| Title: |
Genetic variation in Loudetia simplex supports the presence of ancient grasslands in Madagascar |
| Authors: |
Tiley, George; Crowl, Andrew; Almary, Tchana; Luke, W.; Solofondranohatra, Cédrique; Besnard, Guillaume; Lehmann, Caroline; Yoder, Anne; Vorontsova, Maria |
| Contributors: |
Royal Botanic Gardens Kew; Duke University Durham; Kew Madagascar Conservation Centre (KMCC); National Museums of Kenya (NMK); Parc Botanique et Zoologique de Tsimbazaza; Evolution et Diversité Biologique (EDB); Institut de Recherche pour le Développement (IRD)-Université Toulouse III - Paul Sabatier (UT3); Communauté d'universités et établissements de Toulouse (Comue de Toulouse)-Communauté d'universités et établissements de Toulouse (Comue de Toulouse)-Centre National de la Recherche Scientifique (CNRS); The University of Edinburgh; Royal Botanic Garden Edinburgh; ANR-10-LABX-0041,TULIP,Towards a Unified theory of biotic Interactions: the roLe of environmental(2010) |
| Source: |
ISSN: 2572-2611 ; Plants, People, Planet ; https://hal.science/hal-04245276 ; Plants, People, Planet, In press, 6 (2), pp.315-329. ⟨10.1002/ppp3.10437⟩. |
| Publisher Information: |
CCSD; Wiley |
| Publication Year: |
2024 |
| Collection: |
Université Toulouse III - Paul Sabatier: HAL-UPS |
| Subject Terms: |
anthropogenic climate change; conservation genetics; effective population size; HybSeq; polyploidy; target-enrichment; [SDE]Environmental Sciences |
| Description: |
International audience ; Societal Impact Statement Recognizing Loudetia ‐dominated grasslands were widespread prior to human colonization highlights that open ecosystems were and continue to be an important component of Madagascar's biodiversity. A better understanding of the plant species that form grassland ecosystems is necessary for effective land management strategies that support livelihoods, but substantial financial and logistical barriers exist to implementing conservation genetic studies using contemporary genomic tools. Some challenges for population genetic analyses of non‐model polyploids lacking reference genomes can be ameliorated by developing computational resources that leverage a cost‐effective data generation strategy that requires no prior genetic knowledge of the target species. This may benefit conservation programs with small operating budgets while reducing uncertainty compared to status quo microsatellite assays. Summary The extent of Madagascar's grasslands prior to human colonization is unresolved. We used population genetic analyses of a broadly dominant C 4 fire‐adapted grass, Loudetia simplex , as a proxy for estimating grassland change through time. We carefully examined the utility of target‐enrichment data for population genetics to make recommendations for conservation genetics. We explored the potential of estimating individual ploidy levels from target‐enrichment data and how assumptions about ploidy could affect analyses. We developed a novel bioinformatic pipeline to estimate ploidy and genotypes from target‐enrichment data. We estimated standard population genetic summary statistics in addition to species trees and population structure. Extended Bayesian skyline plots provided estimates of population size through time for empirical and simulated data. All Malagasy L. simplex individuals sampled in this study formed a clade and possibly indicated an ancestral Central Highland distribution of 800 m in altitude and above. Demographic models suggested grassland expansions ... |
| Document Type: |
article in journal/newspaper |
| Language: |
English |
| DOI: |
10.1002/ppp3.10437 |
| Availability: |
https://hal.science/hal-04245276; https://hal.science/hal-04245276v1/document; https://hal.science/hal-04245276v1/file/Plants%20People%20Planet%20-%202023%20-%20Tiley%20-%20Genetic%20variation%20in%20Loudetia%20simplex%20supports%20the%20presence%20of%20ancient%20grasslands%20in.pdf; https://doi.org/10.1002/ppp3.10437 |
| Rights: |
info:eu-repo/semantics/OpenAccess |
| Accession Number: |
edsbas.AAD0BEAF |
| Database: |
BASE |