Genetic diversity of Darnel (Lolium temulentum L.) in Malo, Ethiopia depends on traditional farming systems

Genetic Diversity of Darnel (Lolium temulentum L.) in Malo, Ethiopia Depends on Traditional Farming Systems. Economic Botany 58(4):568–577, 2004. Darnel (Lolium temulentum L.) is a mimic weed associated with wheat and barley cultivation. Mimic weeds have evolved along with cultivated crops. Human impact on the genetic diversity of agricultural weeds was elucidated using darnel as a model. Three strains in each field in Gaitza village, Malo region, Ethiopia were randomly sampled, and the genetic composition of 120 samples was analyzed using RAPD analysis. Genetic diversity and distances were calculated using Nei’s analysis, and cluster analysis was performed. These results indicated the occurrence of seed migration among the fields and a high genetic diversity of darnel in this region. Crop seed exchange and contamination of crop seeds with darnel seeds lead to the unintended artificial gene flow of darnel. Because darnel seeds and seedlings resemble their associated crop seeds and seedlings, traditional methods of crop cultivation have the unintended consequence of conserving the genetic diversity of darnel.     

Variation within flax (Linum usitatissimum) and barley (Hordeum vulgare) in response to allelopathic chemicals

Summary A possible method of manipulating allelopathy would be to develop crop varieties showing an increased tolerance to allelopathic chemicals. We therefore examined four flax (Linum usitatissimum) varieties and two wild Linum species in the presence of p-coumaric acid and four barley (Hordeum vulgare) varieties in the presence of p-coumaric acid, scopoletin and wild oat (Avena fatua) extract. Analysis of variance indicates significant interaction between variety and treatment for shoot and root growth for seedling flax, shoot growth for older flax, and root growth for seedling barley. These differences in tolerance between varieties could be exploited to develop-varieties with greater tolerances to the allelochemicals produced by weeds or in crop residues and therefore potentially more tolerant of the presence of weeds.     

Intracellular magnetophoresis of amyloplasts and induction of root curvature

High-gradient magnetic fields (HGMFs) were used to induce intracellular magnetophoresis of amyloplasts. The HGMFs were generated by placing a small ferromagnetic wedge into a uniform magnetic field or at the gap edge between two permanent magnets. In the vicinity of the tip of the wedge the dynamic factor of the magnetic field, (H²/2), was about 10⁹ Oe² · cm^–1, which subjected the amyloplasts to a force comparable to that of gravity. When roots of 2-d-old seedlings of flax (Linum usitatissimum L.) were positioned vertically and exposed to an HGMF, curvature away from the wedge was transient and lasted approximately 1 h. Average curvature obtained after placing magnets, wedge and seedlings on a 1-rpm clinostat for 2 h was 33 ± 5 degrees. Roots of horizontally placed control seedlings without rotation curved about 47 ± 4 degrees. The time course of curvature and changes in growth rate were similar for gravicurvature and for root curvature induced by HGMFs. Microscopy showed displacement of amyloplasts in vitro and in vivo. Studies with Arabidopsis thaliana (L.) Heynh. showed that the wild type responded to HGMFs but the starchless mutant TC7 did not. The data indicate that a magnetic force can be used to study the gravisensing and response system of roots.Abbreviations HGMF high-gradient magnetic field - emu electromagnetic units - Oe Oersted We thank Dr. John Kiss, Miami University, Ohio for providing the Arabidopsis seeds. This work was supported by NASA grant NAGW-3656     

The use of the phosphomannose isomerase gene as alternative selectable marker for Agrobacterium-mediated transformation of flax (Linum usitatissimum)

In order to meet the future requirement of using non-antibiotic resistance genes for the production of transgenic plants, we have adapted the selectable marker system PMI/mannose to be used in Agrobacterium-mediated transformation of flax (Linum usitatissimum L.) cv. Barbara. The Escherichia coli pmi gene encodes a phosphomannose isomerase (E.C. 5.1.3.8) that converts mannose-6-phosphate, an inhibitor of glycolysis, into fructose-6-phosphate (glycolysis intermediate). Its expression in transformed cells allows them to grow on mannose-selective medium. The Agrobacterium tumefaciens strain GV3101 (pGV2260) harbouring the binary vector pNOV2819 that carries the pmi gene under the control of the Cestrum yellow leaf curling virus constitutive promoter was used for transformation experiments. Transgenic flax plants able to root on mannose-containing medium were obtained from hypocotyl-derived calli that had been selected on a combination of 20 g L⁻¹ sucrose and 10 g L⁻¹ mannose. Their transgenic state was confirmed by PCR and Southern blotting. Transgene expression was detected by RT-PCR in leaves, stems and roots of in vitro grown primary transformants. The mean transformation efficiency of 3.6%, that reached 6.4% in one experiment was comparable to that obtained when using the nptII selectable marker on the same cultivar. The ability of T1 seeds to germinate on mannose-containing medium confirmed the Mendelian inheritance of the pmi gene in the progeny of primary transformants. These results indicate that the PMI/mannose selection system can be successfully used for the recovery of flax transgenic plants under safe conditions for human health and the environment.     

Growth inhibitory effect of peel extract from Citrus junos

Extract from yuzu fruit peel (Citrus junos Sieb. ex Tanaka) strongly suppressed the germination of lettuce seeds while that from the peel of other citrus fruits such as navel orange (C. sinensis) and lemon (C. limon Burm. f.) had very little or no effect. The highest inhibitory activity was located in the peel followed by the segment but no significant activity was found in the seed extract of yuzu fruit. The effect of yuzu peel extract was tested on a variety of major crops including 38 crop species. Germination of seeds of tomato (Lycopersicon esculentum Mill.), celery (Apium graveolens L. var. dulce) and watercress (Nasturtium officinale R. Br.) was completely blocked by 27.8 mg dry peel equivalent ml^–1 of yuzu peel extract, while that of cucumber (Cucumis sativus L.) and pumpkin (Cucurbita moschata [Duch. ex Lam.] Duch. ex Poir.) seeds was not affected at this concentration, showing a broad variation in the sensitivity of crop seeds to the extract. The effectiveness of yuzu peel was also tested on some harmful weeds. The extract inhibited the elongation of both radicle and hypocotyl in summer weed quinoa (Chenopodium quinoa) grown on agar plates. Yuzu peel powder added to the soil was also effective in suppressing the growth of C. quinoa, Sonchus oleraceus L. and Digitaria ciliaris, while it had little effect on the spring weed Alopecurus aequalis Sobol. A strong growth inhibitory activity of yuzu peel was found in the aqueous phase after solvent extraction and most of the activity was recovered in the neutral fraction that passed through cation and anion exchange resins.     

Developing a transposon tagging system to isolate rust-resistance genes from flax

Summary A line of flax, homozygous for four genes controlling resistance to flax rust, was transformed with T-DNA vectors carrying the maize transposable elements Ac and Ds to assess whether transposition frequency would be high enough to allow transposon tagging of the resistance genes. Transposition was much less frequent in flax than in Solanaceous hosts such as tobacco, tomato and potato. Transposition frequency in callus tissue, but not in plants, was increased by modifications to the transposase gene of Ac. Transactivation of the excision of a Ds element was achieved by expressing a cDNA copy of the Ac transposase gene from the Agrobacterium T-DNA 2 promoter. Progeny of three plants transformed with Ac and 15 plants transformed with Ds and the transposase gene, were examined for transposition occurring in the absence of selection. Transposition was observed in the descendants of only one plant which contained at least nine copies of Ac. Newly transposed Ac elements were observed in 25–30% of the progeny of some members of this family and one active Ac element was located 28.8 (SE=6.3) map units from the L ⁶ rust-resistance gene. This family will be potentially useful in our resistance gene tagging program.     

Transgenic flax with environmentally and agronomically sustainable attributes

Among the major concerns raised about the commercialization of transgenic herbicide-resistant crop cultivars are the fear that such lines will increase chemical usage and non-sustainable agronomic practices, that the transgenes will not be efficacious under field conditions, or that there will be an agronomic penalty, such as reduced seed yield, in exchange for the new trait. To address these concerns, transgenic sulfonylurea-resistant flax (Linum usitatissimum L.) lines were tested in replicated, randomized field trials over three years. The results show that at least one transgenic line is fully resistant to the field doses of the herbicides, shows no agronomic penalties regardless of the presence or absence of the herbicides, and will lead to less chemical usage and more sustainable agronomic practices in commercial production.     

An alternative method of flax retting during dry weather

During exceptionally dry and hot weather undesiccated flax (Linum usitatissi-murri) and flax desiccated with glyphosate that was pulled and laid on the ground to dew-ret, retted 1–2 wk before flax that was desiccated and left as a standing crop. This was because dew-retted flax was colonised by fungi faster than that left standing. Cladosporium herbarum, Epicocum nigrum and yeast, including Aureoba-sidium pullulans, appeared first; they were followed by Alternaria alternata, Fusarium culmorum and Phoma, Mucor and Rhizopus species. The standing crop retted more slowly despite the presence of greater concentrations of cell-wall degrading enzymes. However, the fibres of flax retted as a standing crop retained more of their strength than those of flax retted on the ground. Thus dew-retting provides means of retting when the weather is dry and hot.     

Evidence of the domestication history of flax (Linum usitatissimum L.) from genetic diversity of the sad2 locus

A phylogenetic analysis was conducted on 34 alleles of 2.5 kb sized stearoyl-ACP desaturase II (sad2), obtained from 30 accessions of cultivated and pale flax (Linum spp.), to elucidate the history of flax domestication. The analysis supports a single domestication origin for extant cultivated flax. The phylogenetic evidence indicates that flax was first domesticated for oil, rather than fibre. The genetic diversity of the sad2 locus in cultivated flax is low when compared to that of the pale flax assayed. An absolute archaeological date could be applied to the synonymous substitution rate of sad2 in cultivated flax, yielding a high estimate of 1.60–1.71×10⁻⁷ substitutions/site/year. The occurrence of nonsynonymous substitutions at conserved positions of the third exon in alleles from cultivated flax suggests that the locus may have been subjected to an artificial selection pressure. The elevated synonymous substitution rate is also compatible with a population expansion of flax since domestication, followed by a population decline in historic times. These findings provide new insight into flax domestication and are significant for the continuous exploration of the flax germplasm for utilization.     

Cadmium uptake and bioaccumulation in selected cultivars of durum wheat and flax as affected by soil type

Accumulation of cadmium (Cd) in crop plants is of great concern due to the potential for food chain contamination through the soil-root interface. Although Cd uptake varies considerably with plant species, the processes which determine the accumulation of Cd in plant tissues are affected by soil factors. The influence of soil type on Cd uptake by durum wheat (Triticum turgidum var. durum L.) and flax (Linum usitatissimum L.) was studied in a pot experiment under environmentally controlled growth chamber conditions. Four cultivars/lines of durum wheat (Kyle, Sceptre, DT 627, and DT 637) and three cultivars/lines of flax (Flanders, AC Emerson, and YSED 2) were grown in two Saskatchewan soils: an Orthic Gray Luvisol (low background Cd concentration; total/ABDTPA extractable Cd: 0.12/0.03 mg kg^-1, respectively) and a Dark Brown Chernozem (relatively high background Cd concentration; total/ABDTPA Cd: 0.34/0.17 mg kg^-1 respectively). Plant roots, stems, newly developed heads, and grain/seeds were analyzed for Cd concentration at three stages of plant growth: two and seven weeks after germination, and at plant maturity. The results showed that Cd bioaccumulation and distribution within the plants were strongly affected by both soil type and plant cultivar/line. The Cd concentration in roots leaves and stems varied at different stages of plant growth. However, all cultivars of both plant species grown in the Chernozemic soil accumulated more Cd in grain/seeds than plants grown in the Orthic Gray Luvisol soil. The different Cd accumulation pattern also corresponded to the levels of ABDTPA extractable and metal-organic complex bound soil Cd found in both soils. Large differences were found in grain Cd among the durum wheat cultivars grown in the same soil type, suggesting the importance of rhizosphere processes in Cd bioaccumulation and/or Cd transport processes within the plant. Distribution of Cd in parts of mature plants showed that durum grain contained up to 21 and 36% of the total amount of Cd taken up by the plants for the Orthic Gray Luvisol and Chernozemic soils, respectively. These results indicate the importance of studying Cd speciation, bioaccumulation and cycling in the environment for the management of agricultural soils and crops.     

Agricultural recovery of a formerly radioactive area: I. Establishment of high-resolution quantitative protein map of mature flax seeds harvested from the remediated Chernobyl area

In recent years there has been an increasing tendency toward remediation of contaminated areas for agriculture purposes. The study described herein is part of a comprehensive, long-term characterization of crop plants grown in the area formerly contaminated with radioactivity. As a first step, we have established a quantitative map of proteins isolated from mature flax (Linum usitatissimum L.) seeds harvested from plants grown in a remediated plot localized directly in Chernobyl town. Flax was selected because it is a crop of economic and historical importance, despite the relative paucity of molecular resources. We used 2-dimensional electrophoresis followed by tandem mass spectrometry to establish a high-resolution seed proteome map. This approach yielded quantitative information for 318 protein spots. Genomic sequence resources for flax are very limited, leaving us with an “unknown function” annotation for 38% of the proteins analyzed including several that comprise very large spots. In addition to the seed storage proteins, we were able to reliably identify 82 proteins many of which are involved with central metabolism.     

Agricultural recovery of a formerly radioactive area: II. Systematic proteomic characterization of flax seed development in the remediated Chernobyl area

Molecular characterization of crop plants grown in remediated, formerly radioactive, areas could establish a framework for future agricultural use of these areas. Recently, we have established a quantitative reference map for mature flax seed proteins (Linum usitatissimum L.) harvested from a remediated plot in Chernobyl town. Herein we describe results from our ongoing studies of this subject, and provide a proteomics-based characterization of developing flax seeds harvested from same field. A quantitative approach, based on 2-dimensional electrophoresis (2-DE) and tandem mass spectrometry, yielded expression profiles for 379 2-DE spots through seed development. Despite the paucity of genomic resources for flax, the identity for 102 proteins was reliably determined. These proteins were sorted into 11 metabolic functional classes. Proteins of unknown function comprise the largest group, and displayed a pattern of decreased abundance throughout seed development. Analysis of the composite expression profiles for metabolic protein classes revealed specific expression patterns during seed development. For example, there was an overall decrease in abundance of the glycolytic enzymes during seed development.     

Dynamic reorganization of microtubules and microfilaments in flax cells during the resistance response to flax rust infection

The cytoskeleton in plant cells is a dynamic structure that can rapidly respond to extracellular stimuli. Alteration of the organization of microtubules and actin microfilaments was examined in mesophyll cells of flax, Linum usitatissimum L., during attempted infection by the flax rust fungus, Melampsora lini (Ehrenb.) Lev. Flax leaves that had been inoculated with either a compatible (yielding a susceptible reaction) or an incompatible (yielding a resistant reaction) strain of M. lini were embedded in butyl-methylmethacrylate resin; sections of this material were immunofluorescently labelled with anti-tubulin or anti-actin and examined using confocal laser scanning microscopy. In uninfected leaves, microtubules in the mesophyll cells formed a transverse array in the cell cortex. Microfilaments radiated through the cytoplasm from the nucleus. In an incompatible interaction, microtubules and microfilaments were extensively reorganized in mesophyll cells that were in contact with fungal infection hyphae or haustorial mother cells before penetration of the cell by the infection peg. After the initiation of haustorium development, microtubules disappeared from the infected cells, and growth of the haustoria ceased. In an incompatible interaction, hypersensitive cell death occurred in more than 70% of infected cells but occurred in less than 20% of cells in compatible interactions. After the infected cell had undergone hypersensitive cell death, the cytoskeleton in neighbouring cells became focused on the walls shared with the necrotic cell. In compatible interactions, reorganization of the cytoskeleton was either not observed at all or was observed much less frequently up to 48 h after inoculation.Abbreviations FITC fluorescein isothiocyanate - WGA wheatgerm agglutinin We thank Dr. G.J. Lawrence for providing valuable discussions and materials.     

Predation of annual grass weed seeds in arable field margins

Seeds of three species of annual grass weeds (Alopecurus myosuroides, Avena fatua and Bromus sterilis) were placed in field margins around arable fields in a randomised block split-plot design experiment. The field margin vegetation was either sown or naturally regenerated and either cut or uncut. The seeds were either placed in cages designed to exclude small mammals and birds or were uncaged. The proportion of seeds removed was monitored on 10 occasions and mean seed loss was analysed. In general, a greater proportion of weed seeds was removed from uncaged trays in uncut swards, suggesting predation by small mammals, which inhabit tall grass. This effect was mainly due to removal of seeds of the two large-seeded species (A. fatua and B. sterilis), with A. fatua being especially favoured. It is therefore likely that small mammals play a role in the population dynamics of major crop weeds by feeding on their seeds in field margins, especially when these are dense and uncut.     

Effect of medium osmotic potential on callus induction and shoot regeneration in flax anther culture

Development of an efficient and cost-effective doubled haploid production system in flax (Linum usitatissimum L.) is the prerequisite for the application of doubled haploid technology in a practical breeding program. Pre-culture of anthers on a medium containing 15% sucrose for 2–7 days before transfer to the same medium containing 6% sucrose for a total of 28 days culture period significantly increased shoot regeneration for all four genotypes evaluated. Moreover, pre-culture of anthers on medium containing 15% sucrose for 2–7 days was sufficient to dramatically reduce the frequency of shoot regeneration from somatic tissues and thereby to increase the frequency of microspore-derived plants in flax anther culture. Furthermore, replacing 15% sucrose with 6% sucrose and 9% polyethylene glycol (PEG), or 3% sucrose and 12% PEG, in pre-culture medium did not significantly affect callus induction and shoot regeneration. The results indicate that sucrose may act as carbon/energy source as well as an osmotic regulator in flax anther culture. Sucrose as an osmotic regulator may be replaced by a non-metabolizable osmoticum: PEG. The implication of this study in flax anther culture and breeding is discussed.     

Stress tolerance in flax plants inoculated with Bacillus and Azotobacter species under deficit irrigation

Drought stress affects not only crop growth but also its morpho-physiological and biochemical traits to reduce crop productivity. The study reported in this article was designed and implemented to determine the effects of deficit irrigation and bacterial inoculation on flax plants. For this purpose, seeds were inoculated with Bacillus amyloliquefaciens (B₁), Bacillus sp. Strain1 (B₂), and Azotobacter chroococcum (A) as plant growth promoting rhizobacteria (PGPR). The individual inoculated plants were then grown under field conditions in 2015, while individually and in combination in pots in 2016. The irrigation regimes in either experiments included 50, 75 and 100% crop water requirement. Bacterial cultures were observed to produce ammonia (except B₂), indole acetic acid and siderophores. Results showed that the PGPRs significantly mitigated the effects of water deficit. Compared with the control plants, the bacterially-inoculated plants had an enhanced relative water content, plant height, water-soluble carbohydrate and proline contents and antioxidant enzyme activities, but a decreased malondialdehyde content. B₁ exhibited greater effects on most of the traits investigated under the field conditions rather than those with moderate and severe drought stress, while application of the triple bacteria in pots had greater effects on relative water content, carbohydrate and proline contents as well as malondialdehyde. The significant differences in abiotic stress indicators in PGPR-treated plants suggest that these bacteria could be used as biofertilizers to assist plant growth and to reduce the adverse effects of deficit irrigation.     

In vitro metabolism of flax lignans by ruminal and faecal microbiota of dairy cows

Aims: To determine the in vitro conversion of plant lignans from two flax products (hull and seed) into the mammalian lignans, enterolactone and enterodiol, by bovine ruminal and faecal microbiota. Methods and Results: Flax seeds and hulls were incubated in vitro over a 96-h time course with ruminal or faecal inoculum. Plant lignans in flax seeds and hulls averaged 9·2 and 32·0 nmol mg⁻¹, respectively. The highest net production of enterodiol at 72 and 96 h of incubation was obtained with flax hulls incubated with faecal microbiota. There was no difference in net production of enterodiol between flax products within the first 24 h of incubation. In general, net production of enterolactone over the 96-h time course was significantly higher for flax products incubated with ruminal than with faecal microbiota. Net production of enterolactone at 72 and 96 h of incubation was greater for flax hulls than flax seeds. Conclusions: Results of the present experiment suggest that, of the metabolites studied, the main mammalian lignan metabolite produced from flax hulls and seeds by ruminal microbiota is enterolactone while faecal microbiota leads mainly to the net production of enterodiol. Significance and Impact of the Study: This research will improve the understanding of the metabolic pathway of mammalian lignans in dairy cows, in order to enable targeted manipulation of their quantities in milk.     

The genome of flax (Linum usitatissimum) assembled de novo from short shotgun sequence reads

Flax (Linum usitatissimum) is an ancient crop that is widely cultivated as a source of fiber, oil and medicinally relevant compounds. To accelerate crop improvement, we performed whole‐genome shotgun sequencing of the nuclear genome of flax. Seven paired‐end libraries ranging in size from 300 bp to 10 kb were sequenced using an Illumina genome analyzer. A de novo assembly, comprised exclusively of deep‐coverage (approximately 94× raw, approximately 69× filtered) short‐sequence reads (44–100 bp), produced a set of scaffolds with N₅₀ = 694 kb, including contigs with N₅₀ = 20.1 kb. The contig assembly contained 302 Mb of non‐redundant sequence representing an estimated 81% genome coverage. Up to 96% of published flax ESTs aligned to the whole‐genome shotgun scaffolds. However, comparisons with independently sequenced BACs and fosmids showed some mis‐assembly of regions at the genome scale. A total of 43 384 protein‐coding genes were predicted in the whole‐genome shotgun assembly, and up to 93% of published flax ESTs, and 86% of A. thaliana genes aligned to these predicted genes, indicating excellent coverage and accuracy at the gene level. Analysis of the synonymous substitution rates (K_s) observed within duplicate gene pairs was consistent with a recent (5–9 MYA) whole‐genome duplication in flax. Within the predicted proteome, we observed enrichment of many conserved domains (Pfam‐A) that may contribute to the unique properties of this crop, including agglutinin proteins. Together these results show that de novo assembly, based solely on whole‐genome shotgun short‐sequence reads, is an efficient means of obtaining nearly complete genome sequence information for some plant species.     

Antisense transgenesis of tobacco with a flax pectin methylesterase affects pollen ornamentation

Summary. Antisense transgenesis of tobacco (Nicotiana tabacum) with a partial flax (Linum usitatissimum L.) pectin methylesterase (Lupme3) cDNA sequence yielded plants with altered pollen content. Moreover, the characteristically sculptured cell wall surrounding the pollen grains was modified in transgenic tobacco plants: the wavy ornamentation was dramatically reduced, suggesting the involvement of the demethylation of pectin in the pollen cell wall-specific structure. Germination of pollen was decreased and the pollen tube surface aspect was also different in transgenic plants.Correspondence and reprints: Laboratoire de Biotechnologies et Physiologie Végétales, Faculté des Sciences, Université de Picardie Jules Verne, 33 rue Saint-Leu, 80039 Amiens Cedex, France.