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Oral microbiome of infected root canals

ABSTRACT: New insights into the microbial profiles of infected root canals in traumatized teeth

PROVIDER: PRJEB61279 | ENA |

REPOSITORIES: ENA

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			Action	DRS
		Other
	ERR11279400_1.fastq.gz	Fastqsanger.gz
	ERR11279400_2.fastq.gz	Fastqsanger.gz
	ERR11279401_1.fastq.gz	Fastqsanger.gz
	ERR11279401_2.fastq.gz	Fastqsanger.gz

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Project description:Global bottom-up proteomics analysis of proteins purified from soybean root nodules infected with either WT or nifH- mutant Bradyrhizobium japonicum. Nine glycoproteins containing Lewis-a N-glycans, with 3 distinct Lewis-a epitopes (Hex:5 HexNAc:4 dHex:3 Pent:1, Hex:4 HexNAc:4 dHex:2 Pent:1, and Hex:4 HexNAc:3 dHex:2 Pent:1) were observed. Proteins purified from WT and nifH- infected soybean root nodules (five biological replicates each) were reduced using dithiothreitol, alkylated with iodoacetamide and trypsin digested followed by C18 SPE clean-up and LC-MS/MS analysis. Raw data files were processed using FragPipe v17.1, then output files 'combined_modified_peptide.tsv' and 'combined_protein.tsv' were used to identify glycopeptides and for global protein quantitation. These files, along with Excel files containing global quantitation analysis files for soybean nodule (Glycine max) and bacterial (Bradyrhizobium), are available in directory 'Quantification/MSFragger_results'. Glycopeptide data were also processed with PMI Byonic, and Excel file results are available in directory 'Quantification/PMI_Byonic_results'.

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