Darren Crayn

Darren Crayn
Australian Tropical Herbarium | ATH

PhD, University of NSW, 1998

About

296
Publications
38,662
Reads
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4,101
Citations
Additional affiliations
March 2008 - present
James Cook University Brisbane
Position
  • Australian Tropical Herbarium, James Cook University
March 2008 - present
James Cook University
Position
  • Lecturer
Description
  • Field-based subjects emphasising the distribution and diversity of the tropical flora: the interplay of Gondwanan and Laurasian elements in the evolutionary history, regional ecosystems, species concepts, and plant identification skills.
March 2008 - April 2017
James Cook University Brisbane
Position
  • Manager

Publications

Publications (296)
Article
Full-text available
Background Aboriginal peoples have occupied the island continent of Australia for millennia. Over 500 different clan groups or nations with distinctive cultures, beliefs, and languages have learnt to live sustainably and harmoniously with nature. They have developed an intimate and profound relationship with the environment, and their use of native...
Article
Full-text available
Hybridisation has been proposed to play an important role in fern evolution, but has been difficult to investigate. This study explores the utility of target sequence capture and read-to-reference phasing of putative hybrids to investigate the role of evolutionary reticulation in ferns using Australian Thelypteridaceae as a model. The bioinformatic...
Presentation
Habitat suitability for most tree species restricted to the wet tropical mountaintops of Australia is predicted to decline with climate change. This is especially concerning because no available alternative habitat exists for species to migrate, and their growth responses to warming are understudied. We present a study investigating the effects of...
Article
Full-text available
Plant secondary metabolites (PSMs) are vital for human health and constitute the skeletal framework of many pharmaceutical drugs. Indeed, more than 25% of the existing drugs belong to PSMs. One of the continuing challenges for drug discovery and pharmaceutical industries is gaining access to natural products, including medicinal plants. This bottle...
Preprint
Hybridisation can lead to reproductive isolation and consequently speciation. It has been proposed to play an important role in fern evolution, but has been difficult to investigate. This study explores the utility of target sequence capture and reference guided read phasing to investigate the role of evolutionary reticulation in ferns using Austra...
Preprint
Full-text available
Species radiations have long fascinated biologists, but the contribution of adaptation to observed diversity and speciation is still an open question. Here, we explore this question using the clove genus, Syzygium, the world’s largest genus of tree species comprising approximately 1200 species. We dissect Syzygium diversity through shotgun sequenci...
Article
Full-text available
Premise: Hybrids contain divergent alleles that can confound phylogenetic analyses but can provide insights into reticulated evolution when identified and phased. We developed a workflow to detect hybrids in target capture data sets and phase reads into parental lineages using a similarity and phylogenetic framework. Methods: We used Angiosperms...
Article
Full-text available
Heterotrophic plants provide intriguing examples of reductive evolution. This is especially evident in the reduction of their plastid genomes, which can potentially proceed toward complete genome loss. Several milestones at the beginning of this path of degradation have been described; however, little is known about the latest stages of plastome re...
Article
Aim Exchange of plant lineages between Australia and Southeast Asia has had a substantial impact on the evolution of Australia's northern, tropical flora, with important ramifications for its conservation and biosecurity. Despite this, floristic exchange tracks between northern Australia and Southeast Asia remain poorly understood. To address this,...
Article
Full-text available
The Miocene convergence of the Sunda shelf, Sahul shelf and Wallacea facilitated the exchange of previously isolated floras across the Sunda–Sahul Convergence Zone (SSCZ). The SSCZ is a hotspot of biogeographical research; however, phytogeographical patterns across the region remain poorly understood. We conducted multivariate analysis on a compreh...
Article
The Miocene convergence of the Sunda shelf, Sahul shelf and Wallacea facilitated the exchange of previously isolated floras across the Sunda–Sahul Convergence Zone (SSCZ). The SSCZ is a hotspot of biogeographical research; however, phytogeographical patterns across the region remain poorly understood. We conducted multivariate analysis on a compreh...
Presentation
Leaf temperature (Tleaf) is an important determinant of plant physiological functioning, and leaf-level functional traits can influence leaf-to-air temperature difference (ΔT). Here, we investigated factors that influence leaf thermoregulation by studying ΔT among a tropical mountaintop restricted tree species, Flindersia oppositifolia, and its con...
Preprint
Full-text available
Premise of the study: Hybrids contain divergent alleles that can confound phylogenetic analyses but can provide insights into parental lineages when identified and phased. We developed HybPhaser to detect hybrids in target capture datasets and to phase reads according to haplotypes based on similarity and a phylogenetic framework. Methods and Resul...
Article
Full-text available
Cyclic peptides are reported to have antibacterial, antifungal and other bioactivities. Orbitides are a class of cyclic peptide that are small, head-to-tail cyclized, composed of proteinogenic amino acids, and lack disulfide bonds; they are also known in several genera of the plant family Rutaceae. Melicope xanthoxyloides is the Australian rain for...
Preprint
Full-text available
Cyclic peptides are reported to have antibacterial, antifungal and other bioactivities. Several genera of the Rutaceae family are known to produce orbitides, which are small head-to-tail cyclic peptides composed of proteinogenic amino acids and lacking disulfide bonds. Melicope xanthoxyloides is an Australian rain forest tree of the Rutaceae family...
Article
Full-text available
Background The Sunda-Sahul Convergence Zone, defined here as the area comprising Australia, New Guinea, and Southeast Asia (Indonesia to Myanmar), straddles the Sunda and Sahul continental shelves and is one of the most biogeographically famous and important regions in the world. Floristically, it is thought to harbour a large amount of the world’s...
Article
The taxonomic limits of Styphelia (Ericaceae, Epacridoideae, Styphelieae) have been contentious since the genus was first described. At one extreme, it has been circumscribed so broadly as to include most epacrids with drupaceous fruit, at the other, to include only those species that also have long-exserted anthers and styles. Recent molecular phy...
Article
Full-text available
With the aim to solve long-standing problems of taxonomic delimitation within the E. obovatus species complex (E. obovatus G.Don, E. arnhemicus F.Muell., E. sp. Mt Bellenden Ker (L.J.Brass 18336) Qld Herbarium and E. coorangooloo J.F.Bailey & C.T.White), diversity and relatedness were assessed using a combined population genetics and morphometric a...
Article
Full-text available
Two narrowly endemic, endangered species of Melichrus R.Br. from north-eastern New South Wales currently bearing phrase names are formally named and described. Melichrus hirsutus J.B.Williams ex H.T.Kenn. & I.Telford is validly published more than 50 years after the first herbarium specimens were collected. Melichrus gibberagee J.B.Williams ex H.T....
Article
Full-text available
Unraveling the origins of Malesia's once vast, hyperdiverse rainforests is a perennial challenge. Major contributions to rainforest assembly came from floristic elements carried on the Indian Plate and montane elements from the Australian Plate (Sahul). The Sahul component is now understood to include substantial two-way exchanges with Sunda inclus...
Article
Howea palms are viewed as one of the most clear-cut cases of speciation in sympatry. The sister species H. belmoreana and H. forsteriana are endemic to the oceanic Lord Howe Island, Australia, where they have overlapping distributions and are reproductively isolated mainly by flowering time differences. However, the potential role of introgression...
Article
Styphelia geniculata Crayn and S. piliflora Crayn are described, phylogenetically placed and compared with related species. Their relationships within Ericaceae tribe Styphelieae, resolved by phylogenetic analysis of plastid and nuclear DNA sequences, support their description in the expanded genus Styphelia. Illustrations, pollen scanning electron...
Article
Full-text available
The need to proactively manage landscapes and species to aid their adaptation to climate change is widely acknowledged. Current approaches to prioritizing investment in species conservation generally rely on correlative models, which predict the likely fate of species under different climate change scenarios. Yet, while model statistics can be impr...
Article
Full-text available
Elaeocarpus carbinensis from montane areas of the Wet Tropics bioregion of northeast Queensland, Australia is described and compared with similar species. Notes on habitat, distribution, and relationships, and a key to allied large-fruited species is provided. The conservation outlook for the species was determined with environmental niche modellin...
Article
Nepenthes is a genus of carnivorous plants consisting of ~160 species that are distributed in the paleotropics. Molecular systematics has so far not been able to resolve evolutionary relationships of most species because of the limited genetic divergence in previous studies. In the present study, we used a genome-skimming approach to infer phylogen...
Article
A review of Austrocallerya J.Compton & Schrire and Pongamia Adans. (Leguminosae subfamily Papilionoideae) in Australia, and the description of a new monotypic genus, Ibatiria W.E.Cooper, is presented with the support of fresh, dried, spirit-preserved specimens, molecular phylogenetic analysis of plastid and nuclear data, and illustrations. Three Au...
Article
The wet forests of south-east Australia can be coarsely divided into cool-temperate communities characterised by relictual Gondwanan lineages with a history of persistence in scattered refugia, and subtropical communities showing stronger Malesian floristic influences, with post-glacial expansion dynamics. Insights into the assembly and dynamics of...
Article
The need to proactively manage landscapes and species to aid their adaptation to climate change is widely acknowledged. Current approaches to prioritizing investment in species conservation generally rely on correlative models, which predict the likely fate of species under different climate change scenarios. Yet, while model statistics can be impr...
Article
Full-text available
To evaluate how biogeographical and ecological processes influenced species distributions and community assembly in a continental rain forest flora with mixed biogeographical origins. Continental Australia. We identified 795 species with Sahul ancestry (Australian rain forest flora of Gondwanan origin) and 604 species with Sunda ancestry (rain fore...
Article
Full-text available
The genus Melicope (Rutaceae) occurs on most Pacific archipelagos and is perfectly suited to study Pacific biogeography. The main goal was to infer the age, geographic origin and colonization patterns of Melicope and its relatives. We sequenced three nuclear and two plastid markers for 332 specimens that represent 164 species in 16 genera of Rutace...
Article
Full-text available
The genus Elaeocarpus is the largest genus in the family Elaeocarpaceae, comprising more than 350 species of trees and shrubs with a mainly Indo-Pacific distribution. Approximately 28 species in the genus, including nine species from Australia, are known to possess ruminate endosperm. To provide a basis for understanding fruit development and endos...
Article
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 the only mycoheterotrophic genus in Iridaceae and comprises two species in Madagascar and nearby islands, and a th...
Article
Full-text available
Badry, M.O., Crayn, D.M. & Tate, J.A. (2017). Hibiscus diversifolius subsp. rivularis (Bremek. & Oberm.) Exell (Malvaceae) in Australia. Austrobaileya 10(1): 113–120. Hibiscus diversifolius Jacq. is a widespread pantropical species found in Africa, Asia, Australia, and North and South America. In Australia, most populations are yellow-flowered, con...
Article
Full-text available
In the thousands of years of rice domestication in Asia, many useful genes have been lost from the gene pool. Wild rice is a key source of diversity for domesticated rice. Genome sequencing has suggested that the wild rice populations in northern Australia may include novel taxa, within the AA genome group of close (interfertile) wild relatives of...
Article
The Australian mesic biome spans c. 33 degrees of latitude along Australia's east coast and ranges but is dissected by historical and contemporary biogeographical barriers. To investigate the impact of these barriers on evolutionary diversification and to predict the impact of future climate change on the distribution of species and genetic diversi...
Conference Paper
Full-text available
The subfamily Epacridoideae, Ericaceae (commonly known as the epacrids) comprises 37 genera and ca. 640 species. This clade includes mostly perennial woody shrubs that occur in heathlands, sandplains, and tropical forests. Their distribution is mostly restricted to Gondwanan fragments (Australia, New Zealand, New Caledonia, and South America) with...
Data
Figure S1 Dot plot of wild rice pseudomolecules with reference genomes chromosomes; (a) Taxon A and its reference, O. sativa ssp. japonica var. Nipponbare; (b) Taxon B and its reference, O. meridionalis. Each square corresponds to one of the 12 rice chromosomes.
Data
Figure S2 Bayesian phylogenies for each chromosome of investigated Oryza species and the outgroup. Tree topologies for chromosomes 1, 2, 3, 4, 6, 8, 9 and 12 are identical. Tree topologies for chromosomes 5, 7, 10 and 11 are distinct and are highlighted in yellow. Scale axis represents age in million years (mya). Node bars display 95% Highest Poste...
Data
Table S1 Illumina and PacBio sequencing reads statistics for Taxon A and Taxon B.
Data
Table S4 Completeness of Taxon A and Taxon B assemblies evaluated by means of presence of BUSCO orthologous genes.
Data
Table S6 Length and GC content of Taxon A and Taxon B pseudomolecules and remaining contigs.
Data
Table S8 Repetitive elements annotated in Taxon B genome.
Data
Table S13 Divergence times estimates for Oryza species by chromosome.
Data
Table S14 Global statistics calculated in four‐taxon test for selected Oryza species per chromosome.
Data
Table S15 Summary of data used in divergence time estimation.
Data
Table S2 Illumina and PacBio sequencing genome coverage for Taxon A and Taxon B calculated using the estimated genome sizes (390 Mb and 370 Mb for Taxon A and Taxon B, respectively).
Data
Table S3 Completeness of Taxon A and Taxon B assemblies evaluated by means of presence of CEGMA core genes.
Data
Table S10 Protein coding genes annotation in Taxon A and Taxon B genomes.
Data
Table S12 The average rate of evolution estimates for Oryza species by chromosome.
Data
Table S5 Unaligned and partially unaligned contig metrics of Australian wild rice taxa.