Project 2167: James P. Herrera, Liliana M. Dávalos. 2016. Phylogeny and divergence times of lemurs inferred with recent and ancient fossils in the tree. Systematic Biology. 65 (5):772-791. (In Press)

Abstract

Paleontological and neontological systematics seek to answer evolutionary questions with different datasets. Phylogenies and divergence times estimated from exclusively extant or inclusive extant and extinct taxa frequently conflict. Until recently, it was not possible to combine the data from paleontology and neontology to simultaneously estimate evolutionary relationships and divergence times. We used two methods to estimate the phylogeny and divergence times for living and fossil primates, the tip-dating (TD) and fossilized birth-death process (FBD). We collected new morphological data, especially focusing on the living and extinct endemic primates of Madagascar, the lemurs. We combined the morphological data with published DNA sequences to infer a near-complete (88% of lemurs) time-calibrated phylogenies. The results suggest that primates originated around the Cretaceous-Tertiary boundary, slightly earlier than indicated by the fossil record and later than previously inferred from molecular data alone. We infer both novel relationships among extinct lemurs, and strong support for relationships that were previously unresolved. Dates inferred with TD were significantly earlier than those inferred with FBD and estimates with FBD were consistent under different fossil date priors. This is the first study to combine morphological and DNA sequence data from extinct and extant primates to infer evolutionary relationships and divergence times, and our results shed light on questions of primate evolution that could not be addressed before.


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Article DOI: 10.1093

Project DOI: 10.7934/P2167, http://dx.doi.org/10.7934/P2167
This project containsMatrices
  • 1 Media
  • 1 Matrix
  • 8 Documents
  • 81 Taxa
  • 421 Characters
Total size of project's media files: 1 MB

Download Project SDD File
Total scored cells: 17888
Total media associated with cells: 0
Total labels associated with cell media: 0
Characters
Total characters: 421
Total characters with associated media: 0
Total characters with media with labels: 0
Total character states: 1694
Total character states with associated media: 0
Total character states with media with labels:0
Total unordered/ordered characters:421/0
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MorphoBank Project 2167

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    member name taxa specimens media chars character
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    James Herrera
    Project Administrator
    Last logged in 06/10/16
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    Taxonomic Overview for Matrix 'M24071' (81 Taxa)

    taxon unscored
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    scored
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    [1] † Adapis parisiensis
    Last Modified in 06/27/16
    5136536505001
    [2] † Aegyptopithecus zeuxis
    Last Modified in 06/27/16
    113293293015001
    [3] Allenopithecus nigroviridis
    Last Modified in 06/27/16
    54350350017001
    [4] Alouatta seniculus
    Last Modified in 06/27/16
    46364364011001
    [5] † Altiatlasius koulchii
    Last Modified in 06/27/16
    380414100001
    [6] † Anchomomys frontanyensis
    Last Modified in 06/27/16
    28513013006001
    [7] Aotus trivirgatus
    Last Modified in 06/27/16
    41366366014001
    [8] † Archaeoindris fontoynontii
    Last Modified in 06/27/16
    288117117016001
    [9] † Archaeolemur edwardsi
    Last Modified in 06/27/16
    225183183013001
    [10] † Archaeolemur majori
    Last Modified in 06/27/16
    364525205001
    [11] Arctocebus calabarensis
    Last Modified in 06/27/16
    48359359014001
    [12] Avahi laniger
    Last Modified in 06/27/16
    236169169016001
    [13] Avahi occidentalis
    Last Modified in 06/27/16
    31010210209001
    [14] † Babakotia radafolia
    Last Modified in 06/27/16
    241164164016001
    [15] † Branisella boliviana
    Last Modified in 06/27/16
    27913513507001
    [16] † Cantius abditus
    Last Modified in 06/27/16
    16625425401001
    [17] † Carpolestes simpsoni
    Last Modified in 06/27/16
    84314314023001
    [18] Cheirogaleus major
    Last Modified in 06/27/16
    5406406010001
    [19] Daubentonia madagascariensis
    Last Modified in 06/27/16
    222161161038001
    [20] Daubentonia robustus
    Last Modified in 06/27/16
    3733737011001
    [21] † Djebelemur martinezi
    Last Modified in 06/27/16
    266145145010001
    [22] † Donrussellia provincialis
    Last Modified in 06/27/16
    29712112103001
    [23] Eulemur albifrons
    Last Modified in 06/27/16
    23917817804001
    [24] Eulemur fulvus
    Last Modified in 06/27/16
    23917817804001
    [25] Eulemur rufus
    Last Modified in 06/27/16
    23917817804001
    [26] Galagoides demidoff
    Last Modified in 06/27/16
    341141107001
    [27] Galago moholi
    Last Modified in 06/27/16
    4437037007001
    [28] Galago senegalensis
    Last Modified in 06/27/16
    328939300001
    [29] † Hadropithecus stenognathus
    Last Modified in 06/27/16
    25615915906001
    [30] Hapalemur griseus
    Last Modified in 06/27/16
    23418518502001
    [31] Hapalemur simus
    Last Modified in 06/27/16
    23518518501001
    [32] Indri indri
    Last Modified in 06/27/16
    216187187018001
    [33] † Karanisia clarki
    Last Modified in 06/27/16
    28812812805001
    [34] † Komba robustus
    Last Modified in 06/27/16
    25116416406001
    [35] Lemur catta
    Last Modified in 06/27/16
    341041008001
    [36] Lepilemur dorsalis
    Last Modified in 06/27/16
    234176176011001
    [37] Lepilemur edwardsi
    Last Modified in 06/27/16
    229180180012001
    [38] Lepilemur leucopus
    Last Modified in 06/27/16
    227183183011001
    [39] Lepilemur mustelinus
    Last Modified in 06/27/16
    17387387017001
    [40] Lepilemur ruficaudatus
    Last Modified in 06/27/16
    229181181011001
    [41] † Leptadapis magnus
    Last Modified in 06/27/16
    8433233205001
    [42] Loris tardigradus
    Last Modified in 06/27/16
    9400400012001
    [43] † Megaladapis edwardsi
    Last Modified in 06/27/16
    24416916908001
    [44] † Megaladapis grandidieri
    Last Modified in 06/27/16
    348676706001
    [45] † Megaladapis madagascariensis
    Last Modified in 06/27/16
    30510910907001
    [46] † Mesopropithecus dolichobrachion
    Last Modified in 06/27/16
    277131131013001
    [47] † Mesopropithecus pithecoides
    Last Modified in 06/27/16
    272136136013001
    [48] Microcebus griseorufus
    Last Modified in 06/27/16
    31410610601001
    [49] Microcebus murinus
    Last Modified in 06/27/16
    41369369011001
    [50] Microcebus rufus
    Last Modified in 06/27/16
    23218218207001
    [51] Mirza coquereli
    Last Modified in 06/27/16
    23517917907001
    [52] Nycticeboides simpsoni
    Last Modified in 06/27/16
    27813513508001
    [53] Nycticebus bengalensis
    Last Modified in 06/27/16
    328939300001
    [54] Nycticebus coucang
    Last Modified in 06/27/16
    33372372016001
    [55] Otolemur crassicaudatus
    Last Modified in 06/27/16
    940440408001
    [56] Otolemur garnettii
    Last Modified in 06/27/16
    327949400001
    [57] † Pachylemur insignis
    Last Modified in 06/27/16
    31510610600001
    [58] Varecia variegata
    Last Modified in 06/27/16
    1040340308001
    [59] † Palaeopropithecus ingens
    Last Modified in 06/27/16
    293114114014001
    [60] † Palaeopropithecus maximus
    Last Modified in 06/27/16
    256151151014001
    [61] Pan troglodytes
    Last Modified in 06/27/16
    49356356016001
    [62] Perodicticus potto
    Last Modified in 06/27/16
    11400400010001
    [63] Phaner furcifer
    Last Modified in 06/27/16
    23617817807001
    [64] † Plesiadapis tricuspidens
    Last Modified in 06/27/16
    76327327018001
    [65] † Plesiopithecus teras
    Last Modified in 06/27/16
    235165165021001
    [66] † Pronycticebus gaudryi
    Last Modified in 06/27/16
    22619119104001
    [67] Propithecus candidus
    Last Modified in 06/27/16
    236172172013001
    [68] Propithecus coquereli
    Last Modified in 06/27/16
    238170170013001
    [69] Propithecus coronatus
    Last Modified in 06/27/16
    235173173013001
    [70] Propithecus deckenii
    Last Modified in 06/27/16
    236172172013001
    [71] Propithecus diadema
    Last Modified in 06/27/16
    239169169013001
    [72] Propithecus edwardsi
    Last Modified in 06/27/16
    247161161013001
    [73] Propithecus perrieri
    Last Modified in 06/27/16
    261147147013001
    [74] Propithecus tattersalli
    Last Modified in 06/27/16
    256152152013001
    [75] Propithecus verreauxi
    Last Modified in 06/27/16
    12388388021001
    [76] † Purgatorius unio
    Last Modified in 06/27/16
    29212612603001
    [77] † Saharagalago misrensis
    Last Modified in 06/27/16
    375444402001
    [78] Saimiri sciureus
    Last Modified in 06/27/16
    43368368010001
    [79] Tarsius bancanus
    Last Modified in 06/27/16
    4436936908001
    [80] † Teilhardina americana
    Last Modified in 06/27/16
    28013913902001
    [81] † Wadilemur elegans
    Last Modified in 06/27/16
    29112312307001


    Project views

    type number of views Individual items viewed (where applicable)
    Total project views10271
    Project overview1200
    Media views1817Media search (1609 views); M378115 (208 views);
    Documents list774
    Bibliography353
    Taxon list5338
    Matrix views789Matrix landing page (768 views); Full character matrix (21 views);




    Project downloads

    type number of downloads Individual items downloaded (where applicable)
    Total downloads from project231
    Document downloads15correspondence with S Nash (2 downloads); Character descriptions and states (1 download); Morphological data matrix 369 characters (2 downloads); Morphological data matrix 421 characters (2 downloads); Concatenated molecular and full morphological dataset with MrBayes block fossilized birth death process (5 downloads); Concatenated molecular and morphological dataset with MrBayes block of code to run tip-dating analysis (1 download); Concatenated molecular and reduced morphological dataset (369 characters) with MrBayes block of code to run tip-dating analysis. (1 download); Concatenated molecular and reduced morphological dataset with MrBayes block of code to run fossilized birth-death process. (1 download);
    Media downloads1M378115 (1 download);
    Project downloads198
    Matrix downloads17Full character matrix (17 downloads);