Project 1271: J. Bardin, I. Rouget, F. Cecca. 2016. Ontogenetic Data Analyzed As Such in Phylogenies. Systematic Biology. 66 (1):23-37. (In Press)
Specimen: † Pleuroceras (unvouchered)
View: shell

Abstract

Ontogeny is rarely included in phylogenetic analyses of morphological data. When used, the ontogenetic information is reduced to one character for two or three different ontogenetic stages. Several examples show that current methods miss a major part of the information. We here propose a new method for including the ontogenetic dimension in coding schemes of phylogenetic analyses. Our goal was to maximize the phylogenetic information extracted from ontogenetic trajectories. For discrete features, we recommend including precise timings of transformation(s) from one state to another in the ontogenetic trajectories. For continuously varying features, growth laws are modeled on raw data using least-square regressions. Then, parameters of models are included in the coding scheme as continuous characters. This method is employed to reconstruct phylogenetic relationships using the ammonite family Amaltheidae as a test subject. Based on the same data set, a second analysis has been performed only for characters of the adult stage. Comparisons of retention index, bootstrap support, and stratigraphic congruence between the two analyses show that the inclusion of ontogeny yields better phylogenetic reconstruction. Morphological traits in ammonites which are usually the most homoplastic show a better fit to most parsimonious trees by including the ontogenetic dimension. In several cases, growth rates and patterns of growth have better fit to phylogeny than adult shapes, implying that paths of ontogeny can be more relevant than its products.


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Article DOI: Doi: 10.1093/sysbio/syw052

Project DOI: 10.7934/P1271, http://dx.doi.org/10.7934/P1271
This project containsMatrices
  • 79 Media
  • 2 Matrices
  • 1 Document
  • 27 Taxa
  • 27 Specimens
  • 55 Characters
Total size of project's media files: 16 MB

Download Project SDD File
Total scored cells: 1103
Total media associated with cells: 127
Total labels associated with cell media: 0
Characters
Total characters: 55
Total characters with associated media: 14
Total characters with media with labels: 0
Total character states: 388
Total character states with associated media: 0
Total character states with media with labels:0
Total unordered/ordered characters:49/6
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MorphoBank Project 1271


    Members

    member name taxa specimens media media
    notes
    chars character
    comms
       
    notes  media
    labels
    cell scorings
    (scored, NPA, "-")
    cell
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    notes  medialabels
    rules
    J Bardin
    Project Administrator
    Last logged in 10/26/16
    2626780550331401103
    (1103, 0, 0)
    0012700


    Taxonomic Overview for Matrix 'M2917' (25 Taxa)

    taxon unscored
    cells
    scored
    cells
    no cell
    support
    NPA
    cells
    "-" cellscell images labels on
    cell images
    member
    access
    [1] † Oistoceras figulinum
    Last Modified in 10/26/16
    11221800401
    [2] † Amaltheus bifurcus
    Last Modified in 10/26/16
    8251900601
    [3] † Amaltheus stokesi
    Last Modified in 10/26/16
    7262000601
    [4] † Amaltheus talrosei
    Last Modified in 10/26/16
    10231900401
    [5] † Amaltheus subbifurvus
    Last Modified in 10/26/16
    10231900401
    [6] † Amaltheus repressus
    Last Modified in 10/26/16
    13201800201
    [7] † Amaltheus conspectus
    Last Modified in 10/26/16
    9242000401
    [8] † Amaltheus viligaensis
    Last Modified in 10/26/16
    10231900401
    [9] † Amaltheus wertheri
    Last Modified in 10/26/16
    8251900601
    [10] † Amauroceras ferruginum
    Last Modified in 10/26/16
    11221600601
    [11] † Amaltheus subnodosus
    Last Modified in 10/26/16
    5282200601
    [12] † Amaltheus striatus
    Last Modified in 10/26/16
    6272200501
    [13] † Amaltheus gloriosus
    Last Modified in 10/26/16
    2312500601
    [14] † Amaltheus gloriosus w
    Last Modified in 10/26/16
    2312500601
    [15] † Amaltheus gibbosus
    Last Modified in 10/26/16
    2312500601
    [16] † Amaltheus salebrosus
    Last Modified in 10/26/16
    3302400601
    [17] † Pleuroceras becheteri
    Last Modified in 10/26/16
    4292500401
    [18] † Pleuroceras transiens
    Last Modified in 10/26/16
    6272100601
    [19] † Pleuroceras solare
    Last Modified in 10/26/16
    7262000601
    [20] † Pleuroceras quadratum
    Last Modified in 10/26/16
    13202000001
    [21] † Pleuroceras apyrenum
    Last Modified in 10/26/16
    8251900601
    [22] † Pleuroceras spinatum
    Last Modified in 10/26/16
    9241800601
    [23] † Pleuroceras hawskerense
    Last Modified in 10/26/16
    10231700601
    [24] † Pleuroceras paucicostatum
    Last Modified in 10/26/16
    9241800601
    [25] † Pleuroceras yeovilense
    Last Modified in 10/26/16
    9241800601


    Taxonomic Overview for Matrix 'M2919' (25 Taxa)

    taxon unscored
    cells
    scored
    cells
    no cell
    support
    NPA
    cells
    "-" cellscell images labels on
    cell images
    member
    access
    [1] † Oistoceras figulinum
    Last Modified in 10/26/16
    4181800001
    [2] † Amaltheus bifurcus
    Last Modified in 10/26/16
    3191900001
    [3] † Amaltheus stokesi
    Last Modified in 10/26/16
    2202000001
    [4] † Amaltheus talrosei
    Last Modified in 10/26/16
    3191900001
    [5] † Amaltheus subbifurvus
    Last Modified in 10/26/16
    4181800001
    [6] † Amaltheus repressus
    Last Modified in 10/26/16
    5171700001
    [7] † Amaltheus conspectus
    Last Modified in 10/26/16
    3191900001
    [8] † Amaltheus viligaensis
    Last Modified in 10/26/16
    3191900001
    [9] † Amaltheus wertheri
    Last Modified in 10/26/16
    3191900001
    [10] † Amauroceras ferruginum
    Last Modified in 10/26/16
    6161600001
    [11] † Amaltheus subnodosus
    Last Modified in 10/26/16
    1212100001
    [12] † Amaltheus striatus
    Last Modified in 10/26/16
    2202000001
    [13] † Amaltheus gloriosus
    Last Modified in 10/26/16
    0222200001
    [14] † Amaltheus gloriosus w
    Last Modified in 10/26/16
    0222200001
    [15] † Amaltheus gibbosus
    Last Modified in 10/26/16
    0222200001
    [16] † Amaltheus salebrosus
    Last Modified in 10/26/16
    1212100001
    [17] † Pleuroceras becheteri
    Last Modified in 10/26/16
    1212100001
    [18] † Pleuroceras transiens
    Last Modified in 10/26/16
    4181800001
    [19] † Pleuroceras solare
    Last Modified in 10/26/16
    4181800001
    [20] † Pleuroceras quadratum
    Last Modified in 10/26/16
    5171700001
    [21] † Pleuroceras apyrenum
    Last Modified in 10/26/16
    4181800001
    [22] † Pleuroceras spinatum
    Last Modified in 10/26/16
    5171700001
    [23] † Pleuroceras hawskerense
    Last Modified in 10/26/16
    6161600001
    [24] † Pleuroceras paucicostatum
    Last Modified in 10/26/16
    6161600001
    [25] † Pleuroceras yeovilense
    Last Modified in 10/26/16
    5171700001


    Project views

    type number of views Individual items viewed (where applicable)
    Total project views28734
    Project overview1425
    Documents list693
    Media views17414Media search (1600 views); M340607 (172 views); M432635 (319 views); M340611 (188 views); M340613 (182 views); M340614 (221 views); M340615 (186 views); M340616 (175 views); M340617 (226 views); M340618 (194 views); M340619 (188 views); M340620 (193 views); M340621 (208 views); M340622 (166 views); M340623 (191 views); M340624 (208 views); M340625 (203 views); M340626 (215 views); M340627 (191 views); M340628 (205 views); M340629 (213 views); M340630 (206 views); M340631 (197 views); M340632 (227 views); M340633 (182 views); M340634 (209 views); M340635 (188 views); M340636 (199 views); M340637 (179 views); M340638 (192 views); M340639 (236 views); M340640 (200 views); M340641 (173 views); M340642 (169 views); M340643 (204 views); M340644 (168 views); M340645 (187 views); M340646 (189 views); M340647 (186 views); M340648 (177 views); M340649 (185 views); M340650 (185 views); M340651 (197 views); M340652 (220 views); M340653 (192 views); M340654 (189 views); M340655 (207 views); M340656 (168 views); M340657 (199 views); M340658 (173 views); M340659 (223 views); M340660 (187 views); M340661 (202 views); M340662 (228 views); M340663 (178 views); M340664 (186 views); M340665 (189 views); M340666 (196 views); M340668 (280 views); M340670 (207 views); M340671 (188 views); M340672 (192 views); M340673 (206 views); M340674 (200 views); M340675 (182 views); M340595 (220 views); M340596 (212 views); M340597 (234 views); M340599 (207 views); M340600 (185 views); M340601 (215 views); M340602 (192 views); M340603 (202 views); M340604 (213 views); M340605 (203 views); M340606 (223 views); M340608 (189 views); M340609 (191 views); M340610 (238 views); M340612 (219 views);
    Taxon list1620
    Matrix views1012Amaltheidae without ontogeny (76 views); Amaltheidae with ontogeny (73 views); Matrix landing page (863 views);
    Views for media list540
    Bibliography348
    Specimen list5682




    Project downloads

    type number of downloads Individual items downloaded (where applicable)
    Total downloads from project131
    Project downloads123
    Matrix downloads6Amaltheidae without ontogeny (1 download); Amaltheidae with ontogeny (5 downloads);
    Document downloads2Matrix Amaltheidae (2 downloads);