Generation and analysis of expressed sequence tags from a cDNA library of the fruiting body of Ganoderma lucidum

Chinese Medicine

Volumn 5, Issue , 2010, Pages

  Luo, Hongmei ^a   Sun, Chao ^a   Song, Jingyuan ^a   Lan, Jin ^a   Li, Ying ^a   Li, Xiwen ^a   Chen, Shilin ^a  

^a INSTITUTE OF MEDICINAL PLANT DEVELOPMENT   (China)

Author keywords

[No Author keywords available]

Indexed keywords

GERANYLTRANSFERASE; HYDROPHOBIN; MOB2 PROTEIN; PHO84 PROTEIN; PROFILIN; SQUALENE MONOOXYGENASE; TRITERPENOID; UNCLASSIFIED DRUG; VEGETABLE PROTEIN;

ARTICLE; DNA LIBRARY; EXPRESSED SEQUENCE TAG; FRUIT; GANODERMA LUCIDUM; GENE EXPRESSION PROFILING; MICROSATELLITE MARKER; NONHUMAN; NUCLEOTIDE SEQUENCE; ONLINE ANALYSIS; PLANT BREEDING; PLANT DEVELOPMENT; PLANT METABOLISM; SEQUENCE HOMOLOGY; SIMPLE SEQUENCE REPEAT; UNINDEXED SEQUENCE;

EID: 77951232773     PISSN: None     EISSN: 17498546     Source Type: Journal    
DOI: 10.1186/1749-8546-5-9     Document Type: Article

References (42)

1. Wachtel-Galor S, Tomlinson B, Benzie IFF. Ganoderma lucidum ("Lingzhi"), a Chinese medicinal mushroom: biomarker responses in a controlled human supplementation study. Br J Nutr 2004, 91:263-269. 10.1079/BJN20041039, 14756912.
2. Paterson MRR. Ganoderma - A therapeutic fungal biofactory. Phytochemistry 2006, 67:1985-2001. 10.1016/j.phytochem.2006.07.004, 16905165.
3. Yun TK. Update from Asia. Asian studies on cancer chemoprevention. Ann NY Acad Sci 1999, 889:157-192. 10.1111/j.1749-6632.1999.tb08734.x, 10668493.
4. Sliva D. Cellular and physiological effects of Ganoderma lucidum (Reishi). Mini-Rev Med Chem 2004, 4:873-879.
5. Wang SY, Hsu ML, Hsu HC, Tzeng CH, Lee SS, Shiao MS, Ho CK. The anti-tumor effect of Ganoderma lucidum is mediated by cytokines released from activated marophages and tlymphocytes. Int J Cancer 1997, 70:699-705. 10.1002/(SICI)1097-0215(19970317)70:6<699::AID-IJC12>3.0.CO;2-5, 9096652.
6. Lin ZB, Zhang HN. Anti-tumor and immunoregulatory activities of Ganoderma lucidum and its possible mechanisms. Acta Pharmacol Sin 2004, 25:1387-1395.
7. Lee SS, Wei YH, Chen CF, Wang SY, Chen KY. Anti-tumor effects of Ganoderma lucidum. J Chin Med 1995, 6:1-12.
8. Kim HW, Kim BK. Biomedicinal triterpenoids of Ganoderma lucidum (Curt.:Fr.) P. Karst. (aphyllophoromycetideae). Int J Med Mushrooms 1999, 1:121-138.
9. Zhao MW, Liang WQ, Zhang DB, Wang N, Wang CG, Pan YJ. Cloning and characterization of squalene synthase (SQS) gene from Ganoderma lucidum. J Microbiol Biotechnol 2007, 17:1106-1112.
10. Ding YX, Ou-Yang X, Shang CH, Ren A, Shi L, Li YX, Zhao MW. Molecular cloning, characterization, and differential expression of a farnesyl-diphosphate synthase gene from the Basidiomycetous fungus Ganoderma lucidum. Biosci Biotechnol Biochem 2008, 72:1571-1579. 10.1271/bbb.80067, 18540102.
11. Shang CH, Zhu F, Li N, Ou-Yang X, Shi L, Zhao MW, Li YX. Cloning and characterization of a gene encoding HMGR-CoA reductase from Ganoderma lucidum and its functional identification in yeast. Biosci Biotechnol Biochem 2008, 72:1333-1339. 10.1271/bbb.80011, 18460810.
12. Joo SS, Ryu IW, Park JK, Yoo YM, Lee DH, Hwang KW, Choi HT, Lim CJ, Lee DI, Kim KH. Molecular cloning and expression of a laccase from Ganoderma lucidum, and its antioxodative properties. Mol Cells 2007, 25:112-118.
13. Adams MD, Kelley JM, Gocayne JD, Dubnick M, Polymeropolos MH, Xiao H, Merril CR, Wu A, Olde B, Moreno RF, Mccombe WR, Venter JC. Complentary DNA sequencing: expressed sequence tags and human genome project. Sci 1991, 252:1651-1656.
14. La Claire JW. Analysis of expressed sequence tags from the harmful alga, Prymnesium parvum (Prymnesiophyceae, Haptophyta). Mar Biotechnol (NY) 2006, 8:534-546. 10.1007/s10126-005-5182-2, 16896534.
15. Suizu T, Zhou GL, Oowatari Y, Kawamukai M. Analysis of expressed sequence tags (ESTs) from Lentinula edodes. Appl Microbiol Biotechnol 2008, 79:461-470. 10.1007/s00253-008-1441-2, 18357445.
16. Semova N, Storms R, John T, Gaudet P, Ulycznyj P, Min XJ, Sun J, Butler G, Tsang A. Generation, annotation, and analysis of an extensive Aspergillus niger EST collection. BMC Microbiol 2006, 6:7. 10.1186/1471-2180-6-7, 1434744, 16457709.
17. Sacadura NT, Saville BJ. Gene expresson and EST analysis of Ustilago maydis germinating teliospores. Fungal Genet Biol 2003, 40:47-64. 10.1016/S1087-1845(03)00078-1, 12948513.
18. Zhu H, Nowrousian M, Kupfer D, Colot HV, Berrocal-Tito G, Lai H, Bell-Pedersen D, Roe BA, Loros JJ, Dunlap JC. Analysis of expressed sequence tags from two starvation, time-of day-specific libraries of Neurospora crassa reveals novel clock-controlled genes. Genetics 2001, 157:1057-1065. 1461561, 11238394.
19. Ohlrogge J, Benning C. Unraveling plant metabolism by EST analysis. Curr Opin Plant biol 2000, 3:224-228.
20. Loo FJ, Broun P, Turner S, Somerville C. An oleate 12-hydroxylase from Ricinus communis L. is a fatty acyl desaturase homolog. Proc Natl Acad Sci USA 1995, 92:6743-6747. 10.1073/pnas.92.15.6743, 41405, 7624314.
21. Brandle JE, Richman A, Swanson AK, Chapman BP. Leaf ESTs from Stevia rebaudiana: a resource for gene discovery in diterpene synthesis. Plant Mol Biol 2002, 50:613-622. 10.1023/A:1019993221986, 12374295.
22. SuzuKi H, Achnine L, Xu R, Matsuda SPT, Dixon RA. A genomics approach to the early stages of triterpene saponin biosynthesis in Medicago truncatula. Plant J 2002, 32:1033-1048. 10.1046/j.1365-313X.2002.01497.x, 12492844.
23. Jung JD, Park HW, Hahn Y, Hur CG, In DS, Chung HJ, Liu JR, Choi DW. Discovery of genes for ginsenoside biosynthesis by analysis of ginseng expressed sequence tags. Plant Cell Rep 2003, 22:224-230. 10.1007/s00299-003-0678-6, 12920566.
24. Morgante M, Hanafey M, Powell W. Microsatellites are preferentially associated with nonrepetitive DNA in plant genomes. Nat Genet 2002, 30:194-200. 10.1038/ng822, 11799393.
25. Wei JC. Fungi identification manual (in Chinese). 1979, Shanghai Scientific and Technological Press, Shanghai.
26. Ewing B, Hillier L, Wendl MC, Green P. Base-calling of automated sequencer traces using Phred. I. accuracy assessment. Genome Res 1998, 8:175-185.
27. Ewing B, Green P. Base-calling of automated sequencer traces using Phred. II. error probabilities. Genome Res 1998, 8:186-194.
28. Laboratory of Phil Green. , http://www.phrap.org
29. The UniProt-SwissProt Database. , http://www.uniprot.org/downloads
30. NCBI Nr Database. , ftp://ftp.ncbi.nih.gov/blast/db/FASTA/nr.gz
31. NCBI Nt Database. , ftp://ftp.ncbi.nih.gov/blast/db/FASTA/nt.gz
32. Basic Local Alignment Search Tool. , ftp://ftp.ncbi.nih.gov/blast/executables/release/2.2.17/
33. Simple Sequence Repeat Identification Tool (SSRIT). , http://www.gramene.org/db/markers/ssrtool
34. Temnykh S, DeClerck G, Lukashova A, Lipovich L, Cartinhour S, McCouch S. Computational and experimental analysis of microsatellites in Rice (Oryza sativa L.): frequency, length variation, transposon associations, and genetic marker potential. Genome Res 2001, 11:1441-1452. 10.1101/gr.184001, 311097, 11483586.
35. Varshney RK, Graner A, Sorrells ME. Genic microsatellite markers in plants: features and applications. Trends Biotechnol 2005, 23:48-55. 10.1016/j.tibtech.2004.11.005, 15629858.
36. He FM, Zhu YP, He MX, Zhang YZ. Molecular cloning and characterization of the gene encoding squalene epoxidase in Panax notoginseng. DNA Seq 2008, 19:270-273. 10.1080/10425170701575026, 17852349.
37. Favre G, Ryder NS. Cloning and expression of squalene epoxidase from pathogenic yeast, Candida albicans. Gene 1997, 189:119-126. 10.1016/S0378-1119(96)00844-X, 9161422.
38. Ruckenstuhl C, Leber R, Turnowsky F. Squalene epoxidase as drug target. Res Adv Antimicrob Agents Chemother 2005, 5:35-51.
39. Bun-ya M, Nishimura M, Harashima S, Oshima Y. The PH084 gene of Saccharomyces cerevisiae encodes an inorganic phosphate transporter. Mol Cell Biol 1991, 11:3229-3238. 360175, 2038328.
40. Schneper L, Krauss A, Miyamoto R, Fang S, Broach JR. The Ras/protein kinase A pathway acts in parallel with the Mob2/Cbk1 pathway to effect cell cycle progression and proper bud site selection. Eukaryot Cell 2004, 3:108-120. 10.1128/EC.3.1.108-120.2004, 329503, 14871942.
41. Kershaw MJ, Talbot NJ. Hydrophobins and repellents: proteins with fundamental roles in fungal morphogenesis. Fungal Genet Biol 1998, 23:18-33. 10.1006/fgbi.1997.1022, 9501475.
42. Ostrander DB, Gorman JA, Carman GM. Regulation of profilin localization in Saccharomyces cerevisiae by phosphoinositide metabolism. J Biol Chem 1995, 270:27045-27050. 10.1074/jbc.270.45.27045, 7592954.