Project 1271: J. Bardin, I. Rouget, F. Cecca. 2016. Ontogenetic Data Analyzed As Such in Phylogenies. Systematic Biology. 66 (1):syw052.
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: 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: 9.02M

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

    Authors' Institutions

    • Muséum national d'histoire naturelle, Paris (Natural History Museum, Paris)

    • Centre National de la Recherche Scientifique (CNRS)

    • Université Pierre et Marie Curie, UPMC, Paris VI (Pierre and Marie Curie University)

    • Sorbonne Université



    Members

    member name taxa specimens media media
    notes
    chars character
    comms
       
    notes  media
    labels
    cell scorings
    (scored, NPA, "-")
    cell
    comms
        
    notes  medialabels
    rules
    Jérémie 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 views32637
    Project overview1644
    Documents list749
    Media views19258Media search (1780 views); M340607 (195 views); M432635 (369 views); M340611 (212 views); M340613 (206 views); M340614 (253 views); M340615 (213 views); M340616 (208 views); M340617 (247 views); M340618 (224 views); M340619 (218 views); M340620 (222 views); M340621 (233 views); M340622 (189 views); M340623 (219 views); M340624 (232 views); M340625 (236 views); M340626 (229 views); M340627 (208 views); M340628 (216 views); M340629 (229 views); M340630 (231 views); M340631 (216 views); M340632 (256 views); M340633 (203 views); M340634 (232 views); M340635 (202 views); M340636 (222 views); M340637 (194 views); M340638 (208 views); M340639 (247 views); M340640 (214 views); M340641 (193 views); M340642 (183 views); M340643 (224 views); M340644 (184 views); M340645 (201 views); M340646 (201 views); M340647 (198 views); M340648 (194 views); M340649 (200 views); M340650 (196 views); M340651 (216 views); M340652 (242 views); M340653 (204 views); M340654 (202 views); M340655 (223 views); M340656 (183 views); M340657 (227 views); M340658 (197 views); M340659 (234 views); M340660 (204 views); M340661 (216 views); M340662 (244 views); M340663 (196 views); M340664 (205 views); M340665 (206 views); M340666 (211 views); M340668 (303 views); M340670 (224 views); M340671 (195 views); M340672 (209 views); M340673 (221 views); M340674 (220 views); M340675 (208 views); M340595 (242 views); M340596 (240 views); M340597 (259 views); M340599 (227 views); M340600 (212 views); M340601 (240 views); M340602 (217 views); M340603 (236 views); M340604 (234 views); M340605 (228 views); M340606 (256 views); M340608 (207 views); M340609 (218 views); M340610 (271 views); M340612 (244 views);
    Taxon list2209
    Matrix views1139Amaltheidae without ontogeny (95 views); Amaltheidae with ontogeny (92 views); Matrix landing page (952 views);
    Views for media list627
    Bibliography404
    Specimen list6607




    Project downloads

    type number of downloads Individual items downloaded (where applicable)
    Total downloads from project154
    Project downloads146
    Matrix downloads6Amaltheidae without ontogeny (1 download); Amaltheidae with ontogeny (5 downloads);
    Document downloads2Matrix Amaltheidae (2 downloads);