@article{price_yu_nierman_kim_pritchard_jacobus_bhatnagar_cleveland_payne_2006, title={The aflatoxin pathway regulator AfIR induces gene transcription inside and outside of the aflatoxin biosynthetic cluster}, volume={255}, ISSN={["1574-6968"]}, DOI={10.1111/j.1574-6968.2005.00084.x}, abstractNote={Aflatoxin contamination of food and feed is a major concern due to the carcinogenic properties of this mycotoxin. Previous studies using classical approaches have identified a cluster of genes responsible for aflatoxin production under the control of the pathway-specific transcriptional regulator aflR, but it is unknown whether aflR controls expression of other genes within the genome. Transcription profiling comparing wild type and DeltaaflR strains of Aspergillus parasiticus grown under conditions conducive for aflatoxin production identified only 23 upregulated genes in the wild type. These included 20 genes in the aflatoxin biosynthetic cluster, and three additional genes outside the aflatoxin biosynthetic cluster (nadA, hlyC, and niiA), all with AflR binding sites. This report is the first to demonstrate genes outside the biosynthetic cluster as being associated with aflR expression.}, number={2}, journal={FEMS MICROBIOLOGY LETTERS}, author={Price, MS and Yu, JJ and Nierman, WC and Kim, HS and Pritchard, B and Jacobus, CA and Bhatnagar, D and Cleveland, TE and Payne, GA}, year={2006}, month={Feb}, pages={275–279} }
 @article{payne_nierman_wortman_pritchard_brown_dean_bhatnagar_cleveland_machida_yu_2006, title={Whole genome comparison of Aspergillus flavus and A-oryzae}, volume={44}, ISSN={["1369-3786"]}, DOI={10.1080/13693780600835716}, abstractNote={Aspergillus flavus is a plant and animal pathogen that also produces the potent carcinogen aflatoxin. Aspergillus oryzae is a closely related species that has been used for centuries in the food fermentation industry and is Generally Regarded As Safe (GRAS). Whole genome sequences for these two fungi are now complete, providing us with the opportunity to examine any genomic differences that may explain the different ecological niches of these two fungi, and perhaps to identify pathogenicity factors in A. flavus. These two fungi are very similar in genome size and number of predicted genes. The estimated genome size (36·8 Mb) and predicted number of genes (12 197) for A. flavus is similar to that of A. oryzae (36·7 Mb and 12 079, respectively). These two fungi have significantly larger genomes than Aspergillus nidulans (30·1) and Aspergillus fumigatus (29·4). The A. flavus and A. oryzae genomes are enriched in genes for secondary metabolism, but do not differ greatly from one another in the predicted number of polyketide synthases, nonribosomal peptide synthases or the number of genes coding for cytochrome P450 enzymes. A micro-scale analysis of the two fungi did show differences in DNA correspondence between the two species and in the number of transposable elements. Each species has approximately 350 unique genes. The high degree of sequence similarity between the two fungi suggests that they may be ecotypes of the same species and that A. oryzae has resulted from the domestication of A. flavus.}, journal={MEDICAL MYCOLOGY}, author={Payne, G. A. and Nierman, W. C. and Wortman, J. R. and Pritchard, B. L. and Brown, D. and Dean, R. A. and Bhatnagar, D. and Cleveland, T. E. and Machida, Masayuki and Yu, J.}, year={2006}, month={Sep}, pages={S9–S11} }