we introduce a method to generate stable hybrids between two species of halophilic archaea, and measure genome-wide ASE in these hybrids with RNA-seq. We found that over half of all genes have significant ASE, and that genes encoding kinases show evidence of lineage-specific selection on their cis-regulation. This pattern of polygenic selection suggested species-specific adaptation to low phosphate conditions, which we confirmed with growth experiments. Altogether, our work extends the study of ASE to archaea, and suggests that cis-regulation can evolve under polygenic lineage-specific selection in prokaryotes.Carlo G. ArtieriAdit NaorIsraela Turgeman-GrottYiqi ZhouRyan YorkUri GophnaHunter B. FraserNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 7, Iss 1, Pp 1-8 (2017)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Carlo G. Artieri Adit Naor Israela Turgeman-Grott Yiqi Zhou Ryan York Uri Gophna Hunter B. Fraser Cis-regulatory evolution in prokaryotes revealed by interspecific archaeal hybrids
description	Abstract The study of allele-specific expression (ASE) in interspecific hybrids has played a central role in our understanding of a wide range of phenomena, including genomic imprinting, X-chromosome inactivation, and cis-regulatory evolution. However across the hundreds of studies of hybrid ASE, all have been restricted to sexually reproducing eukaryotes, leaving a major gap in our understanding of the genomic patterns of cis-regulatory evolution in prokaryotes. Here we introduce a method to generate stable hybrids between two species of halophilic archaea, and measure genome-wide ASE in these hybrids with RNA-seq. We found that over half of all genes have significant ASE, and that genes encoding kinases show evidence of lineage-specific selection on their cis-regulation. This pattern of polygenic selection suggested species-specific adaptation to low phosphate conditions, which we confirmed with growth experiments. Altogether, our work extends the study of ASE to archaea, and suggests that cis-regulation can evolve under polygenic lineage-specific selection in prokaryotes.
format	article
author	Carlo G. Artieri Adit Naor Israela Turgeman-Grott Yiqi Zhou Ryan York Uri Gophna Hunter B. Fraser
author_facet	Carlo G. Artieri Adit Naor Israela Turgeman-Grott Yiqi Zhou Ryan York Uri Gophna Hunter B. Fraser
author_sort	Carlo G. Artieri
title	Cis-regulatory evolution in prokaryotes revealed by interspecific archaeal hybrids
title_short	Cis-regulatory evolution in prokaryotes revealed by interspecific archaeal hybrids
title_full	Cis-regulatory evolution in prokaryotes revealed by interspecific archaeal hybrids
title_fullStr	Cis-regulatory evolution in prokaryotes revealed by interspecific archaeal hybrids
title_full_unstemmed	Cis-regulatory evolution in prokaryotes revealed by interspecific archaeal hybrids
title_sort	cis-regulatory evolution in prokaryotes revealed by interspecific archaeal hybrids
publisher	Nature Portfolio
publishDate	2017
url	https://doaj.org/article/614b5491e89145829eb873e698502a3e
work_keys_str_mv	AT carlogartieri cisregulatoryevolutioninprokaryotesrevealedbyinterspecificarchaealhybrids AT aditnaor cisregulatoryevolutioninprokaryotesrevealedbyinterspecificarchaealhybrids AT israelaturgemangrott cisregulatoryevolutioninprokaryotesrevealedbyinterspecificarchaealhybrids AT yiqizhou cisregulatoryevolutioninprokaryotesrevealedbyinterspecificarchaealhybrids AT ryanyork cisregulatoryevolutioninprokaryotesrevealedbyinterspecificarchaealhybrids AT urigophna cisregulatoryevolutioninprokaryotesrevealedbyinterspecificarchaealhybrids AT hunterbfraser cisregulatoryevolutioninprokaryotesrevealedbyinterspecificarchaealhybrids
_version_	1718384905119858688

Cis-regulatory evolution in prokaryotes revealed by interspecific archaeal hybrids

Ejemplares similares