Discovery of a novel filamentous prophage in the genome of the Mimosa pudica microsymbiont Cupriavidus taiwanensis STM 6018

Integrated virus genomes (prophages) are commonly found in sequenced bacterial genomes but have rarely been described in detail for rhizobial genomes. Cupriavidus taiwanensis STM 6018 is a rhizobial Betaproteobacteria strain that was isolated in 2006 from a root nodule of a Mimosa pudica host in Fre...
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Autor*in:	Agnieszka Klonowska [verfasserIn] Julie Ardley [verfasserIn] Lionel Moulin [verfasserIn] Jaco Zandberg [verfasserIn] Delphine Patrel [verfasserIn] Margaret Gollagher [verfasserIn] Dora Marinova [verfasserIn] T. B. K. Reddy [verfasserIn] Neha Varghese [verfasserIn] Marcel Huntemann [verfasserIn] Tanja Woyke [verfasserIn] Rekha Seshadri [verfasserIn] Natalia Ivanova [verfasserIn] Nikos Kyrpides [verfasserIn] Wayne Reeve [verfasserIn]

Format:	E-Artikel
Sprache:	Englisch

Erschienen:	2023

Schlagwörter:	Betaproteobacteria root-nodule bacteria bacteriophage filamentous phage symbiosis

Übergeordnetes Werk:	In: Frontiers in Microbiology - Frontiers Media S.A., 2011, 14(2023)
Übergeordnetes Werk:	volume:14 ; year:2023

Links:	Link aufrufen Link aufrufen Link aufrufen Journal toc

DOI / URN:	10.3389/fmicb.2023.1082107

Katalog-ID:	DOAJ088463184

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520			\|a Integrated virus genomes (prophages) are commonly found in sequenced bacterial genomes but have rarely been described in detail for rhizobial genomes. Cupriavidus taiwanensis STM 6018 is a rhizobial Betaproteobacteria strain that was isolated in 2006 from a root nodule of a Mimosa pudica host in French Guiana, South America. Here we describe features of the genome of STM 6018, focusing on the characterization of two different types of prophages that have been identified in its genome. The draft genome of STM 6018 is 6,553,639 bp, and consists of 80 scaffolds, containing 5,864 protein-coding genes and 61 RNA genes. STM 6018 contains all the nodulation and nitrogen fixation gene clusters common to symbiotic Cupriavidus species; sharing >99.97% bp identity homology to the nod/nif/noeM gene clusters from C. taiwanensis LMG19424T and “Cupriavidus neocalidonicus” STM 6070. The STM 6018 genome contains the genomes of two prophages: one complete Mu-like capsular phage and one filamentous phage, which integrates into a putative dif site. This is the first characterization of a filamentous phage found within the genome of a rhizobial strain. Further examination of sequenced rhizobial genomes identified filamentous prophage sequences in several Beta-rhizobial strains but not in any Alphaproteobacterial rhizobia.
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allfields	10.3389/fmicb.2023.1082107 doi (DE-627)DOAJ088463184 (DE-599)DOAJdd67c85b696044a0836ac93142578335 DE-627 ger DE-627 rakwb eng QR1-502 Agnieszka Klonowska verfasserin aut Discovery of a novel filamentous prophage in the genome of the Mimosa pudica microsymbiont Cupriavidus taiwanensis STM 6018 2023 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Integrated virus genomes (prophages) are commonly found in sequenced bacterial genomes but have rarely been described in detail for rhizobial genomes. Cupriavidus taiwanensis STM 6018 is a rhizobial Betaproteobacteria strain that was isolated in 2006 from a root nodule of a Mimosa pudica host in French Guiana, South America. Here we describe features of the genome of STM 6018, focusing on the characterization of two different types of prophages that have been identified in its genome. The draft genome of STM 6018 is 6,553,639 bp, and consists of 80 scaffolds, containing 5,864 protein-coding genes and 61 RNA genes. STM 6018 contains all the nodulation and nitrogen fixation gene clusters common to symbiotic Cupriavidus species; sharing >99.97% bp identity homology to the nod/nif/noeM gene clusters from C. taiwanensis LMG19424T and “Cupriavidus neocalidonicus” STM 6070. The STM 6018 genome contains the genomes of two prophages: one complete Mu-like capsular phage and one filamentous phage, which integrates into a putative dif site. This is the first characterization of a filamentous phage found within the genome of a rhizobial strain. Further examination of sequenced rhizobial genomes identified filamentous prophage sequences in several Beta-rhizobial strains but not in any Alphaproteobacterial rhizobia. Betaproteobacteria root-nodule bacteria bacteriophage filamentous phage symbiosis Microbiology Julie Ardley verfasserin aut Lionel Moulin verfasserin aut Jaco Zandberg verfasserin aut Delphine Patrel verfasserin aut Margaret Gollagher verfasserin aut Dora Marinova verfasserin aut T. B. K. Reddy verfasserin aut Neha Varghese verfasserin aut Marcel Huntemann verfasserin aut Tanja Woyke verfasserin aut Rekha Seshadri verfasserin aut Natalia Ivanova verfasserin aut Nikos Kyrpides verfasserin aut Wayne Reeve verfasserin aut In Frontiers in Microbiology Frontiers Media S.A., 2011 14(2023) (DE-627)642889384 (DE-600)2587354-4 1664302X nnns volume:14 year:2023 https://doi.org/10.3389/fmicb.2023.1082107 kostenfrei https://doaj.org/article/dd67c85b696044a0836ac93142578335 kostenfrei https://www.frontiersin.org/articles/10.3389/fmicb.2023.1082107/full kostenfrei https://doaj.org/toc/1664-302X Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_39 GBV_ILN_40 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2003 GBV_ILN_2014 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 14 2023
spelling	10.3389/fmicb.2023.1082107 doi (DE-627)DOAJ088463184 (DE-599)DOAJdd67c85b696044a0836ac93142578335 DE-627 ger DE-627 rakwb eng QR1-502 Agnieszka Klonowska verfasserin aut Discovery of a novel filamentous prophage in the genome of the Mimosa pudica microsymbiont Cupriavidus taiwanensis STM 6018 2023 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Integrated virus genomes (prophages) are commonly found in sequenced bacterial genomes but have rarely been described in detail for rhizobial genomes. Cupriavidus taiwanensis STM 6018 is a rhizobial Betaproteobacteria strain that was isolated in 2006 from a root nodule of a Mimosa pudica host in French Guiana, South America. Here we describe features of the genome of STM 6018, focusing on the characterization of two different types of prophages that have been identified in its genome. The draft genome of STM 6018 is 6,553,639 bp, and consists of 80 scaffolds, containing 5,864 protein-coding genes and 61 RNA genes. STM 6018 contains all the nodulation and nitrogen fixation gene clusters common to symbiotic Cupriavidus species; sharing >99.97% bp identity homology to the nod/nif/noeM gene clusters from C. taiwanensis LMG19424T and “Cupriavidus neocalidonicus” STM 6070. The STM 6018 genome contains the genomes of two prophages: one complete Mu-like capsular phage and one filamentous phage, which integrates into a putative dif site. This is the first characterization of a filamentous phage found within the genome of a rhizobial strain. Further examination of sequenced rhizobial genomes identified filamentous prophage sequences in several Beta-rhizobial strains but not in any Alphaproteobacterial rhizobia. Betaproteobacteria root-nodule bacteria bacteriophage filamentous phage symbiosis Microbiology Julie Ardley verfasserin aut Lionel Moulin verfasserin aut Jaco Zandberg verfasserin aut Delphine Patrel verfasserin aut Margaret Gollagher verfasserin aut Dora Marinova verfasserin aut T. B. K. Reddy verfasserin aut Neha Varghese verfasserin aut Marcel Huntemann verfasserin aut Tanja Woyke verfasserin aut Rekha Seshadri verfasserin aut Natalia Ivanova verfasserin aut Nikos Kyrpides verfasserin aut Wayne Reeve verfasserin aut In Frontiers in Microbiology Frontiers Media S.A., 2011 14(2023) (DE-627)642889384 (DE-600)2587354-4 1664302X nnns volume:14 year:2023 https://doi.org/10.3389/fmicb.2023.1082107 kostenfrei https://doaj.org/article/dd67c85b696044a0836ac93142578335 kostenfrei https://www.frontiersin.org/articles/10.3389/fmicb.2023.1082107/full kostenfrei https://doaj.org/toc/1664-302X Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_39 GBV_ILN_40 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2003 GBV_ILN_2014 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 14 2023
allfields_unstemmed	10.3389/fmicb.2023.1082107 doi (DE-627)DOAJ088463184 (DE-599)DOAJdd67c85b696044a0836ac93142578335 DE-627 ger DE-627 rakwb eng QR1-502 Agnieszka Klonowska verfasserin aut Discovery of a novel filamentous prophage in the genome of the Mimosa pudica microsymbiont Cupriavidus taiwanensis STM 6018 2023 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Integrated virus genomes (prophages) are commonly found in sequenced bacterial genomes but have rarely been described in detail for rhizobial genomes. Cupriavidus taiwanensis STM 6018 is a rhizobial Betaproteobacteria strain that was isolated in 2006 from a root nodule of a Mimosa pudica host in French Guiana, South America. Here we describe features of the genome of STM 6018, focusing on the characterization of two different types of prophages that have been identified in its genome. The draft genome of STM 6018 is 6,553,639 bp, and consists of 80 scaffolds, containing 5,864 protein-coding genes and 61 RNA genes. STM 6018 contains all the nodulation and nitrogen fixation gene clusters common to symbiotic Cupriavidus species; sharing >99.97% bp identity homology to the nod/nif/noeM gene clusters from C. taiwanensis LMG19424T and “Cupriavidus neocalidonicus” STM 6070. The STM 6018 genome contains the genomes of two prophages: one complete Mu-like capsular phage and one filamentous phage, which integrates into a putative dif site. This is the first characterization of a filamentous phage found within the genome of a rhizobial strain. Further examination of sequenced rhizobial genomes identified filamentous prophage sequences in several Beta-rhizobial strains but not in any Alphaproteobacterial rhizobia. Betaproteobacteria root-nodule bacteria bacteriophage filamentous phage symbiosis Microbiology Julie Ardley verfasserin aut Lionel Moulin verfasserin aut Jaco Zandberg verfasserin aut Delphine Patrel verfasserin aut Margaret Gollagher verfasserin aut Dora Marinova verfasserin aut T. B. K. Reddy verfasserin aut Neha Varghese verfasserin aut Marcel Huntemann verfasserin aut Tanja Woyke verfasserin aut Rekha Seshadri verfasserin aut Natalia Ivanova verfasserin aut Nikos Kyrpides verfasserin aut Wayne Reeve verfasserin aut In Frontiers in Microbiology Frontiers Media S.A., 2011 14(2023) (DE-627)642889384 (DE-600)2587354-4 1664302X nnns volume:14 year:2023 https://doi.org/10.3389/fmicb.2023.1082107 kostenfrei https://doaj.org/article/dd67c85b696044a0836ac93142578335 kostenfrei https://www.frontiersin.org/articles/10.3389/fmicb.2023.1082107/full kostenfrei https://doaj.org/toc/1664-302X Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_39 GBV_ILN_40 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2003 GBV_ILN_2014 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 14 2023
allfieldsGer	10.3389/fmicb.2023.1082107 doi (DE-627)DOAJ088463184 (DE-599)DOAJdd67c85b696044a0836ac93142578335 DE-627 ger DE-627 rakwb eng QR1-502 Agnieszka Klonowska verfasserin aut Discovery of a novel filamentous prophage in the genome of the Mimosa pudica microsymbiont Cupriavidus taiwanensis STM 6018 2023 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Integrated virus genomes (prophages) are commonly found in sequenced bacterial genomes but have rarely been described in detail for rhizobial genomes. Cupriavidus taiwanensis STM 6018 is a rhizobial Betaproteobacteria strain that was isolated in 2006 from a root nodule of a Mimosa pudica host in French Guiana, South America. Here we describe features of the genome of STM 6018, focusing on the characterization of two different types of prophages that have been identified in its genome. The draft genome of STM 6018 is 6,553,639 bp, and consists of 80 scaffolds, containing 5,864 protein-coding genes and 61 RNA genes. STM 6018 contains all the nodulation and nitrogen fixation gene clusters common to symbiotic Cupriavidus species; sharing >99.97% bp identity homology to the nod/nif/noeM gene clusters from C. taiwanensis LMG19424T and “Cupriavidus neocalidonicus” STM 6070. The STM 6018 genome contains the genomes of two prophages: one complete Mu-like capsular phage and one filamentous phage, which integrates into a putative dif site. This is the first characterization of a filamentous phage found within the genome of a rhizobial strain. Further examination of sequenced rhizobial genomes identified filamentous prophage sequences in several Beta-rhizobial strains but not in any Alphaproteobacterial rhizobia. Betaproteobacteria root-nodule bacteria bacteriophage filamentous phage symbiosis Microbiology Julie Ardley verfasserin aut Lionel Moulin verfasserin aut Jaco Zandberg verfasserin aut Delphine Patrel verfasserin aut Margaret Gollagher verfasserin aut Dora Marinova verfasserin aut T. B. K. Reddy verfasserin aut Neha Varghese verfasserin aut Marcel Huntemann verfasserin aut Tanja Woyke verfasserin aut Rekha Seshadri verfasserin aut Natalia Ivanova verfasserin aut Nikos Kyrpides verfasserin aut Wayne Reeve verfasserin aut In Frontiers in Microbiology Frontiers Media S.A., 2011 14(2023) (DE-627)642889384 (DE-600)2587354-4 1664302X nnns volume:14 year:2023 https://doi.org/10.3389/fmicb.2023.1082107 kostenfrei https://doaj.org/article/dd67c85b696044a0836ac93142578335 kostenfrei https://www.frontiersin.org/articles/10.3389/fmicb.2023.1082107/full kostenfrei https://doaj.org/toc/1664-302X Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_39 GBV_ILN_40 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2003 GBV_ILN_2014 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 14 2023
allfieldsSound	10.3389/fmicb.2023.1082107 doi (DE-627)DOAJ088463184 (DE-599)DOAJdd67c85b696044a0836ac93142578335 DE-627 ger DE-627 rakwb eng QR1-502 Agnieszka Klonowska verfasserin aut Discovery of a novel filamentous prophage in the genome of the Mimosa pudica microsymbiont Cupriavidus taiwanensis STM 6018 2023 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Integrated virus genomes (prophages) are commonly found in sequenced bacterial genomes but have rarely been described in detail for rhizobial genomes. Cupriavidus taiwanensis STM 6018 is a rhizobial Betaproteobacteria strain that was isolated in 2006 from a root nodule of a Mimosa pudica host in French Guiana, South America. Here we describe features of the genome of STM 6018, focusing on the characterization of two different types of prophages that have been identified in its genome. The draft genome of STM 6018 is 6,553,639 bp, and consists of 80 scaffolds, containing 5,864 protein-coding genes and 61 RNA genes. STM 6018 contains all the nodulation and nitrogen fixation gene clusters common to symbiotic Cupriavidus species; sharing >99.97% bp identity homology to the nod/nif/noeM gene clusters from C. taiwanensis LMG19424T and “Cupriavidus neocalidonicus” STM 6070. The STM 6018 genome contains the genomes of two prophages: one complete Mu-like capsular phage and one filamentous phage, which integrates into a putative dif site. This is the first characterization of a filamentous phage found within the genome of a rhizobial strain. Further examination of sequenced rhizobial genomes identified filamentous prophage sequences in several Beta-rhizobial strains but not in any Alphaproteobacterial rhizobia. Betaproteobacteria root-nodule bacteria bacteriophage filamentous phage symbiosis Microbiology Julie Ardley verfasserin aut Lionel Moulin verfasserin aut Jaco Zandberg verfasserin aut Delphine Patrel verfasserin aut Margaret Gollagher verfasserin aut Dora Marinova verfasserin aut T. B. K. Reddy verfasserin aut Neha Varghese verfasserin aut Marcel Huntemann verfasserin aut Tanja Woyke verfasserin aut Rekha Seshadri verfasserin aut Natalia Ivanova verfasserin aut Nikos Kyrpides verfasserin aut Wayne Reeve verfasserin aut In Frontiers in Microbiology Frontiers Media S.A., 2011 14(2023) (DE-627)642889384 (DE-600)2587354-4 1664302X nnns volume:14 year:2023 https://doi.org/10.3389/fmicb.2023.1082107 kostenfrei https://doaj.org/article/dd67c85b696044a0836ac93142578335 kostenfrei https://www.frontiersin.org/articles/10.3389/fmicb.2023.1082107/full kostenfrei https://doaj.org/toc/1664-302X Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_39 GBV_ILN_40 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2003 GBV_ILN_2014 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 14 2023
language	English
source	In Frontiers in Microbiology 14(2023) volume:14 year:2023
sourceStr	In Frontiers in Microbiology 14(2023) volume:14 year:2023
format_phy_str_mv	Article
institution	findex.gbv.de
topic_facet	Betaproteobacteria root-nodule bacteria bacteriophage filamentous phage symbiosis Microbiology
isfreeaccess_bool	true
container_title	Frontiers in Microbiology
authorswithroles_txt_mv	Agnieszka Klonowska @@aut@@ Julie Ardley @@aut@@ Lionel Moulin @@aut@@ Jaco Zandberg @@aut@@ Delphine Patrel @@aut@@ Margaret Gollagher @@aut@@ Dora Marinova @@aut@@ T. B. K. Reddy @@aut@@ Neha Varghese @@aut@@ Marcel Huntemann @@aut@@ Tanja Woyke @@aut@@ Rekha Seshadri @@aut@@ Natalia Ivanova @@aut@@ Nikos Kyrpides @@aut@@ Wayne Reeve @@aut@@
publishDateDaySort_date	2023-01-01T00:00:00Z
hierarchy_top_id	642889384
id	DOAJ088463184
language_de	englisch
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callnumber-first	Q - Science
author	Agnieszka Klonowska
spellingShingle	Agnieszka Klonowska misc QR1-502 misc Betaproteobacteria misc root-nodule bacteria misc bacteriophage misc filamentous phage misc symbiosis misc Microbiology Discovery of a novel filamentous prophage in the genome of the Mimosa pudica microsymbiont Cupriavidus taiwanensis STM 6018
authorStr	Agnieszka Klonowska
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topic_title	QR1-502 Discovery of a novel filamentous prophage in the genome of the Mimosa pudica microsymbiont Cupriavidus taiwanensis STM 6018 Betaproteobacteria root-nodule bacteria bacteriophage filamentous phage symbiosis
topic	misc QR1-502 misc Betaproteobacteria misc root-nodule bacteria misc bacteriophage misc filamentous phage misc symbiosis misc Microbiology
topic_unstemmed	misc QR1-502 misc Betaproteobacteria misc root-nodule bacteria misc bacteriophage misc filamentous phage misc symbiosis misc Microbiology
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title	Discovery of a novel filamentous prophage in the genome of the Mimosa pudica microsymbiont Cupriavidus taiwanensis STM 6018
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title_full	Discovery of a novel filamentous prophage in the genome of the Mimosa pudica microsymbiont Cupriavidus taiwanensis STM 6018
author_sort	Agnieszka Klonowska
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author_browse	Agnieszka Klonowska Julie Ardley Lionel Moulin Jaco Zandberg Delphine Patrel Margaret Gollagher Dora Marinova T. B. K. Reddy Neha Varghese Marcel Huntemann Tanja Woyke Rekha Seshadri Natalia Ivanova Nikos Kyrpides Wayne Reeve
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title_sort	discovery of a novel filamentous prophage in the genome of the mimosa pudica microsymbiont cupriavidus taiwanensis stm 6018
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title_auth	Discovery of a novel filamentous prophage in the genome of the Mimosa pudica microsymbiont Cupriavidus taiwanensis STM 6018
abstract	Integrated virus genomes (prophages) are commonly found in sequenced bacterial genomes but have rarely been described in detail for rhizobial genomes. Cupriavidus taiwanensis STM 6018 is a rhizobial Betaproteobacteria strain that was isolated in 2006 from a root nodule of a Mimosa pudica host in French Guiana, South America. Here we describe features of the genome of STM 6018, focusing on the characterization of two different types of prophages that have been identified in its genome. The draft genome of STM 6018 is 6,553,639 bp, and consists of 80 scaffolds, containing 5,864 protein-coding genes and 61 RNA genes. STM 6018 contains all the nodulation and nitrogen fixation gene clusters common to symbiotic Cupriavidus species; sharing >99.97% bp identity homology to the nod/nif/noeM gene clusters from C. taiwanensis LMG19424T and “Cupriavidus neocalidonicus” STM 6070. The STM 6018 genome contains the genomes of two prophages: one complete Mu-like capsular phage and one filamentous phage, which integrates into a putative dif site. This is the first characterization of a filamentous phage found within the genome of a rhizobial strain. Further examination of sequenced rhizobial genomes identified filamentous prophage sequences in several Beta-rhizobial strains but not in any Alphaproteobacterial rhizobia.
abstractGer	Integrated virus genomes (prophages) are commonly found in sequenced bacterial genomes but have rarely been described in detail for rhizobial genomes. Cupriavidus taiwanensis STM 6018 is a rhizobial Betaproteobacteria strain that was isolated in 2006 from a root nodule of a Mimosa pudica host in French Guiana, South America. Here we describe features of the genome of STM 6018, focusing on the characterization of two different types of prophages that have been identified in its genome. The draft genome of STM 6018 is 6,553,639 bp, and consists of 80 scaffolds, containing 5,864 protein-coding genes and 61 RNA genes. STM 6018 contains all the nodulation and nitrogen fixation gene clusters common to symbiotic Cupriavidus species; sharing >99.97% bp identity homology to the nod/nif/noeM gene clusters from C. taiwanensis LMG19424T and “Cupriavidus neocalidonicus” STM 6070. The STM 6018 genome contains the genomes of two prophages: one complete Mu-like capsular phage and one filamentous phage, which integrates into a putative dif site. This is the first characterization of a filamentous phage found within the genome of a rhizobial strain. Further examination of sequenced rhizobial genomes identified filamentous prophage sequences in several Beta-rhizobial strains but not in any Alphaproteobacterial rhizobia.
abstract_unstemmed	Integrated virus genomes (prophages) are commonly found in sequenced bacterial genomes but have rarely been described in detail for rhizobial genomes. Cupriavidus taiwanensis STM 6018 is a rhizobial Betaproteobacteria strain that was isolated in 2006 from a root nodule of a Mimosa pudica host in French Guiana, South America. Here we describe features of the genome of STM 6018, focusing on the characterization of two different types of prophages that have been identified in its genome. The draft genome of STM 6018 is 6,553,639 bp, and consists of 80 scaffolds, containing 5,864 protein-coding genes and 61 RNA genes. STM 6018 contains all the nodulation and nitrogen fixation gene clusters common to symbiotic Cupriavidus species; sharing >99.97% bp identity homology to the nod/nif/noeM gene clusters from C. taiwanensis LMG19424T and “Cupriavidus neocalidonicus” STM 6070. The STM 6018 genome contains the genomes of two prophages: one complete Mu-like capsular phage and one filamentous phage, which integrates into a putative dif site. This is the first characterization of a filamentous phage found within the genome of a rhizobial strain. Further examination of sequenced rhizobial genomes identified filamentous prophage sequences in several Beta-rhizobial strains but not in any Alphaproteobacterial rhizobia.
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title_short	Discovery of a novel filamentous prophage in the genome of the Mimosa pudica microsymbiont Cupriavidus taiwanensis STM 6018
url	https://doi.org/10.3389/fmicb.2023.1082107 https://doaj.org/article/dd67c85b696044a0836ac93142578335 https://www.frontiersin.org/articles/10.3389/fmicb.2023.1082107/full https://doaj.org/toc/1664-302X
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author2	Julie Ardley Lionel Moulin Jaco Zandberg Delphine Patrel Margaret Gollagher Dora Marinova T. B. K. Reddy Neha Varghese Marcel Huntemann Tanja Woyke Rekha Seshadri Natalia Ivanova Nikos Kyrpides Wayne Reeve
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up_date	2024-07-03T17:48:47.908Z
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Discovery of a novel filamentous prophage in the genome of the Mimosa pudica microsymbiont Cupriavidus taiwanensis STM 6018

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