neocallimastigomycota_vs_early_fungi — NovInvenio reports

Lineage-specific gene analysis · one folder, three interactive reports

Reports

Each page is self-contained — open it directly, no network needed.

Novelty candidatesLineage-specific genes: present across the ingroup, absent from every outgroup proteome. Core genesNear-universally conserved genes shared by essentially every proteome, ingroup and outgroup. Candidate gene lossesGene families conserved across the outgroups but (nearly) absent from the ingroup. Functional enrichment (novelty)Pfam, InterPro and GO term enrichment of the novelty candidates against the proteome background. Functional enrichment (loss)Pfam, InterPro and GO term enrichment of the loss candidates against the proteome background.

Run summary

Parameters and proteomes from config.csv.

Ingroup proteomes
6
Outgroup proteomes
13
Search tool
diamond
Ingroup min fraction
0.75
Outgroup min fraction
0.75
Loss ingroup max fraction
0
Core min fraction
0.95
Pipeline version
v0.7.0+gd03f5a2 (dev)

Ingroup (6)

Genes are called lineage-specific relative to this clade.

ShortSpeciesTaxon group
PirofinnPiromyces finnisNeocallimastigomycota
AnaerobuAnaeromyces robustusNeocallimastigomycota
NeocalifNeocallimastix californiae G1Neocallimastigomycota
NeolanatNeocallimastix lanati sp3Neocallimastigomycota
NeoconstNeocallimastix sp. 'constans' G3Neocallimastigomycota
PiroE2spPiromyces sp. E2 E2Neocallimastigomycota

Outgroup (13)

Background proteomes used to exclude broadly conserved genes.

ShortSpeciesTaxon group
SpizpuncSpizellomyces punctatus DAOM BR117Chytridiomycota
BatrdendBatrachochytrium dendrobatidis FGSC 10211Chytridiomycota
PowehirtPowellomyces hirtusChytridiomycota
GeravariGeranomyces variabilisChytridiomycota
ChytconfChytriomyces confervaeChytridiomycota
SyncendoSynchytrium endobioticumChytridiomycota
AllomacrAllomyces macrogynus ATCC 38327Blastocladiomycota
CateanguCatenaria anguillulaeBlastocladiomycota
RhizdeleRhizopus delemar NRRL 43880Mucoromycota
MucocircMucor circinelloides 1006PhLMucoromycota
UmbevinaUmbelopsis vinaceaMucoromycota
SacccereSaccharomyces cerevisiae S288cDikarya
NeurcrasNeurospora crassa FGSC 987Dikarya