Introduction 1997 2002 2002 Aspergillus niger A. niger 2003 1998 1999 1993 1993 2000 2006 2 6 5–16 2 6–8 Saccharomyces cerevisiae 2001 1997 2001 1995 2003 2000 1990 1999 A. niger A. fumigatus A. nidulans 2007 1994 2000 1991 1998 1995 1992 2005 1999 2000 2001a 1998a 1998b 1999 2004 1994 2000 2002 2000 A. parasiticus 2000 2006 A. niger 2007 inuR inuR Materials and methods Strains, culture conditions and transformation Aspergillus niger A. niger 1988 A. niger pyrG 1987 A. niger Aspergillus 1991 Aspergillus A. niger 6 A. niger A. niger 1992 Escherichia coli 1990 Construction of the inuR::pyrG deletion strain A. niger inuR inuR Aspergillus oryzae pyrG inuR inuR Not Xho Xho Kpn Not Xho inuR Not Xho A. oryzae pyrG Sal BamH 1989 Xho BamH inuR inuR Not A. niger pyrG - inuR 1989 1988 Xho Eco inuR inuR Xho Bam 32 Complementation of inuR mutant A. niger inuR A. niger inuR inuR 1987 A. niger inuR 1989 inuR amyR  pyrG inuR A. niger pyrG A. niger pyrE pyrG pyrG inuR amyR amyR pyrG inuR amyR Northern blot analysis 2006 Microtiter plate growth assay A. niger 4 595 Microarray experiments and data analysis A. niger inuR ® A. niger P P http://www.ebi.ac.uk/at-miamexpress In silico analysis of regulatory elements of co-regulated genes 1993 Results Identification of potential transcriptional regulators involved in inulin catabolism A. niger A. niger 2003 2006 A. niger 2006 inuQ 2006 2006 2000 2000 A. niger inuA inuQ inuQ 1 Fig. 1 A. niger inuR inuA inuQ sucA sucB sucA arrows  sucA sucA S. cerevisiae e e 1998 sucB sucB 1 A. niger S. cerevisiae inuR. 2 Fig. 2 underlined stars A. oryzae, A. niger, A. fumigatus A. nidulans  InuR encodes a Zn(II)2Cys6 transcription factor that is required for growth on inulin inuR 2 6 5 2 6 A. nidulans A. oryzae A. fumigatus 2 A. oryzae A. fumigatus A. nidulans Aspergillus 1996 A. niger inuR A. niger inuR Materials and methods inuR inuR inuR 3 inuR inuR 3 inuR inuR 3 Fig. 3 A. niger inuR inuR amyR amyR amyR inuR  inuR inuR 4 inuR inuR inuR 4 inuR 4 inuR inuR inuR inuR inuR 1987 inuR inuR inuR inuR inuR Fig. 4 inuR A. niger open circles inuR inuR solid circles 4 595  InuR is required for the induction of inulinolytic genes inuR inuE inuA sucA sucB 2006 inuR 5 2006 inuR inuE inuA sucA inuR sucB 5 inuR sucB 1 5 inuR Fig. 5 inuR  A. niger A. niger A. niger inuR Materials and methods A. niger A. niger P A. niger inuR inuR P 1 Table 1 A. niger ORF No. N402 sucrose   N402 xylose   amyR  Fold induction P Function  Sucrose versus xylose inuR Carbohydrate transport and metabolism  An08g11070 a P  0.11 ± 0.01 A  0.26 ± 0.45 A 930.3 391.1 0.008 Invertase   An15g04060 36.82 ± 1.36 P  0.18 ± 0.03 A  0.29 ± 0.05 A  204.2 126.6 0.009 Putative fructose facilitator  An12g08280 145.30 ± 27.90 P  1.81 ± 0.28 P, M  1.97 ± 0.21 P, M  80.3 73.8 0.008 Exo-inulinase  An11g03200 29.27 ± 0.80 P  0.63 ± 0.23 A  0.74 ± 0.06 A 46.2 39.6 0.007 Endo-inulinase  An15g00310 20.64 ± 2.95 P  1.34 ± 0.17 A  1.76 ± 0.97 P  15.4 11.7 0.018 Putative monosaccharide transporter   An15g03940 167.30 ± 1.20 P  65.74 ± 3.04 P  61.68 ± 47.66 P  2.5 2.7 0.027 Putative monosaccharide transporter  Amino acid transport and metabolism  An04g01340 44.31 ± 3.39 P  16.25 ± 1.27 P  10.16 ± 14.17 P  2.7 4.4 0.041 Putative asparagine synthase   An14g02720 7.75 ± 0.04 P  2.37 ± 0.17 p  2.88 ± 1.17 P  3.3 2.7 0.037 Putative neutral amino acid permease  Lipid transport and metabolism  An08g03670 10.76 ± 0.09 P  4.45 ± 0.14 P  3.91 ± 2.36 P, A  2.4 2.8 0.015 Putative ethanolamine kinase   An16g06190 2.42 ± 0.14 P  1.16 ± 0.07 P, A  0.97 ± 0.19 A  2.1 2.5 0.039 Putative glycerophosphoinositol transporter  Phosphate transport and metabolism  An02g00180 8.04 ± 0.06 P  2.85 ± 0.03 P  0.50 ± 0.22 A  2.8 16.2 0.001 Putative phosphate-repressible phosphate permease  Nucleotide transport and metabolism  An02g09960 41.96 ± 4.97 P  8.61 ± 0.73 P  16.54 ± 7.61 P  4.9 2.5 0.033 Putative phosphoribosylformylglycinamidine synthase  Other transport mechanism  An17g01710 54.97 ± 15.19 P  2.83 ± 0.65 P  5.71 ± 10.10 P, A  19.4 9.6 0.049 Putative multidrug transporter  An08g02330 26.99 ± 4.40 P  5.73 ± 0.31 P  12.12 ± 0.63 P  4.7 2.2 0.024 Putative ABC multidrug transporter  An17g00240 40.24 ± 3.78 P  12.14 ± 0.61 P  19.54 ± 8.12 P  3.3 2.1 0.038 Putative ABC transporter Transcription  An02g05460 9.25 ± 1.05 P  2.60 ± 0.23 A  4.26 ± 0.83 M, A  3.6 2.2 0.040 Putative DNA-directed RNA polymerase  An02g12610 3.81 ± 0.25 P  1.55 ± 0.02 A  1.21 ± 0.89 P, A  2.5 3.2 0.043 Putative Ran-GTPase-activating protein Protein synthesis  An02g12640 48.21 ± 6.42 P  9.16 ± 1.17 P  18.71 ± 1.32 P  5.3 2.6 0.041 Putative RNA-binding protein   An17g01815 55.05 ± 1.42 P  15.21 ± 0.37 P  24.59 ± 6.90 P  3.6 2.2 0.004 Putative translation initiation factor  An01g06040 10.17 ± 2.79 P  3.21 ± 0.04 P  3.88 ± 0.04 P  3.2 2.6 0.025 Putative 60S ribosome biogenesis protein  An02g14080 23.20 ± 0.69 P  9.94 ± 0.25 P  10.87 ± 7.87 P  2.3 2.1 0.010 Putative asparaginyl-tRNA synthetase Protein fate  An11g04980 36.47 ± 1.45 P  9.59 ± 1.06 P  12.82 ± 0.53 P  3.8 2.8 0.010 Putative importin unit beta-4 Unclassified  An01g00340 9.56 ± 0.97 P  2.26 ± 0.42 P  3.13 ± 0.32 P, A  4.2 3.1 0.036 Unknown protein  An15g03150 13.42 ± 0.68 P  4.01 ± 0.16 P  4.02 ± 0.26 P  3.4 3.3 0.008 Unknown protein  An07g02690 5.27 ± 0.03 P  1.69 ± 0.02 A  2.22 ± 0.27 P  3.1 2.4 0.001 Unknown protein  An01g05500 3.77 ± 0.06 P  1.25 ± 0.03 P  1.46 ± 0.35 P  3.0 2.6 0.005 Unknown protein a P M A 2004 2004 1997 1 sucA inuE inuA inuR Zygosaccharomyces bailii 2004 inuR 2004 1 6 8 8 1999 amyR 3 amyR amyR amyR/ inuR 3 Fig. 6 gray Numbers  Discussion A. niger 2006 1999 2000 1998a A. niger 1 inuR A. niger sucB 2007 A. nidulans A. oryzae and A. fumigatus inuR sucB A. niger A. nidulans e e e e e e A. oryzae e e e A. fumigatus e e A. fumigatus inuR A. niger A. niger Aspergillus A. nidulans A. oryzae A. fumigatus A. oryzae A. nidulans A. fumigatus A. niger A. niger inuR inuR inuR sucB sucB 2007 1 sucB niiA niaD 1995 5 sucB sucB 2007 sucB sucB sucC sucC sucB sucC A. niger 2004 A. niger inuR 1 A. niger 2007 S. cerevisiae Neuropora crassa S. cerevisiae N. crassa 2001 2004 A. nidulans A. fumigatus) A. niger inuR A. nidulans A. niger inuR A. nidulans A. niger 1997 2001b 2004 6 2004 inuC inuD Penicillium 2006 A. niger amyR inuR amyR inuR inuR 1992 1992 2004 A. niger amyR agdA agdB A. niger Electronic supplementary material Below is the link to the electronic supplementary material.
 Supplementary Tables (DOC 224 kb)