title: Single Amino Acid Variant Profiles of Subpopulations in the MCF-7 Breast Cancer Cell Line.
abstract: Cancers are initiated and developed from a small population of stem-like cells termed cancer stem cells (CSCs). There is heterogeneity among this CSC population that leads to multiple subpopulations with their own distinct biological features and protein expression. The protein expression and function may be impacted by amino acid variants that can occur largely due to single nucleotide changes. We have thus performed proteomic analysis of breast CSC subpopulations by mass spectrometry to study the presence of single amino acid variants (SAAVs) and their relation to breast cancer. We have used CSC markers to isolate pure breast CSC subpopulation fractions (ALDH+ and CD44+/CD24- cell populations) and the mature luminal cells (CD49f-EpCAM+) from the MCF-7 breast cancer cell line. By searching the Swiss-CanSAAVs database, 374 unique SAAVs were identified in total, where 27 are cancer-related SAAVs. 135 unique SAAVs were found in the CSC population compared with the mature luminal cells. The distribution of SAAVs detected in MCF-7 cells was compared with those predicted from the Swiss-CanSAAVs database, where we found distinct differences in the numbers of SAAVs detected relative to that expected from the Swiss-CanSAAVs database for several of the amino acids.
authors.affiliation: Department of Surgery, University of Michigan , Ann Arbor, Michigan 48109, United States.
authors.forename: Zhijing
authors.initials: Z
authors.lastname: Tan
authors.affiliation: Department of Surgery, University of Michigan , Ann Arbor, Michigan 48109, United States.|Biological Sciences Division and Environmental Molecular Sciences Laboratory, Pacific Northwest National Laboratory , Richland, Washington 99352, United States.
authors.forename: Song
authors.initials: S
authors.lastname: Nie
authors.affiliation: Department of Internal Medicine, Division of Hematology/Oncology, University of Michigan , Ann Arbor, Michigan 48109, United States.|Comprehensive Cancer Center, University of Michigan , Ann Arbor, Michigan 48109, United States.
authors.forename: Sean P
authors.initials: SP
authors.lastname: McDermott
authors.affiliation: Department of Internal Medicine, Division of Hematology/Oncology, University of Michigan , Ann Arbor, Michigan 48109, United States.|Comprehensive Cancer Center, University of Michigan , Ann Arbor, Michigan 48109, United States.
authors.forename: Max S
authors.initials: MS
authors.lastname: Wicha
authors.affiliation: Department of Surgery, University of Michigan , Ann Arbor, Michigan 48109, United States.
authors.forename: David M
authors.identifier: 0000-0001-7731-0232
authors.initials: DM
authors.lastname: Lubman
mesh_terms: D000444:Aldehyde Dehydrogenase / Q000235:genetics* / Q000378:metabolism; D000595:Amino Acid Sequence; D019943:Amino Acid Substitution; D014408:Biomarkers, Tumor / Q000235:genetics* / Q000378:metabolism; D051927:CD24 Antigen / Q000235:genetics* / Q000378:metabolism; D002469:Cell Separation; D030562:Databases, Protein; D000071858:Epithelial Cell Adhesion Molecule / Q000235:genetics / Q000378:metabolism; D005260:Female; D015870:Gene Expression; D063990:Gene Ontology; D006801:Humans; D018960:Hyaluronan Receptors / Q000235:genetics* / Q000378:metabolism; D039503:Integrin alpha6 / Q000235:genetics / Q000378:metabolism; D061986:MCF-7 Cells; D014411:Neoplastic Stem Cells / Q000378:metabolism* / Q000473:pathology; D025941:Protein Interaction Mapping
chemical_list: D014408:Biomarkers, Tumor; D051927:CD24 Antigen; C497889:CD24 protein, human; C497483:CD44 protein, human; C499379:EPCAM protein, human; D000071858:Epithelial Cell Adhesion Molecule; D018960:Hyaluronan Receptors; D039503:Integrin alpha6; D000444:Aldehyde Dehydrogenase
keywords: MCF-7 cell line; breast cancer; cell line subpopulation; proteomics; single amino acid variant