Genetic and epigenetic changes of NKIRAS1 gene in human renal cell carcinomas

Genetic and epigenetic changes of NKIRAS1 gene in human renal cell carcinomas

Renal cell carcinoma (RCC) is the most common malignant tumor of kidney associated with the worst clinical outcome. No molecular markers for RCC diagnostics and prognosis that could be applied in clinics were described yet. Large-scale screening of 3p human chromosome genes/loci in RCC and histologi...

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Дата:2010
Автори: Gerashchenko, G.V., Bogatyrova, O.O., Rudenko, E.E., Kondratov, A.G., Gordiyuk, V.V., Zgonnyk, Y.M., Vozianov, O.F., Pavlova, T.V., Zabarovsky, E.R., Rynditch, A.V., Kashuba, V.I.
Формат: Стаття
Мова:English
Опубліковано: Інститут експериментальної патології, онкології і радіобіології ім. Р.Є. Кавецького НАН України 2010
Назва видання:Experimental Oncology
Теми:
Original contributions
Онлайн доступ:http://dspace.nbuv.gov.ua/handle/123456789/138607
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Назва журналу:Digital Library of Periodicals of National Academy of Sciences of Ukraine
Цитувати:Genetic and epigenetic changes of NKIRAS1 gene in human renal cell carcinomas / G.V. Gerashchenko, O.O. Bogatyrova, E.E. Rudenko, A.G. Kondratov, V.V. Gordiyuk, Y.M. Zgonnyk, O.F. Vozianov, T.V. Pavlova, E.R. Zabarovsky, A.V. Rynditch, V.I. Kashuba // Experimental Oncology. — 2010. — Т. 32, № 2. — С. 71-75. — Бібліогр.: 32 назв. — англ.

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Digital Library of Periodicals of National Academy of Sciences of Ukraine
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spelling irk-123456789-1386072018-06-20T03:07:07Z Genetic and epigenetic changes of NKIRAS1 gene in human renal cell carcinomas Gerashchenko, G.V. Bogatyrova, O.O. Rudenko, E.E. Kondratov, A.G. Gordiyuk, V.V. Zgonnyk, Y.M. Vozianov, O.F. Pavlova, T.V. Zabarovsky, E.R. Rynditch, A.V. Kashuba, V.I. Original contributions Renal cell carcinoma (RCC) is the most common malignant tumor of kidney associated with the worst clinical outcome. No molecular markers for RCC diagnostics and prognosis that could be applied in clinics were described yet. Large-scale screening of 3p human chromosome genes/loci in RCC and histologically normal tissues surrounding the tumors using NotI-microarray approach demonstrated that NKIRAS1 gene contained the largest percent of genetic/epigenetic changes in RCC tumor cells. Aim: To validate the results of NotI microarray analysis and study genetic, epigenetic changes, and the expression level of NKIRAS1 gene in human RCC samples. Methods: DNA and RNA were isolated from freshly-frozen renal tumors’ samples (n = 12) and from normal tissues surrounding the tumors. Epigenetic changes (methylation status) of NKIRAS1 were detected by bisulfite sequencing. Genetic changes and expression level were analyzed by Quantitative real-time PCR (qPCR) with SYBR Green. For relative quantification 2-ΔΔCP method was used. Nonparametric tests (Wilcoxon, Kruskal — Wallis and Mann — Whitney) were applied for statistical data analysis using the BioStat software. Results: NKIRAS1 expression was downregulated in 75% of RCC samples (9 of 12) compared with surrounding normal tissue. High grade tumors (3 and 4) showed lower expression of NKIRAS1 at the mRNA level than tumors of low grade (1 and 2). No significant association was found between gene expression level and gender or age. Analysis of NKIRAS1 gene copy number was performed in 19 tumor samples. Changes in the copy number of NKIRAS1 gene were observed in 64% (9 of 14) of cRCC samples. 9 samples displayed ratio ( 0.85) and were considered as normal copy number. Changes in NKIRAS1 gene copy number were detected in all 3 benign oncocytomas, 1 papillary cancer and 1 sarcoma, where hemizygous deletion was observed. No changes in methylation status of NKIRAS1 were found in RCC. Conclusions: We have validated the results of NotI microarray analysis of NKIRAS1 gene in RCC. It was shown the decreased expression level of NKIRAS1 in this type of tumor. 2010 Article Genetic and epigenetic changes of NKIRAS1 gene in human renal cell carcinomas / G.V. Gerashchenko, O.O. Bogatyrova, E.E. Rudenko, A.G. Kondratov, V.V. Gordiyuk, Y.M. Zgonnyk, O.F. Vozianov, T.V. Pavlova, E.R. Zabarovsky, A.V. Rynditch, V.I. Kashuba // Experimental Oncology. — 2010. — Т. 32, № 2. — С. 71-75. — Бібліогр.: 32 назв. — англ. 1812-9269 http://dspace.nbuv.gov.ua/handle/123456789/138607 en Experimental Oncology Інститут експериментальної патології, онкології і радіобіології ім. Р.Є. Кавецького НАН України
institution Digital Library of Periodicals of National Academy of Sciences of Ukraine
collection DSpace DC
language English
topic Original contributions
Original contributions
spellingShingle Original contributions
Original contributions
Gerashchenko, G.V.
Bogatyrova, O.O.
Rudenko, E.E.
Kondratov, A.G.
Gordiyuk, V.V.
Zgonnyk, Y.M.
Vozianov, O.F.
Pavlova, T.V.
Zabarovsky, E.R.
Rynditch, A.V.
Kashuba, V.I.
Genetic and epigenetic changes of NKIRAS1 gene in human renal cell carcinomas
Experimental Oncology
description Renal cell carcinoma (RCC) is the most common malignant tumor of kidney associated with the worst clinical outcome. No molecular markers for RCC diagnostics and prognosis that could be applied in clinics were described yet. Large-scale screening of 3p human chromosome genes/loci in RCC and histologically normal tissues surrounding the tumors using NotI-microarray approach demonstrated that NKIRAS1 gene contained the largest percent of genetic/epigenetic changes in RCC tumor cells. Aim: To validate the results of NotI microarray analysis and study genetic, epigenetic changes, and the expression level of NKIRAS1 gene in human RCC samples. Methods: DNA and RNA were isolated from freshly-frozen renal tumors’ samples (n = 12) and from normal tissues surrounding the tumors. Epigenetic changes (methylation status) of NKIRAS1 were detected by bisulfite sequencing. Genetic changes and expression level were analyzed by Quantitative real-time PCR (qPCR) with SYBR Green. For relative quantification 2-ΔΔCP method was used. Nonparametric tests (Wilcoxon, Kruskal — Wallis and Mann — Whitney) were applied for statistical data analysis using the BioStat software. Results: NKIRAS1 expression was downregulated in 75% of RCC samples (9 of 12) compared with surrounding normal tissue. High grade tumors (3 and 4) showed lower expression of NKIRAS1 at the mRNA level than tumors of low grade (1 and 2). No significant association was found between gene expression level and gender or age. Analysis of NKIRAS1 gene copy number was performed in 19 tumor samples. Changes in the copy number of NKIRAS1 gene were observed in 64% (9 of 14) of cRCC samples. 9 samples displayed ratio ( 0.85) and were considered as normal copy number. Changes in NKIRAS1 gene copy number were detected in all 3 benign oncocytomas, 1 papillary cancer and 1 sarcoma, where hemizygous deletion was observed. No changes in methylation status of NKIRAS1 were found in RCC. Conclusions: We have validated the results of NotI microarray analysis of NKIRAS1 gene in RCC. It was shown the decreased expression level of NKIRAS1 in this type of tumor.
format Article
author Gerashchenko, G.V.
Bogatyrova, O.O.
Rudenko, E.E.
Kondratov, A.G.
Gordiyuk, V.V.
Zgonnyk, Y.M.
Vozianov, O.F.
Pavlova, T.V.
Zabarovsky, E.R.
Rynditch, A.V.
Kashuba, V.I.
author_facet Gerashchenko, G.V.
Bogatyrova, O.O.
Rudenko, E.E.
Kondratov, A.G.
Gordiyuk, V.V.
Zgonnyk, Y.M.
Vozianov, O.F.
Pavlova, T.V.
Zabarovsky, E.R.
Rynditch, A.V.
Kashuba, V.I.
author_sort Gerashchenko, G.V.
title Genetic and epigenetic changes of NKIRAS1 gene in human renal cell carcinomas
title_short Genetic and epigenetic changes of NKIRAS1 gene in human renal cell carcinomas
title_full Genetic and epigenetic changes of NKIRAS1 gene in human renal cell carcinomas
title_fullStr Genetic and epigenetic changes of NKIRAS1 gene in human renal cell carcinomas
title_full_unstemmed Genetic and epigenetic changes of NKIRAS1 gene in human renal cell carcinomas
title_sort genetic and epigenetic changes of nkiras1 gene in human renal cell carcinomas
publisher Інститут експериментальної патології, онкології і радіобіології ім. Р.Є. Кавецького НАН України
publishDate 2010
topic_facet Original contributions
url http://dspace.nbuv.gov.ua/handle/123456789/138607
citation_txt Genetic and epigenetic changes of NKIRAS1 gene in human renal cell carcinomas / G.V. Gerashchenko, O.O. Bogatyrova, E.E. Rudenko, A.G. Kondratov, V.V. Gordiyuk, Y.M. Zgonnyk, O.F. Vozianov, T.V. Pavlova, E.R. Zabarovsky, A.V. Rynditch, V.I. Kashuba // Experimental Oncology. — 2010. — Т. 32, № 2. — С. 71-75. — Бібліогр.: 32 назв. — англ.
series Experimental Oncology
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first_indexed 2023-10-18T21:18:28Z
last_indexed 2023-10-18T21:18:28Z
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