DNA fingerprint variation in some blackberry species (Rubus subg.Rubus,Rosaceae)

We have analysed samples from Sweden, Denmark, and Germany of six facultatively apomictic blackberry species to investigate the accordance between a taxonomy based on morphological characters on the one hand, and distribution of genetic variation estimated by DNA fingerprinting on the other hand. DNA fingerprint variation was found to be quite restricted in all species investigated. The first taxonomic group included three species related toRubus nessensis, two being characterized by one very widespread DNA fingerprint in all three countries and a few rare ones, whereas the third species differed between Sweden and Germany. The second taxonomic group included species related toR. gracilis. Two of these species exhibited very similar DNA fingerprints, whereas the third species deviated clearly. The utilization of DNA fingerprinting as a tool in taxonomy is discussed; most likely this method could become a useful complement to morphology, especially in plant groups with reduced levels of genetic recombination.     

Phylogeny of Rubus (rosaceae) based on nuclear ribosomal DNA internal transcribed spacer region sequences

We used nuclear ribosomal DNA internal transcribed spacer region (ITS 1 - 5.8S - ITS 2; ITS) sequences to generate the first phylogeny of Rubus based on a large, molecular data set. We sampled 57 taxa including 20 species of subgenus Rubus (blackberries), one to seven species from each of the remaining 11 subgenera, and the monotypic and closely related Dalibarda. In Rubus, ITS sequences are most informative among subgenera, and variability is low between closely related species. Parsimony analysis indicates that Rubus plus Dalibarda form a strongly supported clade, and D. repens may nest within Rubus. Of the subgenera with more than one species sampled, only subgenus Orobatus appears monophyletic. Three large clades are strongly supported: one contains all sampled species of nine of the 12 subgenera; another includes extreme Southern Hemisphere species of subgenera Comaropsis, Dalibarda, and Lampobatus; and a third clade consists of subgenus Rubus plus R. alpinus of subgenus Lampobatus. Rubus ursinus appears to be a hybrid between a close relative of R. macraei (subgenus Idaeobatus, raspberries) and an unidentified subgenus Rubus species. ITS sequences are generally consistent with biogeography and ploidy, but traditionally important morphological characters, such as stem armature and leaf type, appear to have limited phylogenetic value in Rubus.     

DNA fingerprinting reveals significant amounts of genetic variation in a wild raspberry Rubus idaeus population

Establishing the genotypic distribution in natural plant populations is an important part of ecological studies concerning plant growth, reproduction and turn-over. Restriction enzyme-digested DNA samples, isolated from 24 plants of a natural Rubus idaeus population, were analysed with DNA fingerprinting using the M13 repeat sequence as well as a synthetic (AC)/(TG) polydinucleotide as hybridization probes. All the examined samples exhibit unique DNA fingerprint patterns, suggesting that vegetative reproduction may be considerably more restricted in wild R. idaeus populations than previously assumed. By comparison, all samples of the apomictic blackberry species Rubus nessensis, collected on the same location, were completely identical.     

DNA “FINGERPRINTS” REVEAL GENOTYPIC DISTRIBUTIONS IN NATURAL POPULATIONS OF BLACKBERRIES AND RASPBERRIES (RUBUS,ROSACEAE)

The genotypic distributions in a population of Rubus occidentalis L. and R. pensilvanicus Poiret were analyzed by using DNA “fingerprinting.” The number of genotypes found was related to the mode of reproduction; 20 plants of the sexual R. occidentalis comprised 15 genotypes, whereas 20 plants of the presumably apomictic R. pensilvanicus comprised only five genotypes. DNA “fingerprinting” appears to be a useful tool in the understanding of population structure.     

Biometry and DNA fingerprinting detect limited genetic differentiation among populations of the apomictic blackberry Rubus nessensis (Rosaceae)

Clonal plant species have in many recent studies exhibited unexpectedly high levels of genetic differentiation. This seems to hold true also for several apomictic (agamospermous) species in spite of their potential ability to spread single genotypes over large areas through seed dispersal. By contrast, previous DNA fingerprint studies have demonstrated apomictic Rubus species to be extremely homogeneous. The present study was undertaken to estimate the extent and distribution of intraspecific genetic variation in R. nessensis . Populations differed significantly for many biometrical characters but this variation was evenly distributed, with few significant differences between single pairs of populations. Patterns indicating ecoclinal variation, which could be adaptive in origin, were not found. Populations also clustered close together in a two-dimensional CVA plot, with only one population being somewhat further removed. DNA analysis of later collected material from this population as well as from three others yielded identical DNA fingerprints with each of two different multi-locus DNA probes. Taken together with previous DNA fingerprint studies, these results indicate that a major part of the R. nessensis plants in Northern Europe have been derived from a single recombinational event, possibly making this genet the most widespread land-living organism in the world. The encountered variation in biometrical characters is probably instead caused by e.g. minor somatic mutations. Rubus species have relatively large, bird-dispersed seeds that probably travel further than the small, wind-dispersed seeds found in most previously investigated apomicts (e.g. in Asteraceae). The potential for single genotypes to disperse over large areas should therefore be greater in Rubus than in many other apomictic species groups.     

Molecular characterization of the Andean blackberry, Rubus glaucus, using SSR markers

The species Rubus glaucus, also known as the Andean or "Castilla" blackberry, is one of nine edible species of this genus that grow naturally in Central and South America. In Colombia, this species is the most important of all Rubus species for agricultural and commercial purposes. We used 20 SSRs developed for other Rubus species to characterize 44 Colombian R. glaucus genotypes, collected from eight different departments, and to look for molecular differences between thornless and thorny cultivated blackberries. Eighty-two bands were obtained from 28 loci. The genotypes were classified into eight populations, corresponding to collection sites. The mean number of polymorphic alleles per locus in all populations and genotypes ranged from 1.857 to 2.393. Samples collected from Valle del Cauca, Quindío, Caldas, and Risaralda departments had the highest heterozygosity values. The finding of exclusive bands from R. glaucus genotypes from Valle del Cauca, Quindío, and Caldas demonstrates genetic and molecular differentiation between thorny and thornless Andean blackberries.     

悬钩子属植物的RAPD分析

用RAPD标记技术对13个黑莓（blackberry）、树莓（raspberry）品种和5个野生悬钩子种类（Rubus spp．）的26个居群的遗传多样性进行了分析。用15个寡聚核苷酸随机引物共扩增出条带131条,其中多态性条带118条,占扩增条带总数的90％,表明悬钩子属植物种间和品种间存在丰富的遗传多样性。通过聚类分析可将供试的26个居群分为4组,其中A组有粗叶悬钩子（R．alceaefolius Poir．）、山莓（R．corchorifolius L．）、插田泡（R．coreanus Miq．）、掌叶覆盆子（R．chingii Hu）、‘威廉姆特’、‘托拉咪’、‘泰勒’、‘金克维’、‘布里斯托’、‘宝森’7号、‘布莱兹’及其实生苗、‘基奥瓦’、‘萨尼’、‘黑布特’等15个居群;B组包括‘宝森’1号～‘宝森’6号和‘马林’、‘乔克多’等8个居群;C组包括‘赫尔’和‘切斯特’的2个居群;D组仅有蓬藁（R．hirsutus Thunb．）1种。这一聚类结果与传统形态学分类结果基本吻合。     

Ambiguous species boundaries: Hybridization and morphological variation in two closely related Rubus species along altitudinal gradients

Although hybridization frequently occurs among plant species, hybrid zones of divergent lineages formed at species boundaries are less common and may not be apparent in later generations of hybrids with more parental‐like phenotypes, as a consequence of backcrossing. To determine the effects of dispersal and selection on species boundaries, we compared clines in leaf traits and molecular hybrid index along two hybrid zones on Yakushima Island, Japan, in which a temperate (Rubus palmatus) and subtropical (Rubus grayanus) species of wild raspberry are found. Leaf sinus depth in the two hybrid zones had narrower clines at 600 m a.s.l. than the molecular hybrid index and common garden tests confirmed that some leaf traits, including leaf sinus depth that is a major trait used in species identification, are genetically divergent between these closely related species. The sharp transition in leaf phenotypic traits compared to molecular markers indicated divergent selection pressure on the hybrid zone structure. We suggest that species boundaries based on neutral molecular data may differ from those based on observed morphological traits.     

Batological notes on Flora Nordica

Rubus wahlbergii ssp. norvegicus is described as a new taxon which occurs in south Norway and less common in adjoining Sweden. Six names of Rubus species are lectotypified. — Flora Nordica Notes No. 20.     

Redberry mite, Acalitus essigi (Hassan) (Acari: Eriophyidae), an additional biological control agent for Rubus species (blackberry) (Rosaceae) in Australia

Abstract  Acalitus essigi , the eriophyoid mite that causes red berry disease in Rubus species (Rosaceae), was collected from the fruits of three species of weedy blackberry, R. anglocandicans , R. laudatus and R. ulmifolius , in south-west Australia. This is the first record for this species in Western Australia and these plants appear to be new host records for A. essigi , which causes uneven ripening of fruit. Information on the mite is reviewed in the context of determining its potential as a biological control agent for Rubus species, especially those that are not susceptible to Phragmidium violaceum (Uredinales), the rust fungus being released against species of European blackberry in Australia. Published records also show that A. essigi will attack a wide range of Rubus species including species of North American origin that currently escape biological control in Australia. It may also be useful for preventing the spread of commercial varieties of Rubus (e.g. raspberry and loganberry) that have escaped to become weedy. However, the mite may have limited dispersal ability and thus require redistribution.     

DNA fingerprinting—A useful tool in the taxonomy of apomictic plant groups

DNA fingerprinting has proved useful for the analysis of genotypic distribution and estimation of genetic relatedness in apomictic plant groups likeRubus, Amelanchier, Hieracium andTaraxacum. Speciation through interspectific hybridization has been demonstrated in one case involving apomicticRubus species. The application of molecular markers to progeny derived from experimental cross-pollinations has yielded information on levels of apomixis as well as on its inheritance and regulation in e.g.Rubus, Poa, Pennisetum andTripsacum.     

Taxonomy and distribution of the genus Rubus (Rosaceae) series Radula on the Iberian Peninsula

Monasterio-Huelin. E. 1995. Taxonomv and distribution of the genus Rubus (Rosaceae) series Radulu on the Iberian Peninsula. — Nord. J. Bot. 15: 365–373. Copenhagen. ISSN 0107–055X.
The majority of european batologists currently interpret the ser. Radula in a sense different from that given by its original author. According to the modem concept, this series is separated into two, distinguished by the leaflets felted beneath (ser. Radula ) versus not felted (ser. Pallidi ). Following this criterion, we include 7 species in ser. Radula , one of which ( R. pauanus ) is described as new, and provide a photograph of the holotype, an analysis of pollen, and a distribution map. Also provided are keys to the series of the subgenus Rubus and to the species of the ser. Radula , and a comparative study from a morphological and biogeographical perspective of all species which comprise this series on the Iberian Peninsula.     

用RAPD和AFLP的方法对中国卤虫(Artemia)种及亲缘关系的研究

利用ＲＡＰＤ（随机扩增多态ＤＮＡ）和ＡＦＬＰ（扩增片段长度多态性）技术对不同种及种群卤虫的关系进行分析。 １０１个随机引物对４种卤虫Ａｆｒａｎｃｉｓｃａｎａ、Ａ ｕｒｍｉａｎａ、Ａ ｓｉｎｉｃａ和Ａ．ｐａｒｔｈｅｎｏｇｅｎｅｌｉｃａ基因组ＤＮＡ进行扩增,平均每个种获得７５１条带,其中４５８条带为多态性标记,每个引物提供平均７４个标记信息,聚类结果表明Ａ．ｓｉｎｉｃａ是不同于其他旧大陆两性生殖卤虫的一个独立的种。对来自 １５个种及品系的卤虫的 ＡＦＬＰ分析显示了非常好的遗传多态性,采用 １２对引物检测到 ５９４条带,其中 ４８０个为多态性标记。聚类结果表明来自西藏的两性生殖卤虫为不同于中国内陆两性生殖卤虫的新种。而孤雌生殖卤虫在进化过程中可能是多源的,中国内陆和沿海的孤雌生殖卤虫是沿着不同的途径进化的,内陆和沿海的孤雌生殖卤虫可能为不同的种。     

Hybridization between the locally endangered Rosa spinosissima and Rosa mollis results in the pentaploid Rosa ×sabinii in western Norway

Rosa spinosissima is an endangered species in Norway, found only within a limited area on the southwestern coast. Presumed hybrid forms between R. spinosissima and rose species within R. sect. Caninae have been recorded from this area since the late 19th century. Here, analyses of such hybrid plants and selected populations of the tentative parent species were performed using AFLP markers, nuclear DNA content, pollen viability and seed germination rates, in addition to classic morphometric analysis. It is established that the hybrid rose represents a single hybrid taxon, viz Rosa × sabinii, formed by recurrent asymmetrical hybridization events between R. spinosissima and R. mollis, with the latter being the obligate ovule donor. The evidence presented does not indicate hybridization with other co‐occurring rose species, or of introgression from R. mollis into R. spinosissima through backcrossing with R. ×sabinii.     

5-bromodeoxyuridine labeling of monomeric and catenated circular mitochondrial DNA in HeLa cells

Bromouracil labeling of the mitochondrial DNA in exponentially growing HeLa cells produces two hybrid mitochondrial DNA species, with density shifts of 41.9 and 54.0 mg/ml relative to unlabeled mitochondrial DNA, as well as heavy mitochondrial DNA, with a shift of 95.3 mg/ml. The two hybrid species result from the difference in thymine composition of the complementary strands of mitochondrial DNA. In addition, mitochondrial DNA with a density intermediate between the hybrid and unlabeled species was found. This quarter heavy mitochondrial DNA represents 25% (w/w) of the total DNA after eight hours of labeling, and forms two peaks with shifts of 20.6 and 27.0 mg/ml relative to unlabeled mitochondrial DNA. 70% (w/w) of the quarter heavy mitochondrial DNA is in catenated forms, while 30% (w/w) is monomeric. Degradation of the catenanes by shearing of purified quarter heavy mitochondrial DNA results in the appearance of hybrid and unlabeled mitochondrial DNA bands, demonstrating that the quarter heavy catenanes contain both hybrid and unlabeled submolecules. The implications of the structure of the quarter heavy catenanes on the mechanism of formation of catenanes are discussed.     

Genetic variability among root voles (Microtus oeconomus) from different geographic regions: populations can be distinguished by DNA fingerprinting

Genetic variability among root voles (Microtus oeconomus [Pallas, 1776]) originating from two distantly separate regions of Norway (Valdres and Finnmark) was studied by DNA fingerprinting using the probes 33.15, 33.6 and M13. All three probes revealed polymorphic, although relatively simple, patterns. DNA fingerprint banding patterns were clearly diagnostic of the animals' region of origin. Notably, Valdres animals display a high molecular-weight cluster of bands not found in Finnmark, reflective of the isolation, and possibly an indication of separate colonization events, of the two groups. On the local level in Finnmark, bands associating with a specific trap site were observed in trappings on consecutive years. Comparisons of Finnmark animals taken at three trap sites at approximately 10 km intervals show a gradient of genetic similarity. Captive bred siblings were also compared, yielding average values significantly higher than those seen from same-site comparisons. We suggest that the sensitivity provided by DNA fingerprinting with multi-locus minisatellite probes is appropriate for population genetic studies in M. oeconomus. Also, because band-sharing correlates to spacing in M. oeconomus, we propose that DNA fingerprinting may be used to study dispersal, recruitment and other population processes in this and possibly other rodent species.     

DNA fingerprinting: a tool for determining genetic distances between strains of poultry

Summary DNA fingerprinting, a technique based on the detection of hypervariable minisatellite regions in DNA restriction fragments, was tested for its applicability to conduct population genetics in poultry. Using MspI digestion and phage M13 DNA as a probe, between 25 and 35 minisatellite-containing DNA fragments were observed per bird. Comparison of the banding pattern of offspring with their parents revealed that the bands were inherited as stable genetic traits. The variability of the DNA fingerprinting pattern was reduced in inbred strains. DNA fingerprints of chickens from five well-defined populations of known genetic relationships were analyzed and indices of genetic distances were computed. They correctly reflected the history of these strains, indicating that DNA fingerprinting may be a powerful tool to characterize genetic relationships between different breeding populations of the same species.     

Rapd fingerprinting of diploid Lolium perenne × hexaploid Festuca arundinacea hybrid genomes

We tested the application of RAPD technology for identification of hybrid genomes originated from a maternal clone of Lolium perenne L. (2n = 2x = 14) bearing cytoplasmic male sterility, which was pollinated separately by five clones of Festuca arundinacea Schreb. cv. Barocco (2n = 6x = 42). Six classes of RAPD markers were recognized, specific to: 1) Festuca genome and inherited into F1 hybrid genomes, 2) Lolium genome inherited into F1 hybrid genomes, 3) Lolium-specific bands not found in F1 progeny, 4) Festuca-specific bands not found in F1 progeny, 5) new bands found only in F1 hybrid profiles, 6) bands common to all parental and F1 hybrid genotypes. RAPD data were shown to have full potential a) to serve as an unequivocal proof of genome recombination in perennial ryegrass × tall fescue hybrids, b) to identify hybrid genomes, c) to reveal phenetic relationships of the accessions from crossing families, d) to enhance, by fingerprinting, the selection of superior hybrid material for further breeding. RAPD data were found to be consistent with the festucoid phenotype of F1 hybrids. This revised version was published online in July 2006 with corrections to the Cover Date.     

Hybrid rice (Oryza sativa L.): identification and parentage determination by RAPD fingerprinting

Summary DNA from three families of rice plants selected in Northern China (each comprising the male sterile, the restorer, the hybrid F1 and the maintainer lines) has been extracted and amplified by PCR with different random DNA primers (RAPD analysis). Then, DNA has been analysed by agarose gel electrophoresis and DNA bands scored as present or absent. The generated matrices are reproducible and amenable for identification of each single plant line. Thus, RAPD fingerprinting of the inbred parental lines and of the resulting hybrid is proposed as a convenient tool for the identification, protection and parentage determination of plant hybrids. Furthermore, by offering a molecular tool to verify the degree of dissimilarity between the parental lines, the RAPD analysis may also be used to search for new parental combinations.     

The Cryptocoryne (Araceae) of Borneo

Fourteen species of Cryptocoryne are recognized from Borneo: C. ciliata found throughout tropical Asia, C. longicauda also found in Johore; C. zonata, C. grabowskii , and C. edithiae show distinct affinities to the C. cordata group from the Malay peninsula; the remaining species, endemic to Borneo, do not show any special, close relationship with species from other areas. The synonomy, distribution, chromosome numbers, and ecology are treated.