Checklist of the vascular flora of the Sunda-Sahul Convergence Zone

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 diversity. Despite the importance of the area, a checklist of the flora has never before been published. Here we present the first working checklist of vascular plants for the Sunda-Sahul Convergence Zone. The list was compiled from 24 flora volumes, online databases and unpublished plot data. Taxonomic nomenclature was updated, and each species was coded into nested biogeographic regions. The list includes 60,415 species in 5,135 genera and 363 families of vascular plants. New information This is the first species-level checklist of the region and presents an updated census of the region's floristic biodiversity. The checklist confirms that species richness of the SSCZ is comparable to that of the Neotropics, and highlights areas in need of further documentation and taxonomic work. This checklist provides a novel dataset for studying floristic ecology and evolution in this biogeographically important region of very high global biodiversity

Understanding seed dormancy and germination aids conservation of rainforest species from tropical montane cloud forest: a case study confirming morphophysiological dormancy in the genus Tasmannia

Context: Seed dormancy is one issue hindering implementation of conservation actions for rainforest species. Aims: We studied dormancy and germination in Tasmannia sp. Mt Bellenden Ker and Tasmannia membranea, two tropical montane rainforest species threatened by climate change, to develop a better understanding of dormancy in the species and the genus. Methods: Dormancy was classified for T. sp. Mt Bellenden Ker on the basis of an imbibition test, analysis of embryo to seed length (E:S) ratios and germination in response to the following four dormancy-breaking treatments: (I) scarification of the seedcoat near the micropylar end; (2) removal of the seedcoat; (3) application of 100 mg L(-1)or (4) 500 mg L-1 gibberellic acid. The most effective treatment was then tested on T. membranea. The requirement for light for germination was also assessed. Key results: Both scarified and intact seeds imbibed water. Initial E:S ratios were <0.22 for both species and increased up to 0.74 after 40 days, just before radicle emergence, for T. sp. Mt Bellenden Ker. Germination proportions were significantly higher in Treatments 1 and 2 than the remaining treatments for T. sp. Mt Bellenden Ker; T. membranea responded similarly well to Treatment 1. Germination under alternating light/dark conditions was slightly, but not significantly, greater than germination in the dark alone. Conclusions: Both species have morphophysiological dormancy and treatments that remove seedcoat resistance to embryo growth facilitate germination. These treatments may improve germination in other species from the genus Tasmannia. Implications: This knowledge will aid the germination of seeds to implement conservation strategies for Tasmannia spp

Sunlight and red to far-red ratio impact germination of tropical montane cloud forest species

Context: Australia’s tropical montane cloud forests (TMCF) exhibit exceptional species richness and endemism. Determinants of regeneration via seed of these species are next to unknown, limiting our ability to quantify and project their vulnerability to climate change. The ratio of red to far-red light (R:FR) has been shown to influence seed germination of many tropical species.Aims: We investigated germination of six previously unstudied TMCF species in relation to the presence or absence of light (light/dark) and light quality (R:FR). We hypothesised that increased R:FR would lead to increased germination and that small-seeded species would be more likely to have a light requirement and be less sensitive to R:FR compared to larger-seeded species.Methods: Sunlight and polyester filters were used to create a gradient of R:FR ranging from 0.1 to 1.14. Seeds were also sown in constant darkness.Key results: Across species we saw varying germination responses. Three of the four smallest-seeded species exhibited an absolute light requirement for germination and did not discriminate between different R:FR. Germination of the small-seeded TMCF endemic Dracophyllum increased exponentially with increasing R:FR. Germination of the largest-seeded species was inhibited by both low and high R:FR, and germination was higher in constant darkness than diurnal light/dark. All six species were able to germinate at remarkably low R:FR values.Conclusions: Light affects seed germination of Australia’s TMCF plant species in a variety of ways.Implications: The findings of this study provide insights into plant recruitment in situ, and the acclimation potential of these species under reduced R:FR predicted for the future

Phylogeny, Adaptive Radiation, and Historical Biogeography in Bromeliaceae: Insights from an Eight-Locus Plastid Phylogeny

Premise: Bromeliaceae form a large, ecologically diverse family of angiosperms native to the New World. We use a bromeliad phylogeny based on eight plastid regions to analyze relationships within the family, test a new, eight-subfamily classification, infer the chronology of bromeliad evolution and invasion of different regions, and provide the basis for future analyses of trait evolution and rates of diversification. Methods: We employed maximum-parsimony, maximum-likelihood, and Bayesian approaches to analyze 9341 aligned bases for four outgroups and 90 bromeliad species representing 46 of 58 described genera. We calibrate the resulting phylogeny against time using penalized likelihood applied to a monocot-wide tree based on plastid ndhF sequences and use it to analyze patterns of geographic spread using parsimony, Bayesian inference, and the program S-DIVA. Results: Bromeliad subfamilies are related to each other as follows: (Brocchinioideae, (Lindmanioideae, (Tillandsioideae, (Hechtioideae, (Navioideae, (Pitcairnioideae, (Puyoideae, Bromelioideae))))))). Bromeliads arose in the Guayana Shield ca. 100 million years ago (Ma), spread centrifugally in the New World beginning ca. 16-13 Ma, and dispersed to West Africa ca. 9.3 Ma. Modern lineages began to diverge from each other roughly 19 Ma. Conclusions: Nearly two-thirds of extant bromeliads belong to two large radiations: the core tillandsioids, originating in the Andes ca. 14.2 Ma, and the Brazilian Shield bromelioids, originating in the Serro do Mar and adjacent regions ca. 9.1 Ma

Vegetation and floristics of a lowland tropical rainforest in northeast Australia

Background: Full floristic data, tree demography, and biomass estimates incorporating non-tree life forms are seldom collected and reported for forest plots in the tropics. Established research stations serve as important repositories of such biodiversity and ecological data. With a canopy crane setup within a tropical lowland rainforest estate, the 42-ha Daintree Rainforest Observatory (DRO) in Cape Tribulation, northern Australia is a research facility of international significance. We obtained an estimate of the vascular plant species richness for the site, by surveying all vascular plant species from various mature-phase, remnant and open vegetation patches within the site. We also integrate and report the demography and basal areas of trees ≥ 10 cm diameter at breast height (dbh) in a new 1- ha core plot, an extension to the pre-existing forest 1-ha plot under the canopy crane. In addition, we report for the canopy crane plot new demography and basal areas for smaller size shrubs and treelets subsampled from nine 20 m quadrats, and liana basal area and abundance from the whole plot. The DRO site has an estimated total vascular plant species richness of 441 species, of which 172 species (39%) are endemic to Australia, and 4 species are endemics to the Daintree region. The 2 x 1-ha plots contains a total of 262 vascular plant species of which 116 (1531 individuals) are tree species ≥ 10 cm dbh. We estimate a stem basal area of 34.9 m ha, of which small stems (tree saplings and shrubs <10cm dbh) and lianas collectively contribute c.4.2%. Comparing the stem density-diversity patterns of the DRO forest with other tropical rainforests globally, our meta-analysis shows that DRO forests has a comparatively high stem density and moderate species diversity, due to the influence of cyclones. These data will provide an important foundation for ecological and conservation studies in lowland tropical forest. New information: We present a floristic checklist, a life form breakdown, and demography data from two 1-ha rainforest plots from a lowland tropical rainforest study site. We also present a meta-analysis of stem densities and species diversity from comparable-sized plots across the tropics

Genomic insights into rapid speciation within the world’s largest tree genus Syzygium

Species radiations, despite immense phenotypic variation, can be difficult to resolve phylogenetically when genetic change poorly matches the rapidity of diversification. Genomic potential furnished by palaeopolyploidy, and relative roles for adaptation, random drift and hybridisation in the apportionment of genetic variation, remain poorly understood factors. Here, we study these aspects in a model radiation, Syzygium, the most species-rich tree genus worldwide. Genomes of 182 distinct species and 58 unidentified taxa are compared against a chromosome-level reference genome of the sea apple, Syzygium grande. We show that while Syzygium shares an ancient genome doubling event with other Myrtales, little evidence exists for recent polyploidy events. Phylogenomics confirms that Syzygium originated in Australia-New Guinea and diversified in multiple migrations, eastward to the Pacific and westward to India and Africa, in bursts of speciation visible as poorly resolved branches on phylogenies. Furthermore, some sublineages demonstrate genomic clines that recapitulate cladogenetic events, suggesting that stepwise geographic speciation, a neutral process, has been important in Syzygium diversification

Genomic insights into rapid speciation within the world's largest tree genus Syzygium

The relative importance of the mechanisms underlying species radiation remains unclear. Here, the authors combine reference genome assembly and population genetics analyses to show that neutral forces have contributed to the radiation of the most species-rich tree genus Syzygium. Species radiations, despite immense phenotypic variation, can be difficult to resolve phylogenetically when genetic change poorly matches the rapidity of diversification. Genomic potential furnished by palaeopolyploidy, and relative roles for adaptation, random drift and hybridisation in the apportionment of genetic variation, remain poorly understood factors. Here, we study these aspects in a model radiation, Syzygium, the most species-rich tree genus worldwide. Genomes of 182 distinct species and 58 unidentified taxa are compared against a chromosome-level reference genome of the sea apple, Syzygium grande. We show that while Syzygium shares an ancient genome doubling event with other Myrtales, little evidence exists for recent polyploidy events. Phylogenomics confirms that Syzygium originated in Australia-New Guinea and diversified in multiple migrations, eastward to the Pacific and westward to India and Africa, in bursts of speciation visible as poorly resolved branches on phylogenies. Furthermore, some sublineages demonstrate genomic clines that recapitulate cladogenetic events, suggesting that stepwise geographic speciation, a neutral process, has been important in Syzygium diversification.Peer reviewe

Genomic insights into rapid speciation within the world's largest tree genus Syzygium

Acknowledgements Y.W.L. was supported by a postgraduate scholarship research grant from the Ministry of National Development, Singapore awarded through the National Parks Board, Singapore (NParks; NParks’ Garden City Fund). Principal research funding from NParks and the School of Biological Sciences (SBS), Nanyang Technological University (NTU), Singapore, is acknowledged. We thank Peter Preiser, Associate Vice President for Biomedical and Life Sciences, for facilitating NTU support, and Kenneth Er, CEO of NParks, for facilitating research funding through that organisation. V.A.A. and C.L. were funded by SBS, NTU for a one-year research leave. V.A.A. and C.L. also acknowledge support from the United States National Science Foundation (grants 2030871 and 1854550, respectively). S.R. was supported by a postdoctoral research fellowship under the NTU Strategic Plant Programme. S.R. and N.R.W.C. acknowledge funding from NTU start-up and the Academy of Finland (decisions 318288, 319947) grants to J.S. Fieldwork conducted by Y.W.L. was supported by an Indonesian Government RISTEK research permit (Application ID: 1517217008) and an Access License from the Sabah State government [JKM/MBS.1000-2/2JLD.7(84)]. T.N.C.V. is grateful to the Assemblée de la Province Nord and Assemblée de la Province Sud (New Caledonia) for facilitating relevant collection permits. A.N. was partly supported by the Research Project Promotion Grant (Strategic Research Grant No. 17SP01302) from the University of the Ryukyus, and partly by the Environment Research and Technology Development Fund (JPMEERF20204003) from the Environmental Restoration and Conservation Agency of Japan. Fieldwork in Fiji conducted by R.B. was hosted and facilitated by Elina Nabubuniyaka-Young (The Pacific Community’s Centre for Pacific Crops and Trees, Fiji). We thank the NTU-Smithsonian Partnership for tree data obtained for the Bukit Timah Nature Reserve (BTNR) long-term forest dynamics plots. Administrative support provided by Mui Hwang Khoo-Woon and Peter Ang at the molecular laboratory of the Singapore Botanic Gardens (SBG) is acknowledged. Rosie Woods and Imalka Kahandawala (DNA and Tissue Bank, Royal Botanic Gardens, Kew) facilitated additional DNA samples. Daniel Thomas (SBG) and Yan Yu (Sichuan University) commented on biogeographical analyses. NovogeneAIT in Singapore is acknowledged for personalised sequencing service.Peer reviewedPublisher PD

The Australasian Systematic Botany Society 2015 conference - papers and perspectives

[Extract] The Australasian Systematic Botany Society (ASBS) is proud to present this special issue of papers from its 2015 Annual Conference, held in Canberra, 29 November – 3 December. The conference theme was 'Building our Botanical Capital', reflecting both the location in Australia's political centre, and the key role of ASBS conferences in supporting, developing and growing taxonomic capability across Australasia