Meta-transcriptomics indicates biotic cross-tolerance in willow trees cultivated on petroleum hydrocarbon contaminated soil

BACKGROUND

High concentrations of petroleum hydrocarbon (PHC) pollution can be hazardous to human health and leave soils incapable of supporting agricultural crops. A cheap solution, which can help restore biodiversity and bring land back to productivity, is cultivation of high biomass yielding willow trees. However, the genetic mechanisms which allow these fast-growing trees to tolerate PHCs are as yet unclear.

METHODS

Salix purpurea 'Fish Creek' trees were pot-grown in soil from a former petroleum refinery, either lacking or enriched with C10-C50 PHCs. De novo assembled transcriptomes were compared between tree organs and impartially annotated without a priori constraint to any organism.

RESULTS

Over 45% of differentially expressed genes originated from foreign organisms, the majority from the two-spotted spidermite, Tetranychus urticae. Over 99% of T. urticae transcripts were differentially expressed with greater abundance in non-contaminated trees. Plant transcripts involved in the polypropanoid pathway, including phenylalanine ammonia-lyase (PAL), had greater expression in contaminated trees whereas most resistance genes showed higher expression in non-contaminated trees.

CONCLUSIONS

The impartial approach to annotation of the de novo transcriptomes, allowing for the possibility for multiple species identification, was essential for interpretation of the crop's response treatment. The meta-transcriptomic pattern of expression suggests a cross-tolerance mechanism whereby abiotic stress resistance systems provide improved biotic resistance. These findings highlight a valuable but complex biotic and abiotic stress response to real-world, multidimensional contamination which could, in part, help explain why crops such as willow can produce uniquely high biomass yields on challenging marginal land.

G-fibre cell wall development in willow stems during tension wood induction

Willows (Salix spp.) are important as a potential feedstock for bioenergy and biofuels. Previous work suggested that reaction wood (RW) formation could be a desirable trait for biofuel production in willows as it is associated with increased glucose yields, but willow RW has not been characterized for cell wall components. Fasciclin-like arabinogalactan (FLA) proteins are highly up-regulated in RW of poplars and are considered to be involved in cell adhesion and cellulose biosynthesis. COBRA genes are involved in anisotropic cell expansion by modulating the orientation of cellulose microfibril deposition. This study determined the temporal and spatial deposition of non-cellulosic polysaccharides in cell walls of the tension wood (TW) component of willow RW and compared it with opposite wood (OW) and normal wood (NW) using specific antibodies and confocal laser scanning microscopy and transmission electron microscopy. In addition, the expression patterns of an FLA gene (SxFLA12) and a COBRA-like gene (SxCOBL4) were compared using RNA in situ hybridization. Deposition of the non-cellulosic polysaccharides (1-4)-β-D-galactan, mannan and de-esterified homogalacturonan was found to be highly associated with TW, often with the G-layer itself. Of particular interest was that the G-layer itself can be highly enriched in (1-4)-β-D-galactan, especially in G-fibres where the G-layer is still thickening, which contrasts with previous studies in poplar. Only xylan showed a similar distribution in TW, OW, and NW, being restricted to the secondary cell wall layers. SxFLA12 and SxCOBL4 transcripts were specifically expressed in developing TW, confirming their importance. A model of polysaccharides distribution in developing willow G-fibre cells is presented.

Resprout and Survival of Willow (Salix) Cuttings on Bioengineering Structures in Actively Eroding Gullies in Marls in a Mountainous Mediterranean Climate: A Large-Scale Experiment in the Francon Catchment (Southern Alps, France)

Improving the understanding of the role of vegetation and bioengineering structures on erosion and sedimentation control, especially in torrent-prone catchments in a mountainous Mediterranean climate, has become a key issue today for the scientific community working in ecological engineering and restoration ecology. The objective of this study was to evaluate the performance of willow (Salix) cuttings in resprouting and survival on bioengineering structures in actively eroding gullies in marls and to identify the factors influencing this performance. Measurements were taken from 2008 to 2011 on 336 bioengineering structures, namely brush layers on wooden sills (BL) and brush layers with brush mats on wooden sills (BLM), using 8890 cuttings of Salix purpurea and Salix incana. These structures were built in 18 gullies of the Francon Catchment in marls (73 ha) in the Southern French Alps. After four growing seasons, the results revealed a total cutting survival rate of 45%. They also demonstrated that in BLM, brush mats provided better survival (56%) than brush layers (37%). In BL, brush layers alone showed 51% cutting survival. Cutting resprout and survival were observed for all structure aspects. They were positively related to increasing gully size and vegetation cover on gully sides. The results of this large-scale experiment clarified previous data obtained on a limited sample of bioengineering structures, providing further detail and showing that it is possible to use such structures made of willow cuttings to revegetate actively eroding gullies in marls within a mountainous Mediterranean climate.

Environmental Limits of Tall Shrubs in Alaska's Arctic National Parks

We sampled shrub canopy volume (height times area) and environmental factors (soil wetness, soil depth of thaw, soil pH, mean July air temperature, and typical date of spring snow loss) on 471 plots across five National Park Service units in northern Alaska. Our goal was to determine the environments where tall shrubs thrive and use this information to predict the location of future shrub expansion. The study area covers over 80,000 km² and has mostly tundra vegetation. Large canopy volumes were uncommon, with volumes over 0.5 m³/m² present on just 8% of plots. Shrub canopy volumes were highest where mean July temperatures were above 10.5°C and on weakly acid to neutral soils (pH of 6 to 7) with deep summer thaw (>80 cm) and good drainage. On many sites, flooding helped maintain favorable soil conditions for shrub growth. Canopy volumes were highest where the typical snow loss date was near 20 May; these represent sites that are neither strongly wind-scoured in the winter nor late to melt from deep snowdrifts. Individual species varied widely in the canopy volumes they attained and their response to the environmental factors. Betula sp. shrubs were the most common and quite tolerant of soil acidity, cold July temperatures, and shallow thaw depths, but they did not form high-volume canopies under these conditions. Alnus viridis formed the largest canopies and was tolerant of soil acidity down to about pH 5, but required more summer warmth (over 12°C) than the other species. The Salix species varied widely from S. pulchra, tolerant of wet and moderately acid soils, to S. alaxensis, requiring well-drained soils with near neutral pH. Nearly half of the land area in ARCN has mean July temperatures of 10.5 to 12.5°C, where 2°C of warming would bring temperatures into the range needed for all of the potential tall shrub species to form large canopies. However, limitations in the other environmental factors would probably prevent the formation of large shrub canopies on at least half of the land area with newly favorable temperatures after 2°C of warming.

Sediment Dynamics Within Buffer Zone and Sinkhole Splay Areas Under Extreme Soil Disturbance Conditions

Sedimentation dynamics were assessed in sinkholes within training areas at Ft. Knox Military Installation, a karst landscape subjected to decades of tracked vehicle use and extreme soil disturbance. Sinkholes sampled were sediment-laden and behaved as intermittent ponds. Dendrogeomorphic analyses were conducted using willow trees (Salix spp.) located around the edge of 18 sinkholes to estimate historical sedimentation rates, and buried bottles were installed in 20 sinkholes at the center, outer edge, and at the midpoint between the center and edge to estimate annual sedimentation rates. Sedimentation data were coupled with vegetation characteristics of sinkhole buffers to determine relationships among these variables. The dendrogeomorphic method estimated an average accumulation rate of 1.27 cm year(-1) translating to a sediment loss rate of 46.1 metric ton year(-1) from the training areas. However, sediment export to sinkholes was estimated to be much greater (118.6 metric ton year(-1)) via the bottle method. These data suggest that the latter method provided a more accurate estimate since accumulation was greater in the center of sinkholes compared to the periphery where dendrogeomorphic data were collected. Vegetation data were not tightly correlated with sedimentation rates, suggesting that further research is needed to identify a viable proxy for direct measures of sediment accumulation in this extreme deposition environment. Mitigation activities for the sinkholes at Ft. Knox's tank training area, and other heavily disturbed karst environments where extreme sedimentation exists, should consider focusing on flow path and splay area management.

A physiological and biophysical model of coppice willow (Salix spp.) production yields for the contiguous USA in current and future climate scenarios

High-performance computing has facilitated development of biomass production models that capture the key mechanisms underlying production at high spatial and temporal resolution. Direct responses to increasing [CO2 ] and temperature are important to long-lived emerging woody bioenergy crops. Fast-growing willow (Salix spp.) within short rotation coppice (SRC) has considerable potential as a renewable biomass source, but performance over wider environmental conditions and under climate change is uncertain. We extended the bioenergy crop modeling platform, BioCro, to SRC willow by adding coppicing and C3 photosynthesis subroutines, and modifying subroutines for perennation, allocation, morphology, phenology and development. Parameterization with measurements of leaf photosynthesis, allocation and phenology gave agreement of modeled with measured yield across 23 sites in Europe and North America. Predictions for the continental USA suggest yields of ≥17 Mg ha(-1)  year(-1) in a 4 year rotation. Rising temperature decreased predicted yields, an effect partially ameliorated by rising [CO2 ]. This model, based on over 100 equations describing the physiological and biophysical mechanisms underlying production, provides a new framework for utilizing mechanism of plant responses to the environment, including future climates. As an open-source tool, it is made available here as a community resource for further application, improvement and adaptation.

Phenological mismatch with abiotic conditions implications for flowering in Arctic plants

Although many studies have examined the phenological mismatches between interacting organisms, few have addressed the potential for mismatches between phenology and seasonal weather conditions. In the Arctic, rapid phenological changes in many taxa are occurring in association with earlier snowmelt. The timing of snowmelt is jointly affected by the size of the late winter snowpack and the temperature during the spring thaw. Increased winter snowpack results in delayed snowmelt, whereas higher air temperatures and faster snowmelt advance the timing of snowmelt. Where interannual variation in snowpack is substantial, changes in the timing of snowmelt can be largely uncoupled from changes in air temperature. Using detailed, long-term data on the flowering phenology of four arctic plant species from Zackenberg, Greenland, we investigate whether there is a phenological component to the temperature conditions experienced prior to and during flowering. In particular, we assess the role of timing of flowering in determining pre-flowering exposure to freezing temperatures and to the temperatures-experienced prior to flowering. We then examine the implications of flowering phenology for flower abundance. Earlier snowmelt resulted in greater exposure to freezing conditions, suggesting an increased potential for a mismatch between the timing of flowering and seasonal weather conditions and an increased potential for negative consequences, such as freezing 'damage. We also found a parabolic relationship between the timing of flowering and the temperature experienced during flowering after taking interannual temperature effects into account. If timing of flowering advances to a cooler period of the growing season, this may moderate the effects of a general warming trend across years. Flower abundance was quadratically associated with the timing of flowering, such that both early and late flowering led to lower flower abundance than did intermediate flowering. Our results indicate that shifting the timing of flowering affects the temperature experienced during flower development and flowering beyond that imposed by interannual variations in climate. We also found that phenological timing may affect flower abundance, and hence, fitness. These findings suggest that plant population responses to future climate change will be shaped not only by extrinsic climate forcing, but also by species' phenological responses.

The vegetative buds of Salix myrsinifolia are responsive to elevated UV-B and temperature

The predicted rise in temperature and variable changes in ultraviolet-B radiation will have marked effects on plant growth and metabolism. Different vegetative parts of trees have been studied to detect the impacts of enhanced temperature and UV-B, but the effects on buds have rarely been considered. In the present study, Salix myrsinifolia clones were subjected to enhanced UV-B and temperature over two growing seasons starting from 2009, and measured springtime bud development and concentrations of phenolic compounds. In 2010 and 2011 the buds under increased temperature were up to 30% longer than those in control plots. On the other hand, UV-B combined with elevated temperature significantly decreased bud length by 4-5% in 2010. This effect was stronger in males than in females. The vegetative buds contained high constitutive amounts of chlorogenic acid derivatives, which may explain the weak increase in hyperin and chlorogenic acid that are usual UV-B sheltering compounds. The elevated temperature treatment significantly increased salicin content (about 18% in males and 22% in females), while triandrin concentration decreased by only 50% in females. Our results indicate that vegetative bud size is highly affected by seasonal temperature, while UV-B induced a weaker and transient effect.

European Tamaricaceae in bioengineering on dry soils

We tested the bioengineering capabilities and resistance to drought of cuttings of two typical riparian species of Mediterranean and Alpine streams scarcely used in soil bioengineering: Myricaria germanica (L.) Desv. and Tamarix gallica L. We conducted two experiments, one ex situ and one in situ, with different drought treatments on cuttings of these two species in comparison with Salix purpurea L., a willow very commonly used in bioengineering. The biological traits considered were resprouting/survival rate, quantity of structural roots, above- and belowground biomass, shoot-to-root ratio, and ratio of the biomass increase between the first and second season. T. gallica and M. Germanica showed generally good capabilities for soil bioengineering use. T. gallica showed especially good resprouting rates in drought conditions with a survival rate of 97% in dry modality of the in situ experiment. M. germanica cuttings presented a much lower survival rate than the other two species in in situ experiments with harsh drought conditions from the beginning. T. gallica had a lower shoot-to-root ratio than S. purpurea for all drought treatments. M. germanica and T. gallica showed a very significant increase in belowground biomass during the second vegetative period, demonstrating that these species can quickly achieve strong anchoring. These observations confirmed the interest of these species in bioengineering.

X-ray micro-computed tomography in willow reveals tissue patterning of reaction wood and delay in programmed cell death

BACKGROUND

Variation in the reaction wood (RW) response has been shown to be a principle component driving differences in lignocellulosic sugar yield from the bioenergy crop willow. The phenotypic cause(s) behind these differences in sugar yield, beyond their common elicitor, however, remain unclear. Here we use X-ray micro-computed tomography (μCT) to investigate RW-associated alterations in secondary xylem tissue patterning in three dimensions (3D).

RESULTS

Major architectural alterations were successfully quantified in 3D and attributed to RW induction. Whilst the frequency of vessels was reduced in tension wood tissue (TW), the total vessel volume was significantly increased. Interestingly, a delay in programmed-cell-death (PCD) associated with TW was also clearly observed and readily quantified by μCT.

CONCLUSIONS

The surprising degree to which the volume of vessels was increased illustrates the substantial xylem tissue remodelling involved in reaction wood formation. The remodelling suggests an important physiological compromise between structural and hydraulic architecture necessary for extensive alteration of biomass and helps to demonstrate the power of improving our perspective of cell and tissue architecture. The precise observation of xylem tissue development and quantification of the extent of delay in PCD provides a valuable and exciting insight into this bioenergy crop trait.

Evaluating human-disturbed habitats for recovery planning of endangered plants

The recovery potential of endangered species is limited by the high prevalence of human-modified habitats, while effective in situ conservation strategies to identify and restore disturbed habitat within species ranges are lacking. Our goal was to determine the impact of human disturbance on the endangered endemic Barrens willow (Salix jejuna) to provide science-based protocols for future restoration of disturbed habitats; a key component of conservation and recovery plans for many rare plant species. Our study examined differences in substrate (e.g., % total plant cover, % species cover, substrate type) and vegetation in naturally- (via frost activity) vs human-disturbed limestone barrens (Newfoundland, Canada), across the entire species range of the endangered Barrens willow. There were distinct differences in substrate conditions and vegetation community structure between naturally- and human-disturbed limestone barrens habitat throughout the narrow range of this endemic willow. Human-disturbed sites are more homogeneous and differ significantly from the naturally-disturbed sites having a much coarser substrate (30% more gravel) with less fine grained sands, less exposed bedrock, decreased soil moisture, increased nitrogen content, and reduced phosphorus content. Substrate differences can inhibit return to the natural freeze-thaw disturbance regime of the limestone barrens, negatively affecting long-term persistence of this, and other rare plants. The structure of associated vegetation (specifically woody species presence) negatively affected willow abundance but was not linked to disturbance type. Human-disturbed sites are potential candidates for endangered plant recovery habitat if natural ecosystem processes, vegetation community structure, and habitat heterogeneity are restored, thereby supporting the establishment of long term viable populations.

Effect of vegetation rehabilitation on soil carbon and its fractions in Mu Us Desert, northwest China

Although vegetation rehabilitation on semi-arid and arid regions may enhance soil carbon sequestration, its effects on soil carbon fractions remain uncertain. We carried out a study after planting Artemisia ordosica (AO, 17 years), Astragalus mongolicum (AM, 5 years), and Salix psammophila (SP, 16 years) on shifting sand land (SL) in the Mu Us Desert, northwest China. We measured total soil carbon (TSC) and its components, soil inorganic carbon (SIC) and soil organic carbon (SOC), as well as the light and heavy fractions within soil organic carbon (LF-SOC and HF-SOC), under the SL and shrublands at depths of 100 cm. TSC stock under SL was 27.6 Mg ha(-1), and vegetation rehabilitation remarkably elevated it by 40.6 Mgha(-1), 4.5 Mgha(-1), and 14.1 Mgha(-1) under AO, AM and SP land, respectively. Among the newly formed TSC under the three shrublands, SIC, LF-SOC and HF-SOC accounted for 75.0%, 10.7% and 13.1% for AO, respectively; they made up 37.0%, 50.7% and 10.6% for AM, respectively; they occupied 68.6%, 18.8% and 10.0% for SP, respectively. The accumulation rates of TSC within 0-100 cm reached 238.6 g m(-2) y(-1), 89.9 g m(-2) y(-1) and 87.9 g m(-2) y(-1) under AO, AM and SP land, respectively. The present study proved that the accumulation of SIC considerably contributed to soil carbon sequestration, and vegetation rehabilitation on shifting sand land has a great potential for soil carbon sequestration.

Genetic strategies for dissecting complex traits in biomass willows (Salix spp.)

Willows are highly diverse catkin-bearing trees and shrubs of the genus Salix. They occur in many growth forms, from tall trees to creeping alpines, and successfully occupy a wide variety of ecological niches. Shrubby willows (sub-genus Vetrix) have many characteristics that render them suited to cultivation in much faster growth cycles than conventional forestry. They respond well to coppicing, can be propagated vegetatively as cuttings and achieve rapid growth with low fertilizer inputs. As a result, willows grown as short rotation coppice are now among the leading commercially grown biomass crops in temperate regions. However, although willows have a long history of cultivation for traditional uses, their industrial use is relatively recent and, compared with major arable crops, they are largely undomesticated. Breeding programmes initiated to improve willow as a biomass crop achieved a doubling of yields within a period of <15 years. These advances were made by selecting for stem characteristics (height and diameter) and coppicing response (shoot number and shoot vigour), as well as resistance to pests, diseases and environmental stress, with little or no knowledge of the genetic basis of these traits. Genetics and genomics, combined with extensive phenotyping, have substantially improved our understanding of the basis of biomass traits in willow for more targeted breeding via marker-assisted selection. Here, we present the strategy we have adopted in which a genetic-based approach was used to dissect complex traits into more defined components for molecular breeding and gene discovery.

Cryopreservation of Populus trichocarpa and Salix dormant buds with recovery by grafting or direct rooting

BACKGROUND

Methods are needed for the conservation of clonally maintained trees of Populus and Salix. In this work, Populus trichocarpa and Salix genetic resources were cryopreserved using dormant scions as the source explant.

OBJECTIVE

We quantified the recovery of cryopreserved materials that originated from diverse field environments by using either direct sprouting or grafting.

MATERIALS AND METHODS

Scions (either at their original moisture content of 48 to 60% or dried to 30%) were slowly cooled to -35 degree C, transferred to the vapor phase of liquid nitrogen (LNV, -160 degree C), and warmed before determining survival.

RESULTS

Dormant buds from P. trichocarpa clones from Westport and Boardman, OR had regrowth levels between 42 and 100%. Direct rooting of cryopreserved P. trichocarpa was also possible. Ten of 11 cryopreserved Salix accessions, representing 10 different species, exhibited at least 40% bud growth and rooting after 6 weeks when a bottom-heated rooting system was implemented.

CONCLUSION

We demonstrate that dormant buds of P. trichocarpa and Salix accessions can be cryopreserved and successfully regenerated without the use of tissue culture.

Insights into nitrogen allocation and recycling from nitrogen elemental analysis and 15N isotope labelling in 14 genotypes of willow

Minimizing nitrogen (N) fertilization inputs during cultivation is essential for sustainable production of bioenergy and biofuels. The biomass crop willow (Salix spp.) is considered to have low N fertilizer requirements due to efficient recycling of nutrients during the perennial cycle. To investigate how successfully different willow genotypes assimilate and allocate N during growth, and remobilize and consequently recycle N before the onset of winter dormancy, N allocation and N remobilization (to and between different organs) were examined in 14 genotypes of a genetic family using elemental analysis and (15)N as a label. Cuttings were established in pots in April and sampled in June, August and at onset of senescence in October. Biomass yield of the trees correlated well with yields recorded in the field. Genotype-specific variation was observed for all traits measured and general trends spanning these sampling points were identified when trees were grouped by biomass yield. Nitrogen reserves in the cutting fuelled the entirety of the canopy establishment, yet earlier cessation of this dependency was linked to higher biomass yields. The stem was found to be the major N reserve by autumn, which constitutes a major source of N loss at harvest, typically every 2-3 years. These data contribute to understanding N remobilization in short rotation coppice willow and to the identification of traits that could potentially be selected for in breeding programmes to further improve the sustainability of biomass production.

Variation in copper and zinc tolerance and accumulation in 12 willow clones: implications for phytoextraction

Willows (Salix spp.) have shown high potential for the phytoextraction of heavy metals. This study compares variations in copper (Cu) and zinc (Zn) tolerance and accumulation potential among 12 willow clones grown in a nutrient solution treated with 50 μmol/L of Cu or Zn, respectively. The results showed differences in the tolerance and accumulation of Cu and Zn with respect to different species/clones. The biomass variation among clones in response to Cu or Zn exposure ranged from the stimulation of growth to inhibition, and all of the clones tested showed higher tolerance to Cu than to Zn. The clones exhibited less variation in Cu accumulation but larger variation in Zn accumulation. Based on translocation factors, it was found that most of the Cu was retained in the roots and that Zn was more mobile than Cu for all clones. It is concluded that most willow clones are good accumulators of Zn and Cu.

Herbivores influence the growth, reproduction, and morphology of a widespread Arctic willow

Shrubs have expanded in Arctic ecosystems over the past century, resulting in significant changes to albedo, ecosystem function, and plant community composition. Willow and rock ptarmigan (Lagopus lagopus, L. muta) and moose (Alces alces) extensively browse Arctic shrubs, and may influence their architecture, growth, and reproduction. Furthermore, these herbivores may alter forage plants in such a way as to increase the quantity and accessibility of their own food source. We estimated the effect of winter browsing by ptarmigan and moose on an abundant, early-successional willow (Salix alaxensis) in northern Alaska by comparing browsed to unbrowsed branches. Ptarmigan browsed 82-89% of willows and removed 30-39% of buds, depending on study area and year. Moose browsed 17-44% of willows and browsed 39-55% of shoots. Browsing inhibited apical dominance and activated axillary and adventitious buds to produce new vegetative shoots. Ptarmigan- and moose-browsed willow branches produced twice the volume of shoot growth but significantly fewer catkins the following summer compared with unbrowsed willow branches. Shoots on browsed willows were larger and produced 40-60% more buds compared to unbrowsed shoots. This process of shoot production at basal parts of the branch is the mechanism by which willows develop a highly complex "broomed" architecture after several years of browsing. Broomed willows were shorter and more likely to be re-browsed by ptarmigan, but not moose. Ptarmigan likely benefit from the greater quantity and accessibility of buds on previously browsed willows and may increase the carrying capacity of their own habitat. Despite the observed tolerance of willows to browsing, their vertical growth and reproduction were strongly inhibited by moose and ptarmigan. Browsing by these herbivores therefore needs to be considered in future models of shrub expansion in the Arctic.

Functional screening of willow alleles in Arabidopsis combined with QTL mapping in willow (Salix) identifies SxMAX4 as a coppicing response gene

Willows (Salix spp.) are important biomass crops due to their ability to grow rapidly with low fertilizer inputs and ease of cultivation in short-rotation coppice cycles. They are relatively undomesticated and highly diverse, but functional testing to identify useful allelic variation is time-consuming in trees and transformation is not yet possible in willow. Arabidopsis is heralded as a model plant from which knowledge can be transferred to advance the improvement of less tractable species. Here, knowledge and methodologies from Arabidopsis were successfully used to identify a gene influencing stem number in coppiced willows, a complex trait of key biological and industrial relevance. The strigolactone-related More AXillary growth (MAX) genes were considered candidates due to their role in shoot branching. We previously demonstrated that willow and Arabidopsis show similar response to strigolactone and that transformation rescue of Arabidopsis max mutants with willow genes could be used to detect allelic differences. Here, this approach was used to screen 45 SxMAX1, SxMAX2, SxMAX3 and SxMAX4 alleles cloned from 15 parents of 11 mapping populations varying in shoot-branching traits. Single-nucleotide polymorphism (SNP) frequencies were locus dependent, ranging from 29.2 to 74.3 polymorphic sites per kb. SxMAX alleles were 98%-99% conserved at the amino acid level, but different protein products varying in their ability to rescue Arabidopsis max mutants were identified. One poor rescuing allele, SxMAX4D, segregated in a willow mapping population where its presence was associated with increased shoot resprouting after coppicing and colocated with a QTL for this trait.

Secondary cell wall composition and candidate gene expression in developing willow (Salix purpurea) stems

The properties of the secondary cell wall (SCW) in willow largely determine the suitability of willow biomass feedstock for potential bioenergy and biofuel applications. SCW development has been little studied in willow and it is not known how willow compares with model species, particularly the closely related genus Populus. To address this and relate SCW synthesis to candidate genes in willow, a tractable bud culture-derived system was developed in Salix purpurea, and cell wall composition and RNA-Seq transcriptome were followed in stems during early development. A large increase in SCW deposition in the period 0-2 weeks after transfer to soil was characterised by a big increase in xylan content, but no change in the frequency of substitution of xylan with glucuronic acid, and increased abundance of putative transcripts for synthesis of SCW cellulose, xylan and lignin. Histochemical staining and immunolabeling revealed that increased deposition of lignin and xylan was associated with xylem, xylem fibre cells and phloem fibre cells. Transcripts orthologous to those encoding xylan synthase components IRX9 and IRX10 and xylan glucuronyl transferase GUX1 in Arabidopsis were co-expressed, and showed the same spatial pattern of expression revealed by in situ hybridisation at four developmental stages, with abundant expression in proto-xylem, xylem fibre and ray parenchyma cells and some expression in phloem fibre cells. The results show a close similarity with SCW development in Populus species, but also give novel information on the relationship between spatial and temporal variation in xylan-related transcripts and xylan composition.

Early selection of novel triploid hybrids of shrub willow with improved biomass yield relative to diploids

BACKGROUND

Genetic improvement of shrub willow (Salix), a perennial energy crop common to temperate climates, has led to the development of new cultivars with improved biomass yield, pest and disease resistance, and biomass composition suitable for bioenergy applications. These improvements have largely been associated with species hybridization, yet little is known about the genetic mechanisms responsible for improved yield and performance of certain willow species hybrids.

RESULTS

The top performing genotypes in this study, representing advanced pedigrees compared with those in previous studies, were mostly triploid in nature and outperformed current commercial cultivars. Of the genotypes studied, the diploids had the lowest mean yield of 8.29 oven dry Mg ha-1 yr-1, while triploids yielded 12.65 Mg ha-1 yr-1, with the top five producing over 16 Mg ha-1 yr-1. Triploids had high stem area and height across all three years of growth in addition to greatest specific gravity. The lowest specific gravity was observed among the tetraploid genotypes. Height was the early trait most correlated with and the best predictor of third-year yield.

CONCLUSIONS

These results establish a paradigm for future breeding and improvement of Salix bioenergy crops based on the development of triploid species hybrids. Stem height and total stem area are effective traits for early prediction of relative yield performance.

Genetic architecture of spring and autumn phenology in Salix

BACKGROUND

In woody plants from temperate regions, adaptation to the local climate results in annual cycles of growth and dormancy, and optimal regulation of these cycles are critical for growth, long-term survival, and competitive success. In this study we have investigated the genetic background to growth phenology in a Salix pedigree by assessing genetic and phenotypic variation in growth cessation, leaf senescence and bud burst in different years and environments. A previously constructed linkage map using the same pedigree and anchored to the annotated genome of P. trichocarpa was improved in target regions and used for QTL analysis of the traits. The major aims in this study were to map QTLs for phenology traits in Salix, and to identify candidate genes in QTL hot spots through comparative mapping with the closely related Populus trichocarpa.

RESULTS

All traits varied significantly among genotypes and the broad-sense heritabilities ranged between 0.5 and 0.9, with the highest for leaf senescence. In total across experiment and years, 80 QTLs were detected. For individual traits, the QTLs explained together from 21.5 to 56.5% of the variation. Generally each individual QTL explained a low amount of the variation but three QTLs explained above 15% of the variation with one QTL for leaf senescence explaining 34% of the variation. The majority of the QTLs were recurrently identified across traits, years and environments. Two hotspots were identified on linkage group (LG) II and X where narrow QTLs for all traits co-localized.

CONCLUSIONS

This study provides the most detailed analysis of QTL detection for phenology in Salix conducted so far. Several hotspot regions were found where QTLs for different traits and QTLs for the same trait but identified during different years co-localised. Many QTLs co-localised with QTLs found in poplar for similar traits that could indicate common pathways for these traits in Salicaceae. This study is an important first step in identifying QTLs and candidate genes for phenology traits in Salix.

Differential allelopathic effects of Japanese knotweed on willow and cottonwood cuttings used in riverbank restoration techniques

Using bioengineering techniques to restore areas invaded by Fallopia japonica shows promising results. Planting tree cuttings could allow both rapidly re-establishing a competitive native plant community and reducing F. japonica performance. However, F. japonica has been shown to affect native plant species through different mechanisms such as allelopathy. This article investigates the phytotoxic effect of F. japonica on the resprouting capacity and the growth of three Salicaceae species with potential value for restoration. An experimental design which physically separates donor pots containing either an individual from F. japonica or bare soil from target pots containing cuttings of Populus nigra, Salix atrocinerea or Salix viminali was used. Leachates from donor pots were used to water target pots. The effects of leachates were evaluated by measuring the final biomass of the cuttings. F. japonica leachates inhibited the growth of cuttings, and this effect is linked to the emission of polyphenol compounds by F. japonica. Leachates also induced changes in soil nitrogen composition. These results suggest the existence of allelopathic effects, direct and/or indirect, of F. japonica on the growth of Salicaceae species cuttings. However, the three species were not equally affected, suggesting that the choice of resistant species could be crucial for restoration success.

Early response of willow to increasing silver concentration exposure

This is a preliminary hydroponic study to test willow sensitivity to silver nitrate, a highly toxic chemical compound. We grew willow cuttings for a period of three weeks in the presence of increasing AgNO(3) concentrations and assessed the response in terms of growth and physiology. We found that AgNO(3) is generally extremely harmful to willow. AgNO(3) concentration as high as 0.027 muM may result in a significant reduction of biomass productivity and a decrease in stomatal conductance over the first week of exposure. However, willows seem able to adapt to high AgNO(3) concentrations on a longer timeline.

Physiological and proteomic responses of different willow clones (Salix fragilis x alba) exposed to dredged sediment contaminated by heavy metals

High biomass producing species are considered as tools for remediation of contaminated soils. Willows (Salix spp.) are prominent study subjects in this regard. In this study, different willow clones (Salix fragilis x alba) were planted on heavy-metal polluted dredging sludge. A first objective was assessment of the biomass production for these clones. Using a Gupta statistic, four clones were identified as high biomass producers (HBP). For comparison, a group of four clones with lowest biomass production were selected (LBP). A second objective was to compare metal uptake as well as the physiological and proteomic responses of these two groups. All these complementary data's allow us to have a better picture of the health of the clones that would be used in phytoremediation programs. Cd, Zn, and Ni total uptake was higher in the HBPs but Pb total uptake was higher in LBPs. Our proteomic and physiological results showed that the LBPs were able to maintain cellular activity as much as the HBPs although the oxidative stress response was more pronounced in the LBPs. This could be due to the high Pb content found in this group although a combined effect of the other metals cannot be excluded.

Accumulation and response of willow plants exposed to environmental relevant sulfonamide concentrations

As a result of manure application to arable lands, agricultural ecosystems are often contaminated by veterinary antibiotics. In this study the aptitude of Salix fragilis L. to accumulate and tolerate sulfadimethoxine (SDM) was evaluated, together with the antibiotic effects on the plant development, with particular attention focused on roots. Results showed an antibiotic presence in root tissues, but not in leaves, after one month of SDM exposure to 0.01, 0.1, 1 and 10 mg l(-1). A hormetic growth of the hypogeal system was observed, however stress symptoms on the root development were only noticed after treatment to the highest dose. Results obtained from a second test, where new cuttings were exposed to 10 mg SDM l(-1) for different periods, suggested that willow tolerance to SDM increased with the exposure duration, probably because of the onset of particular acclimation mechanisms. Therefore, the present work indicates that this woody species could be utilized in the phytoremediation of sulfonamide antibiotics at doses comparable to that found in agricultural ecosystems once obtained appropriate confirmations through future studies at a laboratory and field scale.