Biology subjects

Vitales, D.

Publications and source records attributed to Vitales, D..

8 recordsLinked to original sources

bioRxiv2026

Cytogenomic signatures of hybridisation in the genus Carpobrotus reveal biased parental dominance

O_LIHybridisation is frequently associated with plant invasions; however, its consequences for genome organisation and chromosome evolution remain poorly understood in invasive species. We investigated the extent of hybridisation in the invasive Carpobrotus edulis--acinaciformis hybrid complex and determined the cytogenomic contribution of parental species in hybrid accessions. C_LIO_LIWe combined whole-genome sequencing, population genomic analyses, genome size estimation, repeatome characterisation, chromosome counting and fluorescence in situ hybridisation to compare parental species and hybrid accessions from South Africa and the Mediterranean Basin. C_LIO_LIPopulation genomic analyses revealed widespread hybridisation and introgression, with most invasive accessions showing admixed ancestries. Pattersons D-statistic supported asymmetric allele sharing towards C. edulis. Hybrid accessions displayed genome sizes indistinguishable from C. edulis, whereas C. acinaciformis possessed significantly larger genomes. Repeatome analyses identified marked differences in repetitive DNA composition, particularly in satellite DNA abundance and chromosomal distribution. A newly identified satellite repeat (CarpoSat) showed contrasting chromosomal patterns between parental species, whereas hybrids resembled C. edulis satellite pattern. C_LIO_LIOur results demonstrate that Carpobrotus hybrid accessions are a swarm of later-generation hybrids and backcrosses showing a strong bias towards C. edulis, indicating asymmetric introgression. These findings highlight the value of integrating cytogenetic and genomic approaches to understand genome evolution in invasive hybrid complexes. C_LI

plant biology↗

bioRxiv2025

The impact of the invasive Kalanchoe xhoughtonii on vegetated sea cliffs of the Mediterranean coasts with endemic Limonium species

Invasive alien plant species pose a serious threat to biodiversity, especially in ecologically rich regions such as the Mediterranean Basin. Among the most affected habitats are coastal communities, which host many endemic taxa and provide valuable ecosystem services. One such invasive taxa is Kalanchoe xhoughtonii, an allegedly artificial hybrid. This plant, although having demonstrated strong invasive potential, still largely remains unrecognised as a taxon of concern in Mediterranean countries, at least in national official catalogues. In this study, we assess the impact of this hybrid on coastal communities, focusing on the European Union Habitat of Community Interest (HCI) 1240--"vegetated cliffs with endemic statices (Limonium spp.)"--at two sites along the southern coast of Catalonia (NE Iberian Peninsula). Between 2022 and 2025, we conducted field surveys to document the population size, growth stages, and spatial competition with native species. Additionally, we gathered 1,422 iNaturalist occurrences of K. xhoughtonii to map its distribution across the Mediterranean Basin, assess its presence within Natura 2000 protected sites and within protected areas, including the HCI 1240, and determine its potential spread using ensemble ecological niche modelling with bioclimatic variables. Our results show that K. xhoughtonii forms dense monospecific patches in the surveyed areas that compete for space with two native Limonium species in southern Catalonia. Moreover, we confirmed 713 naturalised occurrences in the Mediterranean area, 107 were located within Natura 2000 protected sites and 58 within the HCI 1240 included in protected sites. Ecological niche modelling indicates high climatic suitability across 93% of western and 59% of eastern Mediterranean Natura 2000 sites containing the HCI 1240. The findings of this study highlight the invasive potential of K. xhoughtonii and support its inclusion in national catalogues of invasive species across Mediterranean basin countries. The study calls for systematic monitoring of the spread and ecological impact of this hybrid species in coastal community habitats.

ecology↗

bioRxiv2025

The Winner Takes It All: a single genotype of Kalanchoe xhoughtonii is a global invader

Background and AimsInvasive alien plant species pose a global challenge, and their impact is amplified by globalisation and the accelerating pace of climate change. In mild-climate regions, drought-tolerant invasive plants showing broad environmental tolerance have a competitive advantage. One example is Kalanchoe xhoughtonii (Crassulaceae), popularly known as "mother of millions". It is a hybrid resulting from the interploid cross between K. daigremontiana and K. delagoensis, both native to Madagascar. Kalanchoe xhoughtonii, propagated as an ornamental plant, has emerged as a global invader in less than a century. Four morphotypes of this hybrid have been identified, with different ploidy levels and varying invasive capacities. Here we aim to investigate the genomic variability behind the invasion success of Kalanchoe xhoughtonii. MethodsWe sampled 57 accessions of Kalanchoe xhoughtonii, K. daigremontiana, K. delagoensis and closely related taxa, including old herbarium materials, from all over the world. We analysed genome size, chromosome numbers, sequenced the whole genome, analysed the complete plastome sequence of each accession, and studied the diversity of the ribosomal RNA genes. We also performed a detailed phylogenomic study using nuclear BUSCO genes. Key ResultsOur study reveals the genetic and cytogenetic variability between morphotypes, and shows that a single tetraploid genotype (morphotype A) dominates all populations, emerging as the first reported clonal hybrid capable of worldwide colonisation. Morphotype A shows a striking genetic uniformity, high phenotypic plasticity, and extremely high rates of vegetative reproduction, representing an example of a "general-purpose genotype". ConclusionsThe astonishing reproductive capacity, broad adaptability and the speed at which K. xhoughtonii is colonising new regions by clonal spread highlight the importance of understanding hybridisation and polyploidy in the invasion of ecosystems. Our findings call for the need for risk assessments before developing new hybrids for ornamental plant breeding that may exhibit invasive characteristics.

plant biology↗

bioRxiv2025

ERGA-BGE genome of Cheirolophus tagananensis: an IUCN endangered shrub endemic to the Canary Islands

The reference genome of Cheirolophus tagananensis, locally known as the Cabezon de Taganana, will provide an exceptional opportunity to establish a new framework to develop comparative genomic tools. These tools will help uncover the genetic basis of rapid plant radiations and microevolutionary adaptation processes of insular species on oceanic islands. This genomic resource will also contribute to facilitate the establishment of better informed in situ and ex-situ conservation strategies for this narrow endemic in the face of potential habitat degradation, and support taxonomic studies to better understand genetic diversity at the population, species, and genus levels. A total of 16 contiguous chromosomal pseudomolecules were assembled from the genome sequence. This chromosome-level assembly encompasses 0.62 Gb, composed of 421 contigs and 235 scaffolds, with contig and scaffold N50 values of 4.0 Mb and 36.5 Mb, respectively.

genomics↗

bioRxiv2024

Integrating target capture with whole genome sequencing of recent and natural history collections to explain the phylogeography of wild-growing and cultivated Cannabis

O_LICannabis has provided important and versatile services to humans for millennia. Domestication and subsequent dispersal have resulted in various landraces and cultivars. Unravelling the phylogeography of this genus poses considerable challenges due to its complex history. C_LIO_LIWe relied on a Hyb-Seq approach (combining target capture with shotgun sequencing), with the universal Angiosperms353 enrichment panel, to explore the genetic structure of wild-growing accessions and cultivars by implementing phylogenomic and population genomic workflows on the same Hyb-Seq data. C_LIO_LIOur findings support the treatment of Cannabis as a monotypic genus (C. sativa L.), structured into three main genetic groups--E Asia, Paleotropis, and Boreal--with clear phylogeographic signal despite significant levels of admixture. The E Asia group was sister to the Paleotropis and the Boreal groups. Individuals within the Paleotropis group could be further structured into three subgroups: Iranian Plateau, C & S China and Himalayas, and Indoafrica. Individuals from the Boreal group split into two subgroups: Eurosiberia and W Mongolia and Caucasus and Mediterranean. Hemp and drug-type landraces and cultivars consistently matched their putative geographic origin. C_LIO_LIThese findings enhance our understanding of the genetic patterns in Cannabis and provide a framework for future research into its current and past genetic diversity. C_LI

genomics↗

bioRxiv2023

Intra-leaf modeling of Cannabis leaflet shape produces synthetic leaves that predict genetic and developmental identities

O_LIThe iconic, palmately compound leaves of Cannabis have attracted significant attention in the past. However, investigations into the genetic basis of leaf shape or its connections to phytochemical composition have yielded inconclusive results. This is partly due to prominent changes in leaflet number within a single plant during development, which has so far prevented the proper use of common morphometric techniques. C_LIO_LIHere we present a new method that overcomes the challenge of nonhomologous landmarks in palmate, pinnate and lobed leaves, using Cannabis as an example. We model corresponding pseudo-landmarks for each leaflet as angle-radius coordinates and model them as a function of leaflet to create continuous polynomial models, bypassing the problems associated with variable number of leaflets between leaves. C_LIO_LIWe analyze 341 leaves from 24 individuals from nine Cannabis accessions. Using 3,591 pseudo-landmarks in modeled leaves, we accurately predict accession identity, leaflet number, and relative node number. C_LIO_LIIntra-leaf modeling offers a rapid, cost-effective means of identifying Cannabis accessions, making it a valuable tool for future taxonomic studies, cultivar recognition, and possibly chemical content analysis and sex identification, in addition to permitting the morphometric analysis of leaves in any species with variable numbers of leaflets or lobes. C_LI

developmental biology↗

bioRxiv2020

Human-like telomeres in Zostera marina reveal a mode of transition from the plant to the human telomeric sequences

A previous study describing the genome of Zostera marina, the most widespread seagrass in the Northern hemisphere, revealed some genomic signatures of adaptation to the aquatic environment. Important features related to the back-to-the-sea reverse evolutionary pathway were found, such as the loss of stomatal genes, while other functions like an algal-like cell wall composition were acquired. Beyond these, the genome structure and organization were comparable to the majority of plant genomes sequenced, except for one striking feature that went unnoticed at that time: the presence of human-like instead of the expected plant-type telomeric sequences. By using different experimental approaches including FISH, NGS and Ba131 analysis, we have confirmed its telomeric location in the chromosomes of Z. marina. We have also identified its telomerase RNA subunit (TR), confirming the presence of the human-type telomeric sequence in the template region. Remarkably, this region was found to be very variable even in clades with a highly conserved telomeric sequence across their species. Based on this observation, we propose that alternative annealing preferences in the template borders can explain the transition between the plant and human telomeric sequences. The further identification of paralogues of TR in several plant genomes brought us to the hypothesis that plants may keep an increased ability to change their telomeric sequence. We discuss the implications of this occurrence in the evolution of telomeres while introducing a mechanistic model for the transition from the plant to the human telomeric sequences.

evolutionary biology↗

bioRxiv2019

Reconstructing Phylogenetic Relationships Based On Repeat Sequence Similarities

A recent phylogenetic method based on genome-wide abundance of different repeat types proved to be useful in reconstructing the evolutionary history of several plant and animal groups. Here, we demonstrate that an alternative information source from the repeatome can also be employed to infer phylogenetic relationships among taxa. Specifically, this novel approach makes use of the repeat sequence similarity matrices obtained from the comparative clustering analyses of RepeatExplorer 2, which are subsequently transformed to between-taxa distance matrices. These pairwise matrices are used to construct neighbour-joining trees for each of the top most-abundant clusters and they are finally summarized in a consensus network. This methodology was tested on three groups of angiosperms and one group of insects, resulting in congruent evolutionary hypotheses compared to more standard systematic analyses based on commonly used DNA markers. We propose that the combined application of these phylogenetic approaches based on repeat abundances and repeat sequence similarities could be helpful to understand mechanisms governing genome and repeatome evolution.

evolutionary biology↗