Statistics on protein trees

The protein tree pipeline is described at the following page.

• Overview
• Gene tree coverage and Gene QC for each species
• Size of gene trees (split by their root taxon)
• Gene tree nodes, and the inference of speciation / duplication events

Overall Summary

Legend
Internal nodes (ancestral taxa)	Node types	Speciations	Duplications	Dubious nodes
Leaves (extant species)	Gene tree coverage	Genes in multi-species trees	Genes in single-species trees	Orphaned genes
	Gene QC	Validated genes	Short genes	Long genes	Split genes

Spironucleus salmonicida (GCA_000497125.1) (Spironucleus salmonicida)

Giardia lamblia (Giardia lamblia ATCC 50803)

Kipferlia bialata (GCA_003568945.1) (Kipferlia bialata)

Tritrichomonas foetus str. K (GCA_001839685.1) (Tritrichomonas foetus)

Chroomonas mesostigmatica CCMP1168 (GCA_000286095.1) (Chroomonas mesostigmatica CCMP1168)

Guillardia theta CCMP2712 (Guillardia theta CCMP2712)

Cryptomonas paramecium str. CCAP977/2A (GCA_000194455.1) (Cryptomonas paramecium)

Leptomonas pyrrhocoris str. H10 (GCA_001293395.1) (Leptomonas pyrrhocoris)

Leptomonas seymouri str. ATCC 30220 (GCA_001299535.1) (Leptomonas seymouri)

Leishmania infantum (GCA_900500625.1) (Leishmania infantum)

Leishmania donovani str. BPK282A1 (GCA_000227135.2) (Leishmania donovani)

Leishmania major (Leishmania major strain Friedlin)

Leishmania panamensis str. MHOM/PA/94/PSC-1 (GCA_000755165.1) (Leishmania panamensis)

Strigomonas culicis (GCA_000442495.1) (Strigomonas culicis)

Angomonas deanei (GCA_000442575.2) (Angomonas deanei)

Phytomonas sp. isolate EM1 (GCA_000582765.1) (Phytomonas sp. EM1)

Phytomonas sp. isolate Hart1 (GCA_000982615.1) (Phytomonas sp. Hart1)

Trypanosoma equiperdum (GCA_001457755.2) (Trypanosoma equiperdum)

Trypanosoma brucei (Trypanosoma brucei)

Trypanosoma theileri (GCA_002087225.1) (Trypanosoma theileri)

Trypanosoma conorhini (GCA_003719485.1) (Trypanosoma conorhini)

Trypanosoma rangeli SC58 (GCA_000492115.1) (Trypanosoma rangeli SC58)

Trypanosoma cruzi marinkellei (GCA_000300495.1) (Trypanosoma cruzi marinkellei)

Perkinsela sp. CCAP 1560/4 (GCA_001235845.1) (Perkinsela sp. CCAP 1560/4)

Naegleria gruberi str. NEG-M (GCA_000004985.1) (Naegleria gruberi)

Dictyostelium discoideum (Dictyostelium discoideum AX4)

Dictyostelium purpureum str. QSDP1 (GCA_000190715.1) (Dictyostelium purpureum)

Tieghemostelium lacteum str. TK (GCA_001606155.1) (Tieghemostelium lacteum)

Cavenderia fasciculata str. SH3 (GCA_000203815.1) (Cavenderia fasciculata)

Entamoeba dispar SAW760 (GCA_000209125.2) (Entamoeba dispar SAW760)

Entamoeba nuttalli P19 (GCA_000257125.1) (Entamoeba nuttalli P19)

Entamoeba histolytica (Entamoeba histolytica HM-1:IMSS)

Entamoeba invadens IP1 (GCA_000330505.1) (Entamoeba invadens IP1)

Planoprotostelium fungivorum str. Jena (GCA_003024175.1) (Planoprotostelium fungivorum)

Acanthamoeba castellanii str. Neff (GCA_000313135.1) (Acanthamoeba castellanii str. Neff)

Plasmodiophora brassicae (GCA_001049375.1) (Plasmodiophora brassicae)

Bigelowiella natans (Bigelowiella natans CCMP2755)

Reticulomyxa filosa (GCA_000512085.1) (Reticulomyxa filosa)

Hondaea fermentalgiana (GCA_002897355.1) (Hondaea fermentalgiana)

Blastocystis hominis str. Singapore isolate B (sub-type 7) (GCA_000151665.1) (Blastocystis hominis)

Pythium aphanidermatum (Pythium aphanidermatum DAOM BR444)

Pythium arrhenomanes (Pythium arrhenomanes ATCC 12531)

Pythium iwayamai (Globisporangium iwayamae DAOM BR242034)

Pythium ultimum (Globisporangium ultimum DAOM BR144)

Pythium irregulare (Globisporangium irregulare DAOM BR486)

Pythium vexans (Phytopythium vexans DAOM BR484)

Saprolegnia parasitica CBS 223.65 (GCA_000151545.2) (Saprolegnia parasitica CBS 223.65)

Saprolegnia diclina VS20 (GCA_000281045.1) (Saprolegnia diclina VS20)

Aphanomyces invadans str. NJM9701 (GCA_000520115.1) (Aphanomyces invadans Apha_inva_NJM9701_V1)

Aphanomyces astaci str. APO3 (GCA_000520075.1) (Aphanomyces astaci Apha_asta_APO3_V1)

Thraustotheca clavata str. ATCC 34112 (GCA_002081575.1) (Thraustotheca clavata)

Achlya hypogyna str. ATCC 48635 (GCA_002081595.1) (Achlya hypogyna)

Phytophthora kernoviae (Phytophthora kernoviae 00238/432)

Phytophthora cactorum str. 10300 (GCA_003287315.1) (Phytophthora cactorum)

Phytophthora lateralis (Phytophthora lateralis MPF4)

Phytophthora palmivora var. palmivora str. sbr112.9 (GCA_002911725.1) (Phytophthora palmivora var. palmivora)

Phytophthora ramorum (Phytophthora ramorum)

Phytophthora parasitica (Phytophthora parasitica P1569)

Phytophthora nicotianae (GCA_001482985.1) (Phytophthora nicotianae ASM148298v1)

Phytophthora megakarya str. zdho120 (GCA_002215365.1) (Phytophthora megakarya)

Phytophthora sojae (Phytophthora sojae strain P6497)

Phytophthora infestans (Phytophthora infestans T30-4)

Nothophytophthora sp. Chile5 (GCA_001712635.2) (Nothophytophthora sp. Chile5)

Hyaloperonospora arabidopsidis (Hyaloperonospora arabidopsidis Emoy2)

Peronospora effusa (GCA_003704535.1) (Peronospora effusa Peff_R14)

Plasmopara halstedii (GCA_900000015.1) (Plasmopara halstedii)

Albugo laibachii (Albugo laibachii Nc14)

Thalassiosira oceanica str. CCMP1005 (GCA_000296195.2) (Thalassiosira oceanica)

Thalassiosira pseudonana (Thalassiosira pseudonana CCMP1335)

Fragilariopsis cylindrus CCMP1102 (GCA_001750085.1) (Fragilariopsis cylindrus CCMP1102)

Pseudo-nitzschia multistriata (Pseudo-nitzschia multistriata)

Phaeodactylum tricornutum (Phaeodactylum tricornutum CCAP 1055/1)

Ectocarpus siliculosus str. Ec 32 (CCAP 1310/04) (GCA_000310025.1) (Ectocarpus siliculosus)

Aureococcus anophagefferens (GCA_000186865.1) (Aureococcus anophagefferens)

Nannochloropsis gaditana CCMP526 (GCA_000240725.1) (Nannochloropsis gaditana CCMP526)

Stylonychia lemnae str. 130c (GCA_000751175.1) (Stylonychia lemnae)

Oxytricha trifallax str. JRB310 (GCA_000711775.1) (Oxytricha trifallax Oxytricha_MIC_v2.0)

Tetrahymena thermophila (Tetrahymena thermophila SB210)

Ichthyophthirius multifiliis str. G5 (GCA_000220395.1) (Ichthyophthirius multifiliis)

Pseudocohnilembus persalinus (GCA_001447515.1) (Pseudocohnilembus persalinus)

Paramecium tetraurelia (Paramecium tetraurelia)

Stentor coeruleus (GCA_001970955.1) (Stentor coeruleus)

Eimeria maxima str. Weybridge (GCA_000499605.1) (Eimeria maxima)

Eimeria tenella str. Houghton (GCA_000499545.1) (Eimeria tenella)

Eimeria praecox (GCA_000499445.1) (Eimeria praecox)

Eimeria mitis (GCA_000499745.1) (Eimeria mitis)

Eimeria acervulina (GCA_000499425.1) (Eimeria acervulina)

Eimeria brunetti (GCA_000499725.1) (Eimeria brunetti)

Cyclospora cayetanensis str. CHN_HEN01 (GCA_000769155.2) (Cyclospora cayetanensis)

Toxoplasma gondii ME49 (Toxoplasma gondii ME49)

Toxoplasma gondii VEG (GCA_000150015.2) (Toxoplasma gondii VEG)

Cystoisospora suis str. Wien I (GCA_002600585.1) (Cystoisospora suis)

Besnoitia besnoiti str. Bb-Ger1 (GCA_002563875.1) (Besnoitia besnoiti)

Hammondia hammondi str. H.H.34 (GCA_000258005.2) (Hammondia hammondi)

Cryptosporidium ubiquitum (GCA_001865345.1) (Cryptosporidium ubiquitum)

Cryptosporidium muris RN66 (GCA_000006515.1) (Cryptosporidium muris RN66)

Cryptosporidium meleagridis str. UKMEL1 (GCA_001593445.1) (Cryptosporidium meleagridis)

Cryptosporidium parvum Iowa II (GCA_000165345.1) (Cryptosporidium parvum Iowa II)

Cryptosporidium andersoni (GCA_001865355.1) (Cryptosporidium andersoni)

Gregarina niphandrodes (GCA_000223845.4) (Gregarina niphandrodes)

Theileria parva str. Muguga (GCA_000165365.1) (Theileria parva)

Theileria orientalis strain Shintoku (GCA_000740895.1) (Theileria orientalis strain Shintoku)

Theileria equi strain WA (GCA_000342415.1) (Theileria equi strain WA)

Babesia sp. Xinjiang (GCA_002095265.1) (Babesia sp. Xinjiang)

Babesia ovata str. Miyake (GCA_002897235.1) (Babesia ovata)

Babesia bigemina str. Bond (GCA_000981445.1) (Babesia bigemina)

Babesia bovis str. T2Bo (GCA_000165395.1) (Babesia bovis)

Plasmodium relictum (GCA_900005765.1) (Plasmodium relictum)

Plasmodium gallinaceum (GCA_900005855.1) (Plasmodium gallinaceum)

Plasmodium yoelii yoelii str. 17XNL (GCA_000003085.2) (Plasmodium yoelii yoelii)

Plasmodium vinckei petteri str. CR (GCA_000524515.1) (Plasmodium vinckei petteri)

Plasmodium chabaudi (Plasmodium chabaudi chabaudi strain AS)

Plasmodium berghei (Plasmodium berghei ANKA)

Plasmodium sp. DRC-Itaito (GCA_900240055.1) (Plasmodium sp. DRC-Itaito PGABG02)

Plasmodium reichenowi (GCA_001601855.1) (Plasmodium reichenowi ASM160185v1)

Plasmodium falciparum 3D7 (Plasmodium falciparum 3D7)

Plasmodium sp. gorilla clade G2 (GCA_900097015.1) (Plasmodium sp. gorilla clade G2)

Plasmodium gaboni (GCA_001602025.1) (Plasmodium gaboni)

Plasmodium gonderi (GCA_002157705.1) (Plasmodium gonderi)

Plasmodium fragile str. multiple (GCA_000956335.1) (Plasmodium fragile)

Plasmodium malariae (GCA_900088575.1) (Plasmodium malariae Pmal)

Plasmodium ovale curtisi (GCA_900088565.1) (Plasmodium ovale curtisi Poc2)

Plasmodium vivax (Plasmodium vivax strain Salvador I)

Plasmodium inui San Antonio 1 (GCA_000524495.1) (Plasmodium inui San Antonio 1)

Plasmodium knowlesi (Plasmodium knowlesi strain H)

Plasmodium cynomolgi strain B (GCA_000321355.1) (Plasmodium cynomolgi strain B)

Plasmodium coatneyi (GCA_001680005.1) (Plasmodium coatneyi)

Symbiodinium microadriaticum str. CCMP2467 (GCA_001939145.1) (Symbiodinium microadriaticum)

Perkinsus marinus ATCC 50983 str. PmCV4CB5 2B3 D4 (GCA_000006405.1) (Perkinsus marinus ATCC 50983)

Salpingoeca rosetta str. ATCC 50818 (GCA_000188695.1) (Salpingoeca rosetta)

Monosiga brevicollis MX1 (GCA_000002865.1) (Monosiga brevicollis MX1)

Sphaeroforma arctica JP610 (GCA_001186125.1) (Sphaeroforma arctica JP610)

Capsaspora owczarzaki ATCC 30864 (GCA_000151315.2) (Capsaspora owczarzaki ATCC 30864)

Fonticula alba str. ATCC 38817 (GCA_000388065.2) (Fonticula alba)

Thecamonas trahens ATCC 50062 (GCA_000142905.1) (Thecamonas trahens ATCC 50062)

Emiliania huxleyi (Emiliania huxleyi CCMP1516)