Wikipedia:WikiProject Tree of Life/Cladogram requests/Archive 5

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Ptilinopus

Hey again, I need another cladogram from here, this time all the species in the genus (i.e. the entire tree). AryKun (talk) 12:17, 28 January 2022 (UTC)

	Caloenas
	Treron Ducula Ptilinopus bernsteinii Ptilinopus magnificus Ptilinopus marchei Ptilinopus merrilli Ptilinopus occipitalis Ptilinopus jambu Ptilinosus leclancheri Ptilinopus melanospilus Ptilinopus luteovirens Ptilinopus layardi Ptilinopus victor Ptilinopus pulcherrimus Ptilinopus porphyreus Ptilinopus cinctus Drepanoptilus holosericea Ptilinopus nainus Ptilinopus superbus Ptilinopus rivoli Ptilinopus solomonensis Ptilinopus tannensis Ptilinopus lozonus Ptilinopus eugeniae Ptilinopus viridis Ptilinopus hyogastrus Ptilinopus periatus Ptilinopus wallacii Ptilinopus autantifrons Ptilinopus ornatus Ptilinopus pulchellus Ptilinopus monacha Ptilinopus coronulatus Ptilinopus regina Ptilinopus dupetithouarsii †Ptilinopus mercierii Ptilinopus porphyraceus Ptilinopus greyi Ptilinopus ponapensis Ptilinopus pelewensis Ptilinopus roseicapilla Ptilinopus richardsii Ptilinopus perousii Ptilinopus purpuratus Ptilinopus chrysogaster Ptilinopus rarotongensis Ptilinopus huttoni Ptilinopus insularis Ptilinopus chalcurus Ptilinopus coralensis

WIPHiroizmeh (Talk | Contributions) 18:23, 28 January 2022 (UTC)

The tree's fine how it is now as an exact copy of the paper; anyone is free to make any tweaks to it, especially at the base of the tree where existing groups are left out. Hiroizmeh (Talk | Contributions) 01:21, 12 February 2022 (UTC)

Guemesia

Does anyone have a cladogram of the new abelisaurid? I can't find it online. Thanks! Atlantis536 (talk) 01:29, 11 February 2022 (UTC)

Institutional access can be very beneficial. Here you go Atlantis536 IJReid ^{{{T - C - D - R}}} 16:57, 12 February 2022 (UTC)

Abelisauridae	Spectrovenator Rugops Viavenator Majungasaurinae Rahiolisaurus Arcovenator Rajasaurus Indosaurus Majungasaurus Brachyrostra Skorpiovenator Niebla Llukalkan Ilokelesia Guemesia Ekrixinatosaurus Carnotaurinae Carnotaurus Aucasaurus Abelisaurus

Thanks! Atlantis536 (talk) 01:13, 13 February 2022 (UTC)

Phorusrhacidae

Hi, seems we don't have any complete Phorusrhacidae cladograms, but there's one here[1] (fig. 10) I'd like to include in Kelenken that I'm working on, and can of course be used in all the relevant articles. Thanks. FunkMonk (talk) 02:43, 12 February 2022 (UTC)

In the meantime I've added an older cladogram from 2011 I found on the Dutch Wikipedia, but I think this newer cladogram might be more appropriate. FunkMonk (talk) 03:13, 12 February 2022 (UTC)

Phorusrhacidae	"psilopterines"   Mesembriornithinae   Mesembriornis incertus  Mesembriornis milneedwardsi  Llallawavis scagliai  Procariama simplex  Psilopterinae   Psilopterus   Psilopterus affinis  Psilopterus bachmanni  Psilopterus colzecus  Psilopterus lemoinei  true "terror birds"   Kelenken guillermoi  Devincenzia pozzi  Titanis walleri  Phorusrhacos longissimus  Andalgalornis steulleti  Andrewsornis abbotti  Patagornis marshi  Physornis fortis  Paraphysornis brasiliensis	Physornithinae Phorusrhacinae Patagornithinae

Modified from German Wikipedia (de:Phorusrhacidae). —  Jts1882 | talk  08:49, 12 February 2022 (UTC)

Added labels for the polyphyletic and paraphyletic subfamilies. I note the taxonomic listing uses Brontornithinae, while this paper uses Physornithinae because they find Brontornis with anseriforms. —  Jts1882 | talk  09:41, 12 February 2022 (UTC)

Thanks, could it be modified so it is more in line with the labeling in the paper? Because it seems some of the labels in the German article are a bit WP:synthy. And can Cariamidae be added? And perhaps add species to genera that aren't monospecific (Mesembriornis, Psilopterus)? FunkMonk (talk) 18:16, 12 February 2022 (UTC)

I'll try and add species tomorrow. The labels "psilopterines" and 'true "terror birds"' are taken from the text (first paragraph on p16). —  Jts1882 | talk  20:17, 12 February 2022 (UTC)

I've added all the species for consistency. A few new redirects are needed. I added a label for genus Psilopterus, but it might look better without. —  Jts1882 | talk  08:39, 13 February 2022 (UTC)

Thanks, this could be used in all the relevant articles! FunkMonk (talk) 16:02, 14 February 2022 (UTC)

Bornean stubtail

Hey, I want a cladogram for Bornean stubtail from in here. I need the tree for clade 7 in Figure 4. Only a species level tree is needed, although the diagram in the paper shows to subspecies level population. AryKun (talk) 16:17, 27 March 2022 (UTC)

clade 7 Urosphena squameiceps Urosphena whiteheadi Cettia pallidipes Hemitesiai neumanni

Urosphena Urosphena squameiceps Urosphena whiteheadi Urosphena pallidipes Urosphena neumanni

Is that all you wanted? I've give the figure version and one with the revised names. —  Jts1882 | talk  10:44, 28 March 2022 (UTC)

Bare-headed laughingthrush

Hey, me again, this time for bare-headed laughingthrush. I need Figure 3 (b) (the cladogram for the clade formed by Melanocichla and Pomatorhinus) from here. AryKun (talk) 16:22, 27 March 2022 (UTC)

	Melanocichla Melanocichla (Gallulex) calva Melanocichla (Gallulex) lugubris (Gallulex) Pomatorhinus Pomatorhinus ferruginosus Pomatorhinus ochraceiceps Pomatorhinus superciliaris Pomatorhinus ruficollis Pomatorhinus musicus Pomatorhinus schisticeps Pomatorhinus montanus Pomatorhinus melanurus Pomatorhinus horsfieldii

I think this is what you requested. —  Jts1882 | talk  11:03, 28 March 2022 (UTC)

Help with white swamphen cladogram

Due to a confusing figure in a DNA study, I didn't include a cladogram in the white swamphen (Porphyrio albus) article, but since it will soon be TFA, I thought it was time to revisit the issue, and see if someone could find a solution. This paper[2] says it includes the white swamphen among its samples, and states which species it groups with, the problem is that as far as I can see, the white swamphen (P. albus) is not included in the cladogram (Figure 1. C)? Am I overlooking something, or is there a way to include it? Looking closer, it appears it may be labeled as "6" in the coloured part of the cladogram, but I have no idea how that would be translated into code? FunkMonk (talk) 16:56, 27 May 2022 (UTC)

I don't see why the numbers can't be replaced with the species names following the figure caption? Lythronaxargestes (talk | contribs) 17:11, 27 May 2022 (UTC)

It looks like #6 is sister to a pink box, which looks like it is the subspecies indicus - but the rest of those are way up in another clade. (It appears that they used the DNA from 8 different individuals of indicus in the study.) Perhaps you could ignore that one as an outlier, but then we are getting into original research & synth issues. And then there is the whole mess that is "Clade B" - which I suppose could be shown as a polytomy... I don't think there is a way you can use this study to create a cladogram. Cougroyalty (talk) 17:24, 27 May 2022 (UTC)

Yeah, that was what I was worried about, it looks like a mess to me, but I was wondering if someone else was able to decipher it. Unless P. indicus could just be repeated? FunkMonk (talk) 17:30, 27 May 2022 (UTC)

Could you maybe condense all of the Porphyrio porphyrio subspecies together, and then show them in a polytomy with 4, 5 and 6? Maybe with a comment about it still inconclusive? It could look like this:

	P. alleni (1)
	P. martinica (2) P. flavirostris (3) phylogeny inconclusive P. porphyrio and subspecies P. hochstetteri (4) P. albus (6) P. mantelli (5)

Pretty simple. But I'm not sure if this sort of condensing is allowable... Cougroyalty (talk) 17:57, 27 May 2022 (UTC)

As long as it doesn't add "new" topography, I think it should be ok. The article currently already states "according to the biologists, such results (based on ancient DNA sources) should be treated with caution. Although many purple swamphen taxa had been considered subspecies of the species P. porphyrio, they considered this a paraphyletic (unnatural) grouping since they found different species to group among the subspecies", so a margin of error should be clear. FunkMonk (talk) 18:08, 27 May 2022 (UTC)

I wonder what IJReid thinks? FunkMonk (talk) 00:59, 28 May 2022 (UTC)

As a starting point, let's try and agree what Fig 1C shows. I've shaded the P. p. porphyrio subspecies and used the double line to indicate the paraphylly of P. p. melanotus with respect to P. p. bellus.

P. alleni (1) P. martinica (2) P. flavirostris (3) Clade A P. p. porphyrio (1 sample) P. p. indicus (7 samples) P. p. madagascariensis (1 sample) P. hochstetteri (#4) Clade B P. p. melanotus (35 samples) P. p. bellus (5 samples) P. p. pulverulentus (1 sample) P. albus (#6) P. p. indicus (1 sample) P. p. seistanicus (1 sample) P. p. poliocephalus (8 samples) P. mantelli (#5) western swamphen black-backed swamphen African swamphen Example Australasian swamphen Philippine swamphen grey-headed swamphen

P. alleni (1) P. martinica (2) P. flavirostris (3) Clade A P. porphyrio (western swamphen) P. indicus (black-backed swamphen) P. madagascariensis (African swamphen) P. hochstetteri (#4) P. melanotus (Australasian swamphen) P. p. pulverulentus (Philippine swamphen) P. albus (#6) P. p. poliocephalus (grey-headed swamphen) P. mantelli (#5)

P. alleni (1) P. martinica (2) P. flavirostris (3) P. porphyrio (including P. albus, P. hochstetteri and P. mantelli nested within)

Is this how everyone reads the cladogram? —  Jts1882 | talk  12:47, 28 May 2022 (UTC)

I've added a version using the new species names as recognised by the IOC. Subspecies are lumped with the species (i.e. bellus with melanotus and seistanicus with poliocephalus). The only questionable part is the omission of the indicus sample that was sister to the white swamphen. —  Jts1882 | talk  13:25, 28 May 2022 (UTC)

I think it's best to follow the taxonomy of the paper (no retroactive lumping), as it reflects the state of understanding at the time. What is cladogram 2 in relation to 1? FunkMonk (talk) 14:19, 28 May 2022 (UTC)

Yup, I agree with your 1st and 3rd cladograms as accurate representations. I much prefer the 2nd cladogram, but I'm not sure if it is allowable in regards to WP:Original Research. And as always, I am impressed with your cladogram skills! Cougroyalty (talk) 14:21, 28 May 2022 (UTC)

Ah, now I see 2 has some lumping too. Well, I'd prefer 1 then, as reflecting the paper closest, but yeah, nice work. FunkMonk (talk) 14:42, 28 May 2022 (UTC)

• If I use the first one, where would I put common names not yet listed, as I usually do? FunkMonk (talk) 18:55, 29 May 2022 (UTC)

If you compare between the two difs here, it should be good to display how the cladelabels section is actually its own column where the % change the shift down from the top of the clade template. IJReid ^{{{T - C - D - R}}} 19:14, 29 May 2022 (UTC)

I'm just too dumb with these things, I can't even add cladogram one without the box without breaking the code. Can a version of it without border and with space for the rest of the common names be made so I can add it? FunkMonk (talk) 19:41, 29 May 2022 (UTC)

Hows this? labels text can be deleted without causing any issues. Percentages can also be adjusted to center it more. IJReid ^{{{T - C - D - R}}} 21:04, 29 May 2022 (UTC)

	P. alleni (1) P. martinica (2) P. flavirostris (3) Clade A P. p. porphyrio (1 sample) P. p. indicus (7 samples) P. p. madagascariensis (1 sample) P. hochstetteri (#4) P. mantelli (#5) Clade B P. p. melanotus (35 samples) P. p. bellus (5 samples) P. p. pulverulentus (1 sample) P. albus (#6) P. p. indicus (1 sample) P. p. seistanicus (1 sample) P. p. poliocephalus (8 samples)	Text Text Text Text Text Text Text Text Text Text Text Text Text

• Thanks! I'll try to add that soon. FunkMonk (talk) 21:14, 29 May 2022 (UTC)

I've now added the cladogram with all names, if that looks alright. FunkMonk (talk) 17:57, 30 May 2022 (UTC)

Cerulean warbler

Hi! I'd like a cladogram for Cerulean warbler. Well, two, actually. The first is here. [3], figure 1. I would like the clade of Dendroica caerulescens and D. striata.

The second one is here. [4], figure 1. I would like the clade of Setophaga pitayumi and S. pensylvanica. Sub31k (talk) 04:53, 3 June 2022 (UTC)

@Sub31k: Are these ok? —Trilletrollet [ Talk | Contribs ] 11:03, 3 June 2022 (UTC)

@Trilletrollet: They're great, thank you! I will be changing the former template to the modern synonyms to match the current nomenclature, as the phylogeny has been cited that way in papers after the Dendroica-Setophaga-Parula merge, with Setophaga as the genus. Thank you! Sub31k (talk) 13:35, 3 June 2022 (UTC)

	Dendroica caerulescens Dendroica magnolia Dendroica cerulea Parula americana Parula pitiayumi Dendroica castanea Dendroica fusca Dendroica petechia Dendroica pensylvanica Dendroica striata

	Setophaga magnolia Setophaga americana Setophaga pitiayumi Setophaga cerulea Setophaga fusca Setophaga castanea Setophaga striata Setophaga pensylvanica Setophaga petechia

Artiopoda

Can i request that the cladogram from https://www.cambridge.org/core/journals/geological-magazine/article/new-small-softbodied-nontrilobite-artiopod-from-the-cambrian-stage-4-guanshan-biota/0F7D45A289130BB27099B4E260739270 (Open access) including only the members of Artiopoda. Either one of the implied weights is fine, but I don't want the equal weights one. Thanks again. Hemiauchenia (talk) 17:00, 15 July 2022 (UTC)

Is that good? It's "Parsimony - implied weights (k=4,5)", if you want the other one I can modify it quite easily. Larrayal (talk) 18:24, 15 July 2022 (UTC)

Artiopoda

Squamacula clypeata Protosutura  Zhiwenia coronata Australimicola spriggi Acanthomeridion serratum Acanthomeridion anacanthus Bailongia longicaudata Trilobitomorpha  Retifacies abnormalis Kwanyinaspis maotiashanensis Olenoides serratus Eoredlichia intermedia Haifengella corona Kuamaia lata Helmetia expansa Tegopelte gigas Skioldia aldna Saperion glumaceum Cindarella eucalla Luohuilinella deletres Luohuilinella rarus Sinoburius lunaris Xandarella spectaculum Phytophilaspis pergamena Buenaspis forteyi Tariccoia arrusensis Soomaspis splendida Liwia convexa Naraoia spinosa Naraoia compacta Misszhouia longicaudata Vicissicaudata  Sidneyia inexpectans Emeraldella brocki Cheloniellon calmani Triopus draboviensis Duslia insignis Kodymirus vagans Eozetetes gemmelli Beckwithia typa Chlupacaris dubia Quasimodaspis brentsae Tremaglaspis unite Tremaglaspis vanroyi Brachyaglaspis singularis Cyclopites vulgaris Australaglaspis stonyensis Uarthrus instabilis Flobertia kochi Aglaspella granulifera Gogglops ensifer Glypharthrus simplex Aglaspis spinifer Chraspedops modesta Glypharthrus thomasi Glypharthrus trispinicaudatus Glypharthrus magnoculus

That's great, thanks. Hemiauchenia (talk) 19:18, 15 July 2022 (UTC)

Azhdarchidae from Quetzalcoatlus redescription

Could use the part of "figure 1. (Continued)" here showing Azhdarchiformes[5], thanks. For Phosphatodraco, but would also be useful elsewhere. FunkMonk (talk) 01:04, 10 August 2022 (UTC)

Here it is. IJReid ^{{{T - C - D - R}}} 01:14, 10 August 2022 (UTC)

Azhdarchiformes	Radiodactylus Montanazhdarcho Azhdarchidae Azhdarchinae Azhdarcho Albadraco Aerotitan Mistralazhdarcho Quetzalcoatlinae Aralazhdarcho Phosphatodraco Eurazhdarcho Zhejiangopterus Cryodrakon Wellnhopterus Hatzegopteryx Arambourgiania Quetzalcoatlus lawsoni Quetzalcoatlus northropi

That was quick, thanks! FunkMonk (talk) 02:51, 10 August 2022 (UTC)

Varanidae

I can I request the cladogram from Dong et al. 2022 be coded up? freely accessible image of the cladogram. I'd like to only include taxa within node "d" of the cladogram (which the paper defines as Varanidae), I'd also like all of the Varanus species to be ommited in favour of a single Varanus node. Many thanks in advance. Hemiauchenia (talk) 11:37, 2 September 2022 (UTC)

@Hemiauchenia: Is this ok? —Trilletrollet [ Talk | Contribs ] 15:18, 2 September 2022 (UTC)

@Trilletrollet: Yes, this is great. Thank you very much! Hemiauchenia (talk) 15:25, 2 September 2022 (UTC)

Varanidae	Ovoo gurvel Telmasaurus grangeri Aiolosaurus oriens Saniwides mongoliensis Paravaranus angustifrons Proplatynotia longirostrata Saniwa ensidens Archaeovaranus lii Varanus

Adephaga phylogeny

Hi, can I request that [6] this cladogram be coded up. Truncated to families only please, with unabbreviated names. Abbrevations: Trachy., Trachypachidae; Halip., Haliplidae; Meru., Meruidae; Noter., Noteridae; Hygrob., Hygrobiidae; Aspidyt., Aspidytidae; Amphiz., Amphizoidae. I would like "Aspidytidae" to be untruncated to show the paraphyly of the family. Many thanks again. Hemiauchenia (talk) 17:20, 11 September 2022 (UTC)

Hi, I'd actually like this one to be done instead. Sorry for the confusion. Same requirements as before, but Aspidytidae was recovered as monophyletic in this one, it can just all be subsumed under one label. Hemiauchenia (talk) 17:39, 11 September 2022 (UTC)

Done. Lythronaxargestes (talk | contribs) 17:47, 11 September 2022 (UTC)

Much appreciated. Hemiauchenia (talk) 18:59, 11 September 2022 (UTC)

	Gyrinidae Trachypachidae Cicindelidae Carabidae Haliplidae Noteridae Hygrobiidae Aspidytidae Amphizoidae Dytiscidae

Panperissodactyla

Hi, can I request the cladogram from Chimento et al. to be coded up? Here is a freely accessible image of the cladogram. I would only like to include the panperissodactyl taxa (e.g. kollpaniids, didolodontids/protolipternids and litopterns as well as perissodactyls). Thanks in advance. Magnatyrannus (talk | contribs) 04:03, 19 September 2022 (UTC)

@Magnatyrannus: Does this look right? -SlvrHwk (talk) 06:57, 19 September 2022 (UTC)

Yes, it does. Thank you very much! Magnatyrannus (talk | contribs) 10:55, 19 September 2022 (UTC)

Panperissodactyla	Pucanodus †Kollpaniidae Simoclaenus Molinodus Tiuclaenus †Didolodontidae Didolodus Lamegoia Depaulacoutia Asmithwoodwardia Miguelsoria Protolipterna †Litopterna Victorlemoinea Adiantoides Theosodon Cramauchenia Diadiaphorus Tetramerorhinus Perissodactyla †Escribania †Nakusia †Cambaytherium †Pilgrimella †Anthracobune crown-Perissodactyla

Ephemeroptera

Hi, can I request the phylogeny from this image be coded up? Many thanks Hemiauchenia (talk) 01:38, 28 September 2022 (UTC)

@Hemiauchenia: Here you go. I made one with dashed lines too just in case. —Trilletrollet [ Talk | Contribs ] 17:29, 28 September 2022 (UTC)

Siphluriscidae Baetidae Baetiscidae Prosopistomatidae Coloburiscidae Leptophlebiidae Chromarcyidae Oligoneuriidae Vietnamellidae Austremerellidae Teloganodidae Teloganellidae Melanemerellidae Ephemerythidae Machadorythidae Tricorythidae Dicercomyzidae Coryphoridae Leptohyphidae Ephemerellidae Neoephemeridae Caenidae Potamanthidae Polymitarcyidae Behningiidae Euthyplociidae Ichthybotidae Palingeniidae Ephemeridae Acanthametropodidae Ametropodidae Metropodidae Isonychiidae Heptageniidae Rallidentidae Siphlaenigmatidae Dipteromimidae Oniscigastridae Ameletopsidae Nesameletidae Ameletidae Siphlonuridae

Siphluriscidae Baetidae Baetiscidae Prosopistomatidae Coloburiscidae Leptophlebiidae Chromarcyidae Oligoneuriidae Vietnamellidae Austremerellidae Teloganodidae Teloganellidae Melanemerellidae Ephemerythidae Machadorythidae Tricorythidae Dicercomyzidae Coryphoridae Leptohyphidae Ephemerellidae Neoephemeridae Caenidae Potamanthidae Polymitarcyidae Behningiidae Euthyplociidae Ichthybotidae Palingeniidae Ephemeridae Acanthametropodidae Ametropodidae Metropodidae Isonychiidae Heptageniidae Rallidentidae Siphlaenigmatidae Dipteromimidae Oniscigastridae Ameletopsidae Nesameletidae Ameletidae Siphlonuridae

Interatheriinae

Hi, can I request the cladogram from Vera et al. 2017 (fig. 9) be coded up? I'm only interested in including the interatheriine taxa. Many thanks. Magnatyrannus (talk | contribs) 00:57, 30 September 2022 (UTC)

@Magnatyrannus: Version as shown in the paper:

Interatheriinae

Eopachyrucos pliciferus Santiagorothia chiliensis Federicoanaya sallaensis Deseadan interatheres Brucemacfaddenia boliviensis Archaeophylus patrius Progaleopithecus tournoueri Argyrohyrax proavus Interatherium robustum Cochilius volvens Protypotherium australe Protypotherium endiadys Protypotherium distinctum Protypotherium sinclairi Miocochilius federicoi Miocochilius anamopodus Protypotherium minutum Protypotherium colloncurensis

Version without "Deseadan interatheres":

Interatheriinae

Eopachyrucos pliciferus Santiagorothia chiliensis Federicoanaya sallaensis Brucemacfaddenia boliviensis Archaeophylus patrius Progaleopithecus tournoueri Argyrohyrax proavus Interatherium robustum Cochilius volvens Protypotherium australe Protypotherium endiadys Protypotherium distinctum Protypotherium sinclairi Miocochilius federicoi Miocochilius anamopodus Protypotherium minutum Protypotherium colloncurensis