Molecular Phylogeny and Genome Size in European Lilies (Genus Lilium, Liliaceae) (original) (raw)
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Journal of Medicinal Plants Research, 2010
Distribution of genetic variation between populations of Lilium albanicum and Lilium chalcedonicum was investigated using RAPD (random amplified polymorphic DNA) profiles. Plants for the analysis were collected from four different populations, containing 33 individuals. Eleven primers yielded 88 polymorphic bands. UPGMA clustering and principle coordinate analysis indicated a clear separation between the populations of the two species and all the analyzed individuals clustered in three groups, one comprising L. chalcedonicum and the other two groups encompassing three populations of L. albanicum. The analysis of molecular variance (AMOVA) indicated that 33% of the total variance is between species. The highest amount of genetic differentiation, 51% of the total variance, is found within the individual populations.
American Journal of Plant Sciences, 2014
To study the genetic diversity and structure of lily (Lilium L.), we collected 35 samples from Vytautas Magnus University Kaunas Botanical Garden, and analyzed their mutual Simple Sequence Repeat (ISSR) molecular markers. For genetic analysis of lily we chose the lily 6 markers. ISSR data revealed a relatively high level of genetic diversity at the different levels of the group, with 95% of polymorphic loci, effective number of alleles of 1.21, the average expected heterozygosis of 0.15 and Shannon's information index of 0.26. ANOVA analysis and UPGMA-dendrogram suggested a hierarchical structure between species.
Development of genomic resources for ornamental lilies (Lilium L.)
2012
Lily (Lilium L.) is a perennial bulbous ornamental, belonging to subclass Monocotyledonae and family Liliaceae. Lily, according to statistics of Dutch auctions, is the fifth most important cut flower and the second in flower bulbs based on acreage. This species has been extensively used for cytogenetic studies, but molecular genetic studies are limited. The heterogenic nature and the very complex and huge genome (36 Gb) of lily might be the reason for this. To improve the efficiency of breeding and selection in this species, and set up the basis for genetic studies in Lilium, genomic resources are needed. Next generation sequencing (NGS) technology (454 pyro-sequencing) was used to sequence the transcriptomes (RNA-seq) of four lily cultivars: ‘Connecticut King’, ‘White Fox’, ‘Star Gazer’, and Trumpet that belong to the four most important hybrid groups: Asiatic, Longiflorum, Oriental, and Trumpet respectively. Successfully, 52,172 unigenes with an average length of 555 bp were devel...
Taxonomy and Phylogeny of the Genus Lilium
Floriculture and Ornamental Biotechnology, 2012
Lilies have a long history as ornamental plants. Today, there is an ever increasing variety of new lily cultivars due to the significant progress in the propagation and development of new methods in breeding. The domesticated native species have retained their place along with new hybrids in commercialized horticultural industry, and they have sustained their invaluable potential for the breeding of new cultivars for garden use as well as for greenhouse culture. Systematics has always played an important role in plant breeding, giving guidelines for hybridization, although biotechnology has introduced new solutions for many problems that were evolutionary obstacles especially in inter-specific crossings before. The genus Lilium has been a subject of variable suggestions for classification systems, and the process still continues. The currently accepted concept for the phylogenetic and taxonomic system for all species is based on geographical, structural and genetic information. In our review, we give an insight into the latest progress in revealing the taxonomical relationships within the genus. According to the existing GenBank sequence data, we have constructed a phylogenetic tree consisting of the main species and sections of the genus. Provided with species photos, the tree gives a brief overview of phylogeny-and morphologybased classifications, which are not always congruent. In the tree mainly all species grouped into sections defined within the genus, but L. bulbiferum and L. dauricum grouped equally with the species in Sinomartagon and not with each other. Even though these two species share many morphological features, the phylogenetic tree questions the existence of the section Daurolirion and potentially gives a blueprint for classification in the future.
Does Lilium bosniacum merit species rank? A classical and molecular-cytogenetic analysis
Plant Systematics and Evolution, 2005
Four populations of the Balkan endemic taxon Lilium bosniacum from Bosnia and Herzegovina were investigated. Conventional karyological study did not reveal any important differences. Molecular-cytogenetic studies pointed out certain interpopulation and intrapopulation variability, and important differences in organization of ribosomal genes in regard to its closest relative L. carniolicum. The results of fluorochrome banding and FISH experiment for L. bosniacum were reported here for the first time. Differences occurred in the number and position of 18S-5.8S-26S ribosomal gene loci for some individuals from population Kladanj. Heterochromatic bands revealed with DAPI after FISH experiment were constant. All investigated populations possess the same number of active NORs except some individuals from Kladanj population. Genome size and GC-bases percentage, estimated by flow cytometry, did not show any significant difference among the populations. However, the present results reveal clear interspecific differentiation between two endemics, L. carniolicum and L. bosniacum.
Evaluating phylogenetic relationships in the Lilium family using the ITS marker
Journal of Plant Biotechnology
Lilium is a perennial bulbous plant belonging to the liriotypes genus. Our aim was to study the phylogenetic relationships of the Lilium family. Two varieties of Lilium ledebourii, 44 varieties of the gene bank, and one variety from the Tulipa family served as the out group. In order to study the diversity between lilium masses, ITS regions were used to design the marker. The results showed that the guanine base is the most abundant nucleotide. Relatively high conservation was observed in the ITS regions of the populations (0.653). Phylogenetic analysis showed that sargentiae and hybrid varieties are older than other varieties of the Lilium family. Also, the location of L. ledebourii varieties (Damash and Namin) was identified in a phylogenetic tree by using the ITS marker. Overall, our research showed that ITS molecular markers are very suitable for phylogenetic studies in the Lilium family.
PloS one, 2017
Chloroplast (cp) genomes of Lilium amabile, L. callosum, L. lancifolium, and L. philadelphicum were fully sequenced. Using these four novel cp genome sequences and five other previously sequenced cp genomes, features of the cp genomes were characterized in detail among species in the genus Lilium and other related genera in the order Liliales. The lengths and nucleotide composition showed little variation. No structural variation was found among the cp genomes in Liliales. Gene contents were conserved among four newly sequenced cp genome in Lilium species, the only differences being in two pseudogenes. We identified 112 genes in 13 functional categories, 18 of which carried introns that were conserved among the species in Liliales. There were 16-21 SSR loci (>12 bp, >3 repeats) in the cp genomes in Lilium and the genomic locations of these loci were highly variable among the species. Average mutations were 15 SNPs per 1kb and 5 indels per 1kb, respectively, in the cp genomes o...
Scientific Reports, 2020
Lily belongs to family liliaceae, which mainly propagates vegetatively. Therefore, sufficient number of polymorphic, informative, and functional molecular markers are essential for studying a wide range of genetic parameters in Lilium species. We attempted to develop, characterize and design SSR (simple sequence repeat) markers using online genetic resources for analyzing genetic diversity and population structure of Lilium species. We found di-nucleotide repeat motif were more frequent (4684) within 0.14 gb (giga bases) transcriptome than other repeats, of which was two times higher than tetra-repeat motifs. Frequency of di-(AG/CT), tri-(AGG/CTT), tetra-(AAAT), penta-(AGAGG), and hexa-(AGA GGG) repeats was 34.9%, 7.0%, 0.4%, 0.3%, and 0.2%, respectively. A total of 3607 non-redundant SSR primer pairs was designed based on the sequences of CDS, 5′-UTR and 3′-UTR region covering 34%, 14%, 23%, respectively. Among them, a sub set of primers (245 SSR) was validated using polymerase chain reaction (PCR) amplification, of which 167 primers gave expected PCR amplicon and 101 primers showed polymorphism. Each locus contained 2 to 12 alleles on average 0.82 PIC (polymorphic information content) value. A total of 87 lily accessions was subjected to genetic diversity analysis using polymorphic SSRs and found to separate into seven groups with 0.73 to 0.79 heterozygosity. Our data on large scale SSR based genetic diversity and population structure analysis may help to accelerate the breeding programs of lily through utilizing different genomes, understanding genetics and characterizing germplasm with efficient manner. Lily (Lilium sp.) is an economically important flowering monocots in the genus Lilium and family Liliaceae. Lilium sp. are originated in Asia, Europe, and North America 1. The Netherlands are the leading lily producer and exporter in the world 2 , lily also commercially cultivated in France, Chile, USA, Japan, and New Zealand. The Lilium genus consists of 100 species and more than 9000 cultivars (International Lily register, https ://www. lilyr egist er.com/). Based on 13 morphological characters the Lilium species are taxonomically classified into seven sections; Martagon, Pseudolirium, Lilium (Liriotypus), Archelirion, Sinomartagon, Leucolirion, and Oxypetalum 3,4. All cultivars from these sections were further categorized into three main groups: Longiflorum (L), Asiatic (A), and Oriental (O) hybrids 5. Longiflorum hybrids derived from intra-or inter-specific hybridization between L. formosanum and Leucolirion section 6 , whereas Asiatic hybrids originated from interspecies crosses among 12 species of the Sinomartagon section 7 and Oriental hybrids derived from hybridization among
Plant Systematics and Evolution, 2007
The Lilium carniolicum group consists of several taxonomically dubious taxa endemic to the European flora. Internal transcribed spacer (ITS) sequences of nuclear ribosomal DNA (nrDNA) were used to clarify both the delineation of, and relationships among, taxa in the group as well as to provide insight on the phylogenetic position of the group within the genus. Maximum parsimony, maximum likelihood and Bayesian analyses were in general agreement, with all taxa in the group being very closely related, and the entire group being monophyletic. L. pyrenaicum and L. pomponium are placed at the basal position in the group, while L. chalcedonicum is shown to be more closely related to L. carniolicum than previously thought. Our analyses suggested that L. albanicum and L. jankae are distinct from L. carniolicum, while no evidence was found to support the same separation for L. bosniacum.