Research Advances in Multi-Omics on the Traditional Chinese Herb Dendrobium officinale

Dendrobium officinale Kimura et Migo is an important epiphytic plant, belonging to the Orchidaceae family. There are various bioactive components in D. officinale plants, mainly including polysaccharides, alkaloids, and phenolic compounds. These compounds have been demonstrated to possess multiple functions, such as anti-oxidation, immune regulation, and anti-cancer. Due to serious shortages of wild resources, deterioration of cultivated germplasm and the unstable quality of D. officinale, the study has been focused on the biosynthetic pathway and regulation mechanisms of bioactive compounds. In recent years, with rapid developments in detection technologies and analysis tools, omics research including genomics, transcriptomics, proteomics and metabolomics have all been widely applied in various medicinal plants, including D. officinale. Many important advances have been achieved in D. officinale research, such as chromosome-level reference genome assembly and the identification of key genes involved in the biosynthesis of active components. In this review, we summarize the latest research advances in D. officinale based on multiple omics studies. At the same time, we discuss limitations of the current research. Finally, we put forward prospective topics in need of further study on D. officinale.

Vascular epiphyte assemblage structure and distribution patterns in the south-temperate zone

<p>Vascular epiphytes, which are specialised to spend their entire life cycle within trees, are significant contributors to local ecosystem services. However, our current understanding of epiphyte distributions, co-occurrences, and general ecology lags far behind that of terrestrial plants. Furthermore, the majority of epiphyte research is undertaken in tropical forests, with comparatively few studies extending into temperate climates. As such, whether epiphytic plant assemblage structure varies geographically, or is influenced by area and isolation effects needs further scrutiny. In addition, how epiphytes are distributed in relation to host tree ontogeny and microclimates specific to south-temperate forests is poorly understood. Here, I attempt to bridge this gap by researching epiphyte distributions and assemblage structure in New Zealand, southern Chile, and Australia. In the first biogeographic study of epiphyte-host interactions, I determined if epiphyte-host network structure (i.e. nestedness, species co-occurrences, species specialisation) varied among New Zealand and Chilean temperate forests (Chapter 2). At the forest stand level, network structure was consistent with stochastic structuring, which suggests that dispersal and disturbances are important drivers of epiphyte distributions at a biogeographic scale. However, deterministic structure was observed in New Zealand networks with regards to nestedness (i.e. when specialists interact with generalists), which suggests that positive species interactions influence epiphyte distributions at a within-tree scale. Second, I determined whether the composition of plant communities residing in epiphytic birds’ nest ferns (Asplenium goudeyi) on Lord Howe Island, Australia, are influenced by fern size, isolation from a major propagule source and resident plant community richness (Chapter 3). Results suggest that plant communities are structured by dispersal. For one, there was a significant isolation effect on resident plant community richness. Additionally, wind-dispersed taxa were well represented in isolated ferns, while animal-dispersed taxa and taxa with no specific dispersal strategies were absent. This is the first study to test the combined effects of area, isolation and resident plant richness on epiphytic plant assemblage structure. Third, using Darwin’s geological theory of island ontogeny as a theoretical construct, I explored changes in epiphyte species richness throughout tree ontogeny (Chapter 4). Theoretical frameworks have helped bridge the gap between our understanding of vascular epiphytes and terrestrial plants, however, none have been implemented to guide investigations on epiphyte assemblage development. Based on the general features of island ontogeny, I found three stages of epiphyte assemblage development: (i) an initial stage where host trees are devoid of epiphytes, (ii) a second stage where trees acquire epiphytes into maturity, and (iii) a hypothetical stage where epiphyte assemblages follow a period of species decline following host tree mortality. In addition to these results, I found interspecific variation in the ontogenetic stage at which host trees become favourable for epiphyte establishment and the rate at which epiphyte assemblages develop. Lastly, I explored the systematic distribution of epiphytes and mistletoes in relation to microclimate gradients around the trunks of trees (Chapter 5). In addition, I tested the physiological responses of epiphytes and mistletoes to reductions in their most limiting resources to determine if the responses were consistent with their distribution patterns. The radial distributions of epiphytes and mistletoes were highly directional, and paralleled gradients of humidity, light and water. Additionally, the photochemical efficiency of epiphytes and CO₂ assimilation in mistletoe leaves decreased in plants growing in environments with lower water and light availability, respectively. However, mistletoe leaves still assimilated CO₂ in lower light conditions, which suggests a high plasticity of mistletoes to growing in a canopy environment. Despite over 120 years of recognising the importance of vertical microclimates on epiphyte distributions, this is the first systematic study of epiphytic plant distributions in relation to microclimate gradients around the trunks of trees. This thesis has increased our understanding of epiphytic plant assemblage structure, and how it is influenced by host tree species, isolation, area and resident plant species richness. In addition, this thesis has increased our understanding of the effect of host tree ontogeny and microclimate on epiphyte distribution patterns. Together, these studies may be built upon more broadly to further elucidate drivers of epiphyte assembly and distribution patterns.</p>

Vascular epiphyte assemblage structure and distribution patterns in the south-temperate zone

<p>Vascular epiphytes, which are specialised to spend their entire life cycle within trees, are significant contributors to local ecosystem services. However, our current understanding of epiphyte distributions, co-occurrences, and general ecology lags far behind that of terrestrial plants. Furthermore, the majority of epiphyte research is undertaken in tropical forests, with comparatively few studies extending into temperate climates. As such, whether epiphytic plant assemblage structure varies geographically, or is influenced by area and isolation effects needs further scrutiny. In addition, how epiphytes are distributed in relation to host tree ontogeny and microclimates specific to south-temperate forests is poorly understood. Here, I attempt to bridge this gap by researching epiphyte distributions and assemblage structure in New Zealand, southern Chile, and Australia. In the first biogeographic study of epiphyte-host interactions, I determined if epiphyte-host network structure (i.e. nestedness, species co-occurrences, species specialisation) varied among New Zealand and Chilean temperate forests (Chapter 2). At the forest stand level, network structure was consistent with stochastic structuring, which suggests that dispersal and disturbances are important drivers of epiphyte distributions at a biogeographic scale. However, deterministic structure was observed in New Zealand networks with regards to nestedness (i.e. when specialists interact with generalists), which suggests that positive species interactions influence epiphyte distributions at a within-tree scale. Second, I determined whether the composition of plant communities residing in epiphytic birds’ nest ferns (Asplenium goudeyi) on Lord Howe Island, Australia, are influenced by fern size, isolation from a major propagule source and resident plant community richness (Chapter 3). Results suggest that plant communities are structured by dispersal. For one, there was a significant isolation effect on resident plant community richness. Additionally, wind-dispersed taxa were well represented in isolated ferns, while animal-dispersed taxa and taxa with no specific dispersal strategies were absent. This is the first study to test the combined effects of area, isolation and resident plant richness on epiphytic plant assemblage structure. Third, using Darwin’s geological theory of island ontogeny as a theoretical construct, I explored changes in epiphyte species richness throughout tree ontogeny (Chapter 4). Theoretical frameworks have helped bridge the gap between our understanding of vascular epiphytes and terrestrial plants, however, none have been implemented to guide investigations on epiphyte assemblage development. Based on the general features of island ontogeny, I found three stages of epiphyte assemblage development: (i) an initial stage where host trees are devoid of epiphytes, (ii) a second stage where trees acquire epiphytes into maturity, and (iii) a hypothetical stage where epiphyte assemblages follow a period of species decline following host tree mortality. In addition to these results, I found interspecific variation in the ontogenetic stage at which host trees become favourable for epiphyte establishment and the rate at which epiphyte assemblages develop. Lastly, I explored the systematic distribution of epiphytes and mistletoes in relation to microclimate gradients around the trunks of trees (Chapter 5). In addition, I tested the physiological responses of epiphytes and mistletoes to reductions in their most limiting resources to determine if the responses were consistent with their distribution patterns. The radial distributions of epiphytes and mistletoes were highly directional, and paralleled gradients of humidity, light and water. Additionally, the photochemical efficiency of epiphytes and CO₂ assimilation in mistletoe leaves decreased in plants growing in environments with lower water and light availability, respectively. However, mistletoe leaves still assimilated CO₂ in lower light conditions, which suggests a high plasticity of mistletoes to growing in a canopy environment. Despite over 120 years of recognising the importance of vertical microclimates on epiphyte distributions, this is the first systematic study of epiphytic plant distributions in relation to microclimate gradients around the trunks of trees. This thesis has increased our understanding of epiphytic plant assemblage structure, and how it is influenced by host tree species, isolation, area and resident plant species richness. In addition, this thesis has increased our understanding of the effect of host tree ontogeny and microclimate on epiphyte distribution patterns. Together, these studies may be built upon more broadly to further elucidate drivers of epiphyte assembly and distribution patterns.</p>

Endophytic Fungal Diversity of Aerides crispa, an Epiphytic Orchid

Aerides crispa is an epiphytic plant that belongs to Orchidaceae family. Re-quirement of special habitat makes epiphytic orchids different from other plants. Day by day favourable conditions for these plants are decreasing. Here we have isolated six endophytic fungi from a single orchid. Isolated fungal cultures were molecularly characterized using ITS sequence region comparison with known fungi from NCBI data base and submitted to Gen-Bank. Homology of the fungi were confirmed by similarity matrix generation and phylogenetic tree construction. Thus, the endophytic fungi obtained were Cladosprium cladosporioides, Nigrospora sphaerica, Colletotricum gloe-osporioides, Fusarium circinatum, F.equiseti, Cl.cladosporioides. From the research study, it is revealed that genotypic characterization is a better method for identification of fungi than traditional methods, since same fungi were identified from different parts and also different species from same part of the same plant shows the interesting part of biodiversity. Richness of fungi in A crispaspeaks a lot about the importance of conservation of or-chids, endophytes and thereby biodiversity. The study describes endophytic fungi from an epiphytic orchid Acrispa to its sequence level identification.

Anatomical study of Orchidaceae epiphytes species occurring in indigenous territory in the Parque Estadual da Serra do Tabuleiro (P.E.S.T.), Santa Catarina, Brazil

Besides their ecological importance, epiphytic species of Orchidaceae play economic and social roles through their commercialization and some are at great risk of extinction. The objectives of this study were to characterize the leaf and root anatomy of fourteen epiphytic Orchidaceae species, which occur in indigenous territory in the Parque Estadual da Serra do Tabuleiro (P.E.S.T.), Santa Catarina, Brazil and to identify adaptive anatomical characteristics related to the epiphytic habit. The species are commercialized by the Guarani and were collected during interviews and guided tours with Guarani in the indigenous territory. The results reveal the species have many morphoanatomical structures that are useful during water shortages resulting from the epiphytic habit. Notable characteristics are related to reserving water (i.e., pseudobulbs and a hypodermis with water-storage cells) and resistance to desiccation in the leaf (i.e., conspicuous cuticle, suprastomatic chamber and extraxylary and pericyclic fibers) and root (i.e., tilosomes and/or exodermal thickening and cortex cells with phi thickenings or sclereids). Descriptions and the identification of adaptive characteristics of epiphytic plant species are useful for conservation and cultivation studies, especially for plants commercially used by the Guarani Indians.

Diversity of Epiphytic Orchids, Hoya, Dischidia and Phorophytes (Host Trees) in Bawean Island Nature Reserve and Wildlife Reserve, East Java, Indonesia

Bawean Island is a small island located between two islands (Java and Borneo). Geographically, the diversity of plants, especially epiphytic plants on this island is very interesting to be studied. This research aims to investigate the diversity of epiphytic plants, focussing on epiphytic orchids, Hoya and Dischidia in Bawean Island Nature Reserve and Wildlife Reserve. It was conducted through an inventory of epiphytic orchids and hoya growing on host trees. The results showed there were 10 species of epiphytic orchid and 3 species of epiphytic Hoya, and 1 species of Dischidia growing on-location studies. The epiphytic orchids which found in location studies included Phalaenopsis amabilis, Aerides odorata, Cymbidium aloifolium, Dendrobium anosmum, Rhynchostylis retusa, Liparis condylobulbon, Taeniophyllum biocellatum, Cymbidium sp., Eria sp. Orchid species that most often found in the study location was Phalaenopsis amabilis. In addition, this study recorded Taeniophyllum biocellatum as an endemic orchid from Java that was found on this island. The epiphytic Hoya recorded in there, i.e. Hoya diversifolia, H. verticillata, and H. amoena, and also only found 1 species of Dischidia was Dischidia imbricata. There were 12 species of trees as the host trees of epiphytic, i.e. Irvingia malayana, Tectona grandis, Diospyros buxyfolius were the host trees frequently found as the host of the epiphytic plant. Zone 3 as an area of 1/3 basal part of a total length of the branches was the most preferred zone by epiphytic orchids and hoya. The epiphytic orchid and hoya hardly found in Zone 5.

Diversity and Distribution of Vascular Epiphytic Flora in Sub-temperate Forests of Darjeeling Himalaya, India

Aims: This communication deals with the diversity and distribution including host species distribution of vascular epiphytes also reflecting its phenological observations. Study Design: Random field survey was carried out in the study site to identify and record the taxa. Host species was identified and vascular epiphytes were noted. Study Site and Duration: The study was conducted in the sub-temperate forests of Darjeeling Himalaya which is a part of the eastern Himalaya hotspot. The zone extends between 1200 to 1850 m amsl representing the amalgamation of both sub-tropical and temperate vegetation. The study was conducted during the year 2018-2019. Methodology: Process of random sampling collection was followed. Host trees with CBH >30 cm were identified and percentage of distribution of epiphytes in the host tree was analyzed and divided into two zones depending on the abundance of epiphytes. Data for the epiphytic plant specimens were collected in the field. Exsiccates were made with the collected voucher specimens and were deposited at the Calcutta University Herbarium (CUH) following the conventional methodology. Study on the taxa are based on their host tree distribution, micro-habitat and phenological status. The location and altitude of the study sites were recorded by global positioning system. Results: A total number of 115 species under 70 genera and 31 families have been identified with 65% other vascular angiosperms (basal angiosperms and eudicots) and 16% monocots. Orchidaceae among the monocots represented 36% with 41 species and 18 genera. Ferns and lycophytes include 25% of the diversity with 29 taxa under 6 families. Most favorable host trees were Ficus auriculata Lour., Ficus neriifolia Sm., Saurauia nepalensis DC., Erythrina variegata L., Macaranga denticulata (Blume) Müll. Arg., Cryptomeria japonica (Thunb. ex L.f.) D. Don and Engelhardia spicata Lechen ex Blume. Conclusion: The other vascular angiosperms preferred wet monsoon for flowering whereas spring season was most favourable for Orchidaceae. Although a healthy number of vascular epiphytes have been identified, a number of threats are still prevailing in the regions which are mostly anthropogenic. Proper collaborative strategies have to be maintained for its conservation.