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1.
Int J Mol Sci ; 25(4)2024 Feb 18.
Artigo em Inglês | MEDLINE | ID: mdl-38397076

RESUMO

NAC transcription factors are commonly involved in the plant response to drought stress. A transcriptome analysis of root samples of the soybean variety 'Jiyu47' under drought stress revealed the evidently up-regulated expression of GmNAC19, consistent with the expression pattern revealed by quantitative real-time PCR analysis. The overexpression of GmNAC19 enhanced drought tolerance in Saccharomyces cerevisiae INVSc1. The seed germination percentage and root growth of transgenic Arabidopsis thaliana were improved in comparison with those of the wild type, while the transgenic soybean composite line showed improved chlorophyll content. The altered contents of physiological and biochemical indices (i.e., soluble protein, soluble sugar, proline, and malondialdehyde) related to drought stress and the activities of three antioxidant enzymes (i.e., superoxide dismutase, peroxidase, and catalase) revealed enhanced drought tolerance in both transgenic Arabidopsis and soybean. The expressions of three genes (i.e., P5CS, OAT, and P5CR) involved in proline synthesis were decreased in the transgenic soybean hairy roots, while the expression of ProDH involved in the breakdown of proline was increased. This study revealed the molecular mechanisms underlying drought tolerance enhanced by GmNAC19 via regulation of the contents of soluble protein and soluble sugar and the activities of antioxidant enzymes, providing a candidate gene for the molecular breeding of drought-tolerant crop plants.


Assuntos
Arabidopsis , Glycine max , Glycine max/genética , Resistência à Seca , Proteínas de Plantas/genética , Proteínas de Plantas/metabolismo , Antioxidantes/metabolismo , Plantas Geneticamente Modificadas/genética , Plantas Geneticamente Modificadas/metabolismo , Arabidopsis/metabolismo , Fatores de Transcrição/genética , Fatores de Transcrição/metabolismo , Secas , Açúcares , Prolina/metabolismo , Regulação da Expressão Gênica de Plantas , Estresse Fisiológico/genética
2.
Crit Rev Food Sci Nutr ; 63(30): 10239-10255, 2023.
Artigo em Inglês | MEDLINE | ID: mdl-35694786

RESUMO

Astaxanthin (3,3'-dihydroxy-4,4'-diketo-ß-carotene) is a type of C40 carotenoid with remarkable antioxidant characteristics, showing significant application prospects in many fields. Traditionally, the astaxanthin is mainly obtained from chemical synthesis and natural acquisition, with both approaches having many limitations and not capable of meeting the growing market demand. In order to cope with these challenges, novel techniques, e.g., the innovative cell engineering strategies, have been developed to increase the astaxanthin production. In this review, we first elaborated the biosynthetic pathway of astaxanthin, with the key enzymes and their functions discussed in the metabolic process. Then, we summarized the conventional, non-genetic strategies to promote the production of astaxanthin, including the methods of exogenous additives, mutagenesis, and adaptive evolution. Lastly, we reviewed comprehensively the latest studies on the synthesis of astaxanthin in various recombinant microorganisms based on the concept of microbial cell factory. Furthermore, we have proposed several novel technologies for improving the astaxanthin accumulation in several model species of microorganisms.


Assuntos
Oxigenases de Função Mista , Oxigenases , Oxigenases de Função Mista/metabolismo , Oxigenases/metabolismo , Xantofilas/metabolismo , Carotenoides/metabolismo , Engenharia Metabólica/métodos
3.
Microb Cell Fact ; 22(1): 102, 2023 May 18.
Artigo em Inglês | MEDLINE | ID: mdl-37198628

RESUMO

BACKGROUND: Heme is an iron/porphyrin complex compound, widely used in the health care, food, and pharmaceutical industries. It is more advantageous and attractive to develop microbial cell factories to produce heme by fermentation, with lower production costs and environmentally more friendly procedures than those of the traditional extraction based on animal blood. In this study, Bacillus subtilis, a typical industrial model microorganism of food safety grade, was used for the first time as the host to synthesize heme. RESULTS: The heme biosynthetic pathway was engineered as four modules, the endogenous C5 pathway, the heterologous C4 pathway, the uroporphyrinogen (urogen) III synthesis pathway, and the downstream synthesis pathway. Knockout of hemX encoding the negative effector of the concentration of HemA, overexpression of hemA encoding glutamyl-tRNA reductase, and knockout of rocG encoding the major glutamate dehydrogenase in the C5 pathway, resulted in an increase of 427% in heme production. Introduction of the heterologous C4 pathway showed a negligible effect on heme biosynthesis. Overexpression of hemCDB, which encoded hydroxymethylbilane synthase, urogen III synthase, and porphobilinogen synthase participating in the urogen III synthesis pathway, increased heme production by 39%. Knockouts of uroporphyrinogen methyltransferase gene nasF and both heme monooxygenase genes hmoA and hmoB in the downstream synthesis pathway increased heme production by 52%. The engineered B. subtilis produced 248.26 ± 6.97 mg/L of total heme with 221.83 ± 4.71 mg/L of extracellular heme during the fed-batch fermentation in 10 L fermenter. CONCLUSIONS: Strengthening endogenous C5 pathway, urogen III synthesis pathway and downstream synthesis pathway promoted the biosynthesis of heme in B. subtilis. The engineered B. subtilis strain has great potential as a microbial cell factory for efficient industrial heme production.


Assuntos
Bacillus subtilis , Heme , Bacillus subtilis/genética , Bacillus subtilis/metabolismo , Heme/metabolismo , Engenharia Metabólica/métodos , Fermentação , Uroporfirinogênios/metabolismo
4.
Mar Drugs ; 21(7)2023 Jul 13.
Artigo em Inglês | MEDLINE | ID: mdl-37504934

RESUMO

Due to their unique biochemical and spectroscopic properties, both heme and phycocyanobilin are widely applied in the medical and food industries. Synechocystis sp. PCC 6803 contains both heme and phycocyanin, and is capable of synthesizing phycocyanin using heme as a precursor. The aim of this study was to uncover viable metabolic targets in the porphyrin pathway from Synechocystis sp. PCC 6803 to promote the accumulation of heme and phycocyanin in the recombinant strains of microalgae. A total of 10 genes related to heme synthesis pathway derived from Synechococcus elongatus PCC 7942 and 12 genes related to endogenous heme synthesis were individually overexpressed in strain PCC 6803. The growth rate and pigment content (heme, phycocyanin, chlorophyll a and carotenoids) of 22 recombinant algal strains were characterized. Quantitative real-time PCR technology was used to investigate the molecular mechanisms underlying the changes in physiological indicators in the recombinant algal strains. Among the 22 mutant strains, the mutant overexpressing the haemoglobin gene (glbN) of strain PCC 6803 had the highest heme content, which was 2.5 times higher than the wild type; the mutant overexpressing the gene of strain PCC 7942 (hemF) had the highest phycocyanin content, which was 4.57 times higher than the wild type. Overall, the results suggest that genes in the porphyrin pathway could significantly affect the heme and phycocyanin content in strain PCC 6803. Our study provides novel crucial targets for promoting the accumulation of heme and phycocyanin in cyanobacteria.


Assuntos
Porfirinas , Synechocystis , Ficocianina/genética , Ficocianina/metabolismo , Synechocystis/genética , Synechocystis/metabolismo , Heme/genética , Clorofila A , Engenharia Genética
5.
Int J Mol Sci ; 24(9)2023 Apr 23.
Artigo em Inglês | MEDLINE | ID: mdl-37175442

RESUMO

Two saline-alkali-tolerant bacterial strains, Priestia aryabhattai JL-5 and Staphylococcus pseudoxylosus XW-4, were isolated, with high capabilities of hydrolyzing phosphate and producing cellulase, respectively. The molecular mechanisms regulating the saline-alkali tolerance in the strain JL-5 were further investigated using transcriptome analysis. The contents of lactic acid and proline and the enzymatic activity of glutamine synthetase in the strain JL-5 were significantly increased. The properties of saline-alkali soils were significantly improved by the enhanced growth of the indicator plant Leymus chinensis under the combined applications of the strains JL-5 and XW-4 mixed with corn straw. The contents of catalase, peroxidase, superoxide dismutase and proline of L. chinensis were significantly increased, and the content of malondialdehyde was significantly decreased in the combined treatment of both bacterial strains. The contents of available nitrogen, phosphorus and potassium and organic matters in the soil treated with both strains were significantly increased, as well as the diversity and abundance of the soil microbiota. Our study evidently demonstrated the synergistic effects of the strains JL-5 and XW-4, indicator plants and the local microbiota in terms of improving the saline-alkali soil properties, providing strong experimental evidence to support the commercial development of the combined application of both strains to improve the properties of saline-alkali soils.


Assuntos
Álcalis , Solo , Álcalis/farmacologia , Poaceae , Zea mays , Plantas , Solução Salina , Bactérias , Prolina
6.
Int J Mol Sci ; 23(20)2022 Oct 16.
Artigo em Inglês | MEDLINE | ID: mdl-36293235

RESUMO

Soybean transcription factor GmNAC plays important roles in plant resistance to environmental stresses. In this study, GmNAC3 was cloned in the drought tolerant soybean variety "Jiyu47", with the molecular properties of GmNAC3 characterized to establish its candidacy as a NAC transcription factor. The yeast self-activation experiments revealed the transcriptional activation activity of GmNAC3, which was localized in the nucleus by the subcellular localization analysis. The highest expression of GmNAC3 was detected in roots in the podding stage of soybean, and in roots of soybean seedlings treated with 20% PEG6000 for 12 h, which was 16 times higher compared with the control. In the transgenic soybean hairy roots obtained by the Agrobacterium-mediated method treated with 20% PEG6000 for 12 h, the activities of superoxide dismutase, peroxidase, and catalase and the content of proline were increased, the malondialdehyde content was decreased, and the expressions of stress resistance-related genes (i.e., APX2, LEA14, 6PGDH, and P5CS) were up-regulated. These expression patterns were confirmed by transgenic Arabidopsis thaliana with the overexpression of GmNAC3. This study provided strong scientific evidence to support further investigation of the regulatory function of GmNAC3 in plant drought resistance and the molecular mechanisms regulating the plant response to environmental stresses.


Assuntos
Arabidopsis , Secas , Glycine max/metabolismo , Fatores de Transcrição/genética , Fatores de Transcrição/metabolismo , Catalase/metabolismo , Proteínas de Plantas/genética , Proteínas de Plantas/metabolismo , Arabidopsis/metabolismo , Estresse Fisiológico/genética , Malondialdeído/metabolismo , Prolina/metabolismo , Superóxido Dismutase/metabolismo , Regulação da Expressão Gênica de Plantas , Plantas Geneticamente Modificadas/genética , Plantas Geneticamente Modificadas/metabolismo
7.
Mar Drugs ; 20(1)2021 Dec 21.
Artigo em Inglês | MEDLINE | ID: mdl-35049856

RESUMO

Haematococcus pluvialis accumulates a large amount of astaxanthin under various stresses, e.g., blue light and salicylic acid (SA). However, the metabolic response of H. pluvialis to blue light and SA is still unclear. We investigate the effects of blue light and SA on the metabolic response in H. pluvialis using both transcriptomic and proteomic sequencing analyses. The largest numbers of differentially expressed proteins (DEPs; 324) and differentially expressed genes (DEGs; 13,555) were identified on day 2 and day 7 of the treatment with blue light irradiation (150 µmol photons m-2s-1), respectively. With the addition of SA (2.5 mg/L), a total of 63 DEPs and 11,638 DEGs were revealed on day 2 and day 7, respectively. We further analyzed the molecular response in five metabolic pathways related to astaxanthin synthesis, including the astaxanthin synthesis pathway, the fatty acid synthesis pathway, the heme synthesis pathway, the reactive oxygen species (ROS) clearance pathway, and the cell wall biosynthesis pathway. Results show that blue light causes a significant down-regulation of the expression of key genes involved in astaxanthin synthesis and significantly increases the expression of heme oxygenase, which shows decreased expression by the treatment with SA. Our study provides novel insights into the production of astaxanthin by H. pluvialis treated with blue light and SA.


Assuntos
Microalgas , Animais , Vias Biossintéticas , Água Doce , Luz , Proteômica , Ácido Salicílico/farmacologia , Transcriptoma/efeitos dos fármacos , Xantofilas/metabolismo
8.
Entropy (Basel) ; 23(6)2021 Jun 11.
Artigo em Inglês | MEDLINE | ID: mdl-34207944

RESUMO

An Unmanned Aerial Vehicle (UAV) can greatly reduce manpower in the agricultural plant protection such as watering, sowing, and pesticide spraying. It is essential to develop a Decision-making Support System (DSS) for UAVs to help them choose the correct action in states according to the policy. In an unknown environment, the method of formulating rules for UAVs to help them choose actions is not applicable, and it is a feasible solution to obtain the optimal policy through reinforcement learning. However, experiments show that the existing reinforcement learning algorithms cannot get the optimal policy for a UAV in the agricultural plant protection environment. In this work we propose an improved Q-learning algorithm based on similar state matching, and we prove theoretically that there has a greater probability for UAV choosing the optimal action according to the policy learned by the algorithm we proposed than the classic Q-learning algorithm in the agricultural plant protection environment. This proposed algorithm is implemented and tested on datasets that are evenly distributed based on real UAV parameters and real farm information. The performance evaluation of the algorithm is discussed in detail. Experimental results show that the algorithm we proposed can efficiently learn the optimal policy for UAVs in the agricultural plant protection environment.

9.
Ecotoxicol Environ Saf ; 190: 110079, 2020 Mar 01.
Artigo em Inglês | MEDLINE | ID: mdl-31841891

RESUMO

The application of Atrazine in soil has always been a main problem in agriculture because its residuals may maintain in the soil for a long term. In this paper, two strains of Atrazine degrading bacteria (Klebsiella sp. FH-1 and Arthrobacter sp. NJ-1) were used to make biological compound microbial inoculum to repair the Atrazine contaminated typical black soil in Northeast China. Grain chaff was chosen as the optimal carrier material for microbial inoculum. The dynamic changes of Atrazine were detected by gas chromatography. The half-life of Atrazine in soil containing microbial inoculum was shortened from 9.8 d to 4.2 d. The Atrazine sensitive crops grown in the repaired soil showed increased stem length, root length, and emergence rate. The effects of microbial remediation on the original bacterial and fungal biota in the typical black soil in Northeast China were analyzed using the metagenomic approach. Results showed that Atrazine inhibited the original bacteria and fungi populations. The total numbers of bacterial and fungal species in the soil were partially recovered by adding the microbial inoculum. Two genera (Sphingosinicella and Sphingomonas) were the dominant bacteria. The beneficial bacterial biota was recovered and the number of species of the beneficial bacteria was higher than that in the original soil after adding the microbial inoculum. The dominant fungi included genera Guehomyces and Chaetomella. There was a total of 113 unclassified fungal genera (22.6% of 499), indicating the potential utility of the unclassified fungal species in the assessment of the soil contamination by Atrazine.


Assuntos
Arthrobacter/metabolismo , Atrazina/metabolismo , Herbicidas/metabolismo , Klebsiella/metabolismo , Microbiologia do Solo , Agricultura , Biodegradação Ambiental , China , Fungos/isolamento & purificação , Microbiota
10.
Genetica ; 147(1): 1-9, 2019 Feb.
Artigo em Inglês | MEDLINE | ID: mdl-30242535

RESUMO

The MYB-CC gene family encode proteins that harbor a combination of characteristic myeloblastosis (MYB) and coiled-coil (CC) domain structures. Some MYB-CC genes have been demonstrated to represent transcription factors regulating phosphate uptake and controlling the starvation response in plants. Despite their physiological importance, a systematic analysis of MYB-CC genes has not been reported in maize. In our study, we identified and characterized maize MYB-CC genes at whole-genome level. A total of 12 maize MYB-CC genes (ZmMYB-CC1 to ZmMYB-CC12) were identified located in six out of the 10 chromosomes of maize. Their gene structures showed similar splicing patterns and large variations of intron length. Multiple sequence alignments revealed that all MYB-CC proteins in maize shared conserved sequence cores corresponding to the MYB and CC domains, respectively. The family expanded in maize partly due to tandem and segmental duplication events. Phylogenetic analysis of MYB-CC genes indicated that the MYB-CC gene family can be divided into two subfamilies and that gene members with same functions were found in the same groups. Results provide a very useful reference for cloning and functional analysis of PHR-like genes in maize and suggest a method to predict and select appropriate candidate genes for functional genomic analysis of useful traits in crop plants.


Assuntos
Genoma de Planta , Família Multigênica , Proteínas de Plantas/genética , Fatores de Transcrição/genética , Zea mays/genética , Sequência Conservada , Domínios Proteicos , Fatores de Transcrição/química
11.
Genetica ; 147(1): 11, 2019 02.
Artigo em Inglês | MEDLINE | ID: mdl-30382438

RESUMO

In the original publication of the article, the incorrect version of Fig. 1 was mistakenly used. The correct version of the figure is provided in this correction.

12.
Ecotoxicol Environ Saf ; 183: 109581, 2019 Nov 15.
Artigo em Inglês | MEDLINE | ID: mdl-31446172

RESUMO

Chlorimuron-ethyl is a sulfonylurea herbicide with a long residual period in the field and is toxic to rotational crops. Klebsiella jilinsis 2N3 is a gram-negative bacterium that can rapidly degrade Chlorimuron-ethyl. In this study, the gene expression changes in strain 2N3 during degradation of Chlorimuron-ethyl was analyzed by RNA-Seq. Results showed that 386 genes were up-regulated and 453 genes were down-regulated. KEGG pathway enrichment analysis revealed the highest enrichment ratio in the pathway of sulfur metabolism. On the basis of the functional annotation and gene expression, we predicted that carboxylesterase, monooxygenase, glycosyltransferase, and cytochrome P450 were involved in the metabolism of Chlorimuron-ethyl biodegradation. Results of qRT-PCR showed that the relative mRNA expression levels of these genes were higher in treatment group than those in control group. The cytochrome P450 encoded by Kj-CysJ and the alkanesulfonate monooxygenase encoded by Kj-SsuD were predicted and further experimentally confirmed by gene knockout as the key enzymes in the biodegradation process. Cultured in basal medium containing Chlorimuron-ethyl (5  mg L-1) in 36 h, the strains of ΔKj-CysJ, ΔKj-SsuD, and WT reached the highest OD600 values of 0.308, 0.873, and 1.085, and the highest degradation rates of Chlorimuron-ethyl of 11.83%, 96.21%, and 95.62%, respectively.


Assuntos
Herbicidas/metabolismo , Klebsiella/genética , Pirimidinas/metabolismo , Poluentes do Solo/metabolismo , Compostos de Sulfonilureia/metabolismo , Transcriptoma , Proteínas de Bactérias/genética , Proteínas de Bactérias/metabolismo , Biodegradação Ambiental , Regulação Bacteriana da Expressão Gênica , Klebsiella/crescimento & desenvolvimento , Klebsiella/metabolismo , Enxofre/metabolismo
13.
Int J Mol Sci ; 20(20)2019 Oct 16.
Artigo em Inglês | MEDLINE | ID: mdl-31623139

RESUMO

The vacuolar H+-ATPase (V-ATPase) plays many important roles in cell growth and in response to stresses in plants. The V-ATPase subunit H (VHA-H) is required to form a stable and active V-ATPase. Genome-wide analyses of VHA-H genes in crops contribute significantly to a systematic understanding of their functions. A total of 22 VHA-H genes were identified from 11 plants representing major crops including cotton, rice, millet, sorghum, rapeseed, maize, wheat, soybean, barley, potato, and beet. All of these VHA-H genes shared exon-intron structures similar to those of Arabidopsis thaliana. The C-terminal domain of VHA-H was shorter and more conserved than the N-terminal domain. The VHA-H gene was effectively used as a genetic marker to infer the phylogenetic relationships among plants, which were congruent with currently accepted taxonomic groupings. The VHA-H genes from six species of crops (Gossypium raimondii, Brassica napus, Glycine max, Solanum tuberosum, Triticum aestivum, and Zea mays) showed high gene structural diversity. This resulted from the gains and losses of introns. Seven VHA-H genes in six species of crops (Gossypium raimondii, Hordeum vulgare, Solanum tuberosum, Setaria italica, Triticum aestivum, and Zea mays) contained multiple transcript isoforms arising from alternative splicing. The study of cis-acting elements of gene promoters and RNA-seq gene expression patterns confirms the role of VHA-H genes as eco-enzymes. The gene structural diversity and proteomic diversity of VHA-H genes in our crop sampling facilitate understanding of their functional diversity, including stress responses and traits important for crop improvement.


Assuntos
Produtos Agrícolas/genética , Genoma de Planta , Estudo de Associação Genômica Ampla , Família Multigênica , Subunidades Proteicas/genética , ATPases Vacuolares Próton-Translocadoras/genética , Processamento Alternativo , Sequência de Aminoácidos , Produtos Agrícolas/classificação , Genômica/métodos , Motivos de Nucleotídeos , Filogenia , Regiões Promotoras Genéticas , ATPases Vacuolares Próton-Translocadoras/química , ATPases Vacuolares Próton-Translocadoras/metabolismo
14.
Int J Mol Sci ; 20(12)2019 Jun 22.
Artigo em Inglês | MEDLINE | ID: mdl-31234527

RESUMO

Klebsiella pneumoniae 2N3 is a strain of gram-negative bacteria that can degrade chlorimuron-ethyl and grow with chlorimuron-ethyl as the sole nitrogen source. The complete genome of Klebsiella pneumoniae 2N3 was sequenced using third generation high-throughput DNA sequencing technology. The genomic size of strain 2N3 was 5.32 Mb with a GC content of 57.33% and a total of 5156 coding genes and 112 non-coding RNAs predicted. Two hydrolases expressed by open reading frames (ORFs) 0934 and 0492 were predicted and experimentally confirmed by gene knockout to be involved in the degradation of chlorimuron-ethyl. Strains of ΔORF 0934, ΔORF 0492, and wild type (WT) reached their highest growth rates after 8-10 hours in incubation. The degradation rates of chlorimuron-ethyl by both ΔORF 0934 and ΔORF 0492 decreased in comparison to the WT during the first 8 hours in culture by 25.60% and 24.74%, respectively, while strains ΔORF 0934, ΔORF 0492, and the WT reached the highest degradation rates of chlorimuron-ethyl in 36 hours of 74.56%, 90.53%, and 95.06%, respectively. This study provides scientific evidence to support the application of Klebsiella pneumoniae 2N3 in bioremediation to control environmental pollution.


Assuntos
Genoma Bacteriano , Klebsiella pneumoniae/metabolismo , Pirimidinas/metabolismo , Compostos de Sulfonilureia/metabolismo , Herbicidas , Klebsiella pneumoniae/genética , Filogenia , Sequenciamento Completo do Genoma
15.
Bioorg Med Chem Lett ; 26(13): 3195-3201, 2016 07 01.
Artigo em Inglês | MEDLINE | ID: mdl-27216999

RESUMO

In hypoxic-ischemic injury of the brain of neonates, the level of caspase-3 was found to be aberrantly activated. Its overexpression leads to the alteration of cytoskeleton protein fodrin and loss of DNA repair enzyme which ultimately results in neurological impairment and disability. Concerning this, the present study was intended to develop novel nicotine hydrazide analogues as caspase inhibitors via efficient synthetic route. These compounds were subsequently tested for inhibitory activity against caspase-3 and -7 where they exhibit highly potent activity against caspase-3 revealing compound 5k as most potent inhibitor (IC50=19.4±2.5µM). In Western blot analysis, 5k considerably inhibits the overexpression of caspase-3. The aryl nicotinate of compound 5k, as indicated by molecular docking was found to engage His121 and critical enzyme thiols, i.e., Cys163 of caspase-3 for its potent activity. Moreover, histopathological examination of brain tissues and hippocampus neurons showed that compound 5k considerably improves the brain injury and exert neuroprotective effects in hypoxic-ischemic (HI). In brain homogenate, 5k significantly improves the activity of MDA, SOD, GSH-Px, CAT and T-AOC to exert its beneficial effect against oxidative stress induced by HI injury.


Assuntos
Caspase 3/metabolismo , Caspase 7/metabolismo , Inibidores de Caspase/farmacologia , Hipóxia-Isquemia Encefálica/tratamento farmacológico , Fármacos Neuroprotetores/farmacologia , Nicotina/análogos & derivados , Animais , Inibidores de Caspase/síntese química , Inibidores de Caspase/química , Relação Dose-Resposta a Droga , Hipóxia-Isquemia Encefálica/metabolismo , Estrutura Molecular , Fármacos Neuroprotetores/síntese química , Fármacos Neuroprotetores/química , Nicotina/síntese química , Nicotina/química , Nicotina/farmacologia , Ratos , Relação Estrutura-Atividade
16.
Plant Dis ; 99(2): 219-224, 2015 Feb.
Artigo em Inglês | MEDLINE | ID: mdl-30699568

RESUMO

Rice blast, caused by Magnaporthe oryzae, is one of the most severe fungal diseases in rice worldwide. In this study, we developed methods to quickly and accurately detect and quantify M. oryzae in the pure cultures of the fungus, rice plants, and rice seed by using SYBR Green I of the real-time quantitative polymerase chain reaction (qPCR). Results of absolute qPCR show that Magnaporthe oryzae can be detected at as low as 6.9 × 10-5 ng of genomic DNA. Results also show that all 10 varieties of rice seed examined in this study contain this fungus, indicating that M. oryzae is generally widespread in rice seed. We report the quantification of DNA of M. oryzae in rice leaves collected in the field, instead of in the lab, using relative qPCR by using rice actin gene as a housekeeping gene. Our results show great practical significance because we would know the potential fungal infection even before planting.

17.
Archaea ; 2014: 590214, 2014.
Artigo em Inglês | MEDLINE | ID: mdl-24987307

RESUMO

The study of the origin of diversified life has been plagued by technical and conceptual difficulties, controversy, and apriorism. It is now popularly accepted that the universal tree of life is rooted in the akaryotes and that Archaea and Eukarya are sister groups to each other. However, evolutionary studies have overwhelmingly focused on nucleic acid and protein sequences, which partially fulfill only two of the three main steps of phylogenetic analysis, formulation of realistic evolutionary models, and optimization of tree reconstruction. In the absence of character polarization, that is, the ability to identify ancestral and derived character states, any statement about the rooting of the tree of life should be considered suspect. Here we show that macromolecular structure and a new phylogenetic framework of analysis that focuses on the parts of biological systems instead of the whole provide both deep and reliable phylogenetic signal and enable us to put forth hypotheses of origin. We review over a decade of phylogenomic studies, which mine information in a genomic census of millions of encoded proteins and RNAs. We show how the use of process models of molecular accumulation that comply with Weston's generality criterion supports a consistent phylogenomic scenario in which the origin of diversified life can be traced back to the early history of Archaea.


Assuntos
Archaea/fisiologia , Evolução Biológica , Filogenia , Archaea/genética , Estados Unidos
18.
J Environ Sci Health B ; 49(2): 79-86, 2014.
Artigo em Inglês | MEDLINE | ID: mdl-24328539

RESUMO

By enrichment culturing of soil contaminated with metribuzin, a highly efficient metribuzin degrading bacterium, Bacillus sp. N1, was isolated. This strain grows using metribuzin at 5.0% (v/v) as the sole nitrogen source in a liquid medium. Optimal metribuzin degradation occurred at a temperature of 30ºC and at pH 7.0. With an initial concentration of 20 mg L(-1), the degradation rate was 73.5% in 120 h. If the initial concentrations were higher than 50 mg L(-1), the biodegradation rates decreased as the metribuzin concentrations increased. When the concentration was 100 mg L(-1), the degradation rate was only 45%. Degradation followed the pesticide degradation kinetic equation at initial concentrations between 5 mg L(-1) and 50 mg L(-1). When the metribuzin contaminated soil was mixed with strain N1 (with the concentration of metribuzin being 20 mg L(-1) and the inoculation rate of 10(11) g(-1) dry soil), the degradation rate of the metribuzin was 66.4% in 30 days, while the degradation rate of metribuzin was only 19.4% in the control soil without the strain N1. These results indicate that the strain N1 can significantly increase the degradation rate of metribuzin in contaminated soil.


Assuntos
Bacillus/genética , Bacillus/metabolismo , Herbicidas/metabolismo , Microbiologia do Solo , Poluentes do Solo/metabolismo , Triazinas/metabolismo , Bacillus/crescimento & desenvolvimento , Bacillus/isolamento & purificação , Biodegradação Ambiental , Cromatografia Gasosa , Concentração de Íons de Hidrogênio , Cinética , Dados de Sequência Molecular , Filogenia , Reação em Cadeia da Polimerase , RNA Ribossômico 16S/genética , Análise de Sequência de DNA , Solo/química , Temperatura
19.
PLoS One ; 19(7): e0302490, 2024.
Artigo em Inglês | MEDLINE | ID: mdl-38968205

RESUMO

The role of knowledge graph encompasses the representation, organization, retrieval, reasoning, and application of knowledge, providing a rich and robust cognitive foundation for artificial intelligence systems and applications. When we learn new things, find out that some old information was wrong, see changes and progress happening, and adopt new technology standards, we need to update knowledge graphs. However, in some environments, the initial knowledge cannot be known. For example, we cannot have access to the full code of a software, even if we purchased it. In such circumstances, is there a way to update a knowledge graph without prior knowledge? In this paper, We are investigating whether there is a method for this situation within the framework of Dalal revision operators. We first proved that finding the optimal solution in this environment is a strongly NP-complete problem. For this purpose, we proposed two algorithms: Flaccid_search and Tight_search, which have different conditions, and we have proved that both algorithms can find the desired results.


Assuntos
Algoritmos , Inteligência Artificial , Conhecimento , Software , Humanos
20.
Mar Biotechnol (NY) ; 26(2): 230-242, 2024 Apr.
Artigo em Inglês | MEDLINE | ID: mdl-38502428

RESUMO

Antibiotics are widely used in aquaculture to treat the bacterial diseases. However, the improper use of antibiotics could lead to environmental pollution and development of resistance. As a safe and eco-friendly alternative, antimicrobial peptides (AMPs) are commonly explored as therapeutic agents. In this study, a mutant strain of Tetraselmis subcordiformis containing AMP NZ2114 was developed and used as an oral drug delivery system to reduce the use of antibiotics in turbot (Scophthalmus maximus) aquaculture. The gut, kidney, and liver immune-related genes and their effects on gut digestion and bacterial communities in turbot fed with NZ2114 were evaluated in an 11-day feeding experiment. The results showed that compared with the group fed with wild-type T. subcordiformis, the group fed with T. subcordiformis transformants containing NZ2114 was revealed with decreased levels of both pro-inflammatory factors (TNF-α and IL-1ß), inhibitory effect on Staphylococcus aureus, Vibrio parahaemolyticus, and Vibrio splendidus demonstrated by the in vitro simulation experiments, and increased richness and diversity of the gut microbiota of turbot. In conclusion, our study provided a novel, beneficial, and low-cost method for controlling bacteria in turbot culture through the oral drug delivery systems.


Assuntos
Linguados , Microalgas , Animais , Linguados/imunologia , Linguados/genética , Linguados/microbiologia , Administração Oral , Peptídeos Antimicrobianos/farmacologia , Peptídeos Antimicrobianos/genética , Microbioma Gastrointestinal/efeitos dos fármacos , Aquicultura , Clorófitas , Vibrio/efeitos dos fármacos , Antibacterianos/farmacologia , Antibacterianos/administração & dosagem , Fígado/metabolismo , Fígado/efeitos dos fármacos , Staphylococcus aureus/efeitos dos fármacos
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