Aspergillus parasiticus SU-1 genome sequence, predicted chromosome structure, and comparative gene expression under aflatoxin-inducing conditions: Evidence that differential expression contributes to species phenotype

Eukaryotic Cell

Volumn 13, Issue 8, 2014, Pages 1113-1123

  Linz, John E ^a,b,c   Wee, Josephine ^a   Roze, Ludmila V ^a,c  

^a Michigan State University   (United States)

^b NONE   (United States)

^c MICHIGAN STATE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ASPERGILLUS PARASITICUS;

AFLATOXIN; TRANSCRIPTOME;

ASPERGILLUS; BIOSYNTHESIS; CHROMOSOME; COMPARATIVE STUDY; DNA SEQUENCE; FUNGAL GENOME; GENE EXPRESSION REGULATION; GENE ONTOLOGY; GENETICS; METABOLISM; MOLECULAR GENETICS; MULTIGENE FAMILY; PHENOTYPE;

AFLATOXINS; ASPERGILLUS; CHROMOSOMES, FUNGAL; GENE EXPRESSION REGULATION, FUNGAL; GENE ONTOLOGY; GENOME, FUNGAL; MOLECULAR SEQUENCE ANNOTATION; MULTIGENE FAMILY; PHENOTYPE; SEQUENCE ANALYSIS, DNA; TRANSCRIPTOME;

EID: 84907466095     PISSN: 15359778     EISSN: None     Source Type: Journal    
DOI: 10.1128/EC.00108-14     Document Type: Article

References (18)

1. Council for Agricultural Science and Technology (CAST). 2003. Task force report 139. Mycotoxins: risks in plant, animal and human systems. Council for Agricultural Science and Technology, Ames, IA.
2. Yu J, Bhatnagar D, Cleveland TE. 2004. Completed sequence of aflatoxin pathway gene cluster in Aspergillus parasiticus. FEBS Lett. 564:126-130. http://dx.doi.org/10.1016/S0014-5793(04)00327-8.
3. Koehler PE, Hanlan RT, Bihari L. 1975. Production of aflatoxin B1 and G1 in Aspergillus flavus and Aspergillus parasiticus isolated from market pecans. Appl. Microbiol. 30:581-583.
4. Dobson A. 2011. Yeast and molds: Aspergillus flavus, p 785-791. In Fuquay J, Fox P, McSweeney P (ed), Encyclopedia of dairy sciences, 2nd ed. Elsevier, Ltd., New York, NY.
5. Geiser DM, Klich MA, Frisvad JC, Peterson SW, Varga J, Samson RA. 2007.The current status of species recognition and identification in Aspergillus. Stud. Mycol. 59:1-10. http://dx.doi.org/10.3114/sim.2007.59.01.
6. Liang SH, Wu TS, Lee R, Chu FS, Linz JE. 1997. Analysis of the mechanisms regulating expression of the ver-1 gene involved in aflatoxin biosynthesis. Appl. Environ. Microbiol. 63:1058-1065.
7. Roze LV, Chanda A, Wee J, Awad D, Linz JE. 2011. Stress-related transcription factor AtfB integrates secondary metabolism with oxidative stress response in aspergilli. J. Biol. Chem. 286:35137-35148. http://dx.doi. org/10.1074/jbc.M111.253468.
8. Cihlar R, Sypherd PS. 1980. The organization of the ribosomal RNA genes in the fungus Mucor. Nucleic Acids Res. 8:793-804.
9. Horng JS, Linz JE, Pestka JJ. 1989. Cloning and characterization of the trpC gene from an aflatoxigenic strain of Aspergillus parasiticus. Appl. Environ. Microbiol. 55:2561-2568.
10. Medema MH, Blin K, Cimermancic P, de Jager V, Zakrzewski P, Fischbach MA, Weber T, Takano E, Breitling R. 2011. antiSMASH: rapid identification, annotation, and analysis of secondary metabolite biosynthesis gene clusters in bacterial and fungal genome sequences. Nucleic Acids Res. 39:W339-W346. http://dx.doi.org/10.1093/nar/gkr466.
11. Langmead B, Salzberg S. 2012. Fast gapped-read alignment with Bowtie 2. Nat. Methods 9:357-359. http://dx.doi.org/10.1038/nmeth.1923.
12. Camacho C, Coulouris G, Avagyan V, Ma N, Papadopoulos J, Bealer K, Madden TL. 2009. BLAST+: architecture and applications. BMC Bioinformatics 10:421. http://dx.doi.org/10.1186/1471-2105-10-421.
13. Roberts A, Pimentel H, Trapnell C, Pachter L. 2011. Identification of novel transcripts in annotated genomes using RNA-Seq. Bioinformatics 27:2325-2329. http://dx.doi.org/10.1093/bioinformatics/btr355.
14. Chanda A, Roze LV, Kang S, Artymovich KA, Hicks GR, Raikel N, Linz JE. 2009. A key role for vesicles in fungal secondary metabolism. Proc. Natl. Acad. Sci. U. S. A. 106:19533-19538. http://dx.doi.org/10.1073/pnas. 0907416106.
15. 2 Cys6 binuclear cluster. Proc. Natl. Acad. Sci. U. S. A. 87:2077-2081. http://dx.doi.org/10.1073/pnas.87.6.2077.
16. MacPherson S, Larochelle M, Turcotte B. 2006. A fungal family of transcription regulators: the zinc cluster proteins. Microbiol. Mol. Biol. Rev. 70:583-604. http://dx.doi.org/10.1128/MMBR.00015-06.
17. Woloshuk CP, Foutz KR, Brewer JF, Bhatnagar D, Cleveland TE, Payne GA. 1994. Molecular characterization of aflR, a regulatory locus for aflatoxin biosynthesis. Appl. Environ. Microbiol. 60:2408-2414.
18. Yin W, Amaike S, Wohlbach DJ, Gasch AP, Chiang YM, Wang CC, Bok JW, Rohlfs M, Keller NP. 2012. An Aspergillus nidulans bZIP response pathway hardwired for defensive secondary metabolism operates through AflR. Mol. Microbiol. 83:1024-1034. http://dx.doi.org/10.1111/j.1365 -2958.2012.07986.x.