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

Angomonas deanei (GCA_000442575.2) (Angomonas deanei)

Strigomonas culicis (GCA_000442495.1) (Strigomonas culicis)

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

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

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)

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

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

Trypanosoma conorhini (GCA_003719485.1) (Trypanosoma conorhini)

Trypanosoma theileri (GCA_002087225.1) (Trypanosoma theileri)

Trypanosoma equiperdum (GCA_001457755.2) (Trypanosoma equiperdum)

Trypanosoma brucei (Trypanosoma brucei)

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

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

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

Entamoeba histolytica (Entamoeba histolytica HM-1:IMSS)

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

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)

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)

Giardia lamblia (Giardia lamblia ATCC 50803)

Spironucleus salmonicida (GCA_000497125.1) (Spironucleus salmonicida)

Kipferlia bialata (GCA_003568945.1) (Kipferlia bialata)

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

Bigelowiella natans (Bigelowiella natans CCMP2755)

Reticulomyxa filosa (GCA_000512085.1) (Reticulomyxa filosa)

Plasmodiophora brassicae (GCA_001049375.1) (Plasmodiophora brassicae)

Hondaea fermentalgiana (GCA_002897355.1) (Hondaea fermentalgiana)

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

Thalassiosira pseudonana (Thalassiosira pseudonana CCMP1335)

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

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

Pseudo-nitzschia multistriata (Pseudo-nitzschia multistriata)

Phaeodactylum tricornutum (Phaeodactylum tricornutum CCAP 1055/1)

Aureococcus anophagefferens (GCA_000186865.1) (Aureococcus anophagefferens)

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

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

Pythium arrhenomanes (Pythium arrhenomanes ATCC 12531)

Pythium aphanidermatum (Pythium aphanidermatum DAOM BR444)

Pythium iwayamai (Globisporangium iwayamae DAOM BR242034)

Pythium ultimum (Globisporangium ultimum DAOM BR144)

Pythium irregulare (Globisporangium irregulare DAOM BR486)

Pythium vexans (Phytopythium vexans DAOM BR484)

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)

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

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

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

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

Phytophthora infestans (Phytophthora infestans T30-4)

Phytophthora ramorum (Phytophthora ramorum)

Phytophthora kernoviae (Phytophthora kernoviae 00238/432)

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

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

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

Phytophthora sojae (Phytophthora sojae strain P6497)

Phytophthora parasitica (Phytophthora parasitica P1569)

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

Phytophthora lateralis (Phytophthora lateralis MPF4)

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

Plasmopara halstedii (GCA_900000015.1) (Plasmopara halstedii)

Hyaloperonospora arabidopsidis (Hyaloperonospora arabidopsidis Emoy2)

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

Albugo laibachii (Albugo laibachii Nc14)

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

Eimeria acervulina (GCA_000499425.1) (Eimeria acervulina)

Eimeria praecox (GCA_000499445.1) (Eimeria praecox)

Eimeria mitis (GCA_000499745.1) (Eimeria mitis)

Eimeria brunetti (GCA_000499725.1) (Eimeria brunetti)

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

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

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

Toxoplasma gondii ME49 (Toxoplasma gondii ME49)

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

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

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

Cryptosporidium andersoni (GCA_001865355.1) (Cryptosporidium andersoni)

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)

Gregarina niphandrodes (GCA_000223845.4) (Gregarina niphandrodes)

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

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

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

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

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

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

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

Plasmodium gallinaceum (GCA_900005855.1) (Plasmodium gallinaceum)

Plasmodium relictum (GCA_900005765.1) (Plasmodium relictum)

Plasmodium berghei (Plasmodium berghei ANKA)

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

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

Plasmodium chabaudi (Plasmodium chabaudi chabaudi strain AS)

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

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

Plasmodium falciparum 3D7 (Plasmodium falciparum 3D7)

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

Plasmodium gaboni (GCA_001602025.1) (Plasmodium gaboni)

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

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

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

Plasmodium knowlesi (Plasmodium knowlesi strain H)

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

Plasmodium vivax (Plasmodium vivax strain Salvador I)

Plasmodium gonderi (GCA_002157705.1) (Plasmodium gonderi)

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

Plasmodium coatneyi (GCA_001680005.1) (Plasmodium coatneyi)

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

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

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

Tetrahymena thermophila (Tetrahymena thermophila SB210)

Paramecium tetraurelia (Paramecium tetraurelia)

Pseudocohnilembus persalinus (GCA_001447515.1) (Pseudocohnilembus persalinus)

Stentor coeruleus (GCA_001970955.1) (Stentor coeruleus)

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

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

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)

Emiliania huxleyi (Emiliania huxleyi CCMP1516)

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