A5080059297- Plant Diversity and Evolution
- Plant and Fungal Species Descriptions
- Genomics and Phylogenetic Studies
- Plant and animal studies
- Genetic diversity and population structure
- Calcium Carbonate Crystallization and Inhibition
- Plant and Biological Electrophysiology Studies
- Fern and Epiphyte Biology
- Plant Ecology and Taxonomy Studies
- Ecology and Vegetation Dynamics Studies
- Pacific and Southeast Asian Studies
- Photosynthetic Processes and Mechanisms
- Ethnobotanical and Medicinal Plants Studies
- Chromosomal and Genetic Variations
- Plant Taxonomy and Phylogenetics
- Food Chemistry and Fat Analysis
- Geology and Paleoclimatology Research
- Environmental DNA in Biodiversity Studies
- Agriculture and Rural Development Research
- Cocoa and Sweet Potato Agronomy
- Invertebrate Taxonomy and Ecology
- Environmental and Cultural Studies in Latin America and Beyond
Australian Institute of Tropical Health and Medicine
2016-2024
James Cook University
2016-2024
Atlas of Living Australia
2023
Australian Tropical Herbarium
2017-2018
Freie Universität Berlin
2014-2018
Australian National Herbarium
2017-2018
Leipzig University
2012-2016
Ludwig-Maximilians-Universität München
2010-2012
The mustard family (Brassicaceae) is a scientifically and economically important family, containing the model plant Arabidopsis thaliana numerous crop species that feed billions worldwide. Despite its relevance, most phylogenetic trees of are incompletely sampled often contain poorly supported branches. Here, we present complete Brassicaceae genus-level phylogenies to date (Brassicaceae Tree Life or BrassiToL) based on nuclear (1,081 genes, 319 349 genera; 57 58 tribes) plastome (60 265 all...
The family Araceae (3790 species, 117 genera) has one of the oldest fossil records among angiosperms. Ecologically, members this range from free-floating aquatics (Pistia and Lemna) to tropical epiphytes. Here, we infer some macroevolutionary processes that have led worldwide test how inclusion (formerly occupied) geographical ranges affects biogeographical reconstructions. Using a complete genus-level phylogeny plastid sequences outgroups representing 13 other Alismatales families, estimate...
Abstract This study focuses on reconstructing the time‐calibrated phylogeny of nine families comprising order Sapindales, representing a diverse and economically important group eudicots including citrus, mahogany, tree‐of‐heaven, cashew, mango, pistachio, frankincense, myrrh, lychee, rambutan, maple, buckeye. We sampled three molecular markers, plastid genes rbcL atpB, trnL‐trnLF spacer region, covered one‐third generic diversity Sapindales. All markers produced congruent phylogenies using...
Universal target enrichment kits maximize utility across wide evolutionary breadth while minimizing the number of baits required to create a cost-efficient kit. The Angiosperms353 kit has been successfully used capture loci throughout angiosperms, but default reference file includes sequence information from only 6-18 taxa per locus. Consequently, reads sequenced on-target DNA molecules may fail map references, resulting in fewer for assembly, and reducing locus recovery.
Sapindales is an angiosperm order of high economic and ecological value comprising nine families, c. 479 genera, 6570 species. However, family subfamily relationships in remain unclear, making reconstruction the order's spatio-temporal morphological evolution difficult. In this study, we used Angiosperms353 target capture data to generate most densely sampled phylogenetic trees date, with 448 samples 85% genera represented. The percentage paralogous loci allele divergence was characterized...
PREMISE Hybrids contain divergent alleles that can confound phylogenetic analyses but provide insights into reticulated evolution when identified and phased. We developed a workflow to detect hybrids in target capture data sets phase reads parental lineages using similarity framework. METHODS used Angiosperms353 for Nepenthes , including known test the novel workflow. Reference mapping was assess heterozygous sites across set hybrid accessions paralogous genes. Hybrid samples were phased by...
Plastid genomes exhibit different levels of variability in their sequences, depending on the respective kinds genomic regions. Genes are usually more conserved while noncoding introns and spacers evolve at a faster pace. While set about thirty maximum variable regions has been suggested to provide universally promising phylogenetic markers throughout angiosperms, applications often require several be sequenced for many individuals. Our project aims illuminate evolutionary relationships...
Heterotrophic plants provide intriguing examples of reductive evolution. This is especially evident in the reduction their plastid genomes, which can potentially proceed toward complete genome loss. Several milestones at beginning this path degradation have been described; however, little known about latest stages plastome reduction. Here we analyze a diversity genomes set closely related non-photosynthetic plants. We demonstrate how gradual loss genes shapes miniaturized plastomes these The...
Abstract The mustard family (Brassicaceae) is a scientifically and economically important family, containing the model plant Arabidopsis thaliana numerous crop species that feed billions worldwide. Despite its relevance, most published phylogenies are incompletely sampled, generally contain massive polytomies, and/or show incongruent topologies between datasets. Here, we present complete Brassicaceae genus-level to date (Brassicaceae Tree of Life, or BrassiToL) based on nuclear (>1,000...
Nepenthes is a genus of carnivorous plants consisting ~160 species that are distributed in the paleotropics. Molecular systematics has so far not been able to resolve evolutionary relationships most because limited genetic divergence previous studies. In present study, we used genome-skimming approach infer phylogenetic on basis 81 plastid genes and highly repetitive rRNA (external transcribed spacer (ETS)–26S) for 39 accessions representing 34 from eight sections. Maximum-likelihood...
The generation and analysis of genome-scale data—genomics—is driving a rapid increase in plant biodiversity knowledge. However, the speed complexity technological advance genomics presents challenges for its widescale use evolutionary conservation biology. Here, we introduce describe national-scale collaboration conceived to build genomic resources capability understanding Australian flora: Genomics Plants (GAP) Framework Initiative. We outline (a) history project including collaborative...
Australia harbours a rich and highly endemic orchid flora with over 90% of native species found nowhere else. However, little is known about the assembly evolution Australia's flora. Here, we used phylogenomic approach to infer evolutionary relationships, divergence times range in Pterostylidinae (Orchidoideae), second largest subtribe Australian flora, comprising genera Pterostylis Achlydosa. Phylogenetic analysis 75 plastid genes provided well-resolved supported phylogenies. Intrageneric...
Many African genera of the Amaranthaceae exhibit unique inflorescences that include sterile flowers modified to hooks or spines. Considering abundance large terrestrial herbivores increased on continent with expansion grassland and savannah ecosystems, could have been an innovation boosted diversification achyranthoid clade Amaranthaceae, animals serving dispersal.
Mycoheterotrophs, i.e. plants that acquire carbon from root-associated soil fungi, often have highly degraded plastomes, reflecting relaxed selective constraints on plastid genes following the loss of photosynthesis. Geosiris Baill. is only mycoheterotrophic genus in Iridaceae and comprises two species Madagascar nearby islands, a third recently discovered north-eastern Australia. Here, we characterise plastomes Australian one Madagascan to compare patterns plastome degradation relation...
The Pacific countries of Fiji, Samoa, Solomon Islands, and Vanuatu account for less than 2% the world's cacao dry bean production.To capitalise on rapidly expanding origin craft cocoa market, understanding genetic attributes Theobroma in is essential.A six-year ACIAR-funded project collected 1647 dried leaf samples from research stations smallholder farms to identify population ancestry T. partner countries.Using SNP marker profiling, study identified germplasm high Amelonado, which...
Derris Lour. and Brachypterum (Wight & Arn.) Benth. (Leguminosae subfamily Papilionoideae) in Australia are revised on the basis of examination fresh, dried spirit-preserved specimens phylogenetic analysis plastid matK nuclear internal transcribed spacer (ITS) sequence data. Three species four recognised as occurring Australia. Two new species, namely nitidum W.E.Cooper opacum W.E.Cooper, described illustrated. Notes habitat, distribution an identification key presented for all both...
Phylogenetic relationships in Calochilus (~30 species) were inferred based on a supermatrix of 81 loci including 22 species. To examine the spatio-temporal evolution Calochilus, divergence-time estimations conducted within Bayesian framework using an uncorrelated relaxed molecular-clock model, followed by maximum-likelihood ancestral-range reconstructions comparing four biogeographic models. trace key floral and vegetative characters, ancestral-character carried out. The stem age was dated...
ABSTRACT Universal target enrichment kits maximise utility across wide evolutionary breadth while minimising the number of baits required to create a cost-efficient kit. Locus assembly requires reference, but taxonomic kit means that references files can be phylogenetically sparse. The Angiosperms353 has been successfully used capture loci throughout angiosperms includes sequence information from 6–18 taxa per locus. Consequently, reads sequenced on-target DNA molecules may fail map...
Abstract Premise of the study Hybrids contain divergent alleles that can confound phylogenetic analyses but provide insights into reticulated evolution when identified and phased. We developed a workflow to detect hybrids in target capture datasets phase reads parental lineages using similarity framework. Methods used Angiosperms353 data for Nepenthes including known test novel workflow. Reference mapping was assess heterozygous sites across dataset, hybrid accessions paralogous genes....