Molecular taxonomy of Hyrcanian Alnus using nuclear ribosomal ITS and chloroplast trnH-psbA DNA barcode markers

The taxonomy and phylogeny of Hyrcanian Alnus (eight taxa) were investigated using sequence data from the nuclear ribosomal ITS and the chloroplast trnH-psbA intergenic spacer. The mean nucleotide compositions of the ITS region were completely equal for two main Hyrcanian taxa, and the ITS1 region had fewer variable sites than the ITS2 region. Two relatively distinct types of ITS2 were identified for two main clades of Hyrcanian Alnus, the A. subcoradata complex and A. glutinosa. Two recently described species, A. dolichocarpa and A. djavanshirii, did not show any diagnostic sites and had a similar pattern with A. subcordata. Three recognized subspecies of A. glutinosa were distributed in the A. incana complex. In the analysis of trnH-psbA sequence data, the three subgenera of Alnus were poorly resolved relative to one another. Alnus glutinosa had minimal sequence divergence from A. incana and A. tenuifolia, and A. subcordata had a minimum distance from A. cordata and A. orientalis. A maximum pairwise distance also was observed between Hyrcanian species (A. glutinosa and A. subcordata) with A. pendula and A. sieboldiana, respectively. Ultimately, the molecular phylogeny of Alnus based on two DNA barcode markers was not congruent with recent morphological classifications, so additional DNA markers should be explored for identifying Alder taxa in the Hyrcanian forest.     

Frankia Populations in Soil and Root Nodules of Sympatrically Grown Alnus Taxa

The genetic diversity of Frankia populations in soil and in root nodules of sympatrically grown Alnus taxa was evaluated by rep-polymerase chain reaction (PCR) and nifH gene sequence analyses. Rep-PCR analyses of uncultured Frankia populations in root nodules of 12 Alnus taxa (n?=?10 nodules each) growing sympatrically in the Morton Arboretum near Chicago revealed identical patterns for nodules from each Alnus taxon, including replicate trees of the same host taxon, and low diversity overall with only three profiles retrieved. One profile was retrieved from all nodules of nine taxa (Alnus incana subsp. incana, Alnus japonica, Alnus glutinosa, Alnus incana subsp. tenuifolia, Alnus incana subsp. rugosa, Alnus rhombifolia, Alnus mandshurica, Alnus maritima, and Alnus serrulata), the second was found in all nodules of two plant taxa (A. incana subsp. hirsuta and A. glutinosa var. pyramidalis), and the third was unique for all Frankia populations in nodules of A. incana subsp. rugosa var. americana. Comparative sequence analyses of nifH gene fragments in nodules representing these three profiles assigned these frankiae to different subgroups within the Alnus host infection group. None of these sequences, however, represented frankiae detectable in soil as determined by sequence analysis of 73 clones from a Frankia-specific nifH gene clone library. Additional analyses of nodule populations from selected alders growing on different soils demonstrated the presence of different Frankia populations in nodules for each soil, with populations showing identical sequences in nodules from the same soil, but differences between plant taxa. These results suggest that soil environmental conditions and host plant genotype both have a role in the selection of Frankia strains by a host plant for root nodule formation, and that this selection is not merely a function of the abundance of a Frankia strain in soil.     

Characterization of Alder Phytophthora Isolates from Wallonia and Development of SCAR Primers for their Specific Detection

Isolates of alder Phytophthora were collected in the southern part of Belgium on riverbanks planted with Alnus glutinosa and A. incana. They were compared with strains isolated in other European countries in terms of maximum temperature for growth, oogonia shape, pathogenicity on Alnus seedlings and genetic traits. Using both molecular techniques [random amplified polymorphic DNA (RAPD) and random amplified microsatellite (RAMS)], two groups of isolates were identified, the first group being further divided into two subgroups, Ia and Ib, using RAPD. Most of the Walloon alder Phytophthora isolates as well as the standard type from UK (formally designated P. alni subsp. alni) fell into group Ia. One isolate was classified in group Ib with the German and Dutch variants (P. alni subsp. multiformis), while three isolates were placed with the Swedish variant (P. alni subsp. uniformis) in group II. In terms of morphological properties, isolates from groups Ia and Ib developed colonies with a felt‐like appearance and usually produced numerous oogonia, varying from wavy to warty after 1 week (group Ia) or 2–3 weeks (Ib) in darkness. In contrast, colonies from group II isolates were generally irregular, and smooth oogonia were produced in low quantities after approximately 1 month in culture. A polymerase chain reaction (PCR) using sequence‐characterized amplification region (SCAR) primers derived from a polymorphic amplification product generated with a RAPD primer was developed for the specific detection of alder Phytophthora. The specificity and sensitivity of this test are discussed here.     

Not one but three: undetected invasive <Emphasis Type="Italic">Alnus</Emphasis> species in northwestern Patagonia confirmed with cpDNA and ITS sequences

Species of Alnus (alders) have become invaders in several parts of the world. Here we report the presence of three naturalized alien species: A. glutinosa, A. incana and A. rubra from several populations in nature reserves of northwestern Patagonia, an area of remarkably high biodiversity. Alnus glutinosa had been cited previously for Chile and southern Argentina, but A. incana and A. rubra are here reported for the first time. As we found morphological variation within and among the populations of these introduced species that makes their discrimination difficult, we used chloroplast (trnH-psbA) and nuclear ribosomal (ITS) DNA sequences to confirm their identifications from morphological characteristics. Results from nuclear and chloroplast sequence data confirm the morphological tentative identification of the three species and remark the utility of molecular information together with morphology for the detection of introduced species of taxonomically difficult groups. The invasive characteristics of these alien tree species are discussed in relation to the conservation of the nature reserves where they are found.     

Identification of Frankia strains in nodules by hybridization of polymerase chain reaction products with strain-specific oligonucleotide probes

A set of oligonucleotides has been developed to study the competitivity of two Frankia strains in the nodulation of the roots of two host plant species: Alnus glutinosa and Alnus incana. Two 20 mer-oligonucleotides, complementary to highly conserved sequences inside the nifH gene, were used as primers for the polymerase chain reaction (PCR) system in order to amplify microsymbiont DNA extracted from actinorhizae. PCR products were analyzed using two strain-specific 15-mer oligonucleotides identified in the amplified region. Hybridization data indicate that strain ACoN24d is more competitive than train ArI3 in the nodulation of both hosts.     

Cross-amplification and multiplexing of SSR markers for Alnus glutinosa and A. incana

We investigated 39 previously developed Betula, Alnus, and Corylus simple sequence repeat (SSR) markers for their utility in the cross-generic amplification of two European alder species, i.e., Alnus glutinosa and A. incana. Of these markers, ten loci had successful amplification within Alnus species. Finally, we designed two multiplexes composed of eight and nine loci for A. glutinosa and A. incana, respectively. Multiplexes were tested on 100 samples from five different populations of each species across Europe. The majority of loci had a relatively high genetic diversity, were in Hardy–Weinberg equilibrium, and showed low error rates and low occurrence of null alleles. By comparing sequences of source species and both Alnus species, we concluded that repeat motifs of five of these ten loci differed from those described for the source species. These differences represent mainly the modifications of the original motifs and affected compound or interrupted repeats as well as pure ones. The repeat motifs of three loci of the two alder species also differed. These mutations could lead to erroneous estimates of allele homology, because alleles with identical lengths will not have the same number of repeat units. Hence, before using microsatellite markers in studies comparing two or more species, they should be carefully examined and sequenced to ensure that allele homology is really stable and not affected by various inserts that change the sequence.     

Growth responses and N and P use efficiency of three Alnus species as affected by arbuscular-mycorrhizal colonisation

In this study it was determined how different species ofAlnus (A. cordata, A. incana and A. glutinosa) responded tocolonisation by arbuscular mycorrhizal (AM) fungi (Glomusmosseae or Glomus intraradices) with regard togrowth and their ability to acquire and utilise nitrogen and phosphorus.Non-mycorrhizal plants but with phosphorus added, were used as control. InA. glutinosa the application of 75 ppm P hadsimilar effect on growth and P acquisition as did AM. Nevertheless,A.cordata and A. incana grew poorly when suppliedwith 75 ppm of P and required AM symbiosis for optimum growth andNand P uptake. The percentage increases in shoot dry biomass in AM colonised ascompared with P-fertilised plants were 441 (A. cordata)and644 (A. incana) whilst AM-colonised A.glutinosa matched P-fertilised plants. Plant shoot N/P ratioincreased in response to AM-colonisation indicating that mycorrhizal effects onN uptake are greater than on P uptake. Information concerning the directinfluence of AM on N acquisition and nutrient use efficiency byAlnus species is important. AM-colonisation provides anexcellent biological mechanism by which Alnus plantsbecamemore efficient P-users. That Alnus sp. are highlymycorrhizal-dependent plants was apparent because AM-colonisation was criticalfor growth of A. incana and A.cordata. In this respect, for maximizing the efficient uptake anduseof N and P, under the growth conditions provided, Alnusplants need to be mycorrhizal. AM symbiosis seems decisive for the successfulestablishment of Alnus sp. in revegetation strategies. Thelow N and P availability in soils where Alnus species areuseful candidates in any recolonisation and reclamation process emphasises theneed to investigate systems by which N and P uptake byAlnus plants can be enhanced.     

Alpova komoviana (Boletales, Paxillaceae), a new sequestrate fungus from Montenegro, with a revised phylogeny of the genus in Europe

A new ectomycorrhizal species, Alpova komoviana, is described from several collections from Montenegro (south-eastern Europe), in association with Alnus incana ssp. incana (Betulaceae). Its interesting basal position in the strictly Alnus-associated Alpova lineage is discussed through morphology and phylogenetic analyses based on ITS, gpd and rpb2 nuclear DNA. ITS sequences of two other taxa are included in the analysis: Alpova rubescens and A. rubescens var. obscuratus; their identity and systematic positions are discussed.     

Study of the contribution of the shoot and/or root ofAlnus sp. in the compatibility between the host and a Sp+ Frankia strain using a grafting technique

Two alder species,Alnus glutinosa (L.) Gaertn. andAlnus incana (L) Moench, were inoculated with a Sp⁺ Frankia homogenate obtained fromA. incana root nodules. This inoculum formed effective nodules on the original host plant and ineffective nodules onA. glutinosa. Grafts between the two alder species were made to determine which part of the plant is involved in this phenomenon. The results obtained indicate that the compatibility between Alnus andFrankia is restricted to the root system.     

Effects of Frankia on field performance of Alnus clones and seedlings

Field performance of tissue cultured clones and seedlings of Alnus viridis ssp. crispa, A. glutinosa, A. incana, and A. japonica was assessed five years after outplanting in central Ontario. Half the individuals were inoculated with a mixture of four Frankia isolates prior to planting. Inoculation produced significant increases (25% to 33%) in biomass production of two clones of A. glutinosa and one of A. incana. Woody biomass increments for the first five years, averaged across all clones and seedlings, were highest in A. japonica and A. incana (4.3 and 3.7 Mg ha^–1 yr^–1, respectively). Individual tree growth improved markedly in lower slope positions, but total plot biomass did not show similar gains in downslope positions owing to higher mortality and aphid (Paraprociphilus tessellatus) infestation. Aphids occurred in 22% of Frankia-inoculated individuals, and 15% of non-inoculated individuals. The fastest growing species, A. incana and A. japonica, were most susceptible to aphid attack. Growth of the best clones of A. glutinosa and A. incana exceeded seedling growth by 51% and 76%, respectively. The high growth variation in clones of the same species with similar geographic origins and the excellent performance of tissue cultured stock suggest that rapid genetic gains in an Alnus breeding program might be obtained by clonal propagation.     

Evolutionary implications of nucleotide sequence relatedness between Alnus nepalensis and Alnus glutinosa and also between corresponding Frankia microsymbionts

Frankia DNAs were isolated directly from root nodules of Alnus nepalensis and Alnus nitida collected from various natural sites in India. For comparison, a nodule sample from Alnus glutinosa was also collected from Tuebingen, Germany. Nucleotide sequence analyses of amplified 16S–23S ITS region revealed that one of the microsymbionts from Alnus nepalensis was closely related to the microsymbiont from Alnus glutinosa. A similar exercise on the host was also carried out. It was found that one sample of Alnus nepalensis was closely related to Alnus glutinosa sequence from Europe. Since both Frankia and the host sequences studied revealed proximity between Alnus glutinosa and Alnus nepalensis, it is hypothesised that the common progenitor of all the alders first entered into an association with Frankia, and the symbiotic association has evolved since.     

Food preference of the trichopteran larva Anabolia nervosa from two streams with different food availability

The food preference of the trichopteran shredder Anabolia nervosa from two streams with different food availability was studied in laboratory preference experiments. One stream was unshaded and had abundant growth of the submerged macrophyte Potamogeton perfoliatus. The other was shaded by trees (Alnus glutinosa) and had very sparse growth of submerged macrophytes. To test the food preference of Anabolia nervosa for terrestrial leaf litter and submerged plants we offered leaves of: conditioned Alnus glutinosa, fresh green Alnus, conditioned Fagus sylvatica, fresh green Fagus, and fresh submerged Potamogeton perfoliatus. For both larval populations conditioned Alnus was the most consumed food item, followed by Potamogeton. Larvae from the Alnus-shaded stream preferred conditioned Alnus over all other food items, while larvae from the macrophyte stream did not clearly discriminate between conditioned Alnus and Potamogeton. The three remaining food items were largely rejected. Food items were analyzed for dry matter, organic matter, fibre, nitrogen, phosphorus and toughness. Preference was not correlated to any of these food characteristics, but we suggest that they may still be important and influence food choice in a complex manner. The study indicates that the preference pattern of Anabolia nervosa is not clearly related to previous feeding habituation. The ability to feed on fresh Potamogeton is, therefore, not acquired by certain populations of larvae through long exposure to this resource in the field. The high preference for fresh Potamogeton suggests that Anabolia nervosa may actively select Potamogeton as food even when alternative food sources such as terrestrial leaf litter are abundant in the field.     

First report of Mycopappus alni in Japan: species identification of the pathogenic fungus of a frosty mildew disease in Crataegus chlorosarca

A leaf disease similar to frosty mildew disease caused by Mycopappus species was detected on the leaves of Crataegus chlorosarca in Tomakomai, Hokkaido Prefecture. From morphological observations and gene analyses of rDNA-ITS, the fungus was identified as M. alni, which causes leaf blight disease on Alnus spp., Betula spp., and a Pyrus sp. in North America and Turkey. This is the first report of M. alni in Japan and Crataegus as its new host genus.     

Effects of some pure and mixedFrankia strains on seedling growth in differentAlnus species

In greenhouse experiments plants of eightAlnus species, from various parts of the world, and from different taxonomic sections, were inoculated with threeFrankia strains in order to show any possible interaction. Mixtures in equal parts of theseFrankia strains were also tried. The growth of inoculated plants was significantly higher than of the controls, with one of the three strains being superior. Mixtures of strains generally provided higher growth than the best individual strain. No interaction betweenFrankia strains andAlnus species was detected in the young plants 60 days after inoculation. Three clones ofAlnus glutinosa were inoculated with the same pure cultures ofFrankia, without producing any interaction. Inoculation time was studied in one clone and one progeny ofAlnus glutinosa. The best results were obtained with the earlier inoculation (at sowing for the progeny and at transfer to soil for thein vitro-propagated clone). The results are discussed in terms of nursery practice and field experiments for selection in breeding programmes.     

Frankia-Alnus incana symbiosis: Effect of endophyte on nitrogen fixation and biomass production

The efficiency of different FinnishFrankia strains as symbionts onAlnus incana (L.) Moench was evaluated in inoculation experiments by measuring nitrogen fixation and biomass production. Since all available pure cultures ofFrankia are of the Sp⁻ type (sporangia not formed in nodules), but the dominant nodule endophyte ofA. incana in Finland is of the Sp⁺ type (sporangia formed in nodules), crushed nodules of thisFrankia type were included. The Sp⁻ pure cultures, whether originating fromA. incana orA. glutinosa, produced with one exception, similar biomass withA. incana. The highest biomass was produced with an American reference strain fromA. viridis crispa. Using Sp⁺ nodule homogenates fromA. incana as inoculum, the biomass production was only one third of that produced by Sp⁻ pure cultures from the same host. Hence, through selection of the endophyte it is possible to exert a considerable influence on the productivity ofAlnus incana.     

Ectomycorrhizal fungi in Mexican Alnus forests support the host co-migration hypothesis and continental-scale patterns in phylogeography

To examine the geographic patterns in Alnus-associated ectomycorrhizal (ECM) fungal assemblages and determine how they may relate to host plant biogeography, we studied ECM assemblages associated with two Alnus species (Alnus acuminata and Alnus jorullensis) in montane Mexico and compared them with Alnus-associated ECM assemblages located elsewhere in the Americas. ECM root samples were collected from four sites in Mexico (two per host species), identified with ITS and LSU rRNA gene sequences, and assessed using both taxon- (richness, diversity, evenness indices) and sequence divergence-based (UniFrac clustering and significance) analyses. Only 23 ECM taxa were encountered. Clavulina, an ECM lineage never before reported with Alnus, contained the dominant taxon overall. ECM assemblage structure varied between hosts, but UniFrac significance tests indicated that both associated with similar ECM lineage diversity. There was a strikingly high sequence similarity among a diverse array of the ECM taxa in Mexico and those in Alnus forests in Argentina, the United States, and Europe. The Mexican and United States assemblages had greater overlap than those present in Argentina, supporting the host–ECM fungi co-migration hypothesis from a common north temperate origin. Our results indicate that Alnus-associated ECM assemblages have clear patterns in richness and composition across a wide range of geographic locations. Additional data from boreal western North America as well as the eastern United States and Canada will be particularly informative in further understanding the co-biogeographic patterns of Alnus and ECM fungi in the Americas.     

Description of Taphrina antarctica f.a. sp. nov., a new anamorphic ascomycetous yeast species associated with Antarctic endolithic microbial communities and transfer of four Lalaria species in the genus Taphrina

In the framework of a large-scale rock sampling in Continental Antarctica, a number of yeasts have been isolated. Two strains that are unable to grow above 20 °C and that have low ITS sequence similarities with available data in the public domain were found. The D1/D2 LSU molecular phylogeny placed them in an isolated position in the genus Taphrina, supporting their affiliation to a not yet described species. Because the new species is able to grow in its anamorphic state only, the species Taphrina antarctica f.a. (forma asexualis) sp. nov. has been proposed to accommodate both strains (type strain DBVPG 5268^T, DSM 27485^T and CBS 13532^T). Lalaria and Taphrina species are dimorphic ascomycetes, where the anamorphic yeast represents the saprotrophic state and the teleomorph is the parasitic counterpart on plants. This is the first record for this genus in Antarctica; since plants are absent on the continent, we hypothesize that the fungus may have focused on the saprotrophic part of its life cycle to overcome the absence of its natural host and adapt environmental constrains. Following the new International Code of Nomenclature for Algae, Fungi and Plants (Melbourne Code 2011) the reorganization of Taphrina–Lalaria species in the teleomorphic genus Taphrina is proposed. We emend the diagnosis of the genus Taphrina to accommodate asexual saprobic states of these fungi. Taphrina antarctica was registered in MycoBank under MB 808028.     

Molecular phylogeny of Alnus (Betulaceae), inferred from nuclear ribosomal DNA ITS sequences

The nuclear ITS region of 19 species of Alnus was amplified and sequenced. The inferred molecular phylogeny shows that all species of the genus Alnus form a monophyletic group close to Betula and that the fundamental dichotomy within the genus lies between the subgenera Alnaster and Gymnothyrsus, sensu Murai (1964). The subgenus Alnaster appears to be basal in the genus, based on archaism of morphological features, and branching close to the root of the trees due to low ITS divergence from genus Betula. The monophyly of the section Clethropsis is not supported by the present data: Alnus nepalensis is positioned in the subgenus Gymnothyrsus, away from A. nitida and A. maritima. Surprisingly, A. formosana sect. Japonicae is closely tied to A. maritima sect. Clethropsis, with which it shares few morphological traits, and is separate from A. japonica sect. Japonicae with which it shares many traits. An increase in substitution rate is noted in the group comprising A. formosana, A. maritima and A. nitida relative to the rest of the genus, which appears to have had, on the average, a very slow mutation rate. Alnus glutinosa, the designated type for the genus, appears to be representative of the genus both for morphological characters and evolutionary rate. North-East Asia is comforted in its position of origin of the genus since not only does it have the highest number of species and representatives in all deep branching lineages, there are also fewer transcontinental migrations when a North-East Asian ancestor is postulated than when a North American ancestor is postulated.     

Root-nodules formation byPenicillium sp. onAlnus glutinosa andAlnus incana

A non identified species ofPenicillium induced the formation of nodules on the root system of two species of alder (Alnus glutinosa and A.incana). These so-called myconodules looked like young actinorhizae. Namely only some cortical cells of the young transformed root were invaded by the mycelium. Plasmalemma of the host-cell surrounded the hyphae when they penetrated in the cell, but then the fungus colonized all the cell, the contents of which degenerated. In spite of this necrophytic relationships the plant showed no evident damage after the infection.     

The improvement and utilization in forestry of nitrogen fixation by actinorhizal plants with special reference toAlnus in Scotland

Summary Alnus species are used widely in Britain for land reclamation, forestry and other purposes. Rapid juvenile growth of the AmericanAlnus rubra makes it an attractive species for planting on N-deficient soils, particularly those of low organic content. In small plot trials, this species is nodulated by indigenous soil frankiae as effectively asAlnus glutinosa. Over a three year period both species return similar amounts of N to the ecosystem, estimated at up to 10–12 kg N ha^–1. Several strains ofFrankia have been isolated from local (Lennox Forest)A. rubra nodules. These differ morphologically and in their growth on different culture media, both from each other and fromA. glutinosa nodule isolates. AllAlnus isolates, however, have a total cellular fatty acid composition qualitatively similar to some other Group B frankiae. Glasshouse tests in N free culture suggest thatA. rubra nodules formed after inoculation of seedlings with American spore (–) isolates are three times more effective in N fixation than those inoculated with LennoxA. rubra spore (+) nodule homogenates. By contrast, the early growth of seedlings inoculated with spore (–)Frankia strains suggests at best a 35% improvement in N fixing activity over seedlings inoculated with LennoxA. rubra nodule isolates. Nevertheless, this improvement in activity, together with the better performance of seedlings inoculated with isolates compared with those treated with crushed nodule preparations, suggest that it would be worthwhile commercially to inoculate nursery stock with a spore (–)Frankia strain.