Heterologous array analysis in Heterobasidion: hybridisation of cDNA arrays with probe from mycelium of S, P or F-types

Because of the close relatedness between three species of Heterobasidion annosum (P-type), Heterobasidion parviporum (S-type) and Heterobasidion abietinum (F-type), we investigated the possible use of arrays from one species for studies of gene expression in the other. Clones containing partial cDNAs from 94 identifiable genes expressed during spore germination and differentiation in H. parviporum were printed manually in six replications on nylon membranes. The membrane was hybridized with chemifluorescent labelled cDNA from actively growing mycelia of H. parviporum, H. annosum or H. abietinum, cultivated on a non-selective substrate. Product-moment correlation coefficient varied between 0.81 and 0.49. Due to the level of correlation, in the gene expression among the intersterility groups, we concluded that the cDNA array of one can be used to study gene expression in the others.     

针叶树基因组特征及其序列资源挖掘进展

针叶树是裸子植物中最大也是分布最广的一支。作为多年生木本植物,针叶树不仅为工业提供建筑、造纸等重要原料和其它可再生能源,而且在北半球的生态平衡中也起着重要作用。因其独特的分类地位、重要的经济价值和生态价值,针叶树序列资源挖掘备受重视。然而其庞大且复杂的基因组阻碍了这一进程,截至2013年4月,尚无获得全基因组序列的针叶树种。随着第2代测序技术的出现及生物信息学的快速发展,针叶树序列资源挖掘也从转录组过渡到全基因组测序,后者己在松属（Pinus）、云杉属（Picea）和黄杉属（Pseudotsuga）部分树种中开展。该文首次归纳了针叶树基因组特征．回顾了针叶树序列资源挖掘进程,并重点介绍了火炬松（Pinustaeda）、欧洲云杉（Piceaabies）和白云杉（Piceaglauca）的全基因组测序项目。     

Stomatal frequency adjustment of four conifer species to historical changes in atmospheric CO2

The species-specific inverse relation between atmospheric CO(2) concentration and stomatal frequency for many woody angiosperm species is being used increasingly with fossil leaves to reconstruct past atmospheric CO(2) levels. To extend our limited knowledge of the responsiveness of conifer needles to CO(2) fluctuations, the stomatal frequency response of four native North American conifer species (Tsuga heterophylla, Picea glauca, Picea mariana, and Larix laricina) to a range of historical CO(2) mixing ratios (290 to 370 ppmV) was analyzed. Because of the specific mode of leaf development and the subsequent stomatal patterning in conifer needles, the stomatal index of these species was not affected by CO(2). In contrast, a new measure of stomatal frequency, based on the number of stomata per millimeter of needle length, decreased significantly with increasing CO(2). For Tsuga heterophylla, the stomatal frequency response to CO(2) changes in the last century is validated through assessment of the influence of other biological and environmental variables. Because of their sensitive response to CO(2), combined with a high preservation capacity, fossil needles of Tsuga heterophylla, Picea glauca, P. mariana, and Larix laricina have great potential for detecting and quantifying past atmospheric CO(2) fluctuations.     

青杄PsbO基因cDNA序列克隆及生物信息学分析

利用RACE技术从已有的青杄均一化cDNA文库中克隆得到青杄(Picea wilsonii)PsbO基因cDNA的全长,并用生物信息学的方法对该cDNA的核苷酸序列、氨基酸序列的相似性,及编码蛋白PwPsbO的理化性质、亲水性/疏水性、二级和三级结构,PwPsbO基因进化树等进行了预测和分析.采用实时荧光定量PCR(RT-qPCR)技术,测定了青杄不同组织中的PsbO基因的相对表达水平.结果发现:青杄PsbO基因编码346个氨基酸,预测相对分子质量为36.6 kD,理论pI值为5.29,属于可溶性蛋白.二级和三级结构预测表明其含有较多的α螺旋、β折叠和随机卷曲结构.RT-qPCR发现该基因在青杄针叶和茎中表达量最高.这些结果为青杄中PsbO基因的初步功能研究奠定了基础.     

Conifer genetic engineering: transgenic Pinus radiata (D. Don) and Picea abies (Karst) plants are resistant to the herbicide Buster

A biolistic transformation procedure was applied to co-transform embryogenic tissue of Pinus radiata and Picea abies with two plasmid DNAs. The first vector contained the bar gene, specifying resistance to the herbicide glufosinate, under the control of the maize ubiquitin promoter. This plasmid also contained the Pinus radiata germin cDNA sequence, in either sense or antisense orientation, driven by the ubiquitin promoter. The second vector contained both the nptII gene under control of the CaMV 35S promoter for selection of transgenic tissue on geneticin and the uidA reporter gene under control of the double CaMV 35 promoter. Polymerase chain reaction analysis of selected geneticin-resistant tissue showed that the transformation rates for the co-bombarded plasmid were high in both Pinus radiata (75%) and Picea abies (86%). A combination of phenotypic analysis and Northern hybridisation demonstrated that a number of the transgenic lines expressed all four transgenes. Regenerated plantlets from Pinus radiata and Picea abies transgenic lines were spray-tested with commercial rates of Buster (glufosinate at 0.5, 1.0, 2.0 and 4.0 kg active ingredient per hectare). Transgenic plants survived and continued to grow with minor or no damage to their needles, whereas non-transgenic plants regenerated from the same cell lines died within 8 weeks of spraying. To our knowledge, this is the first report on genetically engineered herbicide resistance in conifers, and the results demonstrate that this trait is a feasible option for plantation forestry.     

Diterpene resin acid biosynthesis in loblolly pine (Pinus taeda): functional characterization of abietadiene/levopimaradiene synthase (PtTPS-LAS) cDNA and subcellular targeting of PtTPS-LAS and abietadienol/abietadienal oxidase (PtAO, CYP720B1)

Diterpene resin acids are prominent defense compounds against insect pests and pathogens in conifers. Biochemical and molecular analyses in grand fir (Abies grandis), Norway spruce (Picea abies), and loblolly pine (Pinus taeda) have identified two classes of genes and enzymes that generate much of the structural diversity of terpenoid defense compounds: The terpenoid synthases (TPS) and cytochrome P450 monooxgenases (P450). Using a single substrate, geranylgeranyl diphosphate, families of single-product and multi-product diterpene synthases generate an array of cyclic diterpene olefins. These diterpenes are converted to diterpene resin acids by activity of one or more P450 enzymes. A few conifer diterpene synthases have previously been cloned and characterized in grand fir and in Norway spruce. We have also previously shown that the loblolly pine P450 abietadienol/abietadienal oxidase (PtAO) catalyzes multiple oxidations of several diterpene alcohols and aldehydes. Conifer diterpene synthases are thought to function in plastids while P450s can also be localized to plastids or to the endoplasmic reticulum (ER). Here, we show that a loblolly pine cDNA (PtTPS-LAS) encodes a typical multi-product conifer diterpene synthase that forms levopimaradiene, abietadiene, palustradiene, and neoabietadiene similar to the grand fir abietadiene synthase and Norway spruce levopimaradiene/abietadiene synthase. Subcellular targeting of PtTPS-LAS and PtAO to plastids and ER, respectively, was shown with green fluorescent fusion protein expression in tobacco cells. These data suggest that enzymes for conifer diterpene resin acid biosynthesis are localized to at least two different subcellular compartments, plastids and ER, requiring efficient transport of intermediates and secretion of diterpene resin acids into the extracelluar space.     

Biochemical differences between embryogenic and nonembryogenic calli of conifers

Summary Embryogenic and nonembryogenic calli of loblolly pine (Pinus taeda), Eastern white pine (P. strobus), pond pine (P. serotina), white spruce (Picea glauca), and European larch (Larix decidua) were analyzed for biochemical parameters previously shown to be indicative of an embryogenic state in Norway spruce (Picea abies). Concentrations of glutathione and total reductants as well as rates of ethylene evolution and incorporation of radioactive leucine into protein in the two callus types were consistent with the Norway spruce observations. Embryogenic potential of loblolly pine and pond pine callus was predicted by biochemical analysis in advance of the appearance of somatic embryos. Other parameters such as isozyme patterns and SDS-PAGE of soluble proteins could also be used to distinguish embryogenic from nonembryogenic conifer callus. Among the species investigated, white spruce was the most difficult to sort by these methods.     

The hydraulic conductivity of the xylem in conifer needles (Picea abies and Pinus mugo)

Main resistances of the plant water transport system are situated in leaves. In contrast to angiosperm leaves, knowledge of conifer needle hydraulics and of the partitioning of resistances within needles is poor. A new technique was developed which enabled flow-meter measurements through needles embedded in paraffin and thus quantification of the specific hydraulic conductivity (K(s)) of the needle xylem. In Picea abies, xylem K(s) of needle and axes as well as in needles of different age were compared. In Pinus mugo, resistance partitioning within needles was estimated by measurements of xylem K(s) and leaf conductance (K(leaf), measured via 'rehydration kinetics'). Mean K(s) in P. abies needles was 3.5×10(-4) m(2) s(-1) MPa(-1) with a decrease in older needles, and over all similar to K(s) of corresponding axes xylem. In needles of P. mugo, K(s) was 0.9×10(-4) m(2) s(-1) MPa(-1), and 24% of total needle resistance was situated in the xylem. The results indicate species-specific differences in the hydraulic efficiency of conifer needle xylem. The vascular section of the water transport system is a minor but relevant resistance in needles.     

Seasonal and age-related variation in the needle quality of five conifer species

Summary Age changes of foliage resource quality (water, nitrogen, fibre, phenolics and toughness) were studied in five species of conifer (Pinus sylvestris L.), Picea abies (L.) Karsten, Tsuga heterophylla (Rafinesque) Sargent (all Pinaceae), Chamaecyparis lawsonian (Murray) Parlatore and Thuja plicata D. Don (both Cupressaceae) over a 2-year period in an English forest.Mature foliage of Pinus sylvestris was characterized by higher levels of nitrogen, fibre and toughness, and lower phenolics, and that of Tsuga heterophylla by higher levels of phenolics, and lower fibre and toughness levels, than the mature needles of the other species studied. Immature needles had higher levels of water and nitrogen, and lower levels of fibre and toughness, than older needles. Immature needles of Picea abies and Tsuga heterophylla had a high concentration of phenolics, which decreased with needle maturity. By mid-August, the levels of most of the foliar constituents in current-year needles had stabilized at levels maintained for the next year. Sampling revealed a fall in the concentration of phenolics, fibre and water in mature needles between March and June. Possible reasons for this seasonal trend are discussed. The levels of conifer foliar constituents were compared with levels recorded in broadleaf trees. Conifers had greater concentrations of all measured foliar constituents, but, with the exception of the six fold greater toughness of conifer needles, the differences between broadleaves and conifers were less than those between the immature and mature conifer needles. Previous studies have related the abundance of Lepidoptera on conifers to hostplant taxonomic relationships. However, the foliar constituents measured in this study were poor predictors of taxonomic relationships between the conifers. It is suggested that the abundance of Lepidoptera on conifers is not determined by levels of general foliar constituents and the role of other hostplant factors in shaping lepidopteran utilization of conifers is discussed.     

Basta tolerance as a selectable and screening marker for transgenic plants of Norway spruce

The bar gene conferring resistance to the herbicide Basta (containing phosphinothricin) was transferred to embryogenic cultures of Picea abies by particle bombardment and transformants were selected on Basta medium. In total, 83 9-month-old transgenic plants of Picea abies from six transformed sublines were analysed for continued tolerance to Basta. PCR analysis showed that the bar gene was present in all transformed plants but not in the control plants. Northern blot analysis showed differences in expression level among plants from the same subline as well as among sublines. A simple biotest for screening for Basta tolerance based on the colour change of detached needles induced by Basta was developed. The tolerance to Basta varied among the plants from different sublines. Needles from four of the sublines were resistant to 100 mg l⁻¹ phosphinothricin, a concentration inducing yellowing in control needles, while plants from the other two sublines were on average two to four times as resistant as untransformed control plants. The biotest enables rapid semi-quantitative monitoring for continued transgene expression in long-lived tree species. Received: 21 October 1999 / Revision received: 24 January 2000 / Accepted: 24 January 2000     

A promoter from the loblolly pine PtNIP1;1 gene directs expression in an early-embryogenesis and suspensor-specific fashion

The PtNIP1;1 gene encodes an aquaglyceroporin that is expressed early in embryogenesis and appears to be expressed preferentially in the suspensor [V.T. Ciavatta et al. (2001) Plant Physiol 127:211-224]. An 899-bp fragment 5' to the PtNIP1;1 open reading frame (NIP(-899)) was cloned from loblolly pine (Pinus taeda L.) genomic DNA and fused to the beta-glucuronidase (GUS) reporter gene. The resulting plasmid, pNIP-GUS, was transformed into Norway spruce (Picea abies L.) embryogenic cultures by co-bombarding with a plasmid containing a bar gene construct as a selectable marker. The identity of lines selected on medium containing the herbicide Basta and showing beta-glucuronidase activity was confirmed by polymerase chain reaction as harboring GUS. Histochemical GUS assays of these lines revealed GUS activity in all cells of proembryogenic masses. During early embryogeny, GUS staining was intense in the suspensor region but not detectable in embryonal masses. GUS staining was absent by mid-embryogeny. By contrast, a control transgenic line, transformed with EuCAD-GUS, expressed GUS throughout embryo development. These results suggest that NIP(-899) contains elements that drive early embryogenesis-specific expression and suspensor-specific expression. This is the first example of a suspensor-specific promoter in conifers.     

cDNA cloning of mRNAs induced in resistant barley during infection by Erysiphe graminis f.sp. Hordei

Summary Near-isogenic cultivars of Hordeum vulgare which differ for the Mlp gene for resistance to Erysiphe graminis f.sp. hordei were inoculated with race 3 of this pathogen and in vitro translation products of mRNA populations compared by 2-dimensional gel electrophoresis and fluorography. This revealed the presence of new mRNA species in infected leaves compared to non-inoculated controls. These new mRNA species were more abundant in resistant leaves than susceptible leaves. A cDNA library was prepared from poly(A)⁺RNA isolated from infected leaves carrying the Mlp gene for resistance (cvMlp). The library was screened by differential hybridization using [³²P]-labelled cDNA prepared from poly(A)⁺RNA of both control and infected leaves. Six cDNA clones showing greater hybridization to cDNA prepared from infected leaves were selected. These six cDNA clones hybridized to DNA isolated from barley leaves but not to DNA from conidia of the fungus. In Northern blot analysis of RNA from infected leaves the six cDNA clones each hybridized to mRNA species of different size. Translation products for three of the cDNA clones corresponded to infection-related translation products identified on 2-dimensional fluorograms. The cDNA clones were used to study the kinetics of host mRNA induction during infection of the near-isogenic cultivars of barley. The host mRNA species corresponding to the cDNA clones were induced prior to 24 h after inoculation during the primary penetration processes. In addition the mRNAs corresponding to four of the cDNA clones increased to greater amounts in cvMlp than in the near-isogenic susceptible cultivar (cvmlp) over a 2-d period following inoculation. These results suggest that the Mlp gene has a regulatory role in host gene expression resulting in enhanced expression of several host mRNA species following infection by the powdery mildew fungus.     

Comparison of gene expression measurements from cDNA and 60-mer oligonucleotide microarrays

As the data generated by microarray technology continue to amass, it is necessary to compare and combine gene expression data from different platforms. To evaluate the performance of cDNA and long oligonucleotide (60-mer) arrays, we generated gene expression profiles for two cancer cell lines and compared the data between the two platforms. All 6182 unique genes represented on both platforms were included in the analysis. A limited correlation (r = 0.4708) was obtained and the difference in measurement of low-expression genes was considered to contribute to the limited correlation. Further restriction of the data set to differentially expressed genes detected in cDNA microarrays (1205 genes) and oligonucleotide arrays (1325 genes) showed modest correlations of 0.7076 and 0.6441 between the two platforms. Quantitative real-time PCR measurements of a set of 10 genes showed better correlation with oligonucleotide arrays. Our results demonstrate that there is substantial variation in the data generated from cDNA and 60-mer oligonucleotide arrays. Although general agreement was observed in measurements of differentially expressed genes, we suggest that data from different platforms could not be directly amassed.     

Early induced protein 1 (PrELIP1) and other photosynthetic, stress and epigenetic regulation genes are involved in Pinus radiata D. don UV-B radiation response

The continuous atmospheric and environmental deterioration is likely to increase, among others, the influx of ultraviolet B (UV-B) radiation. The plants have photoprotective responses, which are complex mechanisms involving different physiological responses, to avoid the damages caused by this radiation that may lead to plant death. We have studied the adaptive responses to UV-B in Pinus radiata, given the importance of this species in conifer forests and reforestation programs. We analyzed the photosynthetic activity, pigments content, and gene expression of candidate genes related to photosynthesis, stress and gene regulation in needles exposed to UV-B during a 96 h time course. The results reveal a clear increase of pigments under UV-B stress while photosynthetic activity decreased. The expression levels of the studied genes drastically changed after UV-B exposure, were stress related genes were upregulated while photosynthesis (RBCA and RBCS) and epigenetic regulation were downregulated (MSI1, CSDP2, SHM4). The novel gene PrELIP1, fully sequenced for this work, was upregulated and expressed mainly in the palisade parenchyma of needles. This gene has conserved domains related to the dissipation of the UV-B radiation that give to this protein a key role during photoprotection response of the needles in Pinus radiata.     

Organogenesis in vitro of tissues from mature conifers

Summary Shoot and embryolike structures were obtained in cultures of various tissues of mature conifer trees. Morphogenesis occurred in haploid and diploid tissues of female cones ofPinus mugo andPicea abies, although only rarely. Vegetative shoots dissected from early spring buds ofAbies balsamea, Picea glauca, andPseudotsuga menziesii were more responsive, with most of the organized growth occurring at the base of young needles. The following sequence of treatments was most effective: (a) collect twigs with buds shortly before budbreak, (b) cold store for at least 1 month, (c) force buds to break before excision of the vegetative shoots (keep submerged in water during excision), and (d) soak explant in malonic acid, 1 g/l, for 15 min before transfer of the shoots to the nutrient medium.     

Effects of an enhanced ultraviolet-B irradiation on photosynthetic apparatus of several forest coniferous tree species from different locations

The effect of UV-B on the photosynthetic apparatus of coniferous trees: Picea abies (L.) Karst., Picea pungens (Engelm.), Pinus sylvestris (L.), Pinus cembra (L.) and Abies alba (Mill.) was investigated. Three and four-year-old plantlets coming from different latitudes, longitudes and altitudes were used. The experiment was carried out in greenhouse. Two doses of ultraviolet-B irradiation were applied: control=0, low dose=11.32 and high dose=22.64 kJ·m⁻²·d⁻¹ UV-B_BE (biologically effective irradiance of UV-B). Measurements of chlorophyll fluorescence, gas exchange, chlorophyll and flavonoids content were carried out. Response of forest trees to an increased UV-B radiation depends on species, location of place of pantalets collecting and UV-B dose. Pinus cembra, Picea abies and Pinus sylvestris from high altitude (1000 m a.s.l.) were less sensitive to UV-B than these from plain location. The altitude determined adaptation of forest coniferous trees to an enhanced UV-B radiation much more than the latitudinal gradient. Permanent discoloration was observed only on the young needles of the fir plantlets that were grown in light limiting conditions. Photosynthetic parameters were affected by the UV-B radiation. Both maximal and the steady state fluorescence of chlorophyll were reduced as a consequence of elevated UV-B in case of some species. The chlorophyll content was enhanced, increased or was not affected according to species and to locations. The flavonoids content in the needles increased with chlorophyll content at both UV-B treatments. An opposite trend was found in the control. The increased content of screening pigments in the needles of all the tested coniferous trees was detected. Picea abies and Picea pungens photosynthesis response curves to the light and to the intercellular CO₂ concentration did not change significantly under increased UV-B because of higher concentration in screening pigments in leaves. The increased concentration of flavonoids in forest litter may lead to changes in the biogeochemical cycle in the forest ecosystem.