Cophylogenetic methods to untangle the evolutionary history of ecological interactions

W Dismukes, MP Braga, DH Hembry… - Annual Review of …, 2022 - annualreviews.org
Myriad branches in the tree of life are intertwined through ecological relationships. Biologists
have long hypothesized that intimate symbioses between lineages can influence …

Assessing co‐diversification in host‐associated microbiomes

AH Moeller, JG Sanders, DD Sprockett… - Journal of Evolutionary …, 2023 - academic.oup.com
When lineages of hosts and microbial symbionts engage in intimate interactions over
evolutionary timescales, they can diversify in parallel (ie, co‐diversify), producing …

Recent origin and rapid speciation of Neotropical orchids in the world's richest plant biodiversity hotspot

OA Pérez‐Escobar, G Chomicki… - New …, 2017 - Wiley Online Library
Summary The Andean mountains of South America are the most species‐rich biodiversity
hotspot worldwide with c. 15% of the world's plant species, in only 1% of the world's land …

The origin and speciation of orchids

OA Pérez‐Escobar, D Bogarín… - New …, 2024 - Wiley Online Library
Orchids constitute one of the most spectacular radiations of flowering plants. However, their
origin, spread across the globe, and hotspots of speciation remain uncertain due to the lack …

Conflicting phylogenomic signals reveal a pattern of reticulate evolution in a recent high‐Andean diversification (Asteraceae: Astereae: Diplostephium)

OM Vargas, EM Ortiz, BB Simpson - New Phytologist, 2017 - Wiley Online Library
High‐throughput sequencing is helping biologists to overcome the difficulties of inferring the
phylogenies of recently diverged taxa. The present study analyzes the phylogenetic signal of …

Parallel ddRAD and genome skimming analyses reveal a radiative and reticulate evolutionary history of the temperate bamboos

C Guo, PF Ma, GQ Yang, XY Ye, Y Guo… - Systematic …, 2021 - academic.oup.com
Rapid evolutionary radiations are among the most challenging phylogenetic problems,
wherein different types of data (eg, morphology and molecular) or genetic markers (eg …

Plastomes of eight Ligusticum species: characterization, genome evolution, and phylogenetic relationships

T Ren, ZX Li, DF Xie, LJ Gui, C Peng, J Wen, XJ He - BMC Plant Biology, 2020 - Springer
Abstract Background The genus Ligusticum consists of approximately 60 species distributed
in the Northern Hemisphere. It is one of the most taxonomically difficult taxa within Apiaceae …

Complete Chloroplast Genome Sequence and Phylogenetic Analysis of Quercus acutissima

X Li, Y Li, M Zang, M Li, Y Fang - International Journal of Molecular …, 2018 - mdpi.com
Quercus acutissima, an important endemic and ecological plant of the Quercus genus, is
widely distributed throughout China. However, there have been few studies on its …

paco: implementing Procrustean Approach to Cophylogeny in R

MC Hutchinson, EF Cagua, JA Balbuena… - Methods in Ecology …, 2017 - Wiley Online Library
The concordance of evolutionary histories and extant species interactions provides a useful
metric for addressing questions of how the structure of ecological communities is influenced …

Hundreds of nuclear and plastid loci yield novel insights into orchid relationships

OA Pérez‐Escobar, S Dodsworth… - American Journal of …, 2021 - Wiley Online Library
PREMISE The inference of evolutionary relationships in the species‐rich family Orchidaceae
has hitherto relied heavily on plastid DNA sequences and limited taxon sampling. Previous …