Comparative genomics of 12 strains of Erwinia amylovora identifies a pan-genome with a large conserved core.

The plant pathogen Erwinia amylovora can be divided into two host-specific groupings; strains infecting a broad range of hosts within the Rosaceae subfamily Spiraeoideae (e.g., Malus, Pyrus, Crataegus, Sorbus) and strains infecting Rubus (raspberries and blackberries). Comparative genomic analysis o...

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Autores principales:	Rachel A Mann, Theo H M Smits, Andreas Bühlmann, Jochen Blom, Alexander Goesmann, Jürg E Frey, Kim M Plummer, Steven V Beer, Joanne Luck, Brion Duffy, Brendan Rodoni
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2013
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/0e8c265edfe045e8927509ac339fd7af
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spelling	oai:doaj.org-article:0e8c265edfe045e8927509ac339fd7af2021-11-18T07:58:21ZComparative genomics of 12 strains of Erwinia amylovora identifies a pan-genome with a large conserved core.1932-620310.1371/journal.pone.0055644https://doaj.org/article/0e8c265edfe045e8927509ac339fd7af2013-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/23409014/pdf/?tool=EBIhttps://doaj.org/toc/1932-6203The plant pathogen Erwinia amylovora can be divided into two host-specific groupings; strains infecting a broad range of hosts within the Rosaceae subfamily Spiraeoideae (e.g., Malus, Pyrus, Crataegus, Sorbus) and strains infecting Rubus (raspberries and blackberries). Comparative genomic analysis of 12 strains representing distinct populations (e.g., geographic, temporal, host origin) of E. amylovora was used to describe the pan-genome of this major pathogen. The pan-genome contains 5751 coding sequences and is highly conserved relative to other phytopathogenic bacteria comprising on average 89% conserved, core genes. The chromosomes of Spiraeoideae-infecting strains were highly homogeneous, while greater genetic diversity was observed between Spiraeoideae- and Rubus-infecting strains (and among individual Rubus-infecting strains), the majority of which was attributed to variable genomic islands. Based on genomic distance scores and phylogenetic analysis, the Rubus-infecting strain ATCC BAA-2158 was genetically more closely related to the Spiraeoideae-infecting strains of E. amylovora than it was to the other Rubus-infecting strains. Analysis of the accessory genomes of Spiraeoideae- and Rubus-infecting strains has identified putative host-specific determinants including variation in the effector protein HopX1(Ea) and a putative secondary metabolite pathway only present in Rubus-infecting strains.Rachel A MannTheo H M SmitsAndreas BühlmannJochen BlomAlexander GoesmannJürg E FreyKim M PlummerSteven V BeerJoanne LuckBrion DuffyBrendan RodoniPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 8, Iss 2, p e55644 (2013)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Rachel A Mann Theo H M Smits Andreas Bühlmann Jochen Blom Alexander Goesmann Jürg E Frey Kim M Plummer Steven V Beer Joanne Luck Brion Duffy Brendan Rodoni Comparative genomics of 12 strains of Erwinia amylovora identifies a pan-genome with a large conserved core.
description	The plant pathogen Erwinia amylovora can be divided into two host-specific groupings; strains infecting a broad range of hosts within the Rosaceae subfamily Spiraeoideae (e.g., Malus, Pyrus, Crataegus, Sorbus) and strains infecting Rubus (raspberries and blackberries). Comparative genomic analysis of 12 strains representing distinct populations (e.g., geographic, temporal, host origin) of E. amylovora was used to describe the pan-genome of this major pathogen. The pan-genome contains 5751 coding sequences and is highly conserved relative to other phytopathogenic bacteria comprising on average 89% conserved, core genes. The chromosomes of Spiraeoideae-infecting strains were highly homogeneous, while greater genetic diversity was observed between Spiraeoideae- and Rubus-infecting strains (and among individual Rubus-infecting strains), the majority of which was attributed to variable genomic islands. Based on genomic distance scores and phylogenetic analysis, the Rubus-infecting strain ATCC BAA-2158 was genetically more closely related to the Spiraeoideae-infecting strains of E. amylovora than it was to the other Rubus-infecting strains. Analysis of the accessory genomes of Spiraeoideae- and Rubus-infecting strains has identified putative host-specific determinants including variation in the effector protein HopX1(Ea) and a putative secondary metabolite pathway only present in Rubus-infecting strains.
format	article
author	Rachel A Mann Theo H M Smits Andreas Bühlmann Jochen Blom Alexander Goesmann Jürg E Frey Kim M Plummer Steven V Beer Joanne Luck Brion Duffy Brendan Rodoni
author_facet	Rachel A Mann Theo H M Smits Andreas Bühlmann Jochen Blom Alexander Goesmann Jürg E Frey Kim M Plummer Steven V Beer Joanne Luck Brion Duffy Brendan Rodoni
author_sort	Rachel A Mann
title	Comparative genomics of 12 strains of Erwinia amylovora identifies a pan-genome with a large conserved core.
title_short	Comparative genomics of 12 strains of Erwinia amylovora identifies a pan-genome with a large conserved core.
title_full	Comparative genomics of 12 strains of Erwinia amylovora identifies a pan-genome with a large conserved core.
title_fullStr	Comparative genomics of 12 strains of Erwinia amylovora identifies a pan-genome with a large conserved core.
title_full_unstemmed	Comparative genomics of 12 strains of Erwinia amylovora identifies a pan-genome with a large conserved core.
title_sort	comparative genomics of 12 strains of erwinia amylovora identifies a pan-genome with a large conserved core.
publisher	Public Library of Science (PLoS)
publishDate	2013
url	https://doaj.org/article/0e8c265edfe045e8927509ac339fd7af
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Comparative genomics of 12 strains of Erwinia amylovora identifies a pan-genome with a large conserved core.

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