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1.
Ann Bot ; 130(5): 687-701, 2022 11 17.
Artículo en Inglés | MEDLINE | ID: mdl-36087101

RESUMEN

BACKGROUND AND AIMS: Rhododendron is a species-rich and taxonomically challenging genus due to recent adaptive radiation and frequent hybridization. A well-resolved phylogenetic tree would help to understand the diverse history of Rhododendron in the Himalaya-Hengduan Mountains where the genus is most diverse. METHODS: We reconstructed the phylogeny based on plastid genomes with broad taxon sampling, covering 161 species representing all eight subgenera and all 12 sections, including ~45 % of the Rhododendron species native to the Himalaya-Hengduan Mountains. We compared this phylogeny with nuclear phylogenies to elucidate reticulate evolutionary events and clarify relationships at all levels within the genus. We also estimated the timing and diversification history of Rhododendron, especially the two species-rich subgenera Rhododendron and Hymenanthes that comprise >90 % of Rhododendron species in the Himalaya-Hengduan Mountains. KEY RESULTS: The full plastid dataset produced a well-resolved and supported phylogeny of Rhododendron. We identified 13 clades that were almost always monophyletic across all published phylogenies. The conflicts between nuclear and plastid phylogenies suggested strongly that reticulation events may have occurred in the deep lineage history of the genus. Within Rhododendron, subgenus Therorhodion diverged first at 56 Mya, then a burst of diversification occurred from 23.8 to 17.6 Mya, generating ten lineages among the component 12 clades of core Rhododendron. Diversification in subgenus Rhododendron accelerated c. 16.6 Mya and then became fairly continuous. Conversely, Hymenanthes diversification was slow at first, then accelerated very rapidly around 5 Mya. In the Himalaya-Hengduan Mountains, subgenus Rhododendron contained one major clade adapted to high altitudes and another to low altitudes, whereas most clades in Hymenanthes contained both low- and high-altitude species, indicating greater ecological plasticity during its diversification. CONCLUSIONS: The 13 clades proposed here may help to identify specific ancient hybridization events. This study will help to establish a stable and reliable taxonomic framework for Rhododendron, and provides insight into what drove its diversification and ecological adaption. Denser sampling of taxa, examining both organelle and nuclear genomes, is needed to better understand the divergence and diversification history of Rhododendron.


Asunto(s)
Genoma de Plastidios , Filogenia , Rhododendron , Genoma de Plastidios/genética , Rhododendron/clasificación , Rhododendron/genética
2.
BMC Plant Biol ; 21(1): 529, 2021 Nov 11.
Artículo en Inglés | MEDLINE | ID: mdl-34763662

RESUMEN

BACKGROUND: Natural hybridization can influence the adaptive response to selection and accelerate species diversification. Understanding the composition and structure of hybrid zones may elucidate patterns of hybridization processes that are important to the formation and maintenance of species, especially for taxa that have experienced rapidly adaptive radiation. Here, we used morphological traits, ddRAD-seq and plastid DNA sequence data to investigate the structure of a Rhododendron hybrid zone and uncover the hybridization patterns among three sympatric and closely related species. RESULTS: Our results show that the hybrid zone is complex, where bi-directional hybridization takes place among the three sympatric parental species: R. spinuliferum, R. scabrifolium, and R. spiciferum. Hybrids between R. spinuliferum and R. spiciferum (R. ×duclouxii) comprise multiple hybrid classes and a high proportion of F1 generation hybrids, while a novel hybrid taxon between R. spinuliferum and R. scabrifolium dominated the F2 generation, but no backcross individuals were detected. The hybrid zone showed basically coincident patterns of population structure between genomic and morphological data. CONCLUSIONS: Natural hybridization exists among the three Rhododendron species in the hybrid zone, although patterns of hybrid formation vary between hybrid taxa, which may result in different evolutionary outcomes. This study represents a unique opportunity to dissect the ecological and evolutionary mechanisms associated with adaptive radiation of Rhododendron species in a biodiversity hotspot.


Asunto(s)
Hibridación Genética , Rhododendron/genética , Genoma de Planta , Rhododendron/anatomía & histología , Rhododendron/clasificación
3.
Molecules ; 25(17)2020 Aug 19.
Artículo en Inglés | MEDLINE | ID: mdl-32825161

RESUMEN

Rhododendron sichotense Pojark. and Rhododendron adamsii Rheder have been actively used in ethnomedicine in Mongolia, China and Buryatia (Russia) for centuries, as an antioxidant, immunomodulating, anti-inflammatory, vitality-restoring agent. These plants contain various phenolic compounds and fatty acids with valuable biological activity. Among green and selective extraction methods, supercritical carbon dioxide (SC-CO2) extraction has been shown to be the method of choice for the recovery of these naturally occurring compounds. Operative parameters and working conditions have been optimized by experimenting with different pressures (300-400 bar), temperatures (50-60 °C) and CO2 flow rates (50 mL/min) with 1% ethanol as co-solvent. The extraction time varied from 60 to 70 min. A HPLC-UV-VIS-ESI-MS/MS technique was applied to detect target analytes. A total of 48 different biologically active components have been identified in the Rh. adamsii SC-CO2 extracts. A total of 31 different biologically active components have been identified in the Rh. sichotense SC-CO2 extracts.


Asunto(s)
Dióxido de Carbono/química , Cromatografía Líquida de Alta Presión/métodos , Fitoquímicos/análisis , Extractos Vegetales/análisis , Rhododendron/química , Espectrometría de Masa por Ionización de Electrospray/métodos , Espectrometría de Masas en Tándem/métodos , Antioxidantes/análisis , Antioxidantes/aislamiento & purificación , Cromatografía con Fluido Supercrítico/métodos , Asia Oriental , Fitoquímicos/aislamiento & purificación , Extractos Vegetales/aislamiento & purificación , Rhododendron/clasificación , Siberia
4.
J Integr Plant Biol ; 61(4): 433-448, 2019 Apr.
Artículo en Inglés | MEDLINE | ID: mdl-30192058

RESUMEN

The evolutionary consequences of hybridization ultimately depend on the magnitude of reproductive isolation between hybrids and their parents. We evaluated the relative contributions of pre- and post-zygotic barriers to reproduction for hybrid formation, hybrid persistence and potential for reproductive isolation of hybrids formed between two Rhododendron species, R. spiciferum and R. spinuliferum. Our study established that incomplete reproductive isolation promotes hybrid formation and persistence and delays hybrid speciation. All pre-zygotic barriers to reproduction leading to hybrid formation are incomplete: parental species have overlapping flowering; they share the same pollinators; reciprocal assessments of pollen tube germination and growth do not differ among parents. The absence of post-zygotic barriers between parental taxa indicates that the persistence of hybrids is likely. Reproductive isolation was incomplete between hybrids and parents in all cases studied, although asymmetric differences in reproductive fitness were prevalent and possibly explain the genetic structure of natural hybrid swarms where hybridization is known to be bidirectional but asymmetric. Introgression, rather than speciation, is a probable evolutionary outcome of hybridization between the two Rhododendron taxa. Our study provides insights into understanding the evolutionary implications of natural hybridization in woody plants.


Asunto(s)
Hibridación Genética , Aislamiento Reproductivo , Rhododendron/clasificación , Rhododendron/genética , Flores/fisiología , Polinización , Rhododendron/anatomía & histología , Especificidad de la Especie
5.
Heredity (Edinb) ; 121(6): 594-604, 2018 12.
Artículo en Inglés | MEDLINE | ID: mdl-29479059

RESUMEN

Ecological speciation is an important factor in the diversification of plants. The distribution of the woody species Rhododendron indicum, which grows along rivers and is able to withstand water flow when rivers flood (i.e. it is a rheophyte), is disjunct, in contrast to the widespread distribution of its relative, Rhododendron kaempferi. This study aimed to elucidate the phylogenetic relationships between R. indicum and R. kaempferi and the evolutionary processes that gave rise to them. The sequences of three non-coding chloroplast DNA regions (total length 1977 bp) were obtained from 21 populations covering the ranges of the two species. In addition, genome-wide SNPs were genotyped from 20 populations using a genotyping by sequencing method. Leaf morphologies were measured for eight representative populations. Two chloroplast DNA haplotypes, which were detected in R. indicum, were shared between the two species. Genome-wide SNPs identified two lineages in R. indicum and these lineages did not constitute a monophyletic group. Each of these two lineages was related to geographically close populations of R. kaempferi. Leaf morphology, which is a characteristic feature in rheophytes, was not differentiated between the two lineages in R. indicum. The morphological similarity between the two heterogeneous lineages may be a result of parallel evolution from R. kaempferi or of introgressive hybridization between the species due to strong selective pressure imposed by flooding.


Asunto(s)
Filogeografía , Rhododendron/genética , ADN de Plantas/genética , Haplotipos , Hibridación Genética , Polimorfismo de Nucleótido Simple , Rhododendron/clasificación , Especificidad de la Especie
6.
Am J Bot ; 104(6): 803-816, 2017 Jun.
Artículo en Inglés | MEDLINE | ID: mdl-28611072

RESUMEN

PREMISE: We explored trait-trait and trait-climate relationships for 27 Rhododendron species while accounting for phylogenetic relationships and within-species variation to investigate whether leaf and root traits are coordinated across environments and over evolutionary time, as part of a whole-plant economics spectrum. METHODS: We examined specific leaf area (SLA) and four root traits: specific root length (SRL), specific root tip abundance (SRTA), first order diameter, and link average length, for plants growing in a cold, seasonal climate (Kirtland, Ohio) and a warmer, less seasonal climate (Federal Way, Washington) in the United States. We estimated a phylogeny and species' climate of origin, determined phylogenetic signal on mean traits and within-species variation, and used phylogenetically informed analysis to compare trait-trait and trait-climate relationships for deciduous and evergreen lineages. RESULTS: Mean SLA and within-species variation in SRL were more similar between close relatives than expected by chance. SLA and root traits differed according to climate of origin and across growth environments, though SLA differed within- and among-species less than roots. A negative SRL-SRTA correlation indicates investment in foraging scale vs. precision as a fundamental trade-off defining the root economic spectrum. Also, the deciduous clade exhibited a strong negative relationship between SLA and SRL, while evergreen clades showed a weaker positive or no relationship. CONCLUSIONS: Our work suggests that natural selection has shaped relationships between above- and belowground traits in genus Rhododendron and that leaf and root traits may evolve independently. Morphological decoupling may help explain habitat diversity among Rhododendron species, as well as the changes accompanying the divergence of deciduous and evergreen lineages.


Asunto(s)
Carbono/metabolismo , Filogenia , Hojas de la Planta/metabolismo , Raíces de Plantas/metabolismo , Rhododendron/clasificación , Evolución Biológica , Clima , Ecosistema , Ohio , Rhododendron/metabolismo , Washingtón
7.
Syst Biol ; 62(6): 789-804, 2013 Nov.
Artículo en Inglés | MEDLINE | ID: mdl-23736102

RESUMEN

Historical biogeography is increasingly studied from an explicitly statistical perspective, using stochastic models to describe the evolution of species range as a continuous-time Markov process of dispersal between and extinction within a set of discrete geographic areas. The main constraint of these methods is the computational limit on the number of areas that can be specified. We propose a Bayesian approach for inferring biogeographic history that extends the application of biogeographic models to the analysis of more realistic problems that involve a large number of areas. Our solution is based on a "data-augmentation" approach, in which we first populate the tree with a history of biogeographic events that is consistent with the observed species ranges at the tips of the tree. We then calculate the likelihood of a given history by adopting a mechanistic interpretation of the instantaneous-rate matrix, which specifies both the exponential waiting times between biogeographic events and the relative probabilities of each biogeographic change. We develop this approach in a Bayesian framework, marginalizing over all possible biogeographic histories using Markov chain Monte Carlo (MCMC). Besides dramatically increasing the number of areas that can be accommodated in a biogeographic analysis, our method allows the parameters of a given biogeographic model to be estimated and different biogeographic models to be objectively compared. Our approach is implemented in the program, BayArea.


Asunto(s)
Algoritmos , Filogeografía/métodos , Teorema de Bayes , Simulación por Computador , Filogenia , Rhododendron/clasificación
8.
Guang Pu Xue Yu Guang Pu Fen Xi ; 34(9): 2434-8, 2014 Sep.
Artículo en Zh | MEDLINE | ID: mdl-25532340

RESUMEN

In this study, major chemical components of Flos rhododendri mollis and Flos chrysanthemi indici were characterized using Fourier transform infrared spectroscopy (FTIR). For Flos rhododendri mollis, the bands at 1,648 and 1,543 cm(-1) were attributed to amide I and amide II , respectively, indicating that it contained proteins probably resulting in immunization. In case of Flos chrysanthemi indici, stretching vibration of C==O function group was responsible for the bands at 1,734 and 1,515 cm(-1), as a result of essential oils, lipids, etc. Since FTIR spectra of Flos rhododendri mollis and Flos chrysanthemi indici are almost identical and it is difficult to discriminate them, two-step identification was investigated via secondary derivative of the FTIR spectra. The bands at 1,656 and 1,515 cm(-1) corresponds to flavonoides in Flos rhododendri mollis and Flos chrysanthemi indici. In the secondary derivative of the FTIR spectrum of Flos chrysanthemi indici, characteristic bands of inulin were present at 1,163, 1,077, 1,026, 986 and 869 cm(-1), and therefore Flos chrysanthemi indici contained inulin as well. Tri-step identification was carried out for Flos rhododendri mollis and Flos chrysanthemi indici by means of comparing their 2D-IR correlation spectra in different wave number range. In the characteristic range of flavonoides (1,700-1,400 cm(-1)), Flos rhododendri mollis exhibited 3 obvious autopeaks, while 10 autopeaks were visualized in the 2D-IR correlation spectrum of Flos chrysanthemi indici Moreover, in the characteristic range of glucoside (1,250-900 cm(-1)), 10 and 9 autopeaks were present in the 2D-IR correlation spectra of Flos rhododendri mollis and Flos chrysanthemi indici, respectively. Therefore, the tri-step identification of FTIR is a time-saving; accurate, cost-saving and convenient method to effectively distinguish traditional Chinese medicines.


Asunto(s)
Chrysanthemum/clasificación , Medicamentos Herbarios Chinos/análisis , Flores/química , Rhododendron/clasificación , Glucósidos/análisis , Aceites Volátiles/análisis , Espectroscopía Infrarroja por Transformada de Fourier
9.
Gene ; 927: 148741, 2024 Nov 15.
Artículo en Inglés | MEDLINE | ID: mdl-38969246

RESUMEN

Rhododendron delavayi, a notable ornamental plant primarily found in regions of China like Yunnan and Guizhou provinces, holds substantial horticultural value. To elucidate the systematic phylogenetic relationships and organelle genomic differences within R. delavayi and related Rhododendron species, we conducted sequencing and assembly of the complete mitochondrial genome of R. delavayi. The full-length mitochondrial genome of it was a singular circular molecule spanning 1,009,263 bp, comprising 53 protein-coding genes, including 18 transfer RNA (tRNA) genes, 3 ribosomal RNA (rRNA) genes, and 32 protein-coding genes. A total of 1,182 simple sequence repeats (SSRs) loci were identified in the R. delavayi mitochondrial genome, primarily consisting of single nucleotide, dinucleotide, and trinucleotide repeats. Nucleotide diversity analysis highlighted five genes (atp6, atp9, cox2, nad1, and rpl10) with the highest diversity within the mitochondrial genomes of Rhododendron genus. Comparative analysis of the mitochondrial genome of R. delavayi with those of four other Rhododendron species indicated complex rearrangements in 21 genes, including rps4, nad6, rps3, atp6, cob, atp9, nad7, among others. The mitochondrial phylogenetic tree revealed a close relationship between R. delavayi and R. decorum, forming a sister clade to R. × pulchrum and R. simsii. Furthermore, 126 plastid-to-mitochondrial gene transfers in R. delavayi were identified, ranging from 30 bp to 19,385 bp. These fragments collectively constituted 47.54 % and 9.52 % of the chloroplast and mitochondrial genomes (202,169 bp), respectively. Complex mitochondrial-to-mitochondrial transfers were also observed, with 843 identified fragments totaling 312,036 bp (30.92 % of the mitochondrial genome). Segments exceeding 10 kb may mediate homologous recombination within the mitochondrial molecules. Remarkably, our study underscores that the mitochondrial genome of R. delavayi was the largest reported within the Rhododendron genus to date. The intricate rearrangements observed in the mitochondrial genomes of Rhododendron species, alone with the identification of five potential molecular marker sites, provided valuable insights for species classification and parentage identification within the Rhododendron genus.


Asunto(s)
Genoma Mitocondrial , Filogenia , Rhododendron , Rhododendron/genética , Rhododendron/clasificación , Repeticiones de Microsatélite/genética , ARN de Transferencia/genética , Variación Genética
10.
Heredity (Edinb) ; 111(2): 147-56, 2013 Aug.
Artículo en Inglés | MEDLINE | ID: mdl-23591517

RESUMEN

Elucidation of the evolutionary processes that constrain or facilitate adaptive divergence is a central goal in evolutionary biology, especially in non-model organisms. We tested whether changes in dynamics of gene flow (historical vs contemporary) caused population isolation and examined local adaptation in response to environmental selective forces in fragmented Rhododendron oldhamii populations. Variation in 26 expressed sequence tag-simple sequence repeat loci from 18 populations in Taiwan was investigated by examining patterns of genetic diversity, inbreeding, geographic structure, recent bottlenecks, and historical and contemporary gene flow. Selection associated with environmental variables was also examined. Bayesian clustering analysis revealed four regional population groups of north, central, south and southeast with significant genetic differentiation. Historical bottlenecks beginning 9168-13,092 years ago and ending 1584-3504 years ago were revealed by estimates using approximate Bayesian computation for all four regional samples analyzed. Recent migration within and across geographic regions was limited. However, major dispersal sources were found within geographic regions. Altitudinal clines of allelic frequencies of environmentally associated positively selected outliers were found, indicating adaptive divergence. Our results point to a transition from historical population connectivity toward contemporary population isolation and divergence on a regional scale. Spatial and temporal dispersal differences may have resulted in regional population divergence and local adaptation associated with environmental variables, which may have played roles as selective forces at a regional scale.


Asunto(s)
Adaptación Biológica/genética , Flujo Génico , Dispersión de las Plantas/genética , Aislamiento Reproductivo , Rhododendron/clasificación , Rhododendron/genética , Teorema de Bayes , Evolución Biológica , Ambiente , Etiquetas de Secuencia Expresada , Flujo Genético , Variación Genética , Repeticiones de Microsatélite , Familia de Multigenes , Filogeografía , Análisis de Secuencia de ADN , Taiwán
11.
J Genet ; 1002021.
Artículo en Inglés | MEDLINE | ID: mdl-34057147

RESUMEN

The apparent absence of Himalayan low-elevation taxa in the central Indian region and resumption of their distribution in the high elevation of Western Ghats has puzzled biogeographers for several decades. Many theories have been proposed to explain this but attempts remain futile owing to insufficient empirical support. Here, we have employed a montane tree species, Rhododendron arboreum to investigate this pattern by integrating past ecological niche modelling with molecular signatures. Reconstruction of paleo-ecological niche from interglacial to Last Glacial Maxima (LGM) portrayed a gradual depletion of vegetation cover with extreme impoverishment in the Holocene. A similar pattern was also reflected from genetic signatures; population history revealed a very recent split between the Himalayas and Western Ghats in the late Quaternary. A few other tree species exhibiting the same disjunction demonstrated a similar modification of paleo-ecological niche from last interglacial. The study clearly indicated that the populations in the Western Ghats to be a relictual remnants of a once continuous distribution of R. arboreum.


Asunto(s)
Variación Genética , Genética de Población , Haplotipos , Modelos Genéticos , Filogeografía , Rhododendron/clasificación , Rhododendron/genética , Ecosistema , Rhododendron/crecimiento & desarrollo , Especificidad de la Especie
12.
Ann Bot ; 105(1): 89-100, 2010 Jan.
Artículo en Inglés | MEDLINE | ID: mdl-19887474

RESUMEN

BACKGROUND AND AIMS: Rhododendron (Ericaceae) is a large woody genus in which hybridization is thought to play an important role in evolution and speciation, particularly in the Sino-Himalaya region where many interfertile species often occur sympatrically. Rhododendron agastum, a putative hybrid species, occurs in China, western Yunnan Province, in mixed populations with R. irroratum and R. delavayi. METHODS: Material of these taxa from two sites 400 km apart (ZhuJianYuan, ZJY and HuaDianBa, HDB) was examined using cpDNA and internal transcribed spacer (ITS) sequences, and amplified fragment length polymorphism (AFLP) loci, to test the possibility that R. agastum was in fact a hybrid between two of the other species. Chloroplast trnL-F and trnS-trnG sequences together distinguished R. irroratum, R. delavayi and some material of R. decorum, which is also considered a putative parent of R. agastum. KEY RESULTS: All 14 R. agastum plants from the HDB site had the delavayi cpDNA haplotype, whereas at the ZJY site 17 R. agastum plants had this haplotype and four had the R. irroratum haplotype. R. irroratum and R. delavayi are distinguished by five unequivocal point mutations in their ITS sequences; every R. agastum accession had an additive pattern (double peaks) at each of these sites. Data from AFLP loci were acquired for between ten and 21 plants of each taxon from each site, and were analysed using a Bayesian approach implemented by the program NewHybrids. The program confirmed the identity of all accessions of R. delavayi, and all R. irroratum except one, which was probably a backcross. All R. agastum from HDB and 19 of 21 from ZJY were classified as F1 hybrids; the other two could not be assigned a class. CONCLUSIONS: Rhododendron agastum represents populations of hybrids between R. irroratum and R. delavayi, which comprise mostly or only F1s, at the two sites examined. The sites differ in that at HDB there was no detected variation in cpDNA type or hybrid class, whereas at ZJY there was variation in both.


Asunto(s)
Hibridación Genética , Rhododendron/genética , Análisis del Polimorfismo de Longitud de Fragmentos Amplificados , China , Cloroplastos/genética , ADN Intergénico/química , ADN de Plantas/química , Haplotipos , Polimorfismo Genético , Rhododendron/anatomía & histología , Rhododendron/clasificación
13.
Genome ; 53(4): 277-84, 2010 Apr.
Artículo en Inglés | MEDLINE | ID: mdl-20616859

RESUMEN

Genomic in situ hybridization (GISH) has been proved to be the most effective and accurate technique for confirmation of hybrid character. The objective of our study was to adapt and optimize a GISH protocol for identification of donor chromatin in hybrids obtained by interspecific crosses between five Rhododendron taxa (R. aureum, R. brachycarpum, R. catawbiense 'Catharine van Tol', R. catawbiense 'Nova Zembla', and R. yakushimanum 'Koichiro Wada'). Positive results were obtained only when we used mitotic chromosome spreads prepared from anthers. The best differentiation of maternal and paternal chromosomes in hybrid genomes was obtained when 50 ng of probe was applied together with blocking DNA at a concentration of 3.0 microg/microL. The results demonstrate that GISH is a practical tool for detection of alien genomes and analysis of the constitution of the chromosomes in rhododendron hybrids.


Asunto(s)
Cromosomas de las Plantas/genética , Genoma de Planta , Hibridación in Situ/métodos , Rhododendron/genética , Sondas de ADN/genética , ADN de Plantas/genética , Hibridación Genética , Hibridación Fluorescente in Situ/métodos , Reproducibilidad de los Resultados , Rhododendron/clasificación , Especificidad de la Especie
14.
Guang Pu Xue Yu Guang Pu Fen Xi ; 30(4): 943-8, 2010 Apr.
Artículo en Zh | MEDLINE | ID: mdl-20545136

RESUMEN

Several techniques were used to identify and classify plants. Mid-infrared spectroscopy combined with appropriate software was used in an attempt to differentiate different subgenus from Rhododendron. Fourier transform infrared (FTIR) spectroscopy was used for obtaining vibrational spectra of 46 petals from Rhododendron. Very minor differences were observed in the FTIR spectra among four subgenuses. For the purpose of rapid differentiation, libraries of spectra were created using samples from each subgenus variety. Spectra of unknown samples were recorded and compared with those of the libraries and the rate of affinity (the match value) was measured automatically using the appropriate software (OMNIC). The results showed that petal samples from different subgenus varieties can be differentiated from each other. The study demonstrates that combining FTIR spectroscopy with appropriate analysis method can classify Rhododendron plants at subgenus level. It offers a potential method for the taxonomic research on plants system.


Asunto(s)
Rhododendron/clasificación , Espectroscopía Infrarroja por Transformada de Fourier , Flores , Programas Informáticos
15.
Biosci Rep ; 40(6)2020 06 26.
Artículo en Inglés | MEDLINE | ID: mdl-32495827

RESUMEN

Rhododendron micranthum is an evergreen shrub species widely distributed in China that has high ornamental and medicinal value. However, there is a lack of molecular and genomic data for this plant, which severely restricts the development of its relevant research. The objective of the present study was to conduct a first genomic survey of R. micranthum and determine its whole-genome sequencing scheme. Next-generation sequencing (Illumina Hi-Seq Xten) was used to measure the genome size of R. micranthum, K-mer analysis were employed to investigate its genomic profile. Finally, we conducted bioinformatics methods to performed SSR (simple sequence repeat) prediction based on the genomic data. The genome size of R. micranthum was estimated to be 554.22 Mb. The heterozygosity ratio was 0.93%, and the sequence repeat ratio was calculated to be 49.17%. The clean reads of R. micranthum were assembled into 2281551 scaffolds with a N50 value of 916 bp. A total of 479724 SSR molecular markers were identified in the R. micranthum genome, and 871656 pairs of primers designed for application. Among of them, 100 primer pairs were validated, and 71 primer pairs were successfully amplified. In summary, the R. micranthum genome is complex with high heterozygosity and low repeated sequences. In future whole-genome research in R. micranthum, higher-depth '2+3' (Illumina+PacBio) sequencing may yield better assembly results.


Asunto(s)
Genes de Plantas , Genoma de Planta , Repeticiones de Microsatélite , Rhododendron/genética , Secuenciación Completa del Genoma , Composición de Base , Marcadores Genéticos , Secuenciación de Nucleótidos de Alto Rendimiento , Hojas de la Planta , Rhododendron/clasificación
16.
Mol Phylogenet Evol ; 49(3): 832-42, 2008 Dec.
Artículo en Inglés | MEDLINE | ID: mdl-18845264

RESUMEN

Incomplete lineage sorting has been documented across a diverse set of taxa ranging from song birds to conifers. Such patterns are expected theoretically for species characterized by certain life history characteristics (e.g. long generation times) and those influenced by certain historical demographic events (e.g. recent divergences). A number of methods to estimate the underlying species phylogeny from a set of gene trees have been proposed and shown to be effective when incomplete lineage sorting has occurred. The further effects of gene flow on those methods, however, remain to be investigated. Here, we focus on the performance of three methods of species tree inference, ESP-COAL, minimizing deep coalescence (MDC), and concatenation, when incomplete lineage sorting and gene flow jointly confound the relationship between gene and species trees. Performance was investigated using Monte Carlo coalescent simulations under four models (n-island, stepping stone, parapatric, and allopatric) and three magnitudes of gene flow (N(e)m=0.01, 0.10, 1.00). Although results varied by the model and magnitude of gene flow, methods incorporating aspects of the coalescent process (ESP-COAL and MDC) performed well, with probabilities of identifying the correct species tree topology typically increasing to greater than 0.75 when five more loci are sampled. The only exceptions to that pattern included gene flow at moderate to high magnitudes under the n-island and stepping stone models. Concatenation performs poorly relative to the other methods. We extend these results to a discussion of the importance of species and population phylogenies to the fields of molecular systematics and phylogeography using an empirical example from Rhododendron.


Asunto(s)
Evolución Molecular , Flujo Génico , Modelos Genéticos , Filogenia , Simulación por Computador , Especiación Genética , Genética de Población , Geografía , Funciones de Verosimilitud , Modelos Estadísticos , Método de Montecarlo , Rhododendron/clasificación , Rhododendron/genética , Análisis de Secuencia de ADN
17.
Physiol Plant ; 132(1): 44-52, 2008 Jan.
Artículo en Inglés | MEDLINE | ID: mdl-18251869

RESUMEN

The early light-induced proteins (ELIPs) are nuclear-encoded, light stress-induced proteins located in thylakoid membranes and related to light-harvesting Chl a/b-binding proteins. Recent evidence from physiological and genetic (mutant) studies supports a photoprotective function for ELIPs, particularly when green tissues are exposed to high light intensities at suboptimal temperatures. Broad-leaved evergreens belonging to genus Rhododendron are often exposed to a combination of low temperatures and high light in their natural habitat as the understory plants in deciduous forests and, therefore, are expected to employ photoprotective strategies during overwintering phase. Here we report analysis and characterization of previously identified ELIP expressed sequence tags (ESTs) from winter-collected Rhododendron catawbiense leaves. 5' or 3' rapid amplification of complementary DNA ends (RACEs) coupled with bioinformatic analyses were used to identify seven unique ELIPs from the 40 ESTs and were designated as RcELIP1-RcELIP7. Phylogenetic analysis revealed separate clustering of ELIP homologs from lower plants, monocots and eudicots (including RcELIPs) and further indicated an evolutionary divergence of ELIPs among angiosperms and gymnosperms. To gain insights into the cold acclimation (CA) physiology of rhododendrons, relative and absolute quantitative expression of RcELIPs was examined during seasonal CA of R. catawbiense leaves using real time reverse transcriptase-polymerase chain reaction. All seven RcELIPs were distinctly upregulated during the CA. It is postulated that RcELIPs expression constitutes an adaptive response to cold and high light in winter-adapted rhododendron leaves and perhaps plays a key role in the protection of photosynthetic apparatus from these stresses.


Asunto(s)
Aclimatación , Regulación de la Expresión Génica de las Plantas , Luz , Proteínas de Plantas/genética , Proteínas de Plantas/efectos de la radiación , Rhododendron/fisiología , ADN de Plantas/genética , Etiquetas de Secuencia Expresada , Amplificación de Genes , Filogenia , Reacción en Cadena de la Polimerasa , Rhododendron/clasificación , Rhododendron/genética , Estaciones del Año
18.
Ecology ; 88(5): 1167-76, 2007 May.
Artículo en Inglés | MEDLINE | ID: mdl-17536403

RESUMEN

Since species loss is predicted to be nonrandom, it is important to understand the manner in which those species that we anticipate losing interact with other species to affect ecosystem function. We tested whether litter species diversity, measured as richness and composition, affects breakdown dynamics in a detritus-based stream. Using full-factorial analyses of single- and mixed-species leaf packs (15 possible combinations of four dominant litter species; red maple [Acer rubrum], tulip poplar [Liriodendron tulipifera], chestnut oak [Quercus prinus], and rhododendron [Rhododendron maximum]), we tested for single-species presence/absence (additive) or species interaction (nonadditive) effects on leaf pack breakdown rates, changes in litter chemistry, and microbial and macroinvertebrate biomass. Overall, we found significant nonadditive effects of litter species diversity on leaf pack breakdown rates, which were explained both by richness and composition. Leaf packs containing higher litter species richness had faster breakdown rates, and antagonistic effects of litter species composition were observed when any two or three of the four litter species were mixed. Less-consistent results were obtained with respect to changes in litter chemistry and microbial and macroinvertebrate biomass. Our results suggest that loss of litter species diversity will decrease species interactions involved in regulating ecosystem function. To that end, loss of species such as eastern hemlock (Tsuga canadensis) accompanied by predicted changes in riparian tree species composition in the southeastern United States could have nonadditive effects on litter breakdown at the landscape scale.


Asunto(s)
Biodiversidad , Biomasa , Ecosistema , Agua Dulce , Hojas de la Planta/metabolismo , Acer/clasificación , Acer/crecimiento & desarrollo , Biodegradación Ambiental , Cadena Alimentaria , Cicutas (Apiáceas)/crecimiento & desarrollo , Liriodendron/clasificación , Liriodendron/crecimiento & desarrollo , Dinámica Poblacional , Quercus/clasificación , Quercus/crecimiento & desarrollo , Rhododendron/clasificación , Rhododendron/crecimiento & desarrollo , Especificidad de la Especie
19.
Pak J Biol Sci ; 20(5): 253-259, 2017.
Artículo en Inglés | MEDLINE | ID: mdl-29023037

RESUMEN

BACKGROUND AND OBJECTIVE: There are 15 native Rhododendron species in Taiwan, among which 11 species are endemic and compose 73% of these native species. Although researchers predominantly use cuttings to propagate Rhododendron shrubs, there are no studies on the seed germination of Rhododendron species. The objective of this study was to evaluate the seed germination of four Rhododendron species in Taiwan under different light intensities and photoperiods. MATERIALS AND METHODS: Two experiments on the seed germination percentage of R. breviperulatum, R. kanehirai, R. ovatum and R. simsii were conducted in this study. The first experiment was to identify the seed germination percentage of these four Rhododendron species using different light intensities (0, 700, 1400 and 3200 lux). The second experiment was to clarify the seed germination percentage of these four Rhododendron species using different photoperiods (0, 1, 4 and 16 h). All statistical analyses were performed using Statistical Package for the Social Science (SPSS12.0) for Windows software program. The data were analyzed using Tukey's multiple range test at the p<0.05 significance level. RESULTS: After 30 days, no seed germination occurred in darkness. The highest average seed germination percentages were all observed at 700 lux: R. breviperulatum (83.3%), R. kanehirai (68.9%), R. ovatum (85.6%) and R. simsii (92.2%). The highest average germination percentages of seeds were observed in R. breviperulatum at 16 h (83.3%), R. kanehirai at 1 h (60.0%), R. ovatum at 16 h (84.4%) and R. simsii at 16 h (85.6%). According to the results, these four Rhododendron species required light for germination. There were significant differences (p<0.05) in the seed germination of these four Rhododendron species for light intensity greater than 700 lux. Similar results were observed with photoperiods. CONCLUSION: The seed germination percentage of R. breviperulatum, R. ovatum and R. simsii increased with increasing photoperiod.


Asunto(s)
Germinación/efectos de la radiación , Luz , Fotoperiodo , Dosis de Radiación , Rhododendron/efectos de la radiación , Semillas/efectos de la radiación , Rhododendron/clasificación , Rhododendron/embriología , Rhododendron/crecimiento & desarrollo , Semillas/embriología , Semillas/crecimiento & desarrollo , Taiwán , Factores de Tiempo , Técnicas de Cultivo de Tejidos
20.
Yao Xue Xue Bao ; 40(9): 854-60, 2005 Sep.
Artículo en Zh | MEDLINE | ID: mdl-16342692

RESUMEN

AIM: To analyze and compare the compositions in essential oils from branches and leaves of Rhododendron simsii Planch. and Rhododendron naamkwanense Merr. METHODS: Essential oils were extracted by water distillation according to Chinese Pharmacopoeia and analyzed by capillary gas chromatography-mass spectrometry as well as chemometrics resolution method and authentic compounds. The relative contents of each component in the essential oils were obtained by normalization of peak areas. RESULTS: A total of 124 components were identified, of which 48 compounds were existed in both of the samples. Ninety four compounds accounted for 84.47% of the essential oil from Rhododendron simsii Planch. and seventy eight components accounted for 90.25% of the total essential oil from Rhododendron naamkwanense Merr. were identified. 72.76% and 88.07% of the components in Rhododendron simsii Planch and Rhododendron naamkwanense Merr., respectively, included oxygen element. They are mainly terpenol, acids and esters. 1-octen-3-ol (4.00%, 7.90%), 1,6-octadien-3-ol, 3,7-dimethyl-(12.60%, 3.48%), 9,12,15-octadecatrienoic acid, [Z, Z, Z]- (1.15%, 45.34%), phytol (15.21%, 8.56%), p-menth-1-en-8-ol (2.15%, 3.29%), and 9,12,15-octadecatrienoic acid, ethyl ester, [Z,Z,Z]- (9.16%, 8.01%) were their common main compounds, which accounted for 44. 27% and 76.58% of the total amount of the two essential oil samples, respectively. In addition, n-hexadecanoic acid (7.73%), 9,12-octadecadienoic acid (1.85%) and tetracosanoic acid, methyl ester (1.38%) were also the main compounds in essential oil from Rhododendron simsii Planch. CONCLUSION: Much higher reliability and accuracy were obtained with the help of chemometrics resolution method and authentic n-alkane standard solutions than those of using GC-MS alone.


Asunto(s)
Aceites Volátiles/química , Aceites de Plantas/química , Plantas Medicinales/química , Rhododendron/química , Ácido Linoleico/análisis , Octanoles/análisis , Aceites Volátiles/aislamiento & purificación , Ácido Palmítico/análisis , Fitol/análisis , Hojas de la Planta/química , Aceites de Plantas/aislamiento & purificación , Tallos de la Planta/química , Plantas Medicinales/clasificación , Rhododendron/clasificación , Terpenos/análisis
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