Development of microsatellite markers in cultivated vanilla: Polymorphism and transferability to other vanilla species

The sources of natural vanilla are the cured fruits of two obligatorily hand-pollinated and clonally propagated orchids: ‘Bourbon/Mexican vanilla’ (Vanilla planifolia G. Jackson) and ‘Tahitian vanilla’ (Vanilla tahitensis J.W. Moore). In this paper we describe for the first time the isolation and characterization of 14 microsatellite loci from V. planifolia. These were monomorphic within cultivated accessions, as expected from the probable single clonal origin of this crop and previous genetic studies. These markers were transferable to V. tahitensis and 11 loci were polymorphic between these two closely related species. Furthermore, some of these markers were transferable and polymorphic across 15 other wild American, African and Asian species and revealed consistent relationships between species, together with a strong pattern of Old World versus New World differentiation in the genus. These microsatellites will be very useful for diversity, hybridization and phylogeographic studies in the genus Vanilla.     

African spider flower (Cleome gynandra L./Gynandropsis gynandra (L.) Briq.) as a red spider mite (Tetranychus urticae Koch) repellent in cut-flower rose (Rosa hybrida L.) cultivation

Companion planting of Cleome gynandra, of Kenyan origin, in beds of cut-flower roses reduces significantly red spider mite (Tetranychus urticae Koch) infestation without any detrimental effect on productivity or flower quality. The level of reduction is dependent upon the density of the C. gynandra plants with 15 plants in a 1.8 m² bed (8.3 plants m²) being the most effective, planted either around the bed perimeter or within the rows of roses. The relatively high density of C. gynandra plants required may limit the direct application of this technology in export-focused, greenhouse rose production yet may be of significant value as a supplement to other mite-control strategies. The potential benefits of such companion planting for growers of field roses and those involved in some domestic markets are also evident. Research into the nature and extraction of the active, volatile mite-repellant components of C. gynandra is indicated.     

Effect of plant growth temperature on membrane lipids in strawberry (Fragaria × ananassa Duch.)

Changes in membrane lipid composition are important in the acclimation of plants. The influence of four day/night growing temperature combinations (18/12, 25/12, 25/22, and 30/22 °C) on membrane lipids of ‘Earliglow’ and ‘Kent’ strawberry (Fragaria × ananassa Duch.) were studied. The monogalactosyl diglyceride (MGDG) and digalactosyl diglyceride (DGDG) were the major galactolipids in the strawberry leaves. ‘Earliglow’ contained a higher amount of galactolipids in the leaves than ‘Kent’. The major phospholipids in the strawberry leaves, roots, and fruit were phosphatidylcholine (PC), phosphatidylinositol (PI), phosphatidylglycerol (PG), and phosphatidylethanolamine (PE). PC and PE were the two predominant phospholipids in the strawberry. The leaves and fruit of ‘Earliglow’ contained higher amounts of phospholipids compared to those of ‘Kent’, whereas ‘Kent’ strawberry roots had higher phospholipids. Palmitic (C16:0), stearic (C18:0), oleic (C18:1), linoleic (C18:2), and α-linolenic (C18:3) acids were major fatty acids in galacto- and phospholipids of the ‘Earliglow’ and ‘Kent’ strawberry. PC is very rich in linolenic acid in leaves compared to the fruit and root tissues. PC had the highest ratio of unsaturated to saturated fatty acids among all phospholipids. There was a significant increase in the content of galactolipids (MGDG, DGDG) and phospholipids (PC, PI, PG and PE) and unsaturation of their fatty acids in the cool day/night growth temperature. Increasing day/night growth temperatures decreased MGDG/DGDG ratios. The shifts in saturation and composition of fatty acids observed with strawberry may be an adaptation response of plants to the temperature changes.     

Development of novel chloroplast microsatellite markers for Dendrobium officinale, and cross-amplification in other Dendrobium species (Orchidaceae)

Nine pairs of polymorphic chloroplast microsatellite primers were developed for Dendrobium officinale Kimura et Migo, an endangered herb. Levels of polymorphism were tested across a total of 55 individuals from four natural populations (12–15 individuals per population). Allele numbers varied from two to four per locus, while the number of haplotypes ranged from four to six per population. Transferability of the nine polymorphic chloroplast microsatellite primers was checked on an additional set of 51 Dendrobium individuals (belonging to 17 different species). Three markers could be transferable to all the species tested, while the remaining six markers successfully cross-amplified in most species tested. Moreover, polymorphism of the nine chloroplast microsatellite primers was tested across Dendrobium moniliforme (L.) Sw. and Dendrobium loddigesii Rolfe. All of them were polymorphic in D. moniliforme, while seven of which were polymorphic in D. loddigesii. These polymorphic chloroplast microsatellite primers developed for D. officinale will be a useful tool for the study of genetic diversity, population genetic structure, evolution of D. officinale and establishment of effective conservation strategies.     

Interaction of short day and timing of nitrogen fertilization on growth and flowering of ‘Korona’ strawberry (Fragaria × ananassa Duch.)

The effects of timing of nitrogen (N) fertilization relative to the beginning of a 4-week floral-inducing short-day (SD) period have been studied in ‘Korona’ strawberry plants under controlled environment conditions. Groups of low fertility plants were fertilized with 100 ml of calcium nitrate solution for 3 days a week for a period of 3 weeks starting at various times before and at the beginning of the SD period, as well as at different times during the SD period. All plants, including SD and long day (LD) control plants, received a weekly fertilization with a low concentration complete fertilizer solution throughout the experiment. Leaf area, fresh and dry matter increments of leaves, crowns and roots, as well as leaf chlorophyll concentration (SPAD values) were monitored during the experimental period. A general enhancement of growth took place at all times of N fertilization. This was paralleled by an increase in leaf chlorophyll concentration, indicating that the control plants were in a mild state of N deficiency. When N fertilization was started 2 weeks before beginning of the SD period, flowering was delayed by 7 days, and this was gradually changed to an advancement of 8 days when the same treatment was started 3 weeks after the first SD. The amount of flowering was generally increased by N fertilization although the effect varied greatly with the time of N application. The greatest flowering enhancement occurred when N fertilization started 1 week after the first SD when the number of flowering crowns and the number of inflorescences per plant were more than doubled compared with the SD control, while fertilization 2 weeks before SD had no significant effect on these parameters. Importantly, the total number of crowns per plant was not affected by N fertilization at any time, indicating that enhancement of flowering was not due to an increase in potential inflorescence sites. No flowering took place in the control plants in LD. Possible physiological mechanisms involved and practical applications of the findings are discussed.     

Application of treated wastewater for cultivation of roses (Rosa hybrida) in soil-less culture

No information is available today concerning the effect of irrigation with secondary treated sewage water on growth, production or quality of roses or other cut flowers. In the present study we investigated the effect of irrigation with treated sewage water on roses cultivated in two soil-less medium, perlite, an inert mineral medium and Choir (coconut fibers), an organic medium of high ion absorption capacity. During 12 months of exposure to the treated water, the visible appearance of the plants, their growth, the quantity and size of the flowering stems and their postharvest performance were not affected by the irrigation treatments. Contents of macroelements in the leaf tissues were unaffected by the irrigation with the secondary treated sewage water. At the same time, Cl contents increased 47% in perlite and 73% in Choir grown plants reaching levels characteristic of exposure to moderate salinity. Mn, Cu and B contents increased as well under cultivation in both perlite and Choir under irrigation with treated sewage water. On the other hand, contents of Fe, Zn, Mo and Al, were similar in all treatments. In all treatments contents of all the examined micro and macroelements were within the range accepted for proper plant function.     

Genetic diversity and population's structure in Tunisian strawberry tree (Arbutus unedo L.)

A growing interest in the use of the Strawberry tree (Arbutus unedo L., Ericaceae) has been recently reported for industrial, pharmaceutical and chemical fields. However, the bulk material comes from natural populations because of the lack of selection of interesting cultivars. In Tunisia, A. unedo populations are severely destroyed due to deforestation and over-collecting. The species occurs in small scattered populations decreasing progressively in size. Yet, no conservation or improvement programs are attempted to preserve and promote the potential value of this resource. In this work, we assessed the genetic diversity of nine Tunisian populations of A. unedo L. from different bioclimates, using 65 polymorphic RAPD loci. The analysis of the genetic variation within and among populations is primordial to elaborate conservation and improvement programs. A low genetic diversity within a population estimated by both Nei's (He) and Shannon's diversity (H′) indices (0.155 < He < 0.248; 0.229 < H′ < 0.364) was observed due to genetic drift and selfing. At the species level, the amount of the within population variation estimated by Shannon's index (H_POP/H_SP = 0.686) and the molecular variance (80.67%) was higher than that among populations. A moderate genetic differentiation among populations (Φ_ST = 0.193 and G_ST = 0.314) which could be attributed to the long seed distance dispersal was detected. The UPGMA dendrogram based on Φ_ST values showed three clusters each including populations without relationship to bioclimatic or geographical origin indicating that differentiation occurs at a local space scale. The in situ protection measures should be made appropriately according to a population within bioclimates. The ex situ conservation and the selection of genotypes should involve extensive collection of seeds or cuttings from the within populations rather than among them.     

Novel genomic and EST-derived SSR markers in Japanese chestnuts

A total of 366 novel simple sequence repeat (SSR) markers were developed in Japanese chestnut (Castanea crenata), comprising 220 genomic SSRs derived from enriched genomic libraries and 146 expressed sequence tag (EST)–SSRs obtained from large-scale EST sequencing analysis. Thirty accessions, comprising Japanese, Chinese (C. mollissima), European (Castanea sativa), and American chestnuts (Castanea dentata), were used for evaluation of SSR polymorphism and transferability across species. The EST–SSRs showed less polymorphism than the genomic SSRs and were more transferable. The mean observed heterozygosity (H_O) and the mean expected heterozygosity (H_E) of genomic SSRs in the Japanese chestnuts were 0.63 and 0.68, respectively; those of EST-SSRs were each 0.47. Although about 80% of the genomic SSRs were amplified in all 4 species, more than 95% of the EST–SSRs were transferable across all 4 species. The many novel SSRs developed in this study will be applicable for the construction of genetic linkage maps, QTL analysis of phenotypic traits, high-throughput genotyping of marker-assisted selection, and association genetics.     

Genetic diversity of bitter gourd (Momordica charantia L.) genotypes revealed by RAPD markers and agronomic traits

Bitter gourd or bitter melon (Momordica charantia L.) is considered as minor cucurbitaceous vegetable in spite of having considerable nutritional and medicinal properties. Although some reports on genetic diversity based on morphological characterization are available, no work has been conducted to estimate genetic diversity using molecular markers in this crop. In the present study, 38 genotypes of M. charantia including few commercially cultivars collected from different parts of India based on agro-ecological zones were analysed for diversity study both at morphological and molecular levels. Genomic DNA was extracted from young healthy leaves following the procedure of Doyle and Doyle [Doyle, J.J., Doyle, J.L., 1990. A rapid DNA isolation procedure from small quantity of fresh leaf material. Phytochem. Bull. 119, 11–15]. Pair-wise comparison of genotypes was calculated as per the procedure of Jaccard [Jaccard, P., 1908. Nouvelles recherches sur la distribution florale. Bull. Soc. Vaud. Sci. Nat. 44, 223–270]. Dendrogram was constructed using the unweighted pair group method with arithmetic averages (UPGMA) and the computation for multivariate analysis was done using the computer programme NTSYS-pc Version 2.0 [Rohlf, F.J., 1998. NTSYS-pc Numerical Taxonomy and Multivariate Analysis System, Version 2.01. Exeter Software, Setauket, NY, USA]. Diversity based on yield related traits and molecular analysis was not in consonance with ecological distribution. Among 116 random decamer primers screened 29 were polymorphic and informative enough to analyse these genotypes. A total of 208 markers generated of which 76 (36.50%) were polymorphic and the number of bands per primer was 7.17 out of them 2.62 were polymorphic. Pair-wise genetic distance (GD) based on molecular analysis ranged from 0.07 to 0.50 suggesting a wide genetic base for the genotypes. The clustering pattern based on yield related traits and molecular variation was different.     

Fruit nutrient content and lipoxygenase activity in relation to the production of malformed and button berries in strawberry (Fragaria × ananassa Duch.)

Fruit nutrient content and lipoxygenase (LOX) activity were determined in strawberry fruit to establish a relationship, if it exists, between nutrients, and LOX activity with the fruit malformation and nubbins or button berry disorders. Nearly 17% fruit were affected by malformation and 10% by nubbins in open-field-grown strawberries. ‘Etna’ produced higher proportion of malformed (22.7%) as well as button berries (16.9%) and ‘Sweet Charlie’ the lowest (8.9% and 3.3%, respectively). Dry matter content (%) was lower in malformed (5.2%) and button berries (3.23%) than normal berries (7.41%). The concentration of P and Mg did not differ significantly, but that of N and K was notably higher and of Ca and B was lower in malformed and button berries than normal berries. Consequently, the N/Ca and K/Ca ratios were higher in malformed and button berries. LOX activity was significantly higher in malformed as well as button berries than normal berries, with significant differences among cultivars. The correlations between N, K and malformed and button berries were positive and between Ca and B, and malformed and button berries were negative. Similarly, the correlation between LOX activity and malformed, and button berries were also positive, indicating that excess of N and K, and deficiency of Ca and B are related to the production of malformed and buttons or nubbins in strawberry.     

Genetic diversity in local Tunisian pears (Pyrus communis L.) studied with SSR markers

Few records are available about local Tunisian pear cultivars characterized by low chilling requirements and adaptation to dry conditions. In this work, seven SSRs derived from apple were successfully transferred to 25 local Tunisian pear genotypes and 6 common varieties of Pyrus communis cultivated in Europe. The 7 SSRs used amplified a total of 36 fragments. All the microsatellites except one seem to amplify more than one locus in some of the genotypes studied. Only 12 different fingerprinting patterns could be distinguished among the 25 Tunisian cultivars studied indicating a high number of synonymies. The mean expected and observed heterozygosities in the 25 Tunisian cultivars analyzed averaged 0.71 indicating a high level of genetic diversity among the local Tunisian pear germplasm. These markers will be useful to optimize the conservation of this highly threatened germplasm.     

The strawberry tree (Arbutus unedo L.) selection in Turkey

These days, the strawberry tree (Arbutus unedo L.), which is a comparatively under-utilized fruit tree species, has attracted attention because of many different possible commercial usages such as for processed and fresh fruit production and ornamental, the pharmaceutical and chemical industrial applications. They are disappearing from the natural flora for many reasons such as their being cut down for fire-wood and structuring on natural vegetation. A selection program was carried out with the aim of selecting strawberry tree genotypes of high quality from the native strawberry tree population grown in the Central Black Sea Region of Turkey. A total of 51 genotypes were evaluated in the program, in 2003 and 2004. The aims of the selection program were focused on fruit pomological characteristics such as fruit weight, total soluble solid, acidity, fruit taste, stoniness, juiciness, roughness and appearance. The data regarding pomological characteristics was evaluated by the Weighted Rankit method. The highest overall score for the characteristics tested was from genotype 57A01 followed by 57A15, 57GÇ08, 57A22 and 57A07, respectively. Their fruit weight was 11.08, 6.17, 6.30, 6.95 and 8.06 g, respectively. TSS contents and acidity of them varied from 21.4 to 30.0% and 0.80 to 1.59%, respectively. Phenological characteristics such as first bloom, fruit set and harvest date and some other fruit, flower and leaf characteristics of selected A. unedo genotypes were also determined. Vitamin C content of the samples varied from 97.83 to 280.00 mg/100 g. Finally, five superior strawberry tree genotypes were selected from the samples we studied for extensive cultivation and thus they were also saved from extinction.     

Genetic diversity and phylogenic relationships in date-palms (Phoenix dactylifera L.) as assessed by random amplified microsatellite polymorphism markers (RAMPOs)

Random amplified microsatellite polymorphisms (RAMPOs) were used to assess genetic diversity among 30 date-palm cultivars and 10 male trees. Using 18 primers combinations, 197 bands were scored and 186 were polymorphic suggesting the high level of polymorphism among studied cultivars. Moreover, taking into account the high percentage of polymorphic bands (ppb), the resolving power (R_p) together with the polymorphism information content (PIC) scored values, all the tested primer sets contribute strongly in the discrimination of date-palm genotypes. In addition, the topology of the derived UPGMA dendrogram exhibited cultivars’ clustering made independently both from the geographical origin and/or from the sex of trees. The present data support the Mesopotamian origin of the date-palm domestication. Thus we assume that the used method is efficient to assess genetic diversity within date-palm cultivars. Data are discussed in relation with the opportunity of the RAMPO method to provide additional molecular markers suitable in the improvement of the date-palms germplasm characterisation.     

Development of ITS sequence based SCAR markers for discrimination of Paphiopedilum armeniacum, Paphiopedilum micranthum, Paphiopedilum delenatii and their hybrids

Paphiopedilum armeniacum, Paphiopedilum micranthum and Paphiopedilum delenatii are endangered orchid species. These three Paphiopedilum species and their hybrids are difficult to distinguish morphologically. In this study, rDNA-ITS (internal transcribed spacer) sequences were used to design species-specific SCAR (sequence characterized amplified regions) markers to distinguish P. armeniacum, P. micranthum, P. delenatii and their respective hybrids. The developed markers efficiently amplified 600 bp DNA product for P. armeniacum and its hybrids (SCAR-600armF/Pap-ITS2R), 300 bp product for P. delenatii and its hybrids (SCAR-300delF/Pap-ITS2R) and 700 bp product for P. micranthum and its hybrids (SCAR-700micF/Pap-ITS2R). The effectiveness of designed species-specific markers was also confirmed by using multiplex polymerase chain reaction amplification with a combination of developed three SCAR markers.     

Cold storage of oil rose (Rosa damascena Mill.) flowers

Oil rose flowers were stored at 0 °C in four different packaging materials [plastic box + stretch film (PB + SF), Xtend^®, Smartbag^® and polyethylene (PE)] for 60 days. During storage, weight loss, O₂ and CO₂ concentrations in the packages, petal color and sensorial attributes were investigated besides essential oil content and composition. Storage duration and packages had significant (p < 0.01) effects on weight loss. At the end of storage, the lowest weight loss was in PE package (1.696%) whereas the highest weight loss was in Xtend^® (10.081%). The essential oil content was significantly (p < 0.01) affected by storage duration and packages. In addition, the essential oil contents obtained from all packages for a storage period of 10 days and the essential oil contents obtained from unstored (control) petals were included in the same group. At the end of storage, the essential oil contents decreased by 91.3, 57.7, 80.0 and 64.3% in PB + SF, Xtend^®, Smartbag^® and PE packages, respectively as compared to control. In addition, storage duration and package types significantly (p < 0.01) affected petal color, O₂ and CO₂ concentrations in the packages and sensorial scores. The concentration of citronellol, a main component of rose oil, increased in all packages during storage of 10 days in comparison to the control group while it varied in other storage durations and package types. However, nerol and geraniol were lower than the control group during storage while concentrations of nonadecane, heneicosane and eicosane were higher. In conclusion, loss of oil yield and quality, due to various reasons and particularly due to fermentation in oil rose from the harvest of petals to their distillation, can be minimized with storage of petals in all package types for up to 10 days.     

Utility of RAPD,ISSR, IRAP and REMAP markers for the genetic analysis of Citrus spp.

The application and informativeness of RAPD, ISSR, IRAP and REMAP markers to study the genetic diversity and relationship among the Citrus and its relative genotypes were investigated. High levels of polymorphism were observed for all four marker systems. The RAPD technique generated the highest number of polymorphic bands and average number of polymorphic band per assay unit. Average limit of the discriminating power was very close to its actual discriminating power of each marker. The highest and the lowest values of effective number of patterns were obtained from the marker REMAP (5.94) and RAPD (4.48), respectively. Correlation between the genetic similarities matrices were estimated from all four markers using the Mantel matrix correspondence test, and results showed significant correlations among the RAPD, ISSR, IRAP and REMAP similarity matrices. The highest correlations were found comparing RAPD and ISSR markers, whereas RAPD and REMAP (r = 0.143) markers were poorly correlated. To assess the usefulness of the overall information provided by these marker data for establishing phylogenetic relationships and Citrus germplasm classification, cluster analysis was performed. All four techniques, solely or in combination, discriminated the genotypes very efficiently and generated a high similarity in dendrogram topologies, although some differences were observed. The linkage analysis was conducted based on the segregation of 38 RAPD, 13 ISSR, 19 IRAP and 9 REMAP loci in 96 progeny of an intergeneric cross Citrus sinensis and Poncirus trifoliata. Among the 81 studied loci 65 loci distributed on five linkage groups. Comparing the result obtained with RAPD, ISSR, IRAP and REMAP markers in this study, IRAP and REMAP proved to be as a reliable molecular marker for fingerprinting, mapping and diversity study of Citrus and its relatives.     

Hybrid detection and characterization of Curcuma spp. using sequence characterized DNA markers

The tropical flower Curcuma alismatifolia of the family Zingiberaceae is widely valued as a cut flower and potted plant due to its range of vibrant colors and large long-lasting inflorescences. Much of this diversity has been cultivated through extensive hybridization of wild varieties since hybrids often exhibit dramatic phenotypic differences from the parents. This phenotypic diversity though has led to difficulties identifying and classifying the relatedness of Curcuma varieties particularly between hybrids. One Curcuma variety called ‘Patumma’ is of particular importance since it has strong stalks, large symmetric inflorescences, is moderately resistant to fungal blight, has a high yield, and has been used to produce numerous high quality hybrids. Since Patumma is one of the key Curcuma varieties from which many hybrid crosses and induced mutation varieties were developed, we chose it as a target to be characterized using a molecular marker. Starting with a set of 11 unique decamer primers, polymorphic bands ranging from 100 to 2500 base pairs were used to examine 20 Curcuma varieties from which banding patterns of interest were selected for conversion to the more reproducible and robust sequence characterized amplified region (SCAR) markers. In particular, one SCAR marker amplified a region 600 bp in length which was conserved in all Patumma varieties and hybrids and as an independent test did not amplify an additional series of 24 distinct Curcuma varieties. Since new varieties of Curcuma are often dissimilar from their progenitors, this genomic analysis allows a cost-effective morphologically independent characterization of Curcuma hybrids.     

Influences of day and night temperatures on flowering of Fragaria x ananassa Duch., cvs. Korona and Elsanta,at different photoperiods

The effects of photoperiod (12, 13, 14, 15 or 16 h), day temperature (12, 15, 18, 24 or 27 °C) and night temperature (6, 9 or 12 °C) and their interactions on flower and inflorescence emergence were investigated by exposing 4 week old runner plants of strawberry cvs. Korona and Elsanta during a period of 3 weeks. A daily photoperiod of 12 or 13 h resulted in the highest number of plants with emerged flowers. A photoperiod of 14 h or more strongly reduced this number, while no flowers emerged at a photoperiod of 16 h. Plants exposed to photoperiods of 12 or 13 h flowered earlier and had longer flower trusses. A day temperature of 18 °C and/or a night temperature of 12 °C were optimal for plants to emerge flowers and resulted in the shortest time to flowering. A night temperature of 6 °C strongly reduced the number of plants that emerged flowers, especially when combined with lower day temperatures. Photoperiod and temperature had no effect on the number of inflorescences, all flowering plants produced on average one inflorescence. The number of flowers on the inflorescence increased with decreasing day temperature and when photoperiod was raised from 12 to 15 h. In general, ‘Korona’ was more sensitive to photoperiod and temperature as ‘Elsanta’, and had a lower optimal day temperature for flower emergence. Results of this experiment may be used to produce high quality plant material or to define optimal conditions when combining flower induction and fruit production.     

Assessment of genetic diversity of Latvian and Swedish sweet cherry (Prunus avium L.) genetic resources collections by using SSR (microsatellite) markers

Three previously described highly polymorphic SSR (microsatellite) primer pairs were tested on 126 sweet cherry (Prunus avium L.) accessions to adapt a fast, reliable method for preliminary screening of sweet cherry germplasm collections and to compare two sweet cherry germplasm collections: at the Latvia State Institute of Fruit-Growing, Dobele (LIFG-Dobele) and at the Division of Horticultural Genetics and Plant Breeding at Balsgård, Department of Crop Sciences, Swedish University of Agricultural Sciences (SLU-Balsgård). The SSR loci were highly polymorphic with 4–10 different alleles and 5–18 genotypes. Heterozygosity values ranged from 0.431 to 0.809, gene diversity (PIC) values ranged from 0.400 to 0.753, and the discriminating power of each locus varied from 0.631 to 0.894. The combined discriminating power of all loci was highly effective (0.996). Sixteen identical accession groups with the same allele profile were discovered in both collections. This study demonstrated that SSR fingerprinting with the three primer pairs tested, can be used for preliminary characterization of sweet cherry germplasm collections.