Project 1157: S. Tarasov, F. Génier. 2015. Innovative Bayesian and Parsimony Phylogeny of Dung Beetles (Coleoptera, Scarabaeidae, Scarabaeinae) Enhanced by Ontology-Based Partitioning of Morphological Characters. PLOS ONE. 10 (3):e0116671.
Abstract
Scarabaeine dung beetles are the dominant dung feeding group of insects and are widely used as model organisms in conservation, ecology and developmental biology. Due to the conflicts among 13 recently published phylogenies dealing with the higher-level relationships of dung beetles, the phylogeny of this lineage remains largely unresolved. In this study, we conduct rigorous phylogenetic analyses of dung beetles, based on an unprecedented taxon sample (110 taxa) and detailed investigation of morphology (205 characters). We provide the description of morphology and thoroughly illustrate the used characters. Along with parsimony, traditionally used in the analysis of morphological data, we also apply the Bayesian method with a novel approach that uses anatomy ontology for matrix partitioning. This approach allows for heterogeneity in evolutionary rates among characters from different anatomical regions. Anatomy ontology generates a number of parameter-partition schemes which we compare using Bayes factor. We also test the effect of inclusion of autapomorphies in the morphological analysis, which hitherto has not been examined. Generally, schemes with more parameters were favored in the Bayesian comparison suggesting that characters located on different body regions evolve at different rates and that partitioning of the data matrix using anatomy ontology is reasonable; however, trees from the parsimony and all the Bayesian analyses were quite consistent. The hypothesized phylogeny reveals many novel clades and provides additional support for some clades recovered in previous analyses. Our results provide a solid basis for a new classification of dung beetles, in which the taxonomic limits of the tribes Dichotomiini, Deltochilini and Coprini are restricted and many new tribes must be described. Based on the consistency of the phylogeny with biogeography, we speculate that dung beetles may have originated in the Mesozoic contrary to the traditional view pointing to a Cenozoic origin.Read the article »
Article DOI: 10.1371/journal.pone.0116671
Project DOI: 10.7934/P1157, http://dx.doi.org/10.7934/P1157
This project contains | Matrices |
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Download Project SDD File | Total scored cells: 22528 Total media associated with cells: 0 Total labels associated with cell media: 0 |
Characters | |
Total characters: 205 Total characters with associated media: 0 Total characters with media with labels: 0 Total character states: 412 Total character states with associated media: 0 Total character states with media with labels:0 Total unordered/ordered characters:205/0 |
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MorphoBank Project 1157
MorphoBank Project 1157
- Creation Date:
18 March 2014 - Publication Date:
18 March 2015 - Project views: 76866
- Media downloads: 3
- Matrix downloads: 43
Authors' Institutions
- Agriculture and Agri-Food Canada (AAFC)
- University of Oslo
Members
member name | taxa | specimens | media | media notes | chars | character
| cell scorings (scored, NPA, "-") | cell
| rules | ||||||||||||||
Sergei Tarasov Project Administrator | 110 | 19 | 20 | 19 | 205 | 0 | 0 | 0 | 0 | 22528 (21940, 0, 588) | 0 | 7 | 0 | 0 | 0 | ||||||||
François Génier Full membership | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 (0, 0, 0) | 0 | 0 | 0 | 0 | 0 |
Taxonomic Overview for Matrix 'M2579' (110 Taxa)
taxon | unscored cells |
scored cells |
no cell support |
NPA cells |
"-" cells | cell images | labels on cell images |
member access |
[1] Aphodius erraticus Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[2] Podotenus fulviventris Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[3] Aulonocnemis crassecostata Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[4] Manjarivolo sp Last Modified in 03/18/14 | 0 | 184 | 184 | 0 | 21 | 0 | 0 | 2 |
[5] Coptorhina auspicata Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[6] Delopleurus sp Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[7] Frankenbergerius armatus Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[8] Sarophorus costatus Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[9] Odontoloma sp Last Modified in 03/18/14 | 0 | 184 | 184 | 0 | 21 | 0 | 0 | 2 |
[10] Nebulasilvius insularis Last Modified in 03/18/14 | 0 | 184 | 184 | 0 | 21 | 0 | 0 | 2 |
[11] Endroedyolus paradoxus Last Modified in 03/18/14 | 0 | 184 | 184 | 0 | 21 | 0 | 0 | 2 |
[12] Dicranocara deschodti Last Modified in 03/18/14 | 0 | 184 | 184 | 0 | 21 | 0 | 0 | 2 |
[13] Byrrhidium namaquensis Last Modified in 03/18/14 | 0 | 184 | 184 | 0 | 21 | 0 | 0 | 2 |
[14] Paraphytus sp Last Modified in 03/18/14 | 0 | 184 | 184 | 0 | 21 | 0 | 0 | 2 |
[15] Epirinus sp Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[16] Neosisyphus sp Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[17] Macroderes mutilans Last Modified in 03/18/14 | 0 | 184 | 184 | 0 | 21 | 0 | 0 | 2 |
[18] Xinidium dentilabris Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[19] Pedaria sp Last Modified in 03/18/14 | 1 | 204 | 204 | 0 | 0 | 0 | 0 | 2 |
[20] Gyronotus carinatus Last Modified in 03/18/14 | 0 | 184 | 184 | 0 | 21 | 0 | 0 | 2 |
[21] Anachalcos convexus Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[22] Hammondantus psammophilus Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[23] Pycnopanelus krikkeni Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[24] Janssensantus pauliani Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[25] Aphengoecus multiserratus Last Modified in 03/18/14 | 0 | 184 | 184 | 0 | 21 | 0 | 0 | 2 |
[26] Bohepilissus sp Last Modified in 03/18/14 | 2 | 182 | 182 | 0 | 21 | 0 | 0 | 2 |
[27] Circellium bacchus Last Modified in 03/18/14 | 0 | 184 | 184 | 0 | 21 | 0 | 0 | 2 |
[28] Dwesasilvasedis medinae Last Modified in 03/18/14 | 0 | 184 | 184 | 0 | 21 | 0 | 0 | 2 |
[29] Coptodactyla nitida Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[30] Amphistomus calcaratus Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[31] Aulacopris maximus Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[32] Canthonosoma macleayi Last Modified in 03/18/14 | 0 | 184 | 184 | 0 | 21 | 0 | 0 | 2 |
[33] Boletoscapter cornutus Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[34] Gen. nov. sp. nov. Last Modified in 03/18/14 | 0 | 184 | 184 | 0 | 21 | 0 | 0 | 2 |
[35] Cephalodesmius armiger Last Modified in 03/18/14 | 0 | 184 | 184 | 0 | 21 | 0 | 0 | 2 |
[36] Coproecus hemisphaericus Last Modified in 03/18/14 | 0 | 184 | 184 | 0 | 21 | 0 | 0 | 2 |
[37] Demarziella interrupta Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[38] Diorygopyx tibialis Last Modified in 03/18/14 | 0 | 184 | 184 | 0 | 21 | 0 | 0 | 2 |
[39] Mentophilus hollandiae Last Modified in 03/18/14 | 0 | 184 | 184 | 0 | 21 | 0 | 0 | 2 |
[40] Onthobium gutierrez Last Modified in 03/18/14 | 0 | 184 | 184 | 0 | 21 | 0 | 0 | 2 |
[41] Pseudonthobium sinuatotibiale Last Modified in 03/18/14 | 0 | 184 | 184 | 0 | 21 | 0 | 0 | 2 |
[42] Tesserodon erratum Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[43] Saphobius sp Last Modified in 03/18/14 | 0 | 184 | 184 | 0 | 21 | 0 | 0 | 2 |
[44] Bdelyrus seminudus Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[45] Tesserodoniella elguetai Last Modified in 03/18/14 | 0 | 184 | 184 | 0 | 21 | 0 | 0 | 2 |
[46] Canthochilum tureyra Last Modified in 03/18/14 | 6 | 199 | 199 | 0 | 0 | 0 | 0 | 2 |
[47] Canthonella silphoides Last Modified in 03/18/14 | 7 | 198 | 198 | 0 | 0 | 0 | 0 | 2 |
[48] Cryptocanthon paradoxus Last Modified in 03/18/14 | 0 | 184 | 184 | 0 | 21 | 0 | 0 | 2 |
[49] Paracanthon sp sp n Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[50] Streblopus opatroides Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[51] Zonocopris gibbicollis Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[52] Genieridium margareteae Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[53] Onoreidium howdeni Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[54] Trichillum pauliani Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[55] Scatimus strandi Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[56] Aphengium cupreum Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[57] Ateuchus squalidus Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[58] Ateuchus histeroides Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[59] Agamopus lampros Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[60] Agamopus viridis Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[61] Canthidium bokermanni Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[62] Chalcocopris hesperus Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[63] Dichotomius sp Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[64] Dichotomius sericeus Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[65] Homocopris torulosus Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[66] Ontherus appendiculatus Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[67] Uroxys latesulcatus Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[68] Uroxys epipleuralis Last Modified in 03/18/14 | 0 | 184 | 184 | 0 | 21 | 0 | 0 | 2 |
[69] Uroxys pauliani Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[70] Bdelyropsis bowditchi Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[71] Canthon virens Last Modified in 03/18/14 | 0 | 205 | 204 | 0 | 0 | 0 | 0 | 2 |
[72] Malagoniella yucateca Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[73] Megathoposoma candezei Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[74] Scybalophagus rugosus Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[75] Deltochilum sp Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[76] Scybalocanthon nigriceps Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[77] Hansreia sp Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[78] Silvicanthon bridarollii Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[79] Tetraechma sanguineomaculata Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[80] Anomiopus edmondsi Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[81] Scatonomus fasciculatus Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[82] Sinapisoma sp Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[83] Heliocopris sp Last Modified in 03/18/14 | 2 | 203 | 202 | 0 | 0 | 0 | 0 | 2 |
[84] Catharsius sp Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[85] Metacatharsius sp Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[86] Copris sp Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[87] Pseudopedaria grossa Last Modified in 03/18/14 | 0 | 205 | 204 | 0 | 0 | 0 | 0 | 2 |
[88] Microcopris sp Last Modified in 03/18/14 | 0 | 205 | 204 | 0 | 0 | 0 | 0 | 2 |
[89] Gromphas aeruginosa Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[90] Coprophanaeus telamon Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[91] Oruscatus davus Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[92] Phanaeus splendidulus Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[93] Ennearabdus lobocephalus Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[94] Eucranium arachnoides Last Modified in 03/18/14 | 0 | 184 | 184 | 0 | 21 | 0 | 0 | 2 |
[95] Glyphoderus monticola Last Modified in 03/18/14 | 0 | 184 | 184 | 0 | 21 | 0 | 0 | 2 |
[96] Eurysternus hamaticollis Last Modified in 03/18/14 | 0 | 205 | 204 | 0 | 0 | 0 | 0 | 2 |
[97] Pachysoma aesculapius Last Modified in 03/18/14 | 0 | 184 | 184 | 0 | 21 | 0 | 0 | 2 |
[98] Scarabaeus aegyptiorum Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[99] Paragymnopleurus sp Last Modified in 03/18/14 | 1 | 204 | 204 | 0 | 0 | 0 | 0 | 2 |
[100] Gymnopleurus leei Last Modified in 03/18/14 | 1 | 204 | 204 | 0 | 0 | 0 | 0 | 2 |
[101] Epactoides sp1 Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[102] Epactoides sp2 Last Modified in 03/18/14 | 2 | 203 | 203 | 0 | 0 | 0 | 0 | 2 |
[103] Ochicanthon sp Last Modified in 03/18/14 | 0 | 205 | 204 | 0 | 0 | 0 | 0 | 2 |
[104] Apotolamprus quadrimaculatus Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[105] Arachnodes sp Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[106] Tanzanolus sp Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[107] Onthophagus avocetta Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[108] Helictopleurus quadripunctatus Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[109] Bubas bison Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
[110] Onitis sp Last Modified in 03/18/14 | 0 | 205 | 205 | 0 | 0 | 0 | 0 | 2 |
Project views
type | number of views | Individual items viewed (where applicable) |
Total project views | 76866 | |
Project overview | 4865 | |
Media views | 30072 | Media search (6607 views); M328066 (1232 views); M328072 (1101 views); M328067 (1035 views); M328079 (1437 views); M328078 (1094 views); M328081 (994 views); M328064 (1133 views); M328069 (987 views); M328065 (1595 views); M328068 (1161 views); M328076 (1326 views); M328074 (1064 views); M328082 (1050 views); M328077 (1093 views); M328070 (1143 views); M374460 (891 views); M328075 (1123 views); M328080 (1336 views); M328071 (1216 views); M328073 (1454 views); |
Taxon list | 19245 | |
Specimen list | 19641 | |
Matrix views | 2890 | Matrix landing page (2557 views); Scarabaeinae datamatrix (333 views); |
Documents list | 6 | |
Bibliography | 147 |
Project downloads
type | number of downloads | Individual items downloaded (where applicable) |
Total downloads from project | 427 | |
Matrix downloads | 43 | Scarabaeinae datamatrix (43 downloads); |
Project downloads | 381 | |
Media downloads | 3 | M328076 (1 download); M328071 (2 downloads); |