Identification of molecular pathway aberrations in uterine serous carcinoma by genome-wide analyses

Elisabetta Kuhn, Ren Chin Wu, Bin Guan, Gang Wu, Jinghui Zhang, Yue Wang, Lei Song, Xiguo Yuan, Lei Wei, Richard S Roden, Kuan Tin Kuo, Kentaro Nakayama, Blaise Clarke, Patricia Shaw, Narciso Olvera, Robert J Kurman, Douglas A. Levine, Tian-Li Wang, Ie Ming Shih

Research output: Contribution to journalArticle

Abstract

Background Uterine cancer is the fourth most common malignancy in women, and uterine serous carcinoma is the most aggressive subtype. However, the molecular pathogenesis of uterine serous carcinoma is largely unknown. We analyzed the genomes of uterine serous carcinoma samples to better understand the molecular genetic characteristics of this cancer. MethodsWhole-exome sequencing was performed on 10 uterine serous carcinomas and the matched normal blood or tissue samples. Somatically acquired sequence mutations were further verified by Sanger sequencing. The most frequent molecular genetic changes were further validated by Sanger sequencing in 66 additional uterine serous carcinomas and in nine serous endometrial intraepithelial carcinomas (the preinvasive precursor of uterine serous carcinoma) that were isolated by laser capture microdissection. In addition, gene copy number was characterized by single-nucleotide polymorphism (SNP) arrays in 23 uterine serous carcinomas, including 10 that were subjected to whole-exome sequencing. ResultsWe found frequent somatic mutations in TP53 (81.6%), PIK3CA (23.7%), FBXW7 (19.7%), and PPP2R1A (18.4%) among the 76 uterine serous carcinomas examined. All nine serous carcinomas that had an associated serous endometrial intraepithelial carcinoma had concordant PIK3CA, PPP2R1A, and TP53 mutation status between uterine serous carcinoma and the concurrent serous endometrial intraepithelial carcinoma component. DNA copy number analysis revealed frequent genomic amplification of the CCNE1 locus (which encodes cyclin E, a known substrate of FBXW7) and deletion of the FBXW7 locus. Among 23 uterine serous carcinomas that were subjected to SNP array analysis, seven tumors with FBXW7 mutations (four tumors with point mutations, three tumors with hemizygous deletions) did not have CCNE1 amplification, and 13 (57%) tumors had either a molecular genetic alteration in FBXW7 or CCNE1 amplification. Nearly half of these uterine serous carcinomas (48%) harbored PIK3CA mutation and/or PIK3CA amplification. ConclusionMolecular genetic aberrations involving the p53, cyclin E-FBXW7, and PI3K pathways represent major mechanisms in the development of uterine serous carcinoma.

Original languageEnglish (US)
Pages (from-to)1503-1513
Number of pages11
JournalJournal of the National Cancer Institute
Volume104
Issue number19
DOIs
StatePublished - Oct 3 2012

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Genome
Carcinoma
Carcinoma in Situ
Endometrial Neoplasms
Mutation
Exome
Molecular Biology
Cyclin E
Neoplasms
Single Nucleotide Polymorphism
Laser Capture Microdissection
Uterine Neoplasms
Gene Dosage
Phosphatidylinositol 3-Kinases
Point Mutation
DNA

ASJC Scopus subject areas

  • Cancer Research
  • Oncology

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Identification of molecular pathway aberrations in uterine serous carcinoma by genome-wide analyses. / Kuhn, Elisabetta; Wu, Ren Chin; Guan, Bin; Wu, Gang; Zhang, Jinghui; Wang, Yue; Song, Lei; Yuan, Xiguo; Wei, Lei; Roden, Richard S; Kuo, Kuan Tin; Nakayama, Kentaro; Clarke, Blaise; Shaw, Patricia; Olvera, Narciso; Kurman, Robert J; Levine, Douglas A.; Wang, Tian-Li; Shih, Ie Ming.

In: Journal of the National Cancer Institute, Vol. 104, No. 19, 03.10.2012, p. 1503-1513.

Research output: Contribution to journalArticle

Kuhn, E, Wu, RC, Guan, B, Wu, G, Zhang, J, Wang, Y, Song, L, Yuan, X, Wei, L, Roden, RS, Kuo, KT, Nakayama, K, Clarke, B, Shaw, P, Olvera, N, Kurman, RJ, Levine, DA, Wang, T-L & Shih, IM 2012, 'Identification of molecular pathway aberrations in uterine serous carcinoma by genome-wide analyses', Journal of the National Cancer Institute, vol. 104, no. 19, pp. 1503-1513. https://doi.org/10.1093/jnci/djs345
Kuhn, Elisabetta ; Wu, Ren Chin ; Guan, Bin ; Wu, Gang ; Zhang, Jinghui ; Wang, Yue ; Song, Lei ; Yuan, Xiguo ; Wei, Lei ; Roden, Richard S ; Kuo, Kuan Tin ; Nakayama, Kentaro ; Clarke, Blaise ; Shaw, Patricia ; Olvera, Narciso ; Kurman, Robert J ; Levine, Douglas A. ; Wang, Tian-Li ; Shih, Ie Ming. / Identification of molecular pathway aberrations in uterine serous carcinoma by genome-wide analyses. In: Journal of the National Cancer Institute. 2012 ; Vol. 104, No. 19. pp. 1503-1513.
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abstract = "Background Uterine cancer is the fourth most common malignancy in women, and uterine serous carcinoma is the most aggressive subtype. However, the molecular pathogenesis of uterine serous carcinoma is largely unknown. We analyzed the genomes of uterine serous carcinoma samples to better understand the molecular genetic characteristics of this cancer. MethodsWhole-exome sequencing was performed on 10 uterine serous carcinomas and the matched normal blood or tissue samples. Somatically acquired sequence mutations were further verified by Sanger sequencing. The most frequent molecular genetic changes were further validated by Sanger sequencing in 66 additional uterine serous carcinomas and in nine serous endometrial intraepithelial carcinomas (the preinvasive precursor of uterine serous carcinoma) that were isolated by laser capture microdissection. In addition, gene copy number was characterized by single-nucleotide polymorphism (SNP) arrays in 23 uterine serous carcinomas, including 10 that were subjected to whole-exome sequencing. ResultsWe found frequent somatic mutations in TP53 (81.6{\%}), PIK3CA (23.7{\%}), FBXW7 (19.7{\%}), and PPP2R1A (18.4{\%}) among the 76 uterine serous carcinomas examined. All nine serous carcinomas that had an associated serous endometrial intraepithelial carcinoma had concordant PIK3CA, PPP2R1A, and TP53 mutation status between uterine serous carcinoma and the concurrent serous endometrial intraepithelial carcinoma component. DNA copy number analysis revealed frequent genomic amplification of the CCNE1 locus (which encodes cyclin E, a known substrate of FBXW7) and deletion of the FBXW7 locus. Among 23 uterine serous carcinomas that were subjected to SNP array analysis, seven tumors with FBXW7 mutations (four tumors with point mutations, three tumors with hemizygous deletions) did not have CCNE1 amplification, and 13 (57{\%}) tumors had either a molecular genetic alteration in FBXW7 or CCNE1 amplification. Nearly half of these uterine serous carcinomas (48{\%}) harbored PIK3CA mutation and/or PIK3CA amplification. ConclusionMolecular genetic aberrations involving the p53, cyclin E-FBXW7, and PI3K pathways represent major mechanisms in the development of uterine serous carcinoma.",
author = "Elisabetta Kuhn and Wu, {Ren Chin} and Bin Guan and Gang Wu and Jinghui Zhang and Yue Wang and Lei Song and Xiguo Yuan and Lei Wei and Roden, {Richard S} and Kuo, {Kuan Tin} and Kentaro Nakayama and Blaise Clarke and Patricia Shaw and Narciso Olvera and Kurman, {Robert J} and Levine, {Douglas A.} and Tian-Li Wang and Shih, {Ie Ming}",
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T1 - Identification of molecular pathway aberrations in uterine serous carcinoma by genome-wide analyses

AU - Kuhn, Elisabetta

AU - Wu, Ren Chin

AU - Guan, Bin

AU - Wu, Gang

AU - Zhang, Jinghui

AU - Wang, Yue

AU - Song, Lei

AU - Yuan, Xiguo

AU - Wei, Lei

AU - Roden, Richard S

AU - Kuo, Kuan Tin

AU - Nakayama, Kentaro

AU - Clarke, Blaise

AU - Shaw, Patricia

AU - Olvera, Narciso

AU - Kurman, Robert J

AU - Levine, Douglas A.

AU - Wang, Tian-Li

AU - Shih, Ie Ming

PY - 2012/10/3

Y1 - 2012/10/3

N2 - Background Uterine cancer is the fourth most common malignancy in women, and uterine serous carcinoma is the most aggressive subtype. However, the molecular pathogenesis of uterine serous carcinoma is largely unknown. We analyzed the genomes of uterine serous carcinoma samples to better understand the molecular genetic characteristics of this cancer. MethodsWhole-exome sequencing was performed on 10 uterine serous carcinomas and the matched normal blood or tissue samples. Somatically acquired sequence mutations were further verified by Sanger sequencing. The most frequent molecular genetic changes were further validated by Sanger sequencing in 66 additional uterine serous carcinomas and in nine serous endometrial intraepithelial carcinomas (the preinvasive precursor of uterine serous carcinoma) that were isolated by laser capture microdissection. In addition, gene copy number was characterized by single-nucleotide polymorphism (SNP) arrays in 23 uterine serous carcinomas, including 10 that were subjected to whole-exome sequencing. ResultsWe found frequent somatic mutations in TP53 (81.6%), PIK3CA (23.7%), FBXW7 (19.7%), and PPP2R1A (18.4%) among the 76 uterine serous carcinomas examined. All nine serous carcinomas that had an associated serous endometrial intraepithelial carcinoma had concordant PIK3CA, PPP2R1A, and TP53 mutation status between uterine serous carcinoma and the concurrent serous endometrial intraepithelial carcinoma component. DNA copy number analysis revealed frequent genomic amplification of the CCNE1 locus (which encodes cyclin E, a known substrate of FBXW7) and deletion of the FBXW7 locus. Among 23 uterine serous carcinomas that were subjected to SNP array analysis, seven tumors with FBXW7 mutations (four tumors with point mutations, three tumors with hemizygous deletions) did not have CCNE1 amplification, and 13 (57%) tumors had either a molecular genetic alteration in FBXW7 or CCNE1 amplification. Nearly half of these uterine serous carcinomas (48%) harbored PIK3CA mutation and/or PIK3CA amplification. ConclusionMolecular genetic aberrations involving the p53, cyclin E-FBXW7, and PI3K pathways represent major mechanisms in the development of uterine serous carcinoma.

AB - Background Uterine cancer is the fourth most common malignancy in women, and uterine serous carcinoma is the most aggressive subtype. However, the molecular pathogenesis of uterine serous carcinoma is largely unknown. We analyzed the genomes of uterine serous carcinoma samples to better understand the molecular genetic characteristics of this cancer. MethodsWhole-exome sequencing was performed on 10 uterine serous carcinomas and the matched normal blood or tissue samples. Somatically acquired sequence mutations were further verified by Sanger sequencing. The most frequent molecular genetic changes were further validated by Sanger sequencing in 66 additional uterine serous carcinomas and in nine serous endometrial intraepithelial carcinomas (the preinvasive precursor of uterine serous carcinoma) that were isolated by laser capture microdissection. In addition, gene copy number was characterized by single-nucleotide polymorphism (SNP) arrays in 23 uterine serous carcinomas, including 10 that were subjected to whole-exome sequencing. ResultsWe found frequent somatic mutations in TP53 (81.6%), PIK3CA (23.7%), FBXW7 (19.7%), and PPP2R1A (18.4%) among the 76 uterine serous carcinomas examined. All nine serous carcinomas that had an associated serous endometrial intraepithelial carcinoma had concordant PIK3CA, PPP2R1A, and TP53 mutation status between uterine serous carcinoma and the concurrent serous endometrial intraepithelial carcinoma component. DNA copy number analysis revealed frequent genomic amplification of the CCNE1 locus (which encodes cyclin E, a known substrate of FBXW7) and deletion of the FBXW7 locus. Among 23 uterine serous carcinomas that were subjected to SNP array analysis, seven tumors with FBXW7 mutations (four tumors with point mutations, three tumors with hemizygous deletions) did not have CCNE1 amplification, and 13 (57%) tumors had either a molecular genetic alteration in FBXW7 or CCNE1 amplification. Nearly half of these uterine serous carcinomas (48%) harbored PIK3CA mutation and/or PIK3CA amplification. ConclusionMolecular genetic aberrations involving the p53, cyclin E-FBXW7, and PI3K pathways represent major mechanisms in the development of uterine serous carcinoma.

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