Dataset Information

De novo transcriptome provides insights into the growth behaviour and resveratrol and trans-stilbenes biosynthesis in Dactylorhiza hatagirea - An endangered alpine terrestrial orchid of western Himalaya.

ABSTRACT: This is the first report on de novo transcriptome of Dactylorhiza hatagirea, a critically-endangered, terrestrial orchid of alpine Himalayas. The plant is acclaimed for medicinal properties but little is known about its secondary-metabolites profile or cues regulating their biosynthesis. De novo transcriptome analysis was therefore, undertaken to gain basic understanding on these aspects, while circumventing the acute limitation of plant material availability. 65,384 transcripts and finally, 37,371 unigenes were assembled de novo from a total of 236 million reads obtained from shoot, tuber and leaves of the plant. Dominance of differentially-expressing-genes (DEGs) related to cold-stress-response and plant-hormone-signal-transduction; and those involved in photosynthesis, sugar-metabolism and secondary-metabolite-synthesis provided insights into carbohydrate-partitioning in the plant during its preparation for freezing winter at natural habitat. DEGs of glucomannan, ascorbic acid, carotenoids, phylloquinone/naphthoquinones, indole alkaloids, resveratrol and stilbene biosynthesis revealed the secondary-metabolite profile of D. hatagirea. UHPLC results confirmed appreciable amounts of resveratrol and trans-stilbene in D. hatagirea tubers, for the first time. Expression analysis of 15 selected genes including those of phenylpropanoid pathway confirmed the validity of RNA-seq data. Opportunistic growth, temperature- and tissue-specific-differential-expression of secondary metabolite biosynthesis and stress tolerant genes were confirmed using clonal plants growing at 8, 15 and 25?°C.

SUBMITTER: Dhiman N

PROVIDER: S-EPMC6739469 | biostudies-literature | 2019 Sep

REPOSITORIES: biostudies-literature

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De novo transcriptome provides insights into the growth behaviour and resveratrol and trans-stilbenes biosynthesis in Dactylorhiza hatagirea - An endangered alpine terrestrial orchid of western Himalaya.

Dhiman Nisha N Sharma Nitesh Kumar NK Thapa Pooja P Sharma Isha I Kumar Swarnkar Mohit M Chawla Amit A Shankar Ravi R Bhattacharya Amita A

Scientific reports 20190911 1

This is the first report on de novo transcriptome of Dactylorhiza hatagirea, a critically-endangered, terrestrial orchid of alpine Himalayas. The plant is acclaimed for medicinal properties but little is known about its secondary-metabolites profile or cues regulating their biosynthesis. De novo transcriptome analysis was therefore, undertaken to gain basic understanding on these aspects, while circumventing the acute limitation of plant material availability. 65,384 transcripts and finally, 37, ...[more]

PMID: 31511556

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Project description:Harvesting of orchids for medicine and salep production is a traditional practice, and increasing market demand is spurring illegal harvest. Ethno-ecological studies in combination with the effect of anthropogenic disturbance are lacking for orchids. We compared population density and structure, and tuber biomass of Dactylorhiza hatagirea (D. Don) Soó for three years in two sites: Manang, where harvesting of medicinal plants was locally regulated (protected), and Darchula, where harvesting was locally unregulated (unprotected). Six populations were studied along an elevation gradient by establishing 144 temporary plots (3 × 3 m2) from 3,400 to 4,600 m elevations. Mean density of D. hatagirea was significantly higher in the locally protected (1.31 ± 0.17 plants/m2) than in the unprotected (0.72 ± 0.06 plants/m2) site. The protected site showed stable population density with high reproductive fitness and tuber biomass over the three-year period. A significant negative effect (p < .1) of relative radiation index (RRI) on the density of the adult vegetative stage and a positive effect of herb cover on juvenile and adult vegetative stages were found using mixed zero-inflated Poisson (mixed ZIP) models. The densities of different life stages were highly sensitive to harvesting and livestock grazing. Significant interactions between site and harvesting and grazing indicated particularly strong negative effects of these disturbances on densities of juvenile and adult reproductive stages in the unprotected site. Semi-structured interviews were conducted with informants (n = 186) in the villages and at the ecological survey sites. Our interview results showed that at the protected site people are aware of the conservation status and maintain sustainable populations, whereas the opposite was the case at the unprotected site where the populations are threatened. Sustainability of D. hatagirea populations, therefore, largely depends on controlling illegal and premature harvesting and unregulated livestock grazing, thus indicating the need for permanent monitoring of the species.

Project description:Climate variability coupled with anthropogenic pressures is the most critical driver in the Himalayan region for forest ecosystem vulnerability. Dactylorhiza hatagirea (D.Don) Soo is an important yet highly threatened medicinal orchid from the Himalayan region. Poor regenerative power and growing demand have resulted in the steep decline of its natural habitats populations. The present study aims to identify the habitat suitability of D. hatagirea in the Western Himalaya using the maximum entropy model (MaxEnt). The community climate system model (CCSM ver. 4) based on representative concentration pathways (RCPs) was used to determine suitable future areas. Sixteen least correlated (< 0.8) bioclimatic, topographical and geomorphic variables were used to construct the species climatic niche. The dominant contributing variables were elevation (34.85%) followed by precipitation of the coldest quarter (23.04%), soil type (8.77%), land use land cover (8.26%), mean annual temperature (5.51%), and temperature seasonality (5.11%). Compared to the present distribution, habitat suitability under future projection, i.e., RCP 4.5 and RCP 8.5 (2050 and 2070), was found to shift to higher elevation towards the northwest direction, while lower altitudes will invariably be less suitable. Further, as compared to the current distribution, the climatic niche space of the species is expected to expand in between11.41-22.13% in the near future. High habitats suitability areas are mainly concentrated in the forest range like Dharchula and Munsyari range, Pindar valley, Kedarnath Wildlife Sanctuary, West of Nanda Devi Biosphere Reserve, and Uttarkashi forest division. The present study delineated the fundamental niche baseline map of D. hatagirea in the Western Himalayas and highlighted regions/areas where conservation and management strategies should be intensified in the next 50 years. In addition, as the species is commercially exploited illegally, the information gathered is essential for conservationists and planners who protect the species at the regional levels.

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Project description:Concerns regarding the long-term viability of threatened and endangered plant species are increasingly warranted given the potential impacts of climate change and habitat fragmentation on unstable and isolated populations. Orchidaceae is the largest and most diverse family of flowering plants, but it is currently facing unprecedented risks of extinction. Despite substantial conservation emphasis on rare orchids, populations continue to decline. Spiranthes parksii (Navasota ladies' tresses) is a federally and state-listed endangered terrestrial orchid endemic to central Texas. Hence, we aimed to identify potential factors influencing the distribution of the species, quantify the relative importance of each factor and determine suitable habitat for future surveys and targeted conservation efforts. We analysed several geo-referenced variables describing climatic conditions and landscape features to identify potential factors influencing the likelihood of occurrence of S. parksii using boosted regression trees. Our model classified 97 % of the cells correctly with regard to species presence and absence, and indicated that probability of existence was correlated with climatic conditions and landscape features. The most influential variables were mean annual precipitation, mean elevation, mean annual minimum temperature and mean annual maximum temperature. The most likely suitable range for S. parksii was the eastern portions of Leon and Madison Counties, the southern portion of Brazos County, a portion of northern Grimes County and along the borders between Burleson and Washington Counties. Our model can assist in the development of an integrated conservation strategy through: (i) focussing future survey and research efforts on areas with a high likelihood of occurrence, (ii) aiding in selection of areas for conservation and restoration and (iii) framing future research questions including those necessary for predicting responses to climate change. Our model could also incorporate new information on S. parksii as it becomes available to improve prediction accuracy, and our methodology could be adapted to develop distribution maps for other rare species of conservation concern.

Dataset Information

De novo transcriptome provides insights into the growth behaviour and resveratrol and trans-stilbenes biosynthesis in Dactylorhiza hatagirea - An endangered alpine terrestrial orchid of western Himalaya.

Publications

De novo transcriptome provides insights into the growth behaviour and resveratrol and trans-stilbenes biosynthesis in Dactylorhiza hatagirea - An endangered alpine terrestrial orchid of western Himalaya.

Similar Datasets

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