PMC:4158115 / 10023-11808 JSONTXT

{"project":"MicrobeTaxon","denotations":[{"id":"T79","span":{"begin":54,"end":65},"obj":"199"},{"id":"T80","span":{"begin":145,"end":156},"obj":"199"},{"id":"T81","span":{"begin":246,"end":257},"obj":"199"},{"id":"T82","span":{"begin":427,"end":438},"obj":"199"},{"id":"T83","span":{"begin":473,"end":484},"obj":"199"},{"id":"T84","span":{"begin":611,"end":622},"obj":"199"},{"id":"T85","span":{"begin":800,"end":811},"obj":"199"},{"id":"T86","span":{"begin":921,"end":932},"obj":"199"},{"id":"T87","span":{"begin":367,"end":374},"obj":"9606"},{"id":"T88","span":{"begin":535,"end":542},"obj":"9606"},{"id":"T89","span":{"begin":933,"end":941},"obj":"2"},{"id":"T90","span":{"begin":1356,"end":1365},"obj":"2"}],"namespaces":[{"prefix":"_base","uri":"http://purl.bioontology.org/ontology/NCBITAXON/"}],"text":"2.5. Putative Virulence Proteins Expressed by an Oral C. concisus Strain Cultured under AnaeroH2− and AnaeroH2+ Conditions\nProteins expressed by C. concisus cultured under AnaeroH2− and AnaeroH2+ conditions were analysed using mass spectrometry. C. concisus strain P6CDO-S1 was used in this experiment. P6CDO-S1 is an oral strain previously isolated from saliva of a patient with CD. Our previous studies showed that this oral C. concisus strain was genetically close to a C. concisus strain isolated from the intestinal biopsies of a patient with CD [6]. Therefore, we decided to investigate whether this oral C. concisus strain expresses putative virulence proteins and whether these proteins are expressed differentially when the strain is grown under AnaeroH2− and AnaeroH2+ conditions.\nBriefly, C. concisus P6CDO-S1 strain was grown on HBA plates for 48 hours under AnaeroH2− and AnaeroH2+ conditions, respectively. C. concisus bacteria were collected and washed with PBS and then 19 μg whole cell proteins were separated on 12% SDS-PAGE as described previously [16]. The gel lane of each sample was cut into 10 slices. In-gel protein trypsin digestion was performed. The extracted peptides were separated by liquid chromatography and analysed by MS/MS as previously described [16, 17].\nMascot Daemon program (Matrix Science, London, UK) was used for bacterial protein identification against the NCBI database. The spectral counts of the same proteins expressed by P6CDO-S1 under AnaeroH2− and AnaeroH2+ conditions were compared using the Scaffold-3 software (Proteome software, OR, USA) [18]. The experiment was carried out in duplicate and repeated twice.\nMass spectrometry was conducted at the Bioanalytical Mass Spectrometry Facility, University of New South Wales, Australia."}

{"project":"2_test","denotations":[{"id":"25214843-9750149-50231391","span":{"begin":1287,"end":1289},"obj":"9750149"},{"id":"25214843-17485472-50231392","span":{"begin":1594,"end":1596},"obj":"17485472"},{"id":"T4815","span":{"begin":1287,"end":1289},"obj":"9750149"},{"id":"T81880","span":{"begin":1594,"end":1596},"obj":"17485472"}],"text":"2.5. Putative Virulence Proteins Expressed by an Oral C. concisus Strain Cultured under AnaeroH2− and AnaeroH2+ Conditions\nProteins expressed by C. concisus cultured under AnaeroH2− and AnaeroH2+ conditions were analysed using mass spectrometry. C. concisus strain P6CDO-S1 was used in this experiment. P6CDO-S1 is an oral strain previously isolated from saliva of a patient with CD. Our previous studies showed that this oral C. concisus strain was genetically close to a C. concisus strain isolated from the intestinal biopsies of a patient with CD [6]. Therefore, we decided to investigate whether this oral C. concisus strain expresses putative virulence proteins and whether these proteins are expressed differentially when the strain is grown under AnaeroH2− and AnaeroH2+ conditions.\nBriefly, C. concisus P6CDO-S1 strain was grown on HBA plates for 48 hours under AnaeroH2− and AnaeroH2+ conditions, respectively. C. concisus bacteria were collected and washed with PBS and then 19 μg whole cell proteins were separated on 12% SDS-PAGE as described previously [16]. The gel lane of each sample was cut into 10 slices. In-gel protein trypsin digestion was performed. The extracted peptides were separated by liquid chromatography and analysed by MS/MS as previously described [16, 17].\nMascot Daemon program (Matrix Science, London, UK) was used for bacterial protein identification against the NCBI database. The spectral counts of the same proteins expressed by P6CDO-S1 under AnaeroH2− and AnaeroH2+ conditions were compared using the Scaffold-3 software (Proteome software, OR, USA) [18]. The experiment was carried out in duplicate and repeated twice.\nMass spectrometry was conducted at the Bioanalytical Mass Spectrometry Facility, University of New South Wales, Australia."}