orf4 gene of the enterobacterial ICE, R391, encodes a novel UV-inducible recombination directionality factor, Jef, involved in excision and transfer of the ICE

The enterobacterial mobile genetic element R391, the prototype ICE (integrating-conjugative element) of the SXT/R391 family, shows increased conjugative transfer following UV irradiation. This is dependent on a functioning R391 orf4 gene, which is adjacent to the element encoded integrase gene, int....

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Veröffentlicht in:FEMS microbiology letters 2007-07, Vol.272 (1), p.99-105
Hauptverfasser: O'Halloran, John A, McGrath, Barry M, Pembroke, J. Tony
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McGrath, Barry M
Pembroke, J. Tony
description The enterobacterial mobile genetic element R391, the prototype ICE (integrating-conjugative element) of the SXT/R391 family, shows increased conjugative transfer following UV irradiation. This is dependent on a functioning R391 orf4 gene, which is adjacent to the element encoded integrase gene, int. orf4 mutants fail to form a detectable circular transfer intermediate, do not show UV induced transfer and show a much reduced general transfer ability. The orf4 gene product, termed Jef (IncJ excision factor), shows little homology to anything currently in the nucleotide or protein databases. It is predicted to encode a 66 amino acid, 8.03 kDa, basic, DNA-binding protein with an iso-electric point of pH 8.1: these characteristics being similar to those of recombinational directionality factors involved in excision. Jef expression is up-regulated upon UV irradiation as demonstrated by real-time reverse transcriptase PCR and is controlled by two element encoded genes orf90 and orf91, which show similarity to the transcriptional activator complex FlhC and FlhD. orf4, orf90 and orf91 are conserved in all the SXT/R391-like elements sequenced to date including SXT, ICESpuPO1 and ICEVchMex1. orf4 is also conserved in other SXT/R391 family members such as R997, R392, R705 and pMERPH as shown by sequencing amplicons from these ICEs generated using orf4 specific primers.
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Tony</creator><creatorcontrib>O'Halloran, John A ; McGrath, Barry M ; Pembroke, J. Tony</creatorcontrib><description>The enterobacterial mobile genetic element R391, the prototype ICE (integrating-conjugative element) of the SXT/R391 family, shows increased conjugative transfer following UV irradiation. This is dependent on a functioning R391 orf4 gene, which is adjacent to the element encoded integrase gene, int. orf4 mutants fail to form a detectable circular transfer intermediate, do not show UV induced transfer and show a much reduced general transfer ability. The orf4 gene product, termed Jef (IncJ excision factor), shows little homology to anything currently in the nucleotide or protein databases. It is predicted to encode a 66 amino acid, 8.03 kDa, basic, DNA-binding protein with an iso-electric point of pH 8.1: these characteristics being similar to those of recombinational directionality factors involved in excision. Jef expression is up-regulated upon UV irradiation as demonstrated by real-time reverse transcriptase PCR and is controlled by two element encoded genes orf90 and orf91, which show similarity to the transcriptional activator complex FlhC and FlhD. orf4, orf90 and orf91 are conserved in all the SXT/R391-like elements sequenced to date including SXT, ICESpuPO1 and ICEVchMex1. orf4 is also conserved in other SXT/R391 family members such as R997, R392, R705 and pMERPH as shown by sequencing amplicons from these ICEs generated using orf4 specific primers.</description><identifier>ISSN: 0378-1097</identifier><identifier>EISSN: 1574-6968</identifier><identifier>DOI: 10.1111/j.1574-6968.2007.00747.x</identifier><identifier>PMID: 17504243</identifier><identifier>CODEN: FMLED7</identifier><language>eng</language><publisher>Oxford, UK: Oxford, UK : Blackwell Publishing Ltd</publisher><subject>Amino Acid Sequence ; Amino acids ; Bacterial Proteins - biosynthesis ; Bacterial Proteins - genetics ; Bacterial Proteins - physiology ; Bacteriology ; Biological and medical sciences ; Conjugation, Genetic - genetics ; Conserved Sequence - genetics ; Deoxyribonucleic acid ; DNA ; DNA, Bacterial - chemistry ; DNA, Bacterial - genetics ; DNA-binding protein ; Enterobacteriaceae - genetics ; Enterobacteriaceae - physiology ; Enterobacteriaceae - radiation effects ; Fundamental and applied biological sciences. Psychology ; Gene Deletion ; Gene Expression Regulation, Bacterial ; Gene Transfer, Horizontal - genetics ; Genetics ; Homology ; Integrase ; Interspersed Repetitive Sequences ; Irradiation ; Isoelectric Point ; Microbiology ; Molecular Sequence Data ; Molecular Weight ; Mutagenesis, Insertional ; Nucleotides ; Orf4 gene ; Proteins ; Recombination ; recombination directionality factor Jef ; Recombination, Genetic ; Reverse Transcriptase Polymerase Chain Reaction ; RNA, Bacterial - biosynthesis ; RNA, Bacterial - genetics ; RNA, Messenger - biosynthesis ; RNA, Messenger - genetics ; RNA-directed DNA polymerase ; Sequence Analysis, DNA ; Sequence Homology ; SXT/R391 ICE elements ; Transcription ; Ultraviolet radiation ; Ultraviolet Rays ; UV-induced conjugative transfer</subject><ispartof>FEMS microbiology letters, 2007-07, Vol.272 (1), p.99-105</ispartof><rights>2007 Federation of European Microbiological Societies Published by Blackwell Publishing Ltd. 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Tony</creatorcontrib><title>orf4 gene of the enterobacterial ICE, R391, encodes a novel UV-inducible recombination directionality factor, Jef, involved in excision and transfer of the ICE</title><title>FEMS microbiology letters</title><addtitle>FEMS Microbiol Lett</addtitle><description>The enterobacterial mobile genetic element R391, the prototype ICE (integrating-conjugative element) of the SXT/R391 family, shows increased conjugative transfer following UV irradiation. This is dependent on a functioning R391 orf4 gene, which is adjacent to the element encoded integrase gene, int. orf4 mutants fail to form a detectable circular transfer intermediate, do not show UV induced transfer and show a much reduced general transfer ability. The orf4 gene product, termed Jef (IncJ excision factor), shows little homology to anything currently in the nucleotide or protein databases. It is predicted to encode a 66 amino acid, 8.03 kDa, basic, DNA-binding protein with an iso-electric point of pH 8.1: these characteristics being similar to those of recombinational directionality factors involved in excision. Jef expression is up-regulated upon UV irradiation as demonstrated by real-time reverse transcriptase PCR and is controlled by two element encoded genes orf90 and orf91, which show similarity to the transcriptional activator complex FlhC and FlhD. orf4, orf90 and orf91 are conserved in all the SXT/R391-like elements sequenced to date including SXT, ICESpuPO1 and ICEVchMex1. orf4 is also conserved in other SXT/R391 family members such as R997, R392, R705 and pMERPH as shown by sequencing amplicons from these ICEs generated using orf4 specific primers.</description><subject>Amino Acid Sequence</subject><subject>Amino acids</subject><subject>Bacterial Proteins - biosynthesis</subject><subject>Bacterial Proteins - genetics</subject><subject>Bacterial Proteins - physiology</subject><subject>Bacteriology</subject><subject>Biological and medical sciences</subject><subject>Conjugation, Genetic - genetics</subject><subject>Conserved Sequence - genetics</subject><subject>Deoxyribonucleic acid</subject><subject>DNA</subject><subject>DNA, Bacterial - chemistry</subject><subject>DNA, Bacterial - genetics</subject><subject>DNA-binding protein</subject><subject>Enterobacteriaceae - genetics</subject><subject>Enterobacteriaceae - physiology</subject><subject>Enterobacteriaceae - radiation effects</subject><subject>Fundamental and applied biological sciences. Psychology</subject><subject>Gene Deletion</subject><subject>Gene Expression Regulation, Bacterial</subject><subject>Gene Transfer, Horizontal - genetics</subject><subject>Genetics</subject><subject>Homology</subject><subject>Integrase</subject><subject>Interspersed Repetitive Sequences</subject><subject>Irradiation</subject><subject>Isoelectric Point</subject><subject>Microbiology</subject><subject>Molecular Sequence Data</subject><subject>Molecular Weight</subject><subject>Mutagenesis, Insertional</subject><subject>Nucleotides</subject><subject>Orf4 gene</subject><subject>Proteins</subject><subject>Recombination</subject><subject>recombination directionality factor Jef</subject><subject>Recombination, Genetic</subject><subject>Reverse Transcriptase Polymerase Chain Reaction</subject><subject>RNA, Bacterial - biosynthesis</subject><subject>RNA, Bacterial - genetics</subject><subject>RNA, Messenger - biosynthesis</subject><subject>RNA, Messenger - genetics</subject><subject>RNA-directed DNA polymerase</subject><subject>Sequence Analysis, DNA</subject><subject>Sequence Homology</subject><subject>SXT/R391 ICE elements</subject><subject>Transcription</subject><subject>Ultraviolet radiation</subject><subject>Ultraviolet Rays</subject><subject>UV-induced conjugative transfer</subject><issn>0378-1097</issn><issn>1574-6968</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2007</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>ABUWG</sourceid><sourceid>AFKRA</sourceid><sourceid>AZQEC</sourceid><sourceid>BENPR</sourceid><sourceid>CCPQU</sourceid><sourceid>DWQXO</sourceid><sourceid>GNUQQ</sourceid><recordid>eNp1km1v0zAQxyMEYmXwFcASgldN8EMSOxJvULXBUBESUN5ajnMertK4c5LSfhq-Kpe1YxIIS5bPut__fHe-JCGMZgzXm3XGCpmnZVWqjFMqM9y5zPYPktkfx8NkRoVUKaOVPEue9P2aUppzWj5Ozpgs0MzFLPkVosvJNXRAgiPDDyDQDRBDbSwe3rTkanExJ19ExebosqGBnhjShR20ZPU99V0zWl-3QCLYsKl9ZwYfOtJ4vE-Waf1wIA7DhTgnH8HNie92od1BgwaBvfX9JDBdQ4Zout5BvEsFn36aPHKm7eHZ6TxPVpcX3xYf0uXn91eLd8vU5aySKSssmIorlnOljLWK1UJIaTkvQVEjXQGsdopT6_IcTAm8sKV0JqdlUZRGiPPk9THuNoabEfpBb3xvoW1NB2HsNaeKllIoBF_-Ba7DGLFMZARGE9juKdzzEzXWG2j0NvqNiQd913gEXp0A01vTOqwcG3HPKVlV6pZ7e-R--hYO936qp0HQaz39t57-W0-DoG8HQe_15aclGigXR3kYt_8Rp_-IUfXiqHImaHMdMbHVV06ZQEDlJZfiN6gGvRc</recordid><startdate>200707</startdate><enddate>200707</enddate><creator>O'Halloran, John A</creator><creator>McGrath, Barry M</creator><creator>Pembroke, J. 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Tony</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-f4197-15cea92814288acc81b3377c226e80a7f5e1bf820cf44ea6e25c67fa406556a33</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2007</creationdate><topic>Amino Acid Sequence</topic><topic>Amino acids</topic><topic>Bacterial Proteins - biosynthesis</topic><topic>Bacterial Proteins - genetics</topic><topic>Bacterial Proteins - physiology</topic><topic>Bacteriology</topic><topic>Biological and medical sciences</topic><topic>Conjugation, Genetic - genetics</topic><topic>Conserved Sequence - genetics</topic><topic>Deoxyribonucleic acid</topic><topic>DNA</topic><topic>DNA, Bacterial - chemistry</topic><topic>DNA, Bacterial - genetics</topic><topic>DNA-binding protein</topic><topic>Enterobacteriaceae - genetics</topic><topic>Enterobacteriaceae - physiology</topic><topic>Enterobacteriaceae - radiation effects</topic><topic>Fundamental and applied biological sciences. Psychology</topic><topic>Gene Deletion</topic><topic>Gene Expression Regulation, Bacterial</topic><topic>Gene Transfer, Horizontal - genetics</topic><topic>Genetics</topic><topic>Homology</topic><topic>Integrase</topic><topic>Interspersed Repetitive Sequences</topic><topic>Irradiation</topic><topic>Isoelectric Point</topic><topic>Microbiology</topic><topic>Molecular Sequence Data</topic><topic>Molecular Weight</topic><topic>Mutagenesis, Insertional</topic><topic>Nucleotides</topic><topic>Orf4 gene</topic><topic>Proteins</topic><topic>Recombination</topic><topic>recombination directionality factor Jef</topic><topic>Recombination, Genetic</topic><topic>Reverse Transcriptase Polymerase Chain Reaction</topic><topic>RNA, Bacterial - biosynthesis</topic><topic>RNA, Bacterial - genetics</topic><topic>RNA, Messenger - biosynthesis</topic><topic>RNA, Messenger - genetics</topic><topic>RNA-directed DNA polymerase</topic><topic>Sequence Analysis, DNA</topic><topic>Sequence Homology</topic><topic>SXT/R391 ICE elements</topic><topic>Transcription</topic><topic>Ultraviolet radiation</topic><topic>Ultraviolet Rays</topic><topic>UV-induced conjugative transfer</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>O'Halloran, John A</creatorcontrib><creatorcontrib>McGrath, Barry M</creatorcontrib><creatorcontrib>Pembroke, J. 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Tony</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>orf4 gene of the enterobacterial ICE, R391, encodes a novel UV-inducible recombination directionality factor, Jef, involved in excision and transfer of the ICE</atitle><jtitle>FEMS microbiology letters</jtitle><addtitle>FEMS Microbiol Lett</addtitle><date>2007-07</date><risdate>2007</risdate><volume>272</volume><issue>1</issue><spage>99</spage><epage>105</epage><pages>99-105</pages><issn>0378-1097</issn><eissn>1574-6968</eissn><coden>FMLED7</coden><abstract>The enterobacterial mobile genetic element R391, the prototype ICE (integrating-conjugative element) of the SXT/R391 family, shows increased conjugative transfer following UV irradiation. This is dependent on a functioning R391 orf4 gene, which is adjacent to the element encoded integrase gene, int. orf4 mutants fail to form a detectable circular transfer intermediate, do not show UV induced transfer and show a much reduced general transfer ability. The orf4 gene product, termed Jef (IncJ excision factor), shows little homology to anything currently in the nucleotide or protein databases. It is predicted to encode a 66 amino acid, 8.03 kDa, basic, DNA-binding protein with an iso-electric point of pH 8.1: these characteristics being similar to those of recombinational directionality factors involved in excision. Jef expression is up-regulated upon UV irradiation as demonstrated by real-time reverse transcriptase PCR and is controlled by two element encoded genes orf90 and orf91, which show similarity to the transcriptional activator complex FlhC and FlhD. orf4, orf90 and orf91 are conserved in all the SXT/R391-like elements sequenced to date including SXT, ICESpuPO1 and ICEVchMex1. orf4 is also conserved in other SXT/R391 family members such as R997, R392, R705 and pMERPH as shown by sequencing amplicons from these ICEs generated using orf4 specific primers.</abstract><cop>Oxford, UK</cop><pub>Oxford, UK : Blackwell Publishing Ltd</pub><pmid>17504243</pmid><doi>10.1111/j.1574-6968.2007.00747.x</doi><tpages>7</tpages></addata></record>
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identifier ISSN: 0378-1097
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1574-6968
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source MEDLINE; Oxford University Press Journals All Titles (1996-Current); Wiley Online Library All Journals
subjects Amino Acid Sequence
Amino acids
Bacterial Proteins - biosynthesis
Bacterial Proteins - genetics
Bacterial Proteins - physiology
Bacteriology
Biological and medical sciences
Conjugation, Genetic - genetics
Conserved Sequence - genetics
Deoxyribonucleic acid
DNA
DNA, Bacterial - chemistry
DNA, Bacterial - genetics
DNA-binding protein
Enterobacteriaceae - genetics
Enterobacteriaceae - physiology
Enterobacteriaceae - radiation effects
Fundamental and applied biological sciences. Psychology
Gene Deletion
Gene Expression Regulation, Bacterial
Gene Transfer, Horizontal - genetics
Genetics
Homology
Integrase
Interspersed Repetitive Sequences
Irradiation
Isoelectric Point
Microbiology
Molecular Sequence Data
Molecular Weight
Mutagenesis, Insertional
Nucleotides
Orf4 gene
Proteins
Recombination
recombination directionality factor Jef
Recombination, Genetic
Reverse Transcriptase Polymerase Chain Reaction
RNA, Bacterial - biosynthesis
RNA, Bacterial - genetics
RNA, Messenger - biosynthesis
RNA, Messenger - genetics
RNA-directed DNA polymerase
Sequence Analysis, DNA
Sequence Homology
SXT/R391 ICE elements
Transcription
Ultraviolet radiation
Ultraviolet Rays
UV-induced conjugative transfer
title orf4 gene of the enterobacterial ICE, R391, encodes a novel UV-inducible recombination directionality factor, Jef, involved in excision and transfer of the ICE
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