bluuebunny/crossref_metadata_2025 huggingface dataset:
Green Extraction of Alkaloids and Polyphenols from Peumus boldus Leaves with Natural Deep Eutectic Solvents and Profiling by HPLC-PDA-IT-MS/MS and HPLC-QTOF-MS/MS
Authors: Torres-Vega Jeniffer , Gómez-Alonso Sergio , Pérez-Navarro José , Pastene-Navarrete Edgar
Published: February 2020

Peumus boldus Mol., is a Chilean medicinal tree used for gastrointestinal and liver diseases. Such medicinal properties are associated with the presence of bioactive flavonoids and aporphine alkaloids. In this study, a new green and efficient extraction method used seven natural deep eutectic solvents (NADES) as extraction media. The extraction efficiency of these NADES was assessed, determining the contents of boldine and total phenolic compounds (TPC). Chemical profiling of P. boldus was done by high-performance liquid chromatography coupled to photo diode array detector and electrospray ion-trap mass spectrometry (HPLC-PDA-ESI-IT/MS) and electrospray ionization quadrupole time-of-flight high-resolution mass spectrometry (HPLC-ESI-QTOF-MS). Among the NADES tested, NADES4 (choline chloride-lactic acid) and NADES6 (proline-oxalic acid) enable better extraction of boldine with 0.427 ± 0.018 and 2.362 ± 0.055 mg of boldine g−1 of plant, respectively. Extraction of boldine with NADES4 and NADES6 was more efficient than extractions performed with methanol and water. On the other hand, the highest TPC were obtained using NADES6, 179.442 ± 3.79 mg of gallic acid equivalents (GAE g−1). Moreover, TPC in extracts obtained with methanol does not show significant differences with NADES6. The HPLC-PAD-MS/MS analysis enable the tentative identification of 9 alkaloids and 22 phenolic compounds. The results of this study demonstrate that NADES are a promising green extraction media to extract P. boldus bioactive compounds and could be a valuable alternative to classic organic solvents.
Physiological and Biochemical Mechanisms Mediated by Allelochemical Isoliquiritigenin on the Growth of Lettuce Seedlings
Authors: Zhang Shuang , Sun Shi-Wei , Shi Hai-Lin , Zhao Ke , Wang Jin , Liu Yang , Liu Xiao-Hong , Wang Wei
Published: February 2020

Isoliquiritigenin, a natural chalcone-type flavonoid, has been recognized as an allelochemical with phytotoxicity to lettuce; however, not enough attention has been paid to the mechanisms of this secondary metabolite. In this work, we investigated the physiological and biochemical mechanisms of isoliquiritigenin on lettuce seedlings. The results show that isoliquiritigenin has a concentration-dependent inhibitory effect on radicle elongation of lettuce seedlings, but no significant impact on lettuce germination. Microscopy analyses suggest that the surface morphology of lettuce radicle tips was atrophied and the intracellular tissue structure deformed at high concentrations. Isoliquiritigenin induced the overproduction of reactive oxygen species (ROS), which led to loss of cell viability in the radicle cells. In addition, malondialdehyde (a product of lipid peroxidation) and free proline levels were found to have increased, while chlorophyll content in lettuce seedlings decreased. All these changes suggest that the primary allelopathic mechanism of isoliquiritigenin by which it inhibits radicle elongation in lettuce seedlings might be due to the overproduction of ROS, which causes oxidative damage to membrane lipids and cell death.
Leaf-Wounding Long-Distance Signaling Targets AtCuAOβ Leading to Root Phenotypic Plasticity
Authors: Fraudentali Ilaria , Rodrigues-Pousada Renato A. , Tavladoraki Paraskevi , Angelini Riccardo , Cona Alessandra
Published: February 2020

The Arabidopsis gene AtCuAOβ (At4g14940) encodes an apoplastic copper amine oxidase (CuAO) highly expressed in guard cells of leaves and flowers and in root vascular tissues, especially in protoxylem and metaxylem precursors, where its expression is strongly induced by the wound signal methyl jasmonate (MeJA). The hydrogen peroxide (H2O2) derived by the AtCuAOβ-driven oxidation of the substrate putrescine (Put), mediates the MeJA–induced early root protoxylem differentiation. Considering that early root protoxylem maturation was also induced by both exogenous Put and leaf wounding through a signaling pathway involving H2O2, in the present study we investigated the role of AtCuAOβ in the leaf wounding-induced early protoxylem differentiation in combination with Put treatment. Quantitative and tissue specific analysis of AtCuAOβ gene expression by RT-qPCR and promoter::green fluorescent protein-β-glucuronidase fusion analysis revealed that wounding of the cotiledonary leaf induced AtCuAOβ gene expression which was particularly evident in root vascular tissues. AtCuAOβ loss-of-function mutants were unresponsive to the injury, not showing altered phenotype upon wounding in comparison to wild type seedlings. Exogenous Put and wounding did not show synergy in inducing early root protoxylem maturation, suggesting their involvement in a shared signaling pathway.
Variations in Nitrogen Metabolism are Closely Linked with Nitrogen Uptake and Utilization Efficiency in Cotton Genotypes under Various Nitrogen Supplies
Authors: Iqbal Asif , Dong Qiang , Wang Xiangru , Gui Huiping , Zhang Hengheng , Zhang Xiling , Song Meizhen
Published: February 2020

Cotton production is highly sensitive to nitrogen (N) fertilization, whose excessive use is responsible for human and environmental problems. Lowering N supply together with the selection of N-efficient genotypes, more able to uptake, utilize, and remobilize the available N, could be a challenge to maintain high cotton production sustainably. The current study aimed to explore the intraspecific variation among four cotton genotypes in response to various N supplies, in order to identify the most distinct N-efficient genotypes and their nitrogen use efficiency (NUE)-related traits in hydroponic culture. On the basis of shoot dry matter, CCRI-69 and XLZ-30 were identified as N-efficient and N-inefficient genotypes, respectively, and these results were confirmed by their contrasting N metabolism, uptake (NUpE), and utilization efficiency (NUtE). Overall, our results indicated the key role of shoot glutamine synthetase (GS) and root total soluble protein in NUtE. Conversely, tissue N concentration and N-metabolizing enzymes were considered as the key traits in conferring high NUpE. The remobilization of N from the shoot to roots by high shoot GS activity may be a strategy to enhance root total soluble protein, which improves root growth for N uptake and NUE. In future, multi-omics studies will be employed to focus on the key genes and pathways involved in N metabolism and their role in improving NUE.
Alternative Polyadenylation and Salicylic Acid Modulate Root Responses to Low Nitrogen Availability
Authors: Conesa Carlos M. , Saez Angela , Navarro-Neila Sara , de Lorenzo Laura , Hunt Arthur G. , Sepúlveda Edgar B. , Baigorri Roberto , Garcia-Mina Jose M. , Zamarreño Angel M. , Sacristán Soledad , del Pozo Juan C.
Published: February 2020

Nitrogen (N) is probably the most important macronutrient and its scarcity limits plant growth, development and fitness. N starvation response has been largely studied by transcriptomic analyses, but little is known about the role of alternative polyadenylation (APA) in such response. In this work, we show that N starvation modifies poly(A) usage in a large number of transcripts, some of them mediated by FIP1, a component of the polyadenylation machinery. Interestingly, the number of mRNAs isoforms with poly(A) tags located in protein-coding regions or 5′-UTRs significantly increases in response to N starvation. The set of genes affected by APA in response to N deficiency is enriched in N-metabolism, oxidation-reduction processes, response to stresses, and hormone responses, among others. A hormone profile analysis shows that the levels of salicylic acid (SA), a phytohormone that reduces nitrate accumulation and root growth, increase significantly upon N starvation. Meta-analyses of APA-affected and fip1-2-deregulated genes indicate a connection between the nitrogen starvation response and salicylic acid (SA) signaling. Genetic analyses show that SA may be important for preventing the overgrowth of the root system in low N environments. This work provides new insights on how plants interconnect different pathways, such as defense-related hormonal signaling and the regulation of genomic information by APA, to fine-tune the response to low N availability.
Winter Cultivation and Nano Fertilizers Improve Yield Components and Antioxidant Traits of Dragon’s Head (Lallemantia iberica (M.B.) Fischer & Meyer)
Authors: Mohammad Ghasemi Vida , Siavash Moghaddam Sina , Rahimi Amir , Pourakbar Latifeh , Popović-Djordjević Jelena
Published: February 2020

Balangu (Lallemantia sp.) is a medicinal herb with a variety of applications, all parts of which have economic uses, including leaf for extraction of essential oils, as a vegetable and potherb, seed for extraction of mucilage and edible or industrial oil. To investigate the effect of cultivation season and standard chemical and nano fertilizers (n) on the yield components and antioxidant properties of Dragon’s head, a factorial experiment based on randomized complete block design was conducted with 12 treatments and three replications. Experimental treatments consisted of two seasons (spring and winter cultivation) and six levels of fertilizer (control, NPK-s, NPK-n, Fe-chelated-n, NPK-n + Fe-chelated-n, NPK-s + NPK-n + Fe-chelated-n). The traits included grain yield per plant, essential oil percentage and yield, mucilage percentage and yield, antioxidant properties in the seeds and leaves, including total phenols and flavonoids content, DPPH radical scavenging, and nitric oxide and superoxide radical scavenging. The results showed that winter cultivation had a noticeable advantage over spring cultivation across all of the traits. The highest grain yield per plant was obtained in winter cultivation using NPK-n + Fe-chelated-n fertilizer treatment. The highest essential oil percentage was in NPK-n + Fe-chelated-n. The highest mucilage percentage was observed in NPK-s + NPK-n + Fe-chelated-n fertilizer treatment, which was not statistically different to NPK-n + Fe-chelated-n treatment. The combined effects of winter cultivation and NPK-n + Fe-chelated-n fertilizers resulted in improving antioxidant activity traits. Overall, the results indicated that the combination of winter cultivation and NPK-n + Fe-chelated-n fertilizers are the most appropriate treatment to acquire highest qualitative and quantitative yield of Dragon’s head, in the Azerbaijan region (Iran).
Advances in Plant Sulfur Research
Authors: Bouranis Dimitris L. , Malagoli Mario , Avice Jean-Christophe , Bloem Elke
Published: February 2020

As an essential nutrient required for plant growth and development, sulfur (S) deficiency in productive systems limits yield and quality. This special issue hosts a collection of original research articles, mainly based on contributions from the 11th International Plant Sulfur Workshop held on 16–20 September 2018 in Conegliano, Italy, focusing on the following topics: (1) The germinative and post-germinative behaviour of Brassica napus seeds when severe S limitation is applied to the parent plants; (2) the independence of S deficiency from the mRNA degradation initiation enzyme PARN in Arabidopsis; (3) the glucosinolate distribution in the aerial parts of sel1-10, a disruption mutant of the sulfate transporter SULTR1;2, in mature Arabidopsis thaliana plants; (4) the accumulation of S-methylcysteine as its γ-glutamyl dipeptide in Phaseolus vulgaris; and (5) the role of ferric iron chelation-strategy components in the leaves and roots of maize, have provided new insights into the effect of S availability on plant functionality. Moreover, the role of S deficiency in root system functionality has been highlighted, focusing on (6) the contribution of root hair development to sulfate uptake in Arabidopsis, and (7) the modulation of lateral root development by the CLE-CLAVATA1 signaling pathway under S deficiency. The role of S in plants grown under drought conditions has been investigated in more detail focusing (8) on the relationship between S-induced stomata closure and the canonical ABA signal transduction machinery. Furthermore, (9) the assessment of S deficiency under field conditions by single measurements of sulfur, chloride, and phosphorus in mature leaves, (10) the effect of fertilizers enriched with elemental S on durum wheat yield, and (11,12) the impact of elemental S on the rhizospheric bacteria of durum wheat contributed to enhance the scientific knowledge on S nutrition under field conditions.
Regulation of Ammonium Cellular Levels is An Important Adaptive Trait for the Euhalophytic Behavior of Salicornia europaea
Authors: Ma Jinbiao , Cirillo Valerio , Zhang Dayong , Maggio Albino , Wang Lei , Xiao Xinlong , Yao Yinan
Published: February 2020

Salinization of agricultural land is a devastating phenomenon which will affect future food security. Understanding how plants survive and thrive in response to salinity is therefore critical to potentiate tolerance traits in crop species. The halophyte Salicornia europaea has been used as model system for this purpose. High salinity causes NH4+ accumulation in plant tissues and consequent toxicity symptoms that may further exacerbate those caused by NaCl. In this experiment we exposed Salicornia plants to five concentrations of NaCl (0, 1, 10, 50 and 200 mM) in combination with two concentrations of NH4Cl (1 and 50 mM). We confirmed the euhalophytic behavior of Salicornia that grew better at 200 vs. 0 mM NaCl in terms of both fresh (+34%) and dry (+46%) weights. Addition of 50 mM NH4Cl to the growth medium caused a general growth reduction, which was likely caused by NH4+ accumulation and toxicity in roots and shoots. When plants were exposed to high NH4Cl, high salinity reduced roots NH4+ concentration (−50%) compared to 0 mM NaCl. This correlates with the activation of the NH4+ assimilation enzymes, glutamine synthetase and glutamate dehydrogenase, and the growth inhibition was partially recovered. We argue that NH4+ detoxification is an important trait under high salinity that may differentiate halophytes from glycophytes and we present a possible model for NH4+ detoxification in response to salinity.
Jute: A Potential Candidate for Phytoremediation of Metals—A Review
Authors: Saleem Muhammad Hamzah , Ali Shafaqat , Rehman Muzammal , Hasanuzzaman Mirza , Rizwan Muhammad , Irshad Sana , Shafiq Fahad , Iqbal Muhammad , Alharbi Basmah M. , Alnusaire Taghreed S. , Qari Sameer H.
Published: February 2020

Jute (Corchorus capsularis) is a widely cultivated fibrous species with important physiological characteristics including biomass, a deep rooting system, and tolerance to metal stress. Furthermore, Corchorus species are indigenous leafy vegetables and show phytoremediation potential for different heavy metals. This species has been used for the phytoremediation of different toxic pollutants such as copper (Cu), cadmium (Cd), zinc (Zn), mercury (Hg) and lead (Pb). The current literature highlights the physiological and morphological characteristics of jute that are useful to achieve successful phytoremediation of different pollutants. The accumulation of these toxic heavy metals in agricultural regions initiates concerns regarding food safety and reductions in plant productivity and crop yield. We discuss some innovative approaches to increase jute phytoremediation using different chelating agents. There is a need to remediate soils contaminated with toxic substances, and phytoremediation is a cheap, effective, and in situ alternative, and jute can be used for this purpose.
Mitochondrial DNA Repair in an Arabidopsis thaliana Uracil N-Glycosylase Mutant
Authors: Wynn Emily , Purfeerst Emma , Christensen Alan
Published: February 2020

Substitution rates in plant mitochondrial genes are extremely low, indicating strong selective pressure as well as efficient repair. Plant mitochondria possess base excision repair pathways; however, many repair pathways such as nucleotide excision repair and mismatch repair appear to be absent. In the absence of these pathways, many DNA lesions must be repaired by a different mechanism. To test the hypothesis that double-strand break repair (DSBR) is that mechanism, we maintained independent self-crossing lineages of plants deficient in uracil-N-glycosylase (UNG) for 11 generations to determine the repair outcomes when that pathway is missing. Surprisingly, no single nucleotide polymorphisms (SNPs) were fixed in any line in generation 11. The pattern of heteroplasmic SNPs was also unaltered through 11 generations. When the rate of cytosine deamination was increased by mitochondrial expression of the cytosine deaminase APOBEC3G, there was an increase in heteroplasmic SNPs but only in mature leaves. Clearly, DNA maintenance in reproductive meristem mitochondria is very effective in the absence of UNG while mitochondrial genomes in differentiated tissue are maintained through a different mechanism or not at all. Several genes involved in DSBR are upregulated in the absence of UNG, indicating that double-strand break repair is a general system of repair in plant mitochondria. It is important to note that the developmental stage of tissues is critically important for these types of experiments.
Long-Chain acyl-CoA Synthetase LACS2 Contributes to Submergence Tolerance by Modulating Cuticle Permeability in Arabidopsis
Authors: Xie Li-Juan , Tan Wei-Juan , Yang Yi-Cong , Tan Yi-Fang , Zhou Ying , Zhou De-Mian , Xiao Shi , Chen Qin-Fang
Published: February 2020

In Arabidopsis thaliana, LONG-CHAIN ACYL-COA SYNTHETASEs (LACSs) catalyze the synthesis of long-chain acyl-CoAs and function in diverse biological processes. We have recently revealed that LACS2 is primarily involved in the production of polyunsaturated linolenoyl-CoA, essential for the activation of ethylene response transcription factors-mediated hypoxia signaling. Here, we further reported the dual role of LACS2 in the regulation of submergence tolerance by modulating cuticle permeability in Arabidopsis cells. LACS2-overexpressors (LACS2-OEs) showed improved tolerance to submergence, with higher accumulation of cuticular wax and cutin in their rosettes. In contrast, knockout of LACS2 in the lacs2-3 mutant resulted in hypersensitivity to submergence with reduced wax crystals and thinner cutin layer. By analyses of plant surface permeability, we observed that the hypoxic sensitivities in the LACS2-OEs and lacs2-3 mutant were physiologically correlated with chlorophyll leaching, water loss rates, ionic leakage, and gas exchange. Thus, our findings suggest the role of LACS2 in plant response to submergence by modulating cuticle permeability in plant cells.
Metagenomic Insights of the Root Colonizing Microbiome Associated with Symptomatic and Non-Symptomatic Bananas in Fusarium Wilt Infected Fields
Authors: Kaushal Manoj , Mahuku George , Swennen Rony
Published: February 2020

Plants tissues are colonized by diverse communities of microorganisms called endophytes. They are key determinants of plant production and health, for example by facilitating nutrient exchanges or limiting disease development. Endophytic communities of banana plants have not been studied until very recently, and their potential role in disease development has not been explored so far. Roots from symptomatic and non-symptomatic banana plants were sampled from fields infected by Fusarium oxysporum f.sp. cubense race 1. The goal was to compare the endophytic microbiota between symptomatic and non-symptomatic plants through high throughput sequencing of 16s rDNA and shotgun metagenome sequencing. The results revealed that the endophytic root microbiome in bananas is dominated by Proteobacteria and Bacteroidetes followed to a lesser extent by Actinobacteria. The development of disease greatly impacted the endophytic microbial communities. For example, Flavobacteriales abundance was correlated with symptom development.
Chemical Composition of Aerial Parts Essential Oils from Six Endemic Malagasy Helichrysum Species
Authors: Rabehaja Delphin J. R. , Bezert Guillaume , Rakotonandrasana Stéphan R. , Ramanoelina Panja A. R. , Andrianjara Charles , Bighelli Ange , Tomi Félix , Paoli Mathieu
Published: February 2020

The essential oils of six endemic Malagasy Helichrysum species were investigated by GC (RI), GC–MS and 13C NMR spectrometry. In total, 153 compounds were identified accounting for 90.8% to 99.9% of the total composition. The main constituents were α-pinene for H. benthamii, 1,8-cineole for H. dubardii, (E)-β-caryophyllene for H. indutum, and H. bojerianum. H. diotoides essential oil was characterized by the presence of two lilac alcohols and four lilac acetates whereas H. hirtum essential oil exhibited an atypical composition with 7β-H-silphiperfol-5-ene, 7-epi-subergorgiol, and 7-epi-silphiperfol-5-en-13-oic acid as major components.
Endophytic Bacterial Microbiome Diversity in Early Developmental Stage Plant Tissues of Wheat Varieties
Authors: Žiarovská Jana , Medo Juraj , Kyseľ Matúš , Zamiešková Lucia , Kačániová Miroslava
Published: February 2020

Endophytic bacteria are an important part of different functions in plants that lead to plants’ production characteristics as well as their stress response mechanisms. Endophytic bacterial diversity was analyzed in this study to describe 16S rRNA variability and changes in the leaves of drought-tolerant and drought-susceptible wheat when growth under in vitro conditions. A metagenomic analysis was applied and a pilot exploratory study was performed to prove this type of analysis as applicable to tracking endophytic bacterial diversity changes when a drought stress is applied to an in vitro culture of wheat. The study showed that the changes in the bacterial endophytes’ variabilities associated preferentially with the drought stress varietal characteristics of the analyzed wheat instead of the applied stress conditions.
CRISPR/Cas9-Mediated Mutagenesis of RCO in Cardamine hirsuta
Authors: Alvim Kamei Claire Lessa , Pieper Bjorn , Laurent Stefan , Tsiantis Miltos , Huijser Peter
Published: February 2020

The small crucifer Cardamine hirsuta bears complex leaves divided into leaflets. This is in contrast to its relative, the reference plant Arabidopsis thaliana, which has simple leaves. Comparative studies between these species provide attractive opportunities to study the diversification of form. Here, we report on the implementation of the CRISPR/Cas9 genome editing methodology in C. hirsuta and with it the generation of novel alleles in the RCO gene, which was previously shown to play a major role in the diversification of form between the two species. Thus, genome editing can now be deployed in C. hirsuta, thereby increasing its versatility as a model system to study gene function and evolution.
Combined Effects of UV-B and Drought on Native and Exotic Populations of Verbascum thapsus L.
Authors: Hock Maria , Plos Carolin , Sporbert Maria , Erfmeier Alexandra
Published: February 2020

During plant invasions, exotic species have to face new environmental challenges and are affected by interacting components of global change, which may include more stressful environmental conditions. We investigated an invasive species of New Zealand grasslands, commonly exposed to two concomitant and limiting abiotic factors—high levels of ultraviolet-B radiation and drought. The extent to which Verbascum thapsus may respond to these interacting stress factors via adaptive responses was assessed in a greenhouse experiment comprising native German plants and plants of exotic New Zealand origins. Plants from both origins were grown within four treatments resulting from the crossed combinations of two levels of UV-B and drought. Over twelve weeks, we recorded growth, morphological characteristics, physiological responses and productivity. The results showed that drought stress had the strongest effect on biomass, morphology and physiology. Significant effects of UV-B radiation were restricted to variables of leaf morphology and physiology. We found neither evidence for additive effects of UV-B and drought nor origin-dependent stress responses that would indicate local adaptation of native or exotic populations. We conclude that drought-resistant plant species might be predisposed to handle high UV-B levels, but emphasize the importance of setting comparable magnitudes in stress levels when testing experimentally for antagonistic interaction effects between two manipulated factors.
Rooibos (Aspalathus linearis) Genome Size Estimation Using Flow Cytometry and K-Mer Analyses
Authors: Mgwatyu Yamkela , Stander Allison Anne , Ferreira Stephan , Williams Wesley , Hesse Uljana
Published: February 2020

Plant genomes provide information on biosynthetic pathways involved in the production of industrially relevant compounds. Genome size estimates are essential for the initiation of genome projects. The genome size of rooibos (Aspalathus linearis species complex) was estimated using DAPI flow cytometry and k-mer analyses. For flow cytometry, a suitable nuclei isolation buffer, plant tissue and a transport medium for rooibos ecotype samples collected from distant locations were identified. When using radicles from commercial rooibos seedlings, Woody Plant Buffer and Vicia faba as an internal standard, the flow cytometry-estimated genome size of rooibos was 1.24 ± 0.01 Gbp. The estimates for eight wild rooibos growth types did not deviate significantly from this value. K-mer analysis was performed using Illumina paired-end sequencing data from one commercial rooibos genotype. For biocomputational estimation of the genome size, four k-mer analysis methods were investigated: A standard formula and three popular programs (BBNorm, GenomeScope, and FindGSE). GenomeScope estimates were strongly affected by parameter settings, specifically CovMax. When using the complete k-mer frequency histogram (up to 9 × 105), the programs did not deviate significantly, estimating an average rooibos genome size of 1.03 ± 0.04 Gbp. Differences between the flow cytometry and biocomputational estimates are discussed.
AUXIN RESPONSE FACTOR 1 Acts as a Positive Regulator in the Response of Poplar to Trichoderma asperellum Inoculation in Overexpressing Plants
Authors: Wang Yue-Feng , Hou Xue-Yue , Deng Jun-Jie , Yao Zhi-Hong , Lyu Man-Man , Zhang Rong-Shu
Published: February 2020

Numerous Trichoderma strains have been reported to be optimal biofertilizers and biocontrol agents with low production costs and environmentally friendly properties. Trichoderma spp. promote the growth and immunity of plants by multiple means. Interfering with the hormonal homeostasis in plants is the most critical strategy. However, the mechanisms underlying plants’ responses to Trichoderma remain to be further elucidated. Auxin is the most important phytohormone that regulates almost every aspect of a plant’s life, especially the trade-off between growth and defense. The AUXIN RESPONSE FACTOR (ARF) family proteins are key players in auxin signaling. We studied the responses and functions of the PdPapARF1 gene in a hybrid poplar during its interaction with beneficial T. asperellum strains using transformed poplar plants with PdPapARF1 overexpression (on transcription level in this study). We report that PdPapARF1 is a positive regulator for promoting poplar growth and defense responses, as does T. asperellum inoculation. PdPapARF1 also turned out to be a positive stimulator of adventitious root formation. Particularly, the overexpression of PdPapARF1 induced a 32.3% increase in the height of 40-day-old poplar plants and a 258% increase in the amount of adventitious root of 3-week-old subcultured plant clones. Overexpressed PdPapARF1 exerted its beneficial functions through modulating the hormone levels of indole acetic acid (IAA), jasmonic acid (JA), and salicylic acid (SA) in plants and activating their signaling pathways, creating similar results as inoculated with T. asperellum. Particularly, in the overexpressing poplar plants, the IAA level increased by approximately twice of the wild-type plants; and the signaling pathways of IAA, JA, and SA were drastically activated than the wild-type plants under pathogen attacks. Our report presents the potential of ARFs as the crucial and positive responders in plants to Trichoderma inducing.
Comprehensive Real-Time RT-PCR Assays for the Detection of Fifteen Viruses Infecting Prunus spp.
Authors: Diaz-Lara Alfredo , Stevens Kristian , Klaassen Vicki , Golino Deborah , Al Rwahnih Maher
Published: February 2020

Viruses can cause economic losses in fruit trees, including Prunus spp., by reducing yield and marketable fruit. Given the genetic diversity of viruses, reliable diagnostic methods relying on PCR are critical in determining viral infection in fruit trees. This study evaluated the broad-range detection capacity of currently available real-time RT-PCR assays for Prunus-infecting viruses and developed new assays when current tests were inadequate or absent. Available assays for 15 different viruses were exhaustively evaluated in silico to determine their capacity to detect virus isolates deposited in GenBank. During this evaluation, several isolates deposited since the assay was designed exhibited nucleotide mismatches in relation to the existing assay’s primer sequences. In cases where updating an existing assay was impractical, we performed a redesign with the dual goals of assay compactness and comprehensive inclusion of genetic diversity. The efficiency of each developed assay was determined by a standard curve. To validate the assay designs, we tested them against a comprehensive set of 87 positive and negative Prunus samples independently analyzed by high throughput sequencing. As a result, all the real-time RT-PCR assays described herein successfully detected the different viruses and their corresponding isolates. To further validate the new and updated assays a Prunus germplasm collection was surveyed. The sensitive and reliable detection methods described here will be used for the large-scale pathogen testing required to maintain the highest quality nursery stock.
Seed Weight as a Covariate in Association and Prediction Studies for Biomass Traits in Maize Seedlings
Authors: Galic Vlatko , Mazur Maja , Brkic Andrija , Brkic Josip , Jambrovic Antun , Zdunic Zvonimir , Simic Domagoj
Published: February 2020

Background: The seedling stage has received little attention in maize breeding to identify genotypes tolerant to water deficit. The aim of this study is to evaluate incorporation of seed weight (expressed as hundred kernel weight, HKW) as a covariate into genomic association and prediction studies for three biomass traits in a panel of elite inbred lines challenged by water withholding at seedling stage. Methods: 109 genotyped-by-sequencing (GBS) elite maize inbreds were phenotyped for HKW and planted in controlled conditions (16/8 day/night, 25 °C, 50% RH, 200 µMol/m2/s) in trays filled with soil. Plants in control (C) were watered every two days, while watering was stopped for 10 days in water withholding (WW). Fresh weight (FW), dry weight (DW), and dry matter content (DMC) were measured. Results: Adding HKW as a covariate increased the power of detection of associations in FW and DW by 44% and increased genomic prediction accuracy in C and decreased in WW. Conclusions: Seed weight was effectively incorporated into association studies for biomass traits in maize seedlings, whereas the incorporation into genomic predictions, particularly in water-stressed plants, was not worthwhile.
A PCR, qPCR, and LAMP Toolkit for the Detection of the Wheat Blast Pathogen in Seeds
Authors: Thierry Maud , Chatet Axel , Fournier Elisabeth , Tharreau Didier , Ioos Renaud
Published: February 2020

Wheat blast is a devastating disease caused by the pathogenic fungus Pyricularia oryzae. Wheat blast first emerged in South America before more recently reaching Bangladesh. Even though the pathogen can spread locally by air-dispersed spores, long-distance spread is likely to occur via infected wheat seed or grain. Wheat blast epidemics are caused by a genetic lineage of the fungus, called the Triticum lineage, only differing from the other P. oryzae lineages by less than 1% genetic divergence. In order to prevent further spread of this pathogen to other wheat-growing areas in the world, sensitive and specific detection tools are needed to test for contamination of traded seed lots by the P. oryzae Triticum lineage. In this study, we adopted a comparative genomics approach to identify new loci specific to the P. oryzae Triticum lineage and used them to design a set of new markers that can be used in conventional polymerase chain reaction (PCR), real-time PCR, or loop-mediated isothermal amplification (LAMP) for the detection of the pathogen, with improved inclusivity and specificity compared to currently available tests. A preliminary biological enrichment step of the seeds was shown to improve the sensitivity of the tests, which enabled the detection of the target at an infection rate as low as 0.25%. Combined with others, this new toolkit may be particularly beneficial in preventing the trade of contaminated seeds and in limiting the spread of the disease.
Effects of Genotype and Culture Conditions on Microspore Embryogenesis and Plant Regeneration in Brassica Rapa ssp. Rapa L.
Authors: Shumilina Daria , Kornyukhin Dmitry , Domblides Elena , Soldatenko Alexey , Artemyeva Anna
Published: February 2020

Turnip is a biennial crop and, consequently, the creation of pure lines for breeding is a time-consuming process. The production of pure turnip lines using doubled haploids produced in isolated microspore culture has not been sufficiently developed. The aim of the present work was to determine some key factors inducing embryogenesis in the isolated microspore culture of turnip, as well as investigating the manners of embryo development. It was shown that the acidity of the medium is an important factor in embryo production; different optimal pH levels ranging from 6.2 to 6.6 corresponded to individual genotypes. Such factors as the cold treatment of buds and the addition of activated charcoal to the nutrient medium increased the responsiveness of all genotypes studied. The turnip variety ‘Ronde witte roodkop herfst’ demonstrated a genetic disorder in the development of microspores; namely, non-separation of some microspores from tetrads. In the in vitro culture, each of the daughter microspores developed on its own. This indicates the dependence of the possibility of embryogenesis in the turnip microspore culture on the genotype. Results suggest that the initiation of secondary embryogenesis in primary embryos leads to an increase in the proportion of doubled haploid plants.
Prospects of Arbuscular Mycorrhizal Fungi Utilization in Production of Allium Plants
Authors: Golubkina Nadezhda , Krivenkov Leonid , Sekara Agnieszka , Vasileva Viliana , Tallarita Alessio , Caruso Gianluca
Published: February 2020

The need to improve crop yield and quality, decrease the level of mineral fertilizers and pesticides/herbicides supply, and increase plants’ immunity are important topics of agriculture in the 21st century. In this respect, arbuscular mycorrhizal fungi (AMF) may be considered as a crucial tool in the development of a modern environmentally friendly agriculture. The efficiency of AMF application is connected to genetic peculiarities of plant and AMF species, soil characteristics and environmental factors, including biotic and abiotic stresses, temperature, and precipitation. Among vegetable crops, Allium species are particularly reactive to soil mycorrhiza, due to their less expanded root apparatus surface compared to most other species. Moreover, Allium crops are economically important and able to synthesize powerful anti-carcinogen compounds, such as selenomethyl selenocysteine and gamma-glutamyl selenomethyl selenocysteine, which highlights the importance of the present detailed discussion about the AMF use prospects to enhance Allium plant growth and development. This review reports the available information describing the AMF effects on the seasonal, inter-, and intra-species variations of yield, biochemical characteristics, and mineral composition of Allium species, with a special focus on the selenium accumulation both in ordinary conditions and under selenium supply.
The Analysis of the Editing Defects in the dyw2 Mutant Provides New Clues for the Prediction of RNA Targets of Arabidopsis E+-Class PPR Proteins
Authors: Malbert Bastien , Burger Matthias , Lopez-Obando Mauricio , Baudry Kevin , Launay-Avon Alexandra , Härtel Barbara , Verbitskiy Daniil , Jörg Anja , Berthomé Richard , Lurin Claire , Takenaka Mizuki , Delannoy Etienne
Published: February 2020

C to U editing is one of the post-transcriptional steps which are required for the proper expression of chloroplast and mitochondrial genes in plants. It depends on several proteins acting together which include the PLS-class pentatricopeptide repeat proteins (PPR). DYW2 was recently shown to be required for the editing of many sites in both organelles. In particular almost all the sites associated with the E+ subfamily of PPR proteins are depending on DYW2, suggesting that DYW2 is required for the function of E+-type PPR proteins. Here we strengthened this link by identifying 16 major editing sites controlled by 3 PPR proteins: OTP90, a DYW-type PPR and PGN and MEF37, 2 E+-type PPR proteins. A re-analysis of the DYW2 editotype showed that the 49 sites known to be associated with the 18 characterized E+-type PPR proteins all depend on DYW2. Considering only the 288 DYW2-dependent editing sites as potential E+-type PPR sites, instead of the 795 known editing sites, improves the performances of binding predictions systems based on the PPR code for E+-type PPR proteins. However, it does not compensate for poor binding predictions.
Exogenous Kinetin Promotes the Nonenzymatic Antioxidant System and Photosynthetic Activity of Coffee (Coffea arabica L.) Plants Under Cold Stress Conditions
Authors: Acidri Robert , Sawai Yumiko , Sugimoto Yuko , Handa Takuo , Sasagawa Daisuke , Masunaga Tsugiyaki , Yamamoto Sadahiro , Nishihara Eiji
Published: February 2020

Coffee plants are seasonally exposed to low chilling temperatures in many coffee-producing regions. In this study, we investigated the ameliorative effects of kinetin—a cytokinin elicitor compound on the nonenzymatic antioxidants and the photosynthetic physiology of young coffee plants subjected to cold stress conditions. Although net CO2 assimilation rates were not significantly affected amongst the treatments, the subjection of coffee plants to cold stress conditions caused low gas exchanges and photosynthetic efficiency, which was accompanied by membrane disintegration and the breakdown of chlorophyll pigments. Kinetin treatment, on the other hand, maintained a higher intercellular-to-ambient CO2 concentration ratio with concomitant improvement in stomatal conductance and mesophyll efficiency. Moreover, the leaves of kinetin-treated plants maintained slightly higher photochemical quenching (qP) and open photosystem II centers (qL), which was accompanied by higher electron transfer rates (ETRs) compared to their non-treated counterparts under cold stress conditions. The exogenous foliar application of kinetin also stimulated the metabolism of caffeine, trigonelline, 5-caffeoylquinic acid, mangiferin, anthocyanins and total phenolic content. The contents of these nonenzymatic antioxidants were highest under cold stress conditions in kinetin-treated plants than during optimal conditions. Our results further indicated that the exogenous application of kinetin increased the total radical scavenging capacity of coffee plants. Therefore, the exogenous application of kinetin has the potential to reinforce antioxidant capacity, as well as modulate the decline in photosynthetic productivity resulting in improved tolerance under cold stress conditions.
First Phylogeny of Bitterbush Family, Picramniaceae (Picramniales)
Authors: Shipunov Alexey , Carr Shyla , Furniss Spencer , Pay Kyle , Pirani José Rubens
Published: February 2020

Picramniaceae is the only member of Picramniales which is sister to the clade (Sapindales (Huerteales (Malvales, Brassicales))) in the rosidsmalvids. Not much is known about most aspects of their ecology, geography, and morphology. The family is restricted to American tropics. Picramniaceae representatives are rich in secondary metabolites; some species are known to be important for pharmaceutical purposes. Traditionally, Picramniaceae was classified as a subfamily of Simaroubaceae, but from 1995 on, it has been segregated containing two genera, Picramnia and Alvaradoa, with the recent addition of a third genus, Nothotalisia, described in 2011. Only a few species of the family have been the subject of DNA-related research, and fewer than half of the species have been included in morphological phylogenetic analyses. It is clear that Picramniaceae remains a largely under-researched plant group. Here we present the first molecular phylogenetic tree of the group, based on both chloroplast and nuclear markers, widely adopted in the plant DNA barcoding. The main findings are: The family and its genera are monophyletic and Picramnia is sister to two other genera; some clades corroborate previous assumptions of relationships made on a morphological or geographical basis, while most parts of the molecular topology suggest high levels of homoplasy in the morphological evolution of Picramnia.
Use of Nitric Oxide and Hydrogen Peroxide for Better Yield of Wheat (Triticum aestivum L.) under Water Deficit Conditions: Growth, Osmoregulation, and Antioxidative Defense Mechanism
Authors: Habib Noman , Ali Qasim , Ali Shafaqat , Javed Muhammad Tariq , Zulqurnain Haider Muhammad , Perveen Rashida , Shahid Muhammad Rizwan , Rizwan Muhammad , Abdel-Daim Mohamed M. , Elkelish Amr , Bin-Jumah May
Published: February 2020

The present experiment was carried out to study the influences of exogenously-applied nitric oxide (NO) donor sodium nitroprusside (SNP) and hydrogen peroxide (H2O2) as seed primers on growth and yield in relation with different physio-biochemical parameters, antioxidant activities, and osmolyte accumulation in wheat plants grown under control (100% field capacity) and water stress (60% field capacity) conditions. During soaking, the seeds were covered and kept in completely dark. Drought stress markedly reduced the plant growth, grain yield, leaf photosynthetic pigments, total phenolic content (TPC), total soluble proteins (TSP), leaf water potential (Ψw), leaf turgor potential (Ψp), osmotic potential (Ψs), and leaf relative water content (LRWC), while it increased the activities of enzymatic antioxidants and the accumulation of leaf ascorbic acid (AsA), proline (Pro), glycine betaine (GB), malondialdehyde (MDA), and H2O2. However, seed priming with SNP and H2O2 alone and in combination mitigated the deleterious effects of water stress on growth and yield by improving the Ψw, Ψs, Ψp, photosynthetic pigments, osmolytes accumulation (GB and Pro), TSP, and the antioxidative defense mechanism. Furthermore, the application of NO and H2O2 as seed primers also reduced the accumulation of H2O2 and MDA contents. The effectiveness was treatment-specific and the combined application was also found to be effective. The results revealed that exogenous application of NO and H2O2 was effective in increasing the tolerance of wheat plants under drought stress in terms of growth and grain yield by regulating plant–water relations, the antioxidative defense mechanism, and accumulation of osmolytes, and by reducing the membrane lipid peroxidation.
Morphological and Genetic Diversity within Salt Tolerance Detection in Eighteen Wheat Genotypes
Authors: Al-Ashkar Ibrahim , Alderfasi Ali , Ben Romdhane Walid , Seleiman Mahmoud F. , El-Said Rania A. , Al-Doss Abdullah
Published: February 2020

Salinity is a major obstacle to wheat production worldwide. Salt-affected soils could be used by improving salt-tolerant genotypes depending upon the genetic variation and salt stress response of adapted and donor wheat germplasm. We used a comprehensive set of morpho-physiological and biochemical parameters and simple sequence repeat (SSR) marker technique with multivariate analysis to accurately demonstrate the phenotypic and genetic variation of 18 wheat genotypes under salinity stress. All genotypes were evaluated without NaCl as a control and with 150 mM NaCl, until the onset of symptoms of death in the sensitive plant (after 43 days of salinity treatment). The results showed that the relative change of the genetic variation was high for all parameters, heritability (>60%), and genetic gain (>20%). Stepwise regression analysis, noting the importance of the root dry matter, relative turgidity, and their respective contributions to the shoot dry matter, indicated their relevance in improving and evaluating the salt-tolerant genotypes of breeding programs. The relative change of the genotypes in terms of the relative turgidity and shoot dry matter during salt stress was verified using clustering methods. For cluster analysis, the genotypes were classified into three groups: tolerant, intermediate, and sensitive, representing five, six, and seven genotypes, respectively. The morphological and genetic distances were significantly correlated based on the Mantel test. Of the 23 SSR markers that showed polymorphism, 17 were associated with almost all examined parameters. Therefore, based on the observed molecular marker-phenotypic trait association, the markers were highly useful in detecting tolerant and sensitive genotypes. Thus, it considers a helpful tool for salt tolerance through marker-assisted selection.
Biodegradable Poly (lactic acid)/Poly (ethylene glycol) Reinforced Multi-Walled Carbon Nanotube Nanocomposite Fabrication, Characterization, Properties, and Applications
Authors: Ahmad Ahmad Fahad , Aziz Sidek Ab , Obaiys Suzan Jabbar , Zaid Mohd Hafiz Mohd , Matori Khamirul Amin , Samikannu Kanagesan , Aliyu Umar Sa’as
Published: February 2020

This paper presents the electromagnetic interference properties of multi-walled carbon nanotubes (MWCNTs) as a novel nano-reinforcement filler in poly (lactic acid) (PLA)/poly (ethylene glycol) (PEG) polymer matrix that was prepared via melt blending mode. Plasticization of PLA was first carried out by PEG, which overcomes its brittleness problem, in order to enhance its flexibility. A waveguide adapter technique was used to measure the dielectric properties ε r , and S-parameters reflection (S11) and transmission (S21) coefficients. The dielectric properties, microwave attenuation performances, and electromagnetic interference shielding effectiveness (EMISE) for all the material under test have been calculated over the full X-Band (8–12 GHz) due to its importance for military and commercial applications. The prepared samples were studied while using X-ray diffraction (XRD), field emission scanning electron microscopy (FE-SEM), Fourier transforms infrared spectroscopy (FTIR), mechanical properties measurements, as well as thermogravimetric analysis (TGA). The results showed that the dielectric properties increased with increased multi-walled carbon nanotubes (MWCNTs) filler, as well as the shielding effectiveness of the MWCNT/PLA/PEG nanocomposites increased with the increasing of MWCNTs. The highest SE total value was found to be 42.07 dB at 12 GHz for 4 wt.% filler content. It is also observed that the attenuation values of the nanocomposites increased with an increase in MWCNTs loading, as well as the power loss values for all of the samples increased with the increase in MWCNTs loading, except the amount of the transmitted wave through the nanocomposites.