Suppression subtractive hybridization identified differentially expressed genes in lung adenocarcinoma: ERGIC3 as a novel lung cancer-related gene

BMC Cancer

Volumn 13, Issue , 2013, Pages

  Wu, Mingsong ^a,b,c   Tu, Tao ^a,d   Huang, Yunchao ^d   Cao, Yi ^a  

^a KUNMING INSTITUTE OF ZOOLOGY   (China)

^b UNIVERSITY OF CHINESE ACADEMY OF SCIENCES   (China)

^c ZUNYI MEDICAL UNIVERSITY   (China)

^d KUNMING MEDICAL UNIVERSITY   (China)

Author keywords

CDNA library; ERGIC3; Erv46; Lung cancer; Suppression subtractive hybridization

Indexed keywords

COMPLEMENTARY DNA; MESSENGER RNA;

ADULT; AGED; ARTICLE; BIOINFORMATICS; CANCER GROWTH; CANCER TISSUE; CELL CULTURE; CELL DIFFERENTIATION; CELL FUNCTION; CELL MIGRATION; CELL PROLIFERATION; CLINICAL ARTICLE; CONTROLLED STUDY; DATA ANALYSIS; DDR1 GENE; DNA LIBRARY; DOWN REGULATION; ERGIC3 GENE; FEMALE; FORWARD SUBTRACTED LIBRARY; GENE CONTROL; GENE EXPRESSION; GENE FUNCTION; GENE IDENTIFICATION; GENE LIBRARY; GENE OVEREXPRESSION; GENE SILENCING; HSP90B1 GENE; HUMAN; HUMAN TISSUE; IMMUNOHISTOCHEMISTRY; LPCAT1 GENE; LUNG ADENOCARCINOMA; LUNG CARCINOGENESIS; MALE; PROTEIN EXPRESSION; PROTEIN LOCALIZATION; REAL TIME POLYMERASE CHAIN REACTION; REVERSE SUBTRACTED LIBRARY; RPSA GENE; SDC1 GENE; SUPPRESSION SUBTRACTIVE HYBRIDIZATION; TUMOR GENE; UPREGULATION; WESTERN BLOTTING;

ADENOCARCINOMA; ADULT; AGED; BLOTTING, WESTERN; CELL LINE, TUMOR; CELL MOVEMENT; CELL PROLIFERATION; COMPUTATIONAL BIOLOGY; FEMALE; GENE EXPRESSION REGULATION, NEOPLASTIC; GENE LIBRARY; GENETIC PREDISPOSITION TO DISEASE; HUMANS; IMMUNOHISTOCHEMISTRY; LUNG NEOPLASMS; MALE; MEMBRANE PROTEINS; MIDDLE AGED; NUCLEIC ACID HYBRIDIZATION; PHENOTYPE; REAL-TIME POLYMERASE CHAIN REACTION; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION; RNA INTERFERENCE; RNA, MESSENGER; TIME FACTORS; TRANSFECTION; UP-REGULATION;

EID: 84873033049     PISSN: None     EISSN: 14712407     Source Type: Journal    
DOI: 10.1186/1471-2407-13-44     Document Type: Article

References (29)

1. Risch A, Plass C. Lung cancer epigenetics and genetics. Int J Cancer 2008, 101:1-7.
2. Nindl I, Dang C, Forschner T, Kuban RJ, Meyer T, Sterry W, Stockfleth E. Identification of differentially expressed genes in cutaneous squamous cell carcinoma by microarray expression profiling. Mol Cancer 2006, 5:30. 10.1186/1476-4598-5-30, 1569867, 16893473.
3. Selvarajah GT, Kirpensteijn J, van Wolferen ME, Rao NA, Fieten H, Mol JA. Gene expression profiling of canine osteosarcoma reveals genes associated with short and long survival times. Mol Cancer 2009, 8:72. 10.1186/1476-4598-8-72, 2746177, 19735553.
4. Diatchenko L, Lau YF, Campbell AP, Chenchik A, Moqadam F, Huang B, Lukyanov S, Lukyanov K, Gurskaya N, Sverdlov ED, Siebert PD. Suppression subtractive hybridization: a method for generating differentially regulated or tissue-specific cDNA probes and libraries. Proc Natl Acad Sci USA 1996, 93:6025-6030. 10.1073/pnas.93.12.6025, 39182, 8650213.
5. Yang ZJ, Peng ZS, Yang H, Yang J, Wei SH, Cai P. Suppression subtractive hybridization identified differentially expressed genes in pistil mutations in wheat. Plant Mol Biol Rep 2011, 29:431-439.
6. Petroziello J, Yamane A, Westendorf L, Thompson M, McDonagh C, Cerveny C, Law CL, Wahl A, Carter P. Suppression subtractive hybridization and expression profiling identifies a unique set of genes overexpressed in non-small-cell lung cancer. Oncogene 2004, 23:7734-7745. 10.1038/sj.onc.1207921, 15334068.
7. Difilippantonio S, Chen Y, Pietas A, Schlüns K, Pacyna-Gengelbach M, Deutschmann N, Padilla-Nash H, Ried T, Petersen I. Gene expression profiles in human non-small and small-cell lung cancers. Eur J Cancer 2003, 39:1936-1947. 10.1016/S0959-8049(03)00419-2, 12932674.
8. Sun W, Zhang K, Zhang X, Lei W, Xiao T, Ma J, Guo S, Shao S, Zhang H, Liu Y, Yuan J, Hu Z, Ma Y, Feng X, Hu S, Zhou J, Cheng S, Gao Y. Identification of differentially expressed genes in human lung squamous cell carcinoma using suppression subtractive hybridization. Cancer Lett 2004, 212:83-93. 10.1016/j.canlet.2004.03.023, 15246564.
9. Liu Y, Sun W, Zhang K, Zheng H, Ma Y, Lin D, Zhang X, Feng L, Lei W, Zhang Z, Guo S, Han N, Tong W, Feng X, Gao Y, Cheng S. Identification of genes differentially expressed in human primary lung squamous cell carcinoma. Lung Cancer 2007, 56:307-317. 10.1016/j.lungcan.2007.01.016, 17316888.
10. Bangur CS, Switzer A, Fan L, Marton MJ, Meyer MR, Wang T. Identification of genes over-expressed in small cell lung carcinoma using suppression subtractive hybridization and cDNA microarray expression analysis. Oncogene 2002, 21:3814-3825. 10.1038/sj.onc.1205480, 12032850.
11. Orci L, Ravazzola M, Mack GJ, Barlowe C, Otte S. Mammalian Erv46 localizes to the endoplasmic reticulum-Golgi intermediate compartment and to cis-Golgi cisternae. Proc Natl Acad Sci USA 2003, 100:4586-4591. 10.1073/pnas.0730885100, 153599, 12663859.
12. Brambilla E, Travis WD, Colby TV, Corrin B, Shimosato Y. The new world health organization classification of lung tumours. Eur Respir J 2001, 18:1059-1068. 10.1183/09031936.01.00275301, 11829087.
13. Sobin LH, Wittekind C. Lung. International union against cancer [UICC]. TNM classification of malignant tumours 1997, 93-97. Baltimore, MD: Wiley-Liss, Sobin LH, Wittekind C.
14. Schmittgen TD, Livak KJ. Analyzing real-time PCR data by the comparative CT method. Nat Protoc 2008, 3:1101-1108. 10.1038/nprot.2008.73, 18546601.
15. Cao Y, Merling A, Crocker PR, Keller R, Schwartz-Albiez R. Differential expression of β-galactoside α2, 6 sialyltransferase and sialoglycans in normal and cirrhotic liver and hepatocellular carcinoma. Lab Invest 2002, 82:1515-1524.
16. Sjöblom T, Jones S, Wood LD, Parsons DW, Lin J, Barber TD, Mandelker D, Leary RJ, Ptak J, Silliman N, Szabo S, Buckhaults P, Farrell C, Meeh P, Markowitz SD, Willis J, Dawson D, Willson JK, Gazdar AF, Hartigan J, Wu L, Liu C, Parmigiani G, Park BH, Bachman KE, Papadopoulos N, Vogelstein B, Kinzler KW, Velculescu VE. The consensus coding sequences of human breast and colorectal cancers. Science 2006, 314:268-274. 10.1126/science.1133427, 16959974.
17. Yang SH, Baek HA, Lee HJ, Park HS, Jang KY, Kang MJ, Lee DG, Lee YC, Moon WS, Chung MJ. Discoidin domain receptor 1 is associated with poor prognosis of non-small cell lung carcinomas. Oncol Rep 2010, 24:311-319.
18. Zhang L, Wang S, Wang T, Wang Y, Wang J, Jiang L, Li S, Hu X, Wang Q. Upregulation of GRP78 and GRP94 and its function in chemotherapy resistance to VP-16 in human lung cancer cell line SK-MES-1. Cancer Invest 2009, 27:453-458. 10.1080/07357900802527239, 19212831.
19. Anttonen A, Heikkilä P, Kajanti M, Jalkanen M, Joensuu H. High syndecan-1 expression is associated with favourable outcome in squamous cell lung carcinoma treated with radical surgery. Lung Cancer 2001, 32:297-305. 10.1016/S0169-5002(00)00230-0, 11390011.
20. Qiu J, Choi G, Li L, Wang H, Pitteri SJ, Pereira-Faca SR, Krasnoselsky AL, Randolph TW, Omenn GS, Edelstein C, Barnett MJ, Thornquist MD, Goodman GE, Brenner DE, Feng Z, Hanash SM. Occurrence of autoantibodies to annexin I, 14-3-3 theta and LAMR1 in prediagnostic lung cancer sera. J Clin Oncol 2008, 26:5060-5066. 10.1200/JCO.2008.16.2388, 2652098, 18794547.
21. Zachara BA, Marchaluk-Wiśniewska E, Maciag A, Pepliński J, Skokowski J, Lambrecht W. Decreased selenium concentration and glutathione peroxidase activity in blood and increase of these parameters in malignant tissue of lung cancer patients. Lung 1997, 175:321-332. 10.1007/PL00007578, 9270989.
22. Mashkova TD, Oparina NI, Zinov'eva OL, Kropotova ES, Dubovaia VI, Poltaraus AB, Fridman MV, Kopantsev EP, Vinogradova TV, Zinov'eva MV, Laktionov KK, Kasymova OT, Zborovskaia IB, Sverdlov ED, Kiselev LL. Transcription TIMP3, DAPk1 and AKR1B10 genes in squamous cell lung cancer. Mol Biol (Mosk) 2006, 40:1047-1054.
23. Mansilla F, da Costa KA, Wang S, Kruhøffer M, Lewin TM, Orntoft TF, Coleman RA, Birkenkamp-Demtröder K. Lysophosphatidylcholine acyltransferase 1 (LPCAT1) overexpression in human colorectal cancer. J Mol Med 2009, 87:85-97. 10.1007/s00109-008-0409-0, 2614561, 18974965.
24. Otte S, Barlowe C. The Erv41p-Erv46p complex: multiple export signals are required in trans for COPII-dependent transport from the ER. EMBO J 2002, 21:6095-6104. 10.1093/emboj/cdf598, 137190, 12426381.
25. Breuza L, Halbeisen R, Jenö P, Otte S, Barlowe C, Hong W, Hauri HP. Proteomics of endoplasmic reticulum-Golgi intermediate compartment (ERGIC) membranes from brefeldin A-treated HepG2 cells identifies ERGIC-32, a new cycling protein that interacts with human Erv46. J Biol Chem 2004, 279:47242-47253. 10.1074/jbc.M406644200, 15308636.
26. Welsh LM, Tong AH, Boone C, Jensen ON, Otte S. Genetic and molecular interactions of the Erv41p-Erv46p complex involved in transport between the endoplasmic reticulum and Golgi complex. J Cell Sci 2006, 119:4730-4740. 10.1242/jcs.03250, 17077122.
27. Kitazume S, Tachida Y, Oka R, Shirotani K, Saido TC, Hashimoto Y. Alzheimer's beta-secretase, beta-site amyloid precursor protein-cleaving enzyme, is responsible for cleavage secretion of a Golgi-resident sialyltransferase. Proc Natl Acad Sci USA 2001, 98:13554-13559. 10.1073/pnas.241509198, 61079, 11698669.
28. Nishikawa M, Kira Y, Yabunaka Y, Inoue M. Identification and characterization of endoplasmic reticulum-associated protein, ERp43. Gene 2007, 386:42-51. 10.1016/j.gene.2006.06.030, 17020792.
29. Otte S, Belden WJ, Heidtman M, Liu J, Jensen ON, Barlowe C. Erv41p And Erv46p: new components of COPII vesicles involved in transport between the ER and Golgi complex. J Cell Biol 2001, 152:503-518. 10.1083/jcb.152.3.503, 2195992, 11157978.