Proteome variability among Helicobacter pylori isolates clustered according to genomic methylation
Aims To understand whether the variability found in the proteome of Helicobacter pylori relates to the genomic methylation, virulence and associated gastric disease. Methods and Results We applied the Minimum‐Common‐Restriction‐Modification (MCRM) algorithm to genomic methylation data of 30 Portugue...
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| Veröffentlicht in: | Journal of applied microbiology 2013-06, Vol.114 (6), p.1817-1832 |
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| container_title | Journal of applied microbiology |
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| creator | Vitoriano, I. Vítor, J.M.B. Oleastro, M. Roxo‐Rosa, M. Vale, F.F. |
| description | Aims
To understand whether the variability found in the proteome of Helicobacter pylori relates to the genomic methylation, virulence and associated gastric disease.
Methods and Results
We applied the Minimum‐Common‐Restriction‐Modification (MCRM) algorithm to genomic methylation data of 30 Portuguese H. pylori strains, obtained by genome sensitivity to Type II restriction enzymes' digestion. All the generated dendrograms presented three clusters with no association with gastric disease. Comparative analysis of two‐dimensional gel electrophoresis (2DE) maps obtained for total protein extracts of 10 of these strains, representative of the three main clusters, revealed that among 70 matched protein spots (in a universe of 300), 16 were differently abundant (P |
| doi_str_mv | 10.1111/jam.12187 |
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| fullrecord | <record><control><sourceid>proquest_cross</sourceid><recordid>TN_cdi_proquest_miscellaneous_1367491012</recordid><sourceformat>XML</sourceformat><sourcesystem>PC</sourcesystem><sourcerecordid>3070045861</sourcerecordid><originalsourceid>FETCH-LOGICAL-c4167-df9f90b7ddd17e5688a1a94e2377e70e629cce0180390f1f4eb50a6f380a20f63</originalsourceid><addsrcrecordid>eNqN0U1rFTEUBuAgiq3VhX9AAiLoYtp8TJLJshS1Sktd6DpkMic1l8zkmswo8--b23u1IAhmkxCenMPJi9BLSk5pXWcbO55SRjv1CB1TLkXDpGKP789tI4hiR-hZKRtCKCdCPkVHjLcdEVofo_5LTjOkEfBPm4PtQwzziu2Yplt8CTG41Fs3Q8bbNaYccCgp2hkKdnEp9R4GbJ1LeQj1wZzwLUxpDA6PMH9fqwxpeo6eeBsLvDjsJ-jbh_dfLy6bq5uPny7OrxrXUqmawWuvSa-GYaAKhOw6S61ugXGlQBGQTDsHhHaEa-Kpb6EXxErPO2IZ8ZKfoLf7utucfixQZjOG4iBGO0Faiqm_oVpNCWX_QQUnLSd6R1__RTdpyVMdxNCWU60UE6Kqd3vlciolgzfbHEabV0OJ2WVkakbmPqNqXx0qLv0Iwx_5O5QK3hyALc5Gn-3kQnlwiktN1a7Q2d79ChHWf3c0n8-v963vAKKcp_E</addsrcrecordid><sourcetype>Aggregation Database</sourcetype><iscdi>true</iscdi><recordtype>article</recordtype><pqid>1431977255</pqid></control><display><type>article</type><title>Proteome variability among Helicobacter pylori isolates clustered according to genomic methylation</title><source>Wiley Online Library - AutoHoldings Journals</source><source>MEDLINE</source><source>Oxford University Press Journals All Titles (1996-Current)</source><creator>Vitoriano, I. ; Vítor, J.M.B. ; Oleastro, M. ; Roxo‐Rosa, M. ; Vale, F.F.</creator><creatorcontrib>Vitoriano, I. ; Vítor, J.M.B. ; Oleastro, M. ; Roxo‐Rosa, M. ; Vale, F.F.</creatorcontrib><description>Aims
To understand whether the variability found in the proteome of Helicobacter pylori relates to the genomic methylation, virulence and associated gastric disease.
Methods and Results
We applied the Minimum‐Common‐Restriction‐Modification (MCRM) algorithm to genomic methylation data of 30 Portuguese H. pylori strains, obtained by genome sensitivity to Type II restriction enzymes' digestion. All the generated dendrograms presented three clusters with no association with gastric disease. Comparative analysis of two‐dimensional gel electrophoresis (2DE) maps obtained for total protein extracts of 10 of these strains, representative of the three main clusters, revealed that among 70 matched protein spots (in a universe of 300), 16 were differently abundant (P < 0·05) among clusters. Of these, 13 proteins appear to be related to the cagA genotype or gastric disease. The abundance of three protein species, DnaK, GlnA and HylB, appeared to be dictated by the methylation status of their gene promoter.
Conclusions
Variations in the proteome profile of strains with common geographic origin appear to be related to differences in cagA genotype or gastric disease, rather than to clusters organized according to strain genomic methylation.
Significance and Impact of the Study
The simultaneous study of the genomic methylation and proteome is important to correlate epigenetic modifications with gene expression and pathogen virulence.</description><identifier>ISSN: 1364-5072</identifier><identifier>EISSN: 1365-2672</identifier><identifier>DOI: 10.1111/jam.12187</identifier><identifier>PMID: 23480599</identifier><identifier>CODEN: JAMIFK</identifier><language>eng</language><publisher>Oxford: Blackwell</publisher><subject>Bacterial Proteins - analysis ; Bacterial Proteins - genetics ; Biological and medical sciences ; Cluster Analysis ; DNA Methylation ; Fundamental and applied biological sciences. Psychology ; Gastrointestinal diseases ; Genome, Bacterial ; Genomics ; genotyping ; Helicobacter ; Helicobacter Infections - microbiology ; Helicobacter pylori ; Helicobacter pylori - genetics ; Helicobacter pylori - isolation & purification ; Helicobacter pylori - pathogenicity ; Humans ; microbial phylogenetics ; Microbiology ; molecular genetic ; Promoter Regions, Genetic ; Proteome - analysis ; Proteome - genetics ; proteomics ; Stomach Diseases - microbiology ; Virulence - genetics</subject><ispartof>Journal of applied microbiology, 2013-06, Vol.114 (6), p.1817-1832</ispartof><rights>2013 The Society for Applied Microbiology</rights><rights>2014 INIST-CNRS</rights><rights>2013 The Society for Applied Microbiology.</rights><rights>Copyright © 2013 The Society for Applied Microbiology</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c4167-df9f90b7ddd17e5688a1a94e2377e70e629cce0180390f1f4eb50a6f380a20f63</citedby><cites>FETCH-LOGICAL-c4167-df9f90b7ddd17e5688a1a94e2377e70e629cce0180390f1f4eb50a6f380a20f63</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://onlinelibrary.wiley.com/doi/pdf/10.1111%2Fjam.12187$$EPDF$$P50$$Gwiley$$H</linktopdf><linktohtml>$$Uhttps://onlinelibrary.wiley.com/doi/full/10.1111%2Fjam.12187$$EHTML$$P50$$Gwiley$$H</linktohtml><link.rule.ids>314,780,784,1417,27924,27925,45574,45575</link.rule.ids><backlink>$$Uhttp://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=27369177$$DView record in Pascal Francis$$Hfree_for_read</backlink><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/23480599$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Vitoriano, I.</creatorcontrib><creatorcontrib>Vítor, J.M.B.</creatorcontrib><creatorcontrib>Oleastro, M.</creatorcontrib><creatorcontrib>Roxo‐Rosa, M.</creatorcontrib><creatorcontrib>Vale, F.F.</creatorcontrib><title>Proteome variability among Helicobacter pylori isolates clustered according to genomic methylation</title><title>Journal of applied microbiology</title><addtitle>J Appl Microbiol</addtitle><description>Aims
To understand whether the variability found in the proteome of Helicobacter pylori relates to the genomic methylation, virulence and associated gastric disease.
Methods and Results
We applied the Minimum‐Common‐Restriction‐Modification (MCRM) algorithm to genomic methylation data of 30 Portuguese H. pylori strains, obtained by genome sensitivity to Type II restriction enzymes' digestion. All the generated dendrograms presented three clusters with no association with gastric disease. Comparative analysis of two‐dimensional gel electrophoresis (2DE) maps obtained for total protein extracts of 10 of these strains, representative of the three main clusters, revealed that among 70 matched protein spots (in a universe of 300), 16 were differently abundant (P < 0·05) among clusters. Of these, 13 proteins appear to be related to the cagA genotype or gastric disease. The abundance of three protein species, DnaK, GlnA and HylB, appeared to be dictated by the methylation status of their gene promoter.
Conclusions
Variations in the proteome profile of strains with common geographic origin appear to be related to differences in cagA genotype or gastric disease, rather than to clusters organized according to strain genomic methylation.
Significance and Impact of the Study
The simultaneous study of the genomic methylation and proteome is important to correlate epigenetic modifications with gene expression and pathogen virulence.</description><subject>Bacterial Proteins - analysis</subject><subject>Bacterial Proteins - genetics</subject><subject>Biological and medical sciences</subject><subject>Cluster Analysis</subject><subject>DNA Methylation</subject><subject>Fundamental and applied biological sciences. Psychology</subject><subject>Gastrointestinal diseases</subject><subject>Genome, Bacterial</subject><subject>Genomics</subject><subject>genotyping</subject><subject>Helicobacter</subject><subject>Helicobacter Infections - microbiology</subject><subject>Helicobacter pylori</subject><subject>Helicobacter pylori - genetics</subject><subject>Helicobacter pylori - isolation & purification</subject><subject>Helicobacter pylori - pathogenicity</subject><subject>Humans</subject><subject>microbial phylogenetics</subject><subject>Microbiology</subject><subject>molecular genetic</subject><subject>Promoter Regions, Genetic</subject><subject>Proteome - analysis</subject><subject>Proteome - genetics</subject><subject>proteomics</subject><subject>Stomach Diseases - microbiology</subject><subject>Virulence - genetics</subject><issn>1364-5072</issn><issn>1365-2672</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2013</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqN0U1rFTEUBuAgiq3VhX9AAiLoYtp8TJLJshS1Sktd6DpkMic1l8zkmswo8--b23u1IAhmkxCenMPJi9BLSk5pXWcbO55SRjv1CB1TLkXDpGKP789tI4hiR-hZKRtCKCdCPkVHjLcdEVofo_5LTjOkEfBPm4PtQwzziu2Yplt8CTG41Fs3Q8bbNaYccCgp2hkKdnEp9R4GbJ1LeQj1wZzwLUxpDA6PMH9fqwxpeo6eeBsLvDjsJ-jbh_dfLy6bq5uPny7OrxrXUqmawWuvSa-GYaAKhOw6S61ugXGlQBGQTDsHhHaEa-Kpb6EXxErPO2IZ8ZKfoLf7utucfixQZjOG4iBGO0Faiqm_oVpNCWX_QQUnLSd6R1__RTdpyVMdxNCWU60UE6Kqd3vlciolgzfbHEabV0OJ2WVkakbmPqNqXx0qLv0Iwx_5O5QK3hyALc5Gn-3kQnlwiktN1a7Q2d79ChHWf3c0n8-v963vAKKcp_E</recordid><startdate>201306</startdate><enddate>201306</enddate><creator>Vitoriano, I.</creator><creator>Vítor, J.M.B.</creator><creator>Oleastro, M.</creator><creator>Roxo‐Rosa, M.</creator><creator>Vale, F.F.</creator><general>Blackwell</general><general>Oxford University Press</general><scope>IQODW</scope><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7QL</scope><scope>7QO</scope><scope>7T7</scope><scope>7TM</scope><scope>7U7</scope><scope>8FD</scope><scope>C1K</scope><scope>FR3</scope><scope>M7N</scope><scope>P64</scope><scope>RC3</scope><scope>7X8</scope></search><sort><creationdate>201306</creationdate><title>Proteome variability among Helicobacter pylori isolates clustered according to genomic methylation</title><author>Vitoriano, I. ; Vítor, J.M.B. ; Oleastro, M. ; Roxo‐Rosa, M. ; Vale, F.F.</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c4167-df9f90b7ddd17e5688a1a94e2377e70e629cce0180390f1f4eb50a6f380a20f63</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2013</creationdate><topic>Bacterial Proteins - analysis</topic><topic>Bacterial Proteins - genetics</topic><topic>Biological and medical sciences</topic><topic>Cluster Analysis</topic><topic>DNA Methylation</topic><topic>Fundamental and applied biological sciences. Psychology</topic><topic>Gastrointestinal diseases</topic><topic>Genome, Bacterial</topic><topic>Genomics</topic><topic>genotyping</topic><topic>Helicobacter</topic><topic>Helicobacter Infections - microbiology</topic><topic>Helicobacter pylori</topic><topic>Helicobacter pylori - genetics</topic><topic>Helicobacter pylori - isolation & purification</topic><topic>Helicobacter pylori - pathogenicity</topic><topic>Humans</topic><topic>microbial phylogenetics</topic><topic>Microbiology</topic><topic>molecular genetic</topic><topic>Promoter Regions, Genetic</topic><topic>Proteome - analysis</topic><topic>Proteome - genetics</topic><topic>proteomics</topic><topic>Stomach Diseases - microbiology</topic><topic>Virulence - genetics</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Vitoriano, I.</creatorcontrib><creatorcontrib>Vítor, J.M.B.</creatorcontrib><creatorcontrib>Oleastro, M.</creatorcontrib><creatorcontrib>Roxo‐Rosa, M.</creatorcontrib><creatorcontrib>Vale, F.F.</creatorcontrib><collection>Pascal-Francis</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Bacteriology Abstracts (Microbiology B)</collection><collection>Biotechnology Research Abstracts</collection><collection>Industrial and Applied Microbiology Abstracts (Microbiology A)</collection><collection>Nucleic Acids Abstracts</collection><collection>Toxicology Abstracts</collection><collection>Technology Research Database</collection><collection>Environmental Sciences and Pollution Management</collection><collection>Engineering Research Database</collection><collection>Algology Mycology and Protozoology Abstracts (Microbiology C)</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><jtitle>Journal of applied microbiology</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Vitoriano, I.</au><au>Vítor, J.M.B.</au><au>Oleastro, M.</au><au>Roxo‐Rosa, M.</au><au>Vale, F.F.</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Proteome variability among Helicobacter pylori isolates clustered according to genomic methylation</atitle><jtitle>Journal of applied microbiology</jtitle><addtitle>J Appl Microbiol</addtitle><date>2013-06</date><risdate>2013</risdate><volume>114</volume><issue>6</issue><spage>1817</spage><epage>1832</epage><pages>1817-1832</pages><issn>1364-5072</issn><eissn>1365-2672</eissn><coden>JAMIFK</coden><abstract>Aims
To understand whether the variability found in the proteome of Helicobacter pylori relates to the genomic methylation, virulence and associated gastric disease.
Methods and Results
We applied the Minimum‐Common‐Restriction‐Modification (MCRM) algorithm to genomic methylation data of 30 Portuguese H. pylori strains, obtained by genome sensitivity to Type II restriction enzymes' digestion. All the generated dendrograms presented three clusters with no association with gastric disease. Comparative analysis of two‐dimensional gel electrophoresis (2DE) maps obtained for total protein extracts of 10 of these strains, representative of the three main clusters, revealed that among 70 matched protein spots (in a universe of 300), 16 were differently abundant (P < 0·05) among clusters. Of these, 13 proteins appear to be related to the cagA genotype or gastric disease. The abundance of three protein species, DnaK, GlnA and HylB, appeared to be dictated by the methylation status of their gene promoter.
Conclusions
Variations in the proteome profile of strains with common geographic origin appear to be related to differences in cagA genotype or gastric disease, rather than to clusters organized according to strain genomic methylation.
Significance and Impact of the Study
The simultaneous study of the genomic methylation and proteome is important to correlate epigenetic modifications with gene expression and pathogen virulence.</abstract><cop>Oxford</cop><pub>Blackwell</pub><pmid>23480599</pmid><doi>10.1111/jam.12187</doi><tpages>16</tpages></addata></record> |
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| source | Wiley Online Library - AutoHoldings Journals; MEDLINE; Oxford University Press Journals All Titles (1996-Current) |
| subjects | Bacterial Proteins - analysis Bacterial Proteins - genetics Biological and medical sciences Cluster Analysis DNA Methylation Fundamental and applied biological sciences. Psychology Gastrointestinal diseases Genome, Bacterial Genomics genotyping Helicobacter Helicobacter Infections - microbiology Helicobacter pylori Helicobacter pylori - genetics Helicobacter pylori - isolation & purification Helicobacter pylori - pathogenicity Humans microbial phylogenetics Microbiology molecular genetic Promoter Regions, Genetic Proteome - analysis Proteome - genetics proteomics Stomach Diseases - microbiology Virulence - genetics |
| title | Proteome variability among Helicobacter pylori isolates clustered according to genomic methylation |
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