Table 3.
Eukaryotic Organisms and Their Polyubiquitin Genes Included in the Phylogenetic Analyses.
| Clade | Species | Strain No. | Location | Source | Publication |
|---|---|---|---|---|---|
| Ascomycota | Aspergillus clavatus | NRRL 1 | Scaffold_1099423829800 | JGI | Arnaud et al. 2012 |
| Ascomycota | Arthroderma benhamiae | CBS 112371 | Supercontig_42 | JGI | Burmester et al. 2011 |
| Ascomycota | Penicillium expansum | ATCC 24692 | Scaffold_2 | JGI | N/A |
| Basidiomycota | Amanita thiersii | Skay4041 | Scaffold_1 | JGI | Kohler et al. 2015 |
| Basidiomycota | Armillaria mellea | DSM 3731 | Scaffold_NODE_108303 | JGI | Collins et al. 2013 |
| Basidiomycota | Piloderma croceum | F 1598 | Scaffold_00016 | JGI | Kohler et al. 2015 |
| Zygomycota | Backusella circina | FSU 941 | Scaffold_257 | JGI | N/A |
| Zygomycota | Hesseltinella vesiculosa | NRRL3301 | Scaffold_6 | JGI | N/A |
| Zygomycota | Mucor circinelloides | CBS277.49 | Scaffold_13 | JGI | N/A |
| Zygomycota | Lichtheimia hyalospora | FSU 10163 | Scaffold_4 | JGI | N/A |
| Zygomycota | Rhizopus oryzae | 99-880 | Scaffold_3.9 | Broad Institute | Ma et al. 2009 |
| Zygomycota | Umbelopsis ramanniana | AG | Scaffold_63 | JGI | N/A |
| Zygomycota | Zancudomyces culisetae | COL-18-3 | Scaffold_1672 | NEW | Produced in this study |
| Zygomycota | Smittium culicis | GSMNP | Scaffold_5123 | NEW | Produced in this study |
| Zygomycota | Smittium culicis | ID-206-W2 | Scaffold_922 | NEW | Produced in this study |
| Zygomycota | Smittium mucronatum | ALG-7-W6 | Scaffold_2577 | NEW | Produced in this study |
| Insect | Anopheles gambiae | PEST | Chr_2R | VectorBase | Holt et al. 2002 |
| Insect | Aedes aegypti | Liverpool | Supercontig_1.99 | VectorBase | Nene et al. 2007 |
| Insect | Culex quinquefasciatus | Johannesburg | Supercontig_3.50 | VectorBase | Arensburger et al. 2010 |
| Insect | Simulium vittatum | UGA | Scf7180000737758 | BCM-HGSC | N/A |
| Chordata | Homo sapiens | Assembly Version: GRCH38.p2 | Chr_NC_000012.12 | GenBank | International Human Genome Sequencing Consortium 2004 |
| Chordata | Bos Taurus | Assembly Version: UMD_3.1.1 | Chr_AC_000174.1 | GenBank | Zimin et al. 2009 |
| Chordata | Canis lupus familiaris | Assembly Version: CanFam3.1 | Chr_NC_006608.3 | GenBank | Hoeppner et al. 2014 |
| Chordata | Danio rerio | Assembly Version: GRCz10 | Chr_NC_007121.6 | GenBank | Howe et al. 2013 |
| Plant | Arabidopsis lyrata | MN47 | N/A | GenBank | Hu et al. 2011 |