Aspergillus oryzae and flavus: Difference between revisions

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[[Image:Dotplot Aspergillus-oryzae versus flavus.png|thumb|600px|right|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 .]]
[[Image:Dotplot Aspergillus-oryzae versus flavus.png|thumb|600px|right|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 .]]


[[Image:42188 42187 42186 42185 42184 42183 42182 42181 42180 42179 42178 42177 42176 42175 42174 42173 42172 42171 42170 42169 42168 42167 42166 42165 42164 42163 42162 min CDS gc.png|thumb|600px|right|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://synteny.cnr.berkeley.edu/CoGe/OrganismView.pl?dsgid=8171]]
[[Image:42188 42187 42186 42185 42184 42183 42182 42181 42180 42179 42178 42177 42176 42175 42174 42173 42172 42171 42170 42169 42168 42167 42166 42165 42164 42163 42162 min CDS gc.png|thumb|600px|right|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]]


[[Image:42188 42187 42186 42185 42184 42183 42182 42181 42180 42179 42178 42177 42176 42175 42174 42173 42172 42171 42170 42169 42168 42167 42166 42165 42164 42163 42162 wobble gc.png|thumb|600px|right|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://synteny.cnr.berkeley.edu/CoGe/OrganismView.pl?dsgid=8171]]
[[Image:42188 42187 42186 42185 42184 42183 42182 42181 42180 42179 42178 42177 42176 42175 42174 42173 42172 42171 42170 42169 42168 42167 42166 42165 42164 42163 42162 wobble gc.png|thumb|600px|right|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]]


Overview of genomes:
[[Image:Aspergillua-oryzae-codon-usage-table.png|thumb|600px|right|Aspergillus oryzae codon usage table for all protein coding sequences.]]
 
[[Image:Aspergillua-oryzae-amino-acid-usage-table.png|thumb|600px|right|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 oryzae strain RIB 40: http://genomevolution.org/CoGe/OrganismView.pl?dsgid=8171
*Aspergillus flavus strain NRRL3357: http://synteny.cnr.berkeley.edu/CoGe/OrganismView.pl?dsgid=7146
*Aspergillus flavus strain NRRL3357: http://genomevolution.org/CoGe/OrganismView.pl?dsgid=7146
 
==Secondary metabolic gene clusters==
[[Aspergillus flavus secondary metabolic gene clusters]]

Latest revision as of 20:08, 27 April 2010

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:

Secondary metabolic gene clusters

Aspergillus flavus secondary metabolic gene clusters

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