Research Article |
Corresponding author: Ana Morales-Alonso ( aimoralons@gmail.com ) Corresponding author: Pedro Jiménez-Mejías ( pjimmej@upo.es ) Academic editor: Peter de Lange
© 2023 Ana Morales-Alonso, Tamara Villaverde, Pedro Jiménez-Mejías.
This is an open access article distributed under the terms of the Creative Commons Attribution License (CC BY 4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
Citation:
Morales-Alonso A, Villaverde T, Jiménez-Mejías P (2023) Geometric Morphometrics sheds light on the systematics affinities of two enigmatic dwarf Neotropical sedges (Carex, Cyperaceae). PhytoKeys 232: 167-187. https://doi.org/10.3897/phytokeys.232.100410
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Geometric morphometrics (GM) is a powerful analytical tool that enables complete quantification of shapes. Its use in Botany has a great potential for complementing plant evolutionary and ecological studies. Taxonomic delimitation in Carex has been complicated due to reduction of characters and frequent homoplasy. This problem is more marked in cases where the species exhibit dwarfism. South America is the continent with the least understood Carex flora. The systematic relationships of some bizarre-looking groups were not unraveled until molecular phylogenetic studies resolved their relationships. In particular, there are two species only known from their type material whose affinities remain uncertain: Carex herteri and C. hypsipedos. These two taxa are acaulescent plants that respectively grow in the Uruguayan pampa and Peruvian high-altitude meadows. Recently, both species were ascribed to the Carex phalaroides group (subgen. Psyllophorae, sect. Junciformes) due to superficial morphological similarities, such as the androgynous peduncled spikes. However, their character combination is also coincident for its circumscription to sect. Abditispicae species. Nevertheless, in the absence of confirmation from molecular analyses, their placement must be considered preliminary until additional data can be provided. In this work we employ for the first time geometric morphometrics (GM) tools to assess the systematic affinities of two taxonomically problematic sedge species based on fruit shape. We compared utricle morphology of C. herteri and C. hypsipedos with that of C. phalaroides group and species in sect. Abditispicae. To this end we used GM and traditional morphometric approaches. Utricle shape variation along with other morphological features support the exclusion of these two species from the C. phalaroides gr. and, at the same time, show clear affinities of C. herteri to sect. Abditispicae. Carex hypsipedos remains as an incertae sedis species. Our work shows the potential utility of GM for the exploration of systematic affinities in sedges and in other graminoids.
acaulescence, Carex, geometric morphometrics, Neotropics, sedges
Before the advent of molecular systematics, taxonomic delimitation relied on the evaluation of phenotypic differences. Visible characteristics of organisms have been the basis for classifying the diversity of life within a unifying taxonomic framework. Analytical advances have allowed the implementation and consequent improvement of tools that can be applied to morphology-based studies (e.g. correlation coefficient (
One of the less explored analytical tools in plant systematics is geometric morphometrics (GM). GM was developed around 1980 (e.g.
Carex L. (Cyperaceae) with more than 2000 species, is one of the five largest genera among angiosperms and one of the two largest within monocots (
According to
To date, Carex herteri and C. hypsipedos have been included in the group of C. phalaroides Kunth (hereafter C. phalaroides gr.; subg. Psyllophorae, sect. Junciformes) due to superficial morphological similarities (
Among all the remaining South American Carex groups, the only other alternative match for these two species would be Carex sect. Abditispicae G.A.Wheeler (subg. Carex). Section Abditispicae comprises a group of eight species endemic to South America (
The taxonomic placement of C. herteri and C. hypsipedos as part of the C. phalaroides gr. should be considered tentative, due to the manifest character reduction of the two taxa, the frequent morphological homoplasy in Carex, their reported differences with the ascribed group, and the lack of molecular data. Alternatively, sect. Abditispicae seems to be a reasonable competitive group for the systematic adscription of the two species. In this study we aim to re-evaluate the attribution of C. herteri and C. hypsipedos to either C. phalaroides gr. or sect. Abditispicae in absence of available molecular data by analyzing the utricle, an organ of paramount taxonomic relevance in Carex together with other morphological characteristics using GM, a tool barely used for taxonomic delimitation in Cyperaceae, and traditional morphometrics, respectively.
We selected utricles from 11 species (Fig.
Representative utricles images used for GM analyses. From the top to the bottom, left to right A problematic species: Carex herteri (Herter, W.G.F., 19091, S), C. hypsipedos (Weberbauer 2617, G) B C. phalaroides gr.: C. gibertii (Arechavaleta s.n., US), C. paraguayensis (L. Pereira-Silva 350, FLOR) and C. phalaroides (G. Rodríguez-Palacios 23GERP15, UPOS) C C. sect. Abditispicae: C. acaulis (DM Moore 1240, K), C. collumanthus (PJ Grubb 339, K), C. humahuacaensis (S. Martín-Bravo et al., 178SMB21, UPOS), C. ruthsatzae (G. Rodríguez-Palacios 46GERP15, UPOS), C. subantarctica (Marcia Waterway, MW2015.020, UPOS), and C. macrosolen (S. Martín-Bravo et al., 11SMB10, UPOS). Scale bar: 4 mm.
Nine fixed landmarks were placed on homologous points within utricles following
Main GM analysis was conducted with a complete dataset including all 49 utricle images (from hereinafter referred as “complete GM dataset”). We split this dataset into sect. Abditispicae species (15 utricle images) and C. phalaroides gr. species (32 utricle images), creating Abditispicae GM dataset and C. phalaroides GM dataset two and three, respectively. Datasets two and three excluded problematic species thus we obtained the consensus utricle configuration for each group to allow visual shape comparison with the problematic species. GM analysis was performed four times, first for identifying potential outliers through a PCA scatter plot, second for the complete GM dataset, and third and fourth for shape exploration of sect. Abditispicae and C. phalaroides gr. datasets, respectively. The GM analysis of the complete dataset revealed that the highly deviant utricle of C. macrosolen induced a strong bias to the analysis generating a substantial deviation to the PCA, due to its large peak size (Suppl. material
We proceeded to landmark analysis with geomorph, R package v.4.0.2 (
Characters to be measured for C. phalaroides gr. initially followed the review of Carex in Rio Grande do Sul (Hoff-Silveira and Longhi-Wagner, 2012) with slight modifications according to our own observations. The different structures to be measured were selected from the middle zone of each organ, aiming for homogeneity within the data and to facilitate the comparison between individuals, with the following exceptions (1) the bracts, in which we selected the upper spike bract and the lower spike bract and (2) the length and width of the leaves, for which the longest and the widest leaves of each individual were selected, respectively. A list of 38 potentially diagnostic characters was established, although exploratory PCA analyses retrieved that only 24 characters were diagnostic. Our final dataset was constituted by 24 morphological characters measured on 56 individuals (Suppl. material
Sampling of sect. Abditispicae relied on literature data in order to take into account the entire variation span known for each taxon (Suppl. material
Principal component analysis was carried out on Rstudio v. 1.4.1717 (
Summary of the morphological traits analyzed in the two different PCA carried out in this study.
Morphological traits for Carex sect. Abditispicae – Carex phalaroides gr. PCA | |
---|---|
Organ | Character |
Leaf | Length (mm) |
Leaf | Width (mm) |
Lower spike bract | Width (mm) |
Inflorescence | Length (mm) |
Spike | Length (mm) |
Spike | Width (mm) |
Scale | Length (mm) |
Utricle | Length (mm) |
Utricle | Width (mm) |
Achene | Length (mm) |
Achene | Width (mm) |
The significance of those characters that allowed the best separation of each of the two morphogroups (C. phalaroides gr. and sect. Abditispicae; see results) was evaluated by non-parametric Kruskal–Wallis test with Rstudio v. 1.4.1717 (
Procrustes analyses performed for the different datasets recovered the consensus utricle configurations and deviations for every landmark and semilandmark coordinate (Suppl. material
PCA scatter-plot of the geometric morphometric analysis excluding Carex macrosolen. Squares represent sect. Abditispicae taxa, triangles represent C. phalaroides gr. taxa, and circles represent C. herteri and C. hypsipedos taxa. Utricles shapes at the margins of the graph display the extreme shapes of the morphospace for a better visualization of the utricle morphological features with greater weight within the principal components.
A) MANOVA test summary table | |||||||
---|---|---|---|---|---|---|---|
d.f. | Sum Sq | Mean Sq | R Sq | F value | Z | Pr(>F) | |
Groups | 1 | 0.26965 | 0.269650 | 0.46926 | 41.555 | 4.8696 | 9.999e-05 |
Residuals | 47 | 0.30498 | 0.006489 | 0.53074 | – | – | – |
Total | 48 | 0.57463 | – | – | – | – | – |
B) Summary of linear discriminant analyses results showing confusion matrices of predicted classes of test dataset within train dataset and its accuracy | |||||||
Confusion matrix train dataset | Sect. Abditispicae | C. phalaroides gr | Confusion matrix test dataset | New data | |||
Predicted | C. herteri | C. hypsipedos | |||||
Sect. Abditispicae | 31 | 1 | Sect. Abditispicae | 2 | 1 | ||
C. phalaroides gr | 3 | 63 | C. phalaroides gr | 0 | 1 | ||
Accuracy | 0.959 | Accuracy | 1 | 0.5 |
PCA performed to assess C. herteri and C. hypsipedos proximity to major groups included all the available morphological characters (Table
PCA and non-parametric tests results. First two principal component values resulting from the PCA performed for the traditional morphometric study. The p–values from the Kruskal-Wallis test are also indicated (* indicate significant results).
Morphological traits | PC1 | PC2 | Kruskal-Walis test |
---|---|---|---|
Leaf length (cm) | 0.370981181 | -0.30144017 | 3.513e-11*** |
Leaf width (mm) | 0.128838175 | -0.44318792 | 0.3196 |
Lower spike bract width (mm) | 0.081672924 | -0.46994517 | 0.01402* |
Inflorescence length (cm) | 0.29404183 | -0.36809907 | 6.513e-11*** |
Spike length (cm) | 0.338174775 | -0.33235128 | 7.273e-10*** |
Spike width (mm) | 0.006355108 | -0.3702008 | 0.0221* |
Scale length (mm) | -0.22673691 | -0.18833859 | 0.4813 |
Utricle length (mm) | -0.37000759 | -0.18041262 | 1.987e-09*** |
Utricle width (mm) | -0.3915743 | -0.04835903 | 4.062e-09*** |
Achene length (mm) | -0.38158338 | -0.12137059 | 2.935e-08*** |
Achene width (mm) | -0.38857237 | -0.15419903 | 1.218e-07*** |
Dwarf species Carex herteri and C. hypsipedos were assigned to C. phalaroides gr. by
Our GM, DFA and traditional morphometrics results reveal a high statistical support and a close utricle shape resemblance among sect. Abditispicae and C. herteri for all the analyses performed (Figs
Nevertheless, it would be desirable confirmation from procedures such as DNA barcode for two main reasons: (1) The frequent morphological homoplasy that affects the delimitation of infrageneric units within the genus (
The adscription of C. herteri to sect. Abditispicae would imply an area extension of a thousand km from the Patagonian steppes and high mountainous Andean habitats of the section to the Uruguayan Pampa. This, in turn, implies a much wider ecology for the group, from the cold-dry steppes and high-altitude habitats of the known species to the warm dryness of the pampa. As a common factor, Carex sect. Abditispicae ecology seems to be linked to stressful environments and may behave as pioneers in colonization processes.
Our approach using GM has assessed fruit shape variation in a non–qualitative way, as it is commonly studied on traditional morphometrics (
Our study supports the utility of GM on testing systematic affinities in species with graminoid morphology, particularly for Cyperaceae. To this end we used carpological characters, which have been often ignored in sedges, despite the useful characters for group delimitation residing in such organs (
Utricle shape variation along with other morphological features analyzed with GM and traditional morphometric approaches, respectively, support the exclusion of these two species from their traditionally affiliated group (C. phalaroides gr.). Moreover, C. herteri show clear affinities to sect. Abditispicae for both approaches. Besides, C. hypsipedos remains an incertae sedis species as it did not show affinities with any of these groups, thus further studies are needed for these taxa. Additionally, we employ for the first time geometric morphometrics tools and show its potential utility to approach the systematic affinities of taxonomically problematic sedge species.
We would like to thank the curators at K, QCA, QCNE, and UPOS for their assistance when visiting the collections and locating several particular vouchers; herbaria staff at S for sending high resolution images of C. herteri; N. Oleas and E. Sánchez for their attention and help in the field work organization in Ecuador; S. Martín-Bravo for the comments on an earlier draft; and Matthew Renner for the thorough revision of the manuscript that greatly helped to improve its quality.
No conflict of interest was declared.
No ethical statement was reported.
Funding received from the Regional Government of Madrid, Spain (Macondo, Award# SI1/PJI/2019-00333 to P.J.-M.), Spanish Research Agency of the Ministry of Science and Innovation (DANZ, Award# PID2020-113897GB-I00 to P.J.-M.), and Kew Royal Botanic Gardens, United Kingdom (Bentham-Moxon Trust grant 2021).
A. M.-A., T.V., P. J.-M. contributed to study conceptualization. Data preparation was carried out by A. M.-A., P. J.-M. Morphological study was carried out by A. M.-A. Analyses were carried out by A. M.-A. First manuscript draft was written by A. M.-A., P. J.-M. All authors contributed to the following and final version writing, review and editing. All authors have read and agreed to the published version of the manuscript.
Ana Morales-Alonso https://orcid.org/0000-0003-1497-1070
Tamara Villaverde https://orcid.org/0000-0002-9236-8616
Pedro Jiménez-Mejías https://orcid.org/0000-0003-2815-4477
All of the data that support the findings of this study are available in the main text or Supplementary Information.
GM material
Data type: Excel spreadsheet
Explanation note: Material used in this work for the utricle images. Taxon, botanical country (
Utricle slide with landmarks; PCA plot with C. macrosolen; Consensus configurations; Group comparison
Data type: PDF file; fig. S1–S4
Explanation note: Representation of landmark placement within the utricle. Green dots represent landmarks and blue dots semi-landmarks. From the top to the bottom, left to right. A) Problematic species: Carex herteri (Herter, W.G.F., 19091, S), C. hypsipedos (Weberbauer 2617, G). B) C. phalaroides gr.: C. gibertii Arechavaleta s.n.US), C. paraguayensis (L. Pereira-Silva 350, FLOR) and C. phalaroides (G. Rodríguez-Palacios 23GERP15, UPOS). C) C. sect. Abditispicae: C. acaulis (DM Moore 1240, K), C. collumanthus (PJ Grubb 339, K), C. humahuacaensis (S. Martín-Bravo et al. 178SMB21, UPOS), C. ruthsatzae (G. Rodríguez-Palacios 46GERP15, UPOS), C. subantarctica (Marcia Waterway MW2015.020, UPOS) and Carex macrosolen (S. Martín-Bravo et al., 11SMB10, UPOS) utricle was finally excluded from the analysis as it induced a strong bias. Scale bar of 4mm. PCA scatter-plot of the geometric morphometric analysis including C. macrosolen. Squares represents sect. Abditispicae taxa, triangles represent C. phalaroides gr. taxa, and circles represent C. herteri and C. hypsipedos according to the figures legend. Utricles shapes at the margins of the graph display the extreme shapes of the morphospace for a better visualization of the utricle morphological features with greater weight within the principal components. Comparative figure of consensus configurations between datasets: A) representing the utricle consensus configuration (black dots and grey line) and deviations from it (orange dots) for the complete dataset. B) representing the utricle consensus configuration (black dots and blue line) and deviations from it (blue dots) for the sect. Abditispicae dataset. C) representing the utricle consensus configuration (black dots and green line) and deviations from it (green dots) for the C. phalaroides gr. dataset. Comparative figure for the consensus utricle configuration of C. phalaroides gr. (green triangles) with sect. Abditispicae (blue dots).
Traditional morphometrics material
Data type: Excel spreadsheet
Explanation note: Material used in this work for traditional morphometric analyses. A: measured specimens of C. phalaroides gr. Taxa are indicated, the botanical country (