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 views30078
    Project overview1511
    Documents list715
    Media views18077Media search (1672 views); M340607 (178 views); M432635 (341 views); M340611 (197 views); M340613 (189 views); M340614 (230 views); M340615 (194 views); M340616 (186 views); M340617 (234 views); M340618 (203 views); M340619 (195 views); M340620 (203 views); M340621 (220 views); M340622 (176 views); M340623 (200 views); M340624 (217 views); M340625 (211 views); M340626 (221 views); M340627 (198 views); M340628 (213 views); M340629 (220 views); M340630 (213 views); M340631 (205 views); M340632 (234 views); M340633 (190 views); M340634 (218 views); M340635 (193 views); M340636 (204 views); M340637 (186 views); M340638 (198 views); M340639 (241 views); M340640 (205 views); M340641 (179 views); M340642 (176 views); M340643 (209 views); M340644 (175 views); M340645 (192 views); M340646 (195 views); M340647 (191 views); M340648 (182 views); M340649 (190 views); M340650 (190 views); M340651 (202 views); M340652 (225 views); M340653 (198 views); M340654 (195 views); M340655 (213 views); M340656 (173 views); M340657 (205 views); M340658 (180 views); M340659 (228 views); M340660 (193 views); M340661 (207 views); M340662 (236 views); M340663 (184 views); M340664 (191 views); M340665 (196 views); M340666 (203 views); M340668 (288 views); M340670 (213 views); M340671 (193 views); M340672 (198 views); M340673 (211 views); M340674 (205 views); M340675 (187 views); M340595 (228 views); M340596 (222 views); M340597 (244 views); M340599 (216 views); M340600 (194 views); M340601 (223 views); M340602 (203 views); M340603 (212 views); M340604 (223 views); M340605 (213 views); M340606 (233 views); M340608 (197 views); M340609 (203 views); M340610 (247 views); M340612 (231 views);
    Taxon list1804
    Matrix views1069Amaltheidae without ontogeny (81 views); Amaltheidae with ontogeny (80 views); Matrix landing page (908 views);
    Views for media list568
    Bibliography363
    Specimen list5971




    Project downloads

    type number of downloads Individual items downloaded (where applicable)
    Total downloads from project139
    Project downloads131
    Matrix downloads6Amaltheidae without ontogeny (1 download); Amaltheidae with ontogeny (5 downloads);
    Document downloads2Matrix Amaltheidae (2 downloads);