Aspergillus oryzae and flavus

Syntenic dotplot between two species/strains of Aspergillus: flavus (x-axis) and oryzae (y-axis). Black arrows point to syntenic discontinuities where there has been a discernible insertion or deletion in one genome. Red dashed lines highlight a pair of chromosomes that have possibly exchanged arms. While it is not possible to assign the event to either organism from this plot, it also could be the result of a genome assembly error. This analysis can be regenerated at: http://genomevolution.org/CoGe/SynMap.pl?dsgid1=8171;dsgid2=7146;c=4;D=20;g=10;A=5;Dm=;gm=;w=0;b=1;ft1=1;ft2=1;do1=1;do2=1;do=40;dt=geneorder .

Aspergillus oryzae strain RIB 40 protein coding sequence GC content histogram. Counts are per sequences and binned according to their GC content. Organism can be viewed at: http://genomevolution.org/CoGe/OrganismView.pl?dsgid=8171

Aspergillus oryzae strain RIB 40 protein coding sequence GC3 (codon wobble position) content histogram. Counts are per sequences and binned according to the GC content of their GC3 codon wobble position. Organism can be viewed at: http://genomevolution.org/CoGe/OrganismView.pl?dsgid=8171

Aspergillus oryzae codon usage table for all protein coding sequences.

Aspergillus oryzae amino acid usage table for all protein coding sequences.

Overview of genomes:

• Aspergillus oryzae strain RIB 40: http://genomevolution.org/CoGe/OrganismView.pl?dsgid=8171
• Aspergillus flavus strain NRRL3357: http://genomevolution.org/CoGe/OrganismView.pl?dsgid=7146

Syntenic conservation of secondary metabolite gene clusters

1. Gene clusters identified by Doug Brown
2. Syntenic comparison done with SynMap: http://genomevolution.org/CoGe/SynMap.pl?dsgid1=8171;dsgid2=7146;c=4;D=20;g=10;A=5;Dm=;gm=;w=0;b=1;ft1=1;ft2=1;do1=1;do2=1;do=40;dt=geneorder
3. Merging of data by custom perl script.

Gene cluster 48

###cluster_48
AFLA_121440     AO070319000038  http://synteny.cnr.berkeley.edu/CoGe/GEvo.pl?fid1=44880786;fid2=58351035;dsgid1=7146;dsgid2=8171
AFLA_121450     AO070319000037  http://synteny.cnr.berkeley.edu/CoGe/GEvo.pl?fid1=44880789;fid2=58351040;dsgid1=7146;dsgid2=8171
AFLA_121460     No syntenic gene pair found
AFLA_121470     No syntenic gene pair found
AFLA_121480     No syntenic gene pair found
AFLA_121490     No syntenic gene pair found
AFLA_121500     No syntenic gene pair found
AFLA_121510     No syntenic gene pair found
AFLA_121520     No syntenic gene pair found
AFLA_121530     No syntenic gene pair found
AFLA_121540     No syntenic gene pair found
AFLA_121550     AO070319000034  http://synteny.cnr.berkeley.edu/CoGe/GEvo.pl?fid1=44880819;fid2=58351062;dsgid1=7146;dsgid2=8171
AFLA_121560     AO070319000033  http://synteny.cnr.berkeley.edu/CoGe/GEvo.pl?fid1=44880822;fid2=58351065;dsgid1=7146;dsgid2=8171
AFLA_121570     AO070319000031  http://synteny.cnr.berkeley.edu/CoGe/GEvo.pl?fid1=44880825;fid2=58351069;dsgid1=7146;dsgid2=8171
AFLA_121580     AO070319000030  http://synteny.cnr.berkeley.edu/CoGe/GEvo.pl?fid1=44880828;fid2=58351073;dsgid1=7146;dsgid2=8171
AFLA_121590     AO070319000029  http://synteny.cnr.berkeley.edu/CoGe/GEvo.pl?fid1=44880831;fid2=58351078;dsgid1=7146;dsgid2=8171
AFLA_121600     AO070319000028  http://synteny.cnr.berkeley.edu/CoGe/GEvo.pl?fid1=44880834;fid2=58351082;dsgid1=7146;dsgid2=8171
AFLA_121610     AO070319000027  http://synteny.cnr.berkeley.edu/CoGe/GEvo.pl?fid1=44880837;fid2=58351086;dsgid1=7146;dsgid2=8171
AFLA_121620     AO070319000026  http://synteny.cnr.berkeley.edu/CoGe/GEvo.pl?fid1=44880840;fid2=58351093;dsgid1=7146;dsgid2=8171
AFLA_121630     AO070319000025  http://synteny.cnr.berkeley.edu/CoGe/GEvo.pl?fid1=44880843;fid2=58351096;dsgid1=7146;dsgid2=8171

GEvo comparison of syntenic region between Aspergillus flavus and Aspergillus oryzae at gene cluster 48. Note the identified missing genes between the two strains are not present, though other genes are. Evidence for rapidly evolving gene clusters in terms of gene content.