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    26 November 2023, Volume 39 Issue 11
    How Organisms Adapt to Stressful Environments and Molecular Breeding of Stress Tolerance
    ZHAO Yang, ZHAO Xin-qing
    2023, 39(11):  1-5. 
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    Mechanisms of Plant Sensing Drought Signals
    YU Bo, QIN Xiao-hui, ZHAO Yang
    2023, 39(11):  6-17.  doi:10.13560/j.cnki.biotech.bull.1985.2023-0763
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    Drought causes osmotic stress and is the most serious natural disaster leading to crop failure. Ever since Darwin studied how plants sense and respond to drought, we have understood the mechanism of ABA(abscisic acid)signaling and gained some clues about drought and osmotic stress sensing and signaling in plants. In this review, we summarized recent advances in plant osmotic stress sensing and signaling. We proposed the putative manners of signal inputs during drought and osmotic stresses and discussed how plants sense and transduce these signals. We also discussed the core scientific questions and made perspective about the future directions in this field, aiming to provide clues for crop genetic improvement with drought resistance.

    Molecular Mechanisms of Cell Wall Integrity in Plants Under Salt Stress
    WANG Ming-tao, LIU Jian-wei, ZHAO Chun-zhao
    2023, 39(11):  18-27.  doi:10.13560/j.cnki.biotech.bull.1985.2023-0622
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    Cell wall not only supports and protects plant cells, but also serves as the first barrier for plants to resist environmental stresses. As one of the major abiotic stresses that restrict agricultural production, salt stress can cause the alteration of cell wall composition and structure, and these changes can be perceived by cell wall integrity sensors, such as CrRLK1Ls, LRXs, and WAKs, to activate intracellular salt stress responses. In the cell interior, salt stress-induced influx of Ca2+ and activation of phytohormone signaling promote the expressions of genes that are associated with cell wall biosynthesis and modification, which in turn facilitate the maintenance of cell wall integrity and improve the adaptation of plants to high salinity. In this review, the main components of primary cell wall polysaccharides and their cross-linking with each other are summarized. The impact of salt stress on cell wall polysaccharides, and the molecular mechanisms by which plants perceive and maintain cell wall integrity under salt stress, are also elucidated. Finally, the scientific questions that need to be further addressed in the research field of cell wall integrity under salt stress are discussed.

    Molecular Mechanism of Cold Signal Perception and Transduction in Plants
    ZHANG Xiao-yan, YANG Shu-hua, DING Yang-lin
    2023, 39(11):  28-35.  doi:10.13560/j.cnki.biotech.bull.1985.2023-0615
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    Cold stress is an important environmental stress affecting plant growth, development and crop productivity. Plants sense the low temperature signal and quickly initiate the low temperature response to reduce the damage caused by low temperature stress. Recent studies have revealed the low-temperature potential sensors and complex regulatory network in plant cold stress responses. Plants may perceive cold signal at multiple levels; however, the detailed mechanisms remain unclear. Cold-induced second messengers such as Ca2+ signal and ROS are decoded, thereby activating the expressions of cold-responded genes. Moreover, protein post-translational modifications(PTMs)regulate protein activity and stability and play critical roles in early cold signal transduction in plants. Here, we focus on the molecular mechanism of plant perception and transmission of low temperature early signals, and discusses and looks forward to the challenges and research directions in the field of low temperature stress.

    Recent Progress in Oxidative Stress Signaling and Response in Plants
    ZHOU Heng, XIE Yan-jie
    2023, 39(11):  36-43.  doi:10.13560/j.cnki.biotech.bull.1985.2023-0519
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    Abiotic stress such as drought, salt, and extreme temperature are important factors affecting plant growth and development. The rapid accumulation of reactive oxygen species can lead to the disruption of intracellular redox homeostasis, further inducing secondary oxidative stress damage, when plants are subjected to stress. In addition to primary stress signals, plant cells also need secondary oxidative stress signals to respond abiotic stress. The perception and transmission of redox signals play an important role in plant oxidative stress response, which relies on reversible oxidative post-translational modifications of proteins mediated by a variety of small molecules with redox activity. This article reviews the research progress in plant redox signals, and discusses the future direction in this field, aiming to provide reference for further research on plant oxidative stress response and redox signal transduction.

    Advances in the Regulation of Stress Sensing and Responses by Phase Separation in Plants
    ZHANG Hong-hong, FANG Xiao-feng
    2023, 39(11):  44-53.  doi:10.13560/j.cnki.biotech.bull.1985.2023-0720
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    The formation of biomolecular condensates via phase separation has emerged as the key way of organization inside cells. Biomolecular condensates possess specific functions and provide a microenvironment for specific biochemical reactions, and finely regulates cellular activities in space and time. Phase separation is a highly dynamic process that is extremely sensitive to changes in temperature, pH, salt concentration, and other physicochemical factors. Consequently, phase separation can rapidly respond to external stimuli, serving as a stress sensor to perceive and transduce stress signals. In recent years, the involvement of phase separation in plants has gained increasing attention, particularly in the context of stress sensing and response. This article summarizes recent research on the roles of phase separation in stress signal perception and response, and provides an overview of the research progress regarding the role of phase separation in plant stress responses. The aim is to provide insights for further studies on the roles of phase separation in stress perception and adaptation in plants.

    The Key Roles of Mediator Complex in Plant Responses to Abiotic Stress
    XU Rui, ZHU Ying-fang
    2023, 39(11):  54-60.  doi:10.13560/j.cnki.biotech.bull.1985.2023-0847
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    Mediator complex, as an essential coactivator in the eukaryotic transcription machinery, plays a crucial role in bridging RNA polymerase II and various transcription factors to regulate gene transcription. When plants encounter various abiotic stresses, the mediator complex integrates stress signals and activates or suppresses the expressions of target genes, thereby helping plants to adapt to environmental stress. This article summarizes the discovery of the mediator complex, and different functions of plant mediator complex under drought, salt, and extreme temperature conditions. It also discusses future research directions of the mediator complex to gain a deeper understanding of its role in regulating responses to abiotic stress.

    Research Progress in Plant Small Signaling Peptides Involved in Abiotic Stress Response
    CHEN Guang-xia, LI Xiu-jie, JIANG Xi-long, SHAN Lei, ZHANG Zhi-chang, LI Bo
    2023, 39(11):  61-73.  doi:10.13560/j.cnki.biotech.bull.1985.2023-0139
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    Plant small signaling peptides(SSPs)are a class of small peptides with a protein length of less than 120 amino acids. They play an important role as novel signaling molecules in plant responses to abiotic stresses. There are over thousand kinds of SSPs in plants. Their diverse structural features, modification processes, and the binding of different receptors exert their specific functions to participate in the interactions between plants and their environment. The identification of functional genes of plant SSPs and the analysis of their regulatory mechanisms in response to abiotic stresses are of great theoretical and practical importance for enhancing plant resistance and improving plant growth. Plant SSPs mainly include four major categories: extracellular non-secretory small peptides, intracellular non-secretory small peptides, extracellular post-translational modified secretory small peptides, and extracellular cysteine-rich secretory small peptides. We briefly describe four types of plant SSPs'structure and characteristics in this review. We also elucidate their regulatory mechanisms in which SSP ligands bind to LRR-RLK receptor kinases to complete the signal transduction process and activate the expressions of downstream resistance genes. We mainly elaborate on their biological functions and their function mechanisms in response to abiotic stresses such as drought, high temperature, salinity, and nutrient deficiency. Finally, we discuss the future research directions and unresolved issues of plant SSPs. We also look forward to the development of corresponding SSPs-based growth regulators, aiming to provide new ideas for improving plant responses to environmental stress and achieving sustainable agricultural development.

    Research Progress in Salt Gland Secretion and Development in Plants
    MA Qiu-yu, YUAN Fang
    2023, 39(11):  74-85.  doi:10.13560/j.cnki.biotech.bull.1985.2023-0581
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    Salt gland is one of the important epidermal structures of recreto-halophytes in resistance to salt stress, which secrete excessive salt ions out of the body to prevent the plant from being damaged by salt stress. As an important structure to achieve high salt resistance in halophytes, salt glands deserve extensive attention and discussion in the fields of stress physiology, development and evolutionary biology. A large number of studies have been reported in the ultrastructure, physiological function, mechanism of salt secretion and developmental pattern of salt glands. In this paper, we reviewed the research progress of salt gland structure, secretion mechanism and salt gland development, summarized the feasible pathways of salt gland secretion and the regulation mode and key genes of salt gland development, proposed relevant views for future research on salt gland secretion and development, and discussed the role of this unique morphological structure of salt gland on plant salt tolerance. We also proposed the theoretical basis and suggestions for improving plant salt tolerance and breeding salt-tolerant plant varieties. The related studies will be beneficial for in-depth analysis of plant salt tolerance adaptation evolution, cultivation of salt resistant crops, and efficient utilization of saline land.

    Research Progress in Response of DREBs to Abiotic Stress in Plant
    HAN Fang-ying, HU Xin, WANG Nan-nan, XIE Yu-hong, WANG Xiao-yan, ZHU Qiang
    2023, 39(11):  86-98.  doi:10.13560/j.cnki.biotech.bull.1985.2023-0124
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    Abiotic stresses such as cold, drought and high salinity seriously affect the global plant growth and productivity. Dehydration Responsive Element-Binding(DREB)is one of the important transcription factors in plants, and its family members all contain a conservative AP2 domain with 57-70 amino acid residues. DREBs regulate the expressions of various stress genes downstream and endows plants with stress tolerance by binding to dehydration responsive element/C-repeat(DRE/CRT)cis-acting elements in the promoter region of stress-induced genes. This article summarizes the current progresses on the structural characteristics, classification of DREB family, mainly focusing on their functions and molecular mechanisms in response to abiotic stress, aiming to have a deeper understanding of the molecular regulatory network of DREB transcription factors in the stress response process, and to provide a reference for improving plant stress tolerance through genetic engineering in the future.

    Advances in Jasmonic Acid Regulating Plant Growth and Development as Well as Stress
    SUN Yu-tong, LIU De-shuai, QI Xun, FENG Mei, HUANG Xu-zheng, YAO Wen-kong
    2023, 39(11):  99-109.  doi:10.13560/j.cnki.biotech.bull.1985.2023-0323
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    As immobile organisms, plants perceive external stimuli and respond to them by altering their own signal transduction. Plant hormones function as important signaling molecules in plant responses to different biotic and abiotic stresses in order to regulate plant growth and development and to adapt to changing environments. Jasmonic acid is one of the important hormones in plants, and its synthetic pathways and physiological effects have been studied extensively, but there is still much lack of research on its signal transduction pathways to sense and respond to environmental changes and its interactions with other plant hormones. This paper focuses on the research progress of jasmonic acid in the regulation of plant growth and development, stress response and its interaction with other plant hormones.

    Advances on the Expressions of Foreign Proteins in Plants
    JIANG Min-xuan, LI Kang, LUO Liang, LIU Jian-xiang, LU Hai-ping
    2023, 39(11):  110-122.  doi:10.13560/j.cnki.biotech.bull.1985.2023-0662
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    The system using plants as hosts to express foreign proteins is called molecular farming. The production of foreign proteins in plants via Agrobacterium tumefaciens-mediated transformation has the advantages of high efficiency, safety and low cost. Especially, protein post-translational modification in plants can make up for the defects of the prokaryotic expression system. In this review, we firstly introduce advances in tobacco leaf transient expression or rice endosperm specific expression, especially some typical examples of producing pharmaceutical proteins, medical compounds, and vaccines in molecular farming. In terms of optimizing bioreactors and improving expression efficiency, we then focus the regulation in protein post-translation, including the role of protease inhibitors, and the effects of glycosylation modification processes, and molecular chaperones co-expression on the expressions of foreign proteins. Finally, based on the foreign proteins accumulation in the endoplasmic reticulum(ER)would induce stress to ER, we propose the feasibility of increasing expression efficiency of foreign proteins by optimizing the ER environment.

    Research Progress in the Improvement of Microbial Strain Tolerance and Efficiency of Biological Manufacturing Based on Transporter Engineering
    LI Xin-yue, ZHOU Ming-hai, FAN Ya-chao, LIAO Sha, ZHANG Feng-li, LIU Chen-guang, SUN Yue, ZHANG Lin, ZHAO Xin-qing
    2023, 39(11):  123-136.  doi:10.13560/j.cnki.biotech.bull.1985.2023-0750
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    Microbial cell factories have been extensively used for sustainable production of biofuels, as well as high value and bulk chemicals. However, high concentration products or substrates, as well as stressful conditions during industrial production, may compromise fermentation efficiency and decreasing economics of production. In this context, microbial stress tolerance is crucial for green and sustainable production of the target products. In recent years, the use of transporters to protect microbial cells from toxic compounds for enhancing strain tolerance has received increasing worldwide attention. This review summarizes the progress of studies on microbial strain tolerance enhancement based on transporter engineering, analyses the current key points in the field of transporter research and discusses strategies to enhance strain tolerance based on transporter manipulation. Especially,the review highlights the applications of artificial intelligence in transporter annotation, structure simulation and substrate-transporter interaction prediction, aiming to promote the application of microorganisms in biological manufacturing.

    Research Advances in the Enhancement of Microbial Tolerance to Acid Stress
    HU Jin-chao, SHEN Wen-qi, XU Chao-ye, FAN Ya-qi, LU Hao-yu, JIANG Wen-jie, LI Shi-long, JIN Hong-chen, LUO Jian-mei, WANG Min
    2023, 39(11):  137-149.  doi:10.13560/j.cnki.biotech.bull.1985.2023-0686
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    Microorganisms are often exposed to accumulation of various acidic substances during the fermentation process, which can seriously inhibit fermentation activity and production performance of the strains. Therefore, microorganisms have formed complex response mechanisms for the adaptation of low pH stress by coordinating cellular multiple physiological systems, metabolic pathways and regulatory network during the long-term evolution. The acid tolerance enhancement of the industrial microorganisms is a key way to improve its production efficiency. This review summarizes the recent research advances in the improvement on cell resistance to acids by the adaptive laboratory evolution, pre-adaptation, genome shuffling, genetic engineering, the global transcription machinery engineering, system biology and synthetic biology. The challenges and outlook of the relevant research are also discussed.

    Microbial Sulfur Metabolism and Stress Resistance
    YAN Xiong-ying, WANG Zhen, WANG Xia, YANG Shi-hui
    2023, 39(11):  150-167.  doi:10.13560/j.cnki.biotech.bull.1985.2023-0616
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    Sulfur metabolism is an important life metabolism in microbes. Sulfur transportation, assimilation, metabolic regulation and biosynthesis of important sulfur-containing compounds by microorganisms not only affect the growth and metabolism of microorganisms, but also influence the stress resistance and robustness of microorganisms in inhibitory environments. Most of current researches are focusing on the microbial sulfate assimilatory reduction process and H2S production with few studies on microbial sulfur metabolism and stress resistance. This review summarized sulfate transport, assimilatory reduction pathway, and regulatory networks in the process of sulfur metabolism. Combined with the oxidative stress responses of microorganisms under different stress conditions, the review discussed mechanism by which sulfur-containing compounds such as hydrogen sulfide, glutathione and cysteine improve the stress resistance of microorganisms. The revelation of molecular mechanism between sulfur metabolism and microbial stress resistance will not only help understand microbial sulfur metabolism further, but also provide candidate molecular targets for the design and construction of efficient and robust industrial strains.

    Role and Mechanism of Polyphosphate in the Microbial Response to Environmental Stresses
    WANG Chen-yu, ZHOU Chu-yuan, HE Di, FAN Zi-hao, WANG Meng-meng, YANG Liu-yan
    2023, 39(11):  168-181.  doi:10.13560/j.cnki.biotech.bull.1985.2023-0625
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    The ability of microorganisms resisting to environmental stresses is an essential strategy for enhancing their adaptability and survival in adversity. In order to understand microbial development and use microbial resources, it is necessary to probe the processes and molecular mechanisms underpinning microbial stresses response. Polyphosphate(polyP)plays an important role in the resistance of microorganisms to environmental stresses. polyP acts as a signalling molecule and energy source to increase the adaptation of microorganisms to low nutrient environment if nutrients are in deficiency. To respond to environmental stresses, microorganisms can utilize polyP as a chaperone of protein to decrease the alteration of protein structure by modifying it to maintain its function. Additionally, polyP is metal chelator to increase the resistance of microorganisms to heavy metal stress. Furthermore, microorganisms can balance sharp changes in environmental pH by controlling polyP synthesis while they can regulate energy consumption during acid and alkali stresses. Based on the properties of polyP, transduced genes related to polyP synthesis can increase its content in crops,and thus their resistances to environmental stresses are improved. Microorganisms with polyP synthesis can be used to treat heavy metal-containing wastewater, the removal efficiency of heavy metal ions increases significantly. Additionally, polyP particles synthesized by microbe can be further used as bioactive products. Thus, polyP plays a diverse role in the stress resistance of microorganisms to enhance their tolerance to environmental stress through various molecular pathways. Further understanding the role and mechanism of polyP in microbial resistances to environmental stresses is not only enriching the research on microbial resistance to environmental stress, and also providing technical support for the engineering application of polyphosphate bioactive substances.

    Advances in the Antioxidant Activities of Lactic Acid Bacteria and Their Applications
    ZHAO Jia, ZHAO Fei-yan, SHEN Xin, GAO Guang-qi, SUN Zhi-hong
    2023, 39(11):  182-190.  doi:10.13560/j.cnki.biotech.bull.1985.2023-0603
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    As a natural antioxidant, the antioxidant properties of lactic acid bacteria(LAB)have been one of the hot spots of research. Most of the LAB are anaerobic or partly anaerobic, and are generally suitable to grow in anaerobic environment or low oxygen. Some strains of LAB have good antioxidant properties because they contain highly active antioxidant enzymes and redox systems. As a common fermenting microorganism, LAB are not only useful in food production for improving flavour, but their antioxidant effect is important for extending the shelf life of food. Likewise, oxidative stress in the body is closely related to many physiological and pathological phenomena, and numerous studies have demonstrated the beneficial function of LAB in alleviating related diseases. This paper reviews the oxidative stress of LAB, their response and defence mechanisms, and technical methods and applications to improve the antioxidant activity of LAB, with the aim of providing theoretical references for an in-depth understanding of the antioxidant mechanisms of LAB and the development of strains with fine antioxidant activity.

    Research Progress in the Exploring Genomic Variations Driven by Stress Factors Using the Yeast Model
    ZHU Ying-xuan, LI Ke-jing, HE Min, ZHENG Dao-qiong
    2023, 39(11):  191-204.  doi:10.13560/j.cnki.biotech.bull.1985.2023-0723
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    Genomic alteration is the molecular basis for the occurrence of genetic diseases and species evolution. This process is affected by the joint action of endogenous and exogenous physical and chemical factors of the cell. The genome in model organism Saccharomyces cerevisiae is small, thus it is easy for carrying out molecular genetic manipulation, and is widely used in research related to exploring the evolutionary regulation mechanism of genome variation. This article sums the typical DNA mutation detection genetic system in yeast models, including the use of reporter genes to detect DNA mutation rates and red and white/red sectoring colonies to screen chromosomal recombinants. Further the article also discussed the application of high-throughput sequencing technology in detecting spontaneous and stress factor-induced genomic alterations. Moreover, this review summarizes the research progresses in using S. cerevisiae to investigate the impacts of temperature fluctuations, oxidative stress, anti-tumor drug, heavy metal ions, radiation, and other stressors on genome stability and genetic mechanisms. Yeast cells are prone to undergo adaptive evolution under multiple stressful conditions, and specific chromosomal structural variations is an important genetic mechanism behind the adaptation. It may provide new insights for a comprehensive understanding of the impact of stressors on genome stability and the evolutionary patterns of species under different environments by combining genetic screening systems and high-throughput analysis methods in yeast to elucidate the relationship between cellular stress factors and genome variations.

    Stress Tolerance of Escherichia coli to Inhibitors in Lignocellulosic Hydrolysates
    TANG Rui-qi, ZHAO Xin-qing, ZHU Du, WANG Ya
    2023, 39(11):  205-216.  doi:10.13560/j.cnki.biotech.bull.1985.2023-0722
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    Lignocellulosic biomass(LCB)is a promising alternative to fossil material, the biofuels, biochemicals and biomaterials are produced via its biorefinery, which may reduce carbon emissions, contributing to achieve the carbon peaking and carbon neutrality goals. Therefore, LCB is receiving more and more attentions. However, there are multiple steps involved in lignocellulosic biorefinery including pretreatment, microbial fermentation and product purification, in which, various compounds generated from pretreatment of LCB inhibit cell growth and fermentation performance of microbes, which is one of the bottlenecks of bioconversion efficiency. Escherichia coli is a commonly used host for lignocellulosic biorefinery and extensively used for the production of many compounds, thus, it is of great importance to study the stress tolerance of E. coli to inhibitors in lignocellulosic hydrolysates for improving lignocellulosic biorefinery efficiency. This paper first introduced the main components and structures of lignocellulose, and briefly elucidated pretreatment methods to lignocellulose as well as main inhibitors in the hydrolysate after pretreatment. Then the paper summarized the toxic effects of main inhibitor furans, carboxylic acids and phenolics in the hydrolysate of lignocellulose on E. coli, as well as the mechanisms of stress tolerance against these inhibitors and the engineering targets for improving strain tolerance based on the mechanisms. Finally, the paper reviewed the strategies for strain engineering to improve the tolerance of E. coli to above motioned inhibitors, including random mutagenesis, adaptive laboratory evolution and omics-assisted rational design,, aiming to provide references for metabolic engineering of efficient E. coli strains for lignocellulosic biorefinery.

    Preparation of Compound Halotolerant Bioinoculant and Study on Its Growth-promoting Effect
    CHE Yong-mei, LIU Guang-chao, GUO Yan-ping, YE Qing, ZHAO Fang-gui, LIU Xin
    2023, 39(11):  217-225.  doi:10.13560/j.cnki.biotech.bull.1985.2023-0123
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    Soil salinization is a major factor seriously limiting crop growth and yield. Using soil beneficial microorganisms for saline field amendment is the reliable and sustainable approach. Two halotolerant bacteria strains, Microbacterium oxydans C8 and Stenotrophomonas maltophilia B4, were isolated from saline field in our previous study. Strain C8 has the ability to dissolve potassium, organic and inorganic phosphorus as well as produce auxin. Strain B4 is capable of solubilizing organic phosphorus and producing auxin. In this paper, the effect of mixed culture of C8 and B4 on their functions was studied. The results showed that the mixed culture of C8 and B4 demonstrated significantly stronger ability of dissolving potassium, phosphorus and produce auxin than a single strain. Orthogonal experiments and response surface test were used to optimize the fermentation medium and condition of C8 and B4 mixture, the results showed that the optimized fermentation medium was as follows: glucose 10 g/L, yeast extract 10 g/L, sodium chloride 4.5 g/L. The optimized fermentation conditions were: pH 7.4, temperature 28.8℃, rotating speed 129 r/min, inoculation amount 2%, the liquid content 20% and culture time 23 h. Using tobacco as material, the growth-promoting effects of compound bioinoculant of C8 and B4 were studied. The results showed that, the compound bioinoculant significantly prompted plant growth under salt stress.

    Construction and Mechanism Analysis of High-temperature Resistant Saccharomyces cerevisiae
    SUN Yan-qiu, XIE Cai-yun, TANG Yue-qin
    2023, 39(11):  226-237.  doi:10.13560/j.cnki.biotech.bull.1985.2023-0417
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    This work aims to construct Saccharomyces cerevisiae strains with excellent high-temperature tolerance and investigate the high-temperature tolerance mechanisms of the strains. CRISPR/Cas9 technology was used to knock out ASP3 in flocculating industrial S. cerevisiae strain KF-7 and further highly expressed CRZ1(Encoding transcription factor Crz1p with zinc finger structure). And the high-temperature tolerance mechanism of the recombinant strains was revealed through comparative transcriptomic analysis. The results showed that the ASP3-knockout strain KAS11 utilized 98.36 g/L glucose and produced 43.68 g/L ethanol at 44℃. After CRZ1 high expression based on KAS11, strain KASCR7 produced 48.02 g/L ethanol from 105.37 g/L glucose. Compared with KF-7, the ethanol production of the two recombinant strains increased by 4.77% and 15.18%, respectively. Comparative transcriptomic analysis revealed that genes involved in ribosome biogenesis and translation significantly repressed in the recombinant strains under high-temperature stress. In contrast, heat shock protein genes as well as genes involved in biosynthesis of NAD+, NADH, purine, glycerol, and proline were significantly induced. These responses may collectively lead to the enhanced high-temperature tolerance of the recombinant strains. The results may provide excellent strain resources and theoretical basis for the construction of excellent high-temperature tolerant S. cerevisiae strains.

    Identification of AP Gene Family and Its Response Analysis to Abiotic Stress in Setaria italica
    XING Yuan, SONG Jian, LI Jun-yi, ZHENG Ting-ting, LIU Si-chen, QIAO Zhi-jun
    2023, 39(11):  238-251.  doi:10.13560/j.cnki.biotech.bull.1985.2023-0588
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    Aspartic protease(AP)is a pivotal hydrolase enzyme that assumes a critical role in plant growth, development, resilience against both biological and abiotic stressors. Foxtail millet(Setaria itlica)is the model crop for stress resistance study of C4 gramineous plants, but there are few studies on the gene function of AP(SiAPs)in foxtail millet. In order to further explore the functional role of the APs in foxtail millet, the members of the SiAPs were indentified based on whole-genome screening of SiAPs conserved Pfam sequences, and bioinformatics method was used to analyze their physical and chemical properties, subcellular localization, gene structure, conserved domain, phylogenetic development, promoter cis-acting elements and collinearity by bs. Meanwhile, fluorescence quantitative PCR technique was used to study its expression mode under abiotic stress. The results showed that there were 58 AP gene family members in foxtail millet genome. Phylogenetic tree analysis demonstrated that the gene family could be divided into 5 subfamilies, among which Group B encoded atypical AP, while other subfamilies encoded nucellin-like AP. The analysis of gene structure and conserved motifs revealed that members of the same subfamily of APs in foxtail millet were highly conserved. Collinearity analysis showed that there were a large number of homologous gene pairs between SiAPs and rice(Oryza sativa)and maize(Zea mays)AP genes. The study of promoter cis-acting elements indicated that most members of SiAPs contained cis-acting elements related to abiotic stress and biohormone response, such as cis-acting elements in response to drought and low-temperature stress, and salicylic acid response elements. Further quantitative PCR results uncovered that SiAPs were differentially expressed in the root, stem, leaf and panicle of foxtail millet. The expressions of SiAP3, SiAP9 and SiAP48 genes significantly increased under low temperature stress. Under drought stress and SA treatments, the change trend of some gene expression was basically the same. SiAPs play an important role in regulating foxtail millet response to abiotic stress. The results of this study may provide reference for stress resistance analysis of SiAPs.

    Genome-wide Identification of the PRX Gene Family in Cabbage(Brassica oleracea L. var. capitata)and Expression Analysis Under Abiotic Stress
    GE Wen-dong, WANG Teng-hui, MA Tian-yi, FAN Zhen-yu, WANG Yu-shu
    2023, 39(11):  252-260.  doi:10.13560/j.cnki.biotech.bull.1985.2023-0073
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    Class III peroxidases(PRX)play an important role in plant growth and development and stress response. In this study, the class III PRX gene family of cabbage was identified by bioinformatics, its function and structure were predicted, and the expression patterns of PRX gene under different abiotic stresses were analyzed, aiming to clarify the functional and evolutionary relationship of PRX gene family in cabbage genome. The results showed that a total of 125 BoPRX gene family members were identified in the cabbage genome, and were unevenly distributed on 9 chromosomes, the encoded 173-488 amino acids, and most were hydrophilic. Subcellular localization predicted that most BoPRX genes were located in chloroplasts. Phylogenetic analysis showed that the members of PRX family genes in the cabbage were classified into 5 groups, and members of each group had similar exon/intron structures and protein-conserved motifs. Promoter region analysis revealed that the BoPRX promoter sequence contained a variety of cis-regulatory elements related to abiotic stress responses such as hormones and stress. Heat map analysis of transcriptome data demonstrated that BoPRXs expression was the highest in chloroplasts. Fluorescence quantitative PCR analysis showed that 6 BoPRX genes were induced to be up-regulated by NaCl and PEG. Under ABA stress, except for BoPRX100, the expressions of the remaining genes were inhibited at most time, the expressions of the BoPRXs were all differentially regulated by ABA, indicating that they were all involved in the ABA signaling pathway. These findings reveal a complex regulation of PRXs that is dependent on the type of PRX, and the signaling molecule. It provides valuable information for further analysis of the functions of key members of the PRX family of cabbage.

    Cloning of Three Cabbage WRKY Genes and Their Expressions in Response to Abiotic Stress
    YANG Xu-yan, ZHAO Shuang, MA Tian-yi, BAI Yu, WANG Yu-shu
    2023, 39(11):  261-269.  doi:10.13560/j.cnki.biotech.bull.1985.2023-0133
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    WRKY proteins are a class of transcription factors involved in plant growth and development, biotic and abiotic stress, and other biological processes. To study the response mechanism of cabbage WRKY genes under stress of adversity may lay the foundation for further research on the stress tolerance function of BoWRKYs. BoWRKY40BolC02g035760.2J), BoWRKY46BolC04g031460.2J), and BoWRKY70BolC04g035730.2J)from cabbage(Brassica oleracea var. capitata L.)seedlings were cloned by PCR approach. The pSuper1300: BoWRKYs-GFP expression vector was constructed by homologous recombination method for subcellular localization. Response patterns of BoWRKYs genes to abscisic acid(ABA), PEG8000 and salt stress were analyzed by RT-qPCR. As results, the length of CDS regions of BoWRKY40, BoWRKY46 and BoWRKY70 were 873, 831 and 864 bp, which encoded proteins of 290, 276 and 287 amino acids, respectively. The predicted molecular weights of BoWRKY proteins were 32.41, 32.08 and 32.52 kD with theoretical isoelectric points(pI)of 6.77, 6.18 and 5.62. The conserved structural domain of the WRKY superfamily ‘WRKYGQK’ was present in the proteins, and multiple alignment analysis revealed that BoWRKYs had high conservation with WRKYs in ArabidopsisArabidopsis thaliana), tomato(Solanum lycopersicum L.), maize(Zea mays L.), and cotton(Gossypium hirsutum L.). Subcellular localization analysis showed that BoWRKYs were located in the nucleus. Fluorescence quantitative PCR results showed that WRKY family genes were induced in different degrees under ABA, PEG8000 and salt stress. Among them, BoWRKY40 responded positively to three kinds of stress, BoWRKY46 and BoWRKY70 were up-regulated under ABA and salt stress, and their expressions gradually decreased after PEG8000 treatment. These results indicated that the expressions of cabbage BoWRKY40, BoWRKY46, and BoWRKY70 were closely related to stress responses.

    Expression Analysis of the ZF-HD Gene Family in Chrysanthemum nankingense Under Drought and ABA Treatment
    CHEN Chu-yi, YANG Xiao-mei, CHEN Sheng-yan, CHEN Bin, YUE Li-ran
    2023, 39(11):  270-282.  doi:10.13560/j.cnki.biotech.bull.1985.2023-0530
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    Drought is an important abiotic factor affecting the growth and yield of chrysanthemum, while ZF-HD transcription factor family plays an important role in coping with drought stress. Chrysanthemum nankingense is a model plant for studying genetic and breeding mechanism of chrysanthemum, screening its drought resistance related genes may lay a foundation for the relevant research in chrysanthemum. In this study, we established a local database and achieving local BLAST based on the C. nankingense genome, and used the Pfam database, HMMER, DNAMAN, MEGA, Tbtools, ExPASy, WoLF PSORT online sites and real-time fluorescence quantification for screening as well as bioinformatics and expression analysis of ZF-HD family genes. The results showed that a total of 19 ZF-HD gene family members were identified in the C. nankingense, divided into two subfamilies, ZHD and MIF, with the ZHD subfamily including subgroup I-VI. The tissue specific expressions of family members were temporally and spatially variable, their promoter regions were enriched with growth and development, stress and hormone-related response elements. The results of RT-qPCR showed that 19 CnZF-HD genes all responded to the drought stress and ABA treatment, and expression was induced under drought conditions. The genes CnZF-HD4, CnZF-HD9, CnZF-HD10, CnZF-HD14, CnZF-HD15 and CnZF-HD19 were also induced to be expressed in ABA treatment. Subgroup VI played an important role in regulating the drought resistance of C. nankingense. In addition, the expression of CnZF-HD1 gene was continuously up-regulated under drought conditions, thus it could be a candidate gene for drought resistance, but its sensitivity to ABA needs further study.

    Identification of the NAC Gene Family in Rosa persica and Response Analysis Under Drought Stress
    FENG Ce-ting, JIANG Lyu, LIU Xing-ying, LUO Le, PAN Hui-tang, ZHANG Qi-xiang, YU Chao
    2023, 39(11):  283-296.  doi:10.13560/j.cnki.biotech.bull.1985.2023-0531
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    NAC transcription factors play a crucial role in plant stress response, and the study of the drought tolerance of Rosa persica, which is mainly distributed in Xinjiang Uygur Autonomous Region, China, is of great importance for the management of ecological problems in desert areas. Genome-wide identification of the NAC gene family in R. persica was performed, the gene family characteristics and expression patterns were analyzed, and the NAC gene expression under drought stress was validated using real time quantitative PCR(RT-qPCR). The NAC gene family had a highly variable gene profile, while the gene structure and motifs were relatively conserved. Promoter analysis indicated that RbeNAC had an important role in the regulation of hormone synthesis and adaptation to environmental stresses. Analysis of transcriptome-based data revealed that RbeNAC gene expression demonstrated tissue specificity and response to drought stress. RT-qPCR results indicated that seven genes(RbeATAF, RbeSOG1, RbeNAC17, RbeNAC71, RbeNAC72, RbeNAC90 and RbeNAC96)in the roots and leaves, responded positively to drought stress. In this study, the NAC genes of R. persica were identified, the feasible functions of different genes were explored, and seven genes that respond positively to drought stress were found, which may provide a reference for breeding for stress resistance in R. persica.

    Identification of GRAS Gene Family and Expression Analysis Under Low Temperature Stress in Actinidia chinensis
    MAO Ke-xin, WANG Hai-rong, AN Miao, LIU Teng-fei, WANG Shi-jin, LI Jian, LI Guo-tian
    2023, 39(11):  297-307.  doi:10.13560/j.cnki.biotech.bull.1985.2023-0324
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    GRAS gene family is widely involved in plant growth and stress response. Low temperature is one of the important factors that restricts the production and distribution of kiwifruit(Actinidia chinensis). The GRAS gene family of kiwifruit was identified, its expression under low temperature stress was analyzed, which may provide a theoretical basis for the research on cold resistance and variety breeding of kiwifruit. The GRAS gene family conserved domains were compared with the genome of A. chinensis ‘Hongyang’ reference, and the identified family members were analyzed by phylogenetic tree, protein physical, chemical properties, gene structure, protein tertiary structure, protein motif, cis-acting elements, collinearity, codon usage preference and gene expression mode. The results showed that there was a total of 79 GRAS family genes in kiwifruit genome, belonging to 8 subfamilies, and there were differences in gene and protein structures among each subfamily. Analysis of cis-acting elements showed the genes were involved in multiple plant hormone, growth and development, and stress response. Through codon preference analysis, it was found that the third base of GRAS family preferred to use pyrimidine bases G/T. Six genes were identified that may be involved in the low-temperature stress process in kiwifruit, and this hypothesis was validated by fluorescence quantitative PCR.

    Cloning and Salt-tolerance Analysis of NAC Transcription Factor SiNAC77 from Sesamum indicum L.
    ZHANG Yu-juan, LI Dong-hua, GONG Hui-hui, CUI Xin-xiao, GAO Chun-hua, ZHANG Xiu-rong, YOU Jun, ZHAO Jun-sheng
    2023, 39(11):  308-317.  doi:10.13560/j.cnki.biotech.bull.1985.2023-0096
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    NAC transcription factors play an important role in the regulation of plant growth, development, and responses to salt stress. The gene SiNAC77 in Sesamum indicum L. is involved in the response process to salt stress. Here, SiNAC77 was cloned to investigate its salt-tolerant function stress, which may provide a theoretical reference and valuable gene resource for breeding salt-tolerant sesame(Sesamum indicum L.)plants. First, the coding sequence(CDS)of SiNAC77 was cloned from Luzhi No.1, and its gene sequence and amino acid sequence characteristics were analyzed using bioinformatics tools. Subsequently, an SiNAC77-overexpressed vector was constructed and transformed containing SiNAC77 was constructed and the transformation of Arabidopsis was conducted using Agrobacterium tumefaciens. Finally, the salt-tolerant genotypes, physiological and biochemical indexes of the transgenic plants were analyzed under saline stress. As results, the CDS region of SiNAC77, 1 008 bp in length, was cloned successfully. The SiNAC77 gene encoded a protein containing 335 amino acids, with a molecular weight of 135.93 kD, an isoelectric point of 4.91 and 33 potential phosphorylation sites. The SiNAC77 promoter contained MBS, STRE, ARE, ABRE and TCA elements, functionally known to be involved in abiotic stress and phytohormone responses. The SiNAC77 overexpression vector was constructed and transformed successfully into Arabidopsis, and 12 independent transgenic lines were generated. Compared with wild-type Arabidopsis under salt stress, the transgenic lines had significantly higher seed germination rates, longer primary roots, higher fresh weights, significantly lower Na+/K+ ratios and MDA contents and higher SOD and POD antioxidant enzyme activities. In summary, the overexpression of SiNAC77 improved the salt tolerance in transgenic plants by enhancing the activities of antioxidant enzymes and reducing ionic toxicity and oxidative damage.

    Identification of the Lipoxygenase Gene GeLOX1 and Expression Analysis Under Low Temperature Stress in Gelsmium elegans
    YOU Chui-huai, XIE Jin-jin, ZHANG Ting, CUI Tian-zhen, SUN Xin-lu, ZANG Shou-jian, WU Yi-ning, SUN Meng-yao, QUE You-xiong, SU Ya-chun
    2023, 39(11):  318-327.  doi:10.13560/j.cnki.biotech.bull.1985.2023-0551
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    In recent years, the medicinal and feeding value of Gelsemium elegans has become increasingly prominent. However, G. elegans is not tolerant to low temperatures during its growth process. Exploring its low temperature response genes may lay the foundation for the research of cold resistance breeding of G. elegans. Lipoxygenase(LOX)has a significant impact on the physiological and biochemical processes of plants in seed aging, stress resistance, and other aspects. The LOX genes of G. elegans in response to low temperature stress were mined from the transcriptome database of G. elegans constructed by our team. A full-length cDNA sequence of the GeLOX1 gene was cloned from the leaves of G. elegans using RT-PCR technology, and its bioinformatics, subcellular localization, gene expression, prokaryotic expression, and plate stress were analyzed. The results showed that the amino acid length of the protein encoded by the GeLOX1 was 761 aa, and the relative molecular weight of the protein was 87.00 kD. It was predicted to be an unstable hydrophilic protein, containing 28 serine phosphorylation sites, 22 threonine phosphorylation sites, and 9 tyrosine phosphorylation sites. The analysis results of evolutionary tree indicated that GeLOX1 belonged to the 9-LOX family. The subcellular localization test results showed that the GeLOX1 was located in the cytoplasm. Real time fluorescence quantitative PCR analysis revealed that the GeLOX1 was highly expressed in the roots of the G. elegans, and its expressions showed a downward trend under 4℃ low temperature stress. After prokaryotic expression induction, the recombinant protein of the GeLOX1 showed a target band at approximately 111 kD, and the accumulation of the recombinant protein reached its peak at 8 h of induction. In addition, the plate stress experiment showed that the prokaryotic expression strain of the GeLOX1 was more sensitive to low temperature stress compared to the control group. The research results indicate that GeLOX1 of G. elegans can respond to low temperature stress.

    Cloning of Basic Helix-loop-helix(bHLH)Transcription Factor Gene SabHLH169 in Suaeda aralocaspica and Analysis of Its Resistances to Drought Stress
    YAN Meng-yu, WEI Xiao-wei, CAO Jing, LAN Hai-yan
    2023, 39(11):  328-339.  doi:10.13560/j.cnki.biotech.bull.1985.2023-0049
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    The basic helix-loop-helix(bHLH)transcription factor(TF)is one of the largest TF families in eukaryotes, its members are widely involved in plant growth, development and response to stress. In our previous work of studying photosynthesis key enzyme PEPC-1 in Suaeda aralocaspica, a bHLH TF(SabHLH169)potentially interacting with the SaPEPC-1 promoter was screened. In the present study, the biological characteristics and preliminary function of this gene was explored, which may provide evidence for further studies of bHLH related genes in S. aralocaspica. The gene was obtained by homogous cloning, and the drought-resistant properties of SabHLH169 gene were characterized by bioinformatics and qRT-PCR analyses. The results showed that the open reading frame(ORF)of SabHLH169 contained 2100 bp nucleotides, encoding an protein containing 699 amino acids. The protein had a typical bHLH structural domain at the C-terminus. The prokaryotic expression and Western blot of the recombinant protein showed that the protein was expressed correctly, and the size was consistent with the predicted result. Arabidopsis thaliana transgenic lines of SabHLH169 presented higher drought tolerance at germination stage. Under drought stress, three drought-responsive genes(AtRD22, AtRD29A and AtDREB2A)and three photosynthesis key enzyme genes(AtLhcb2, AtRubicso and AtPEPC)were up-regulated in transgenic A. thaliana. Meanwhile, the PEPC enzyme activity was significantly enhanced. It is speculated that SabHLH169 gene may be involved in response to drought stress.

    Characteristics of Class II Peroxidase Gene Expression During Fruiting Body Development and Stress Response in Flammulina filiformis
    LIU Yuan-yuan, WEI Chuan-zheng, XIE Yong-bo, TONG Zong-jun, HAN Xing, GAN Bing-cheng, XIE Bao-gui, YAN Jun-jie
    2023, 39(11):  340-349.  doi:10.13560/j.cnki.biotech.bull.1985.2023-0624
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    Class II peroxidase(CIIp)is an important antioxidant enzyme in active oxygen metabolism, and participates in the oxidative response of organism. Based on the genomic data of Fammulina filiformis, two Class II peroxidase genes were identified and named as FfCIIp1 and FfCIIp2, respectively. Online software was used for bioinformatics analysis of the genes, and real-time fluorescence quantitative PCR was used to analyze the expression patterns of genes in different fruit body tissues and stress responses of F. filiformis. The results showed that the full length of FfCIIp1 was 1 638 bp, including a complete open reading frame of 1 131 bp, encoding 376 amino acids. FfCIIp2 was 1 410 bp in length, containing a complete open reading frame of 1 032 bp and encoding 343 amino acids. Conserved domain and phylogenetic analysis showed that FfCIIp1 and FfCIIp2 belonged to the manganese peroxidase and generic peroxidase families, respectively. RT-qPCR results showed that both FfCIIp genes were highly expressed in the stipe during the elongation stage, and significantly up-regulated in the stipe of fast elongation region. FfCIIp1 and FfCIIp2 were up-regulated by both injury and oxidative stress, and the up-regulated range of FfCIIp2 was significantly higher than FfCIIp1. These results indicate that two CIIp family genes are involved in stipe elongation and stress response, and FfCIIp2 is more sensitive to injury and oxidative stress of F. filiformis.

    Identification of Lactate Dehydrogenase in Pleurotus ostreatus and Heat Stress Expression Analysis of Mycelium
    WU Bai-zeng, HE Qi, YAO Fang-jie, ZHAO Meng-ran
    2023, 39(11):  350-359.  doi:10.13560/j.cnki.biotech.bull.1985.2023-0631
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    Lactate dehydrogenase(LDH)catalyzes the reversible conversion between pyruvate and lactic acid. In order to explore the role of LDH genes in heat stress response of Pleurotus ostreatus, eight coding genes of LDH were identified in the genome of P. ostreatus strain CCMSSC00389. The bioinformatics analyses showed that three genes encoded D-lactate dehydrogenase and five gene encoded L-lactate dehydrogenase. The results from the amino acid sequence alignment, phylogenetic analysis, three-dimensional structure and subcellular localization showed that three D-lactate dehydrogenases sharing a high homolog, which belonged to cytochrome C-dependent D-lactate dehydrogenase, and D-LDH2 and D-LDH3 were located in mitochondria. The five L-lactate dehydrogenases having a low homolog were divided into three different types according to electron acceptor and subcellular localization. The gene transcription changes of lactate dehydrogenase at 36℃ and 40℃ indicated the similar expression characteristics shared by D-ldh3, L-ldh5 and L-ldh7, as well as by L-ldh6 and L-ldh8; while the distinctive expression characteristics within D-ldh1, D-ldh2 and L-ldh4 was observed, which revealed varied response ways of the LDH genes to different stress temperatures. The total lactate dehydrogenase enzyme activity decreased and the intracellular lactic acid content increased under the heat stress. The inhibiting effects of lactate dehydrogenase inhibitor and exogenous lactic acid on the mycelia growth of P. ostreatus suggested that LDH regulated the mycelia growth under heat stress. It is speculated that P. ostreatus lactate dehydrogenase affects the conversion of intracellular LDH to pyruvate by reducing gene transcription level and enzyme activity, resulting in excessive accumulation of intracellular lactic acid and cell damage, and finally inhibits the growth rate of hyphae.

    Redox-sensitive Genetic Parts Improve the Tolerance of Yeast to Lignocellulosic Hydrolysate Inhibitors
    WANG Wen-tao, FENG Qi, LIU Chen-guang, BAI Feng-wu, ZHAO Xin-qing
    2023, 39(11):  360-372.  doi:10.13560/j.cnki.biotech.bull.1985.2023-0858
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    Cellulosic ethanol, as a clean and renewable green energy, has promising application prospects. However, the fermentation process of Saccharomyces cerevisiae using lignocellulose to produce ethanol is susceptible to various stresses,thus improving the stress tolerance of fermenting microorganisms has become an essential topic in the field of biorefinery. In this work, we attempted to engineer cells to use the output of the internal redox-sensitive biosensor Yap1 to drive intracellular metabolic reactions(including ROS metabolism and aldehyde degradation), which will improve the tolerance of S. cerevisiae to reactive oxygen species and aldehyde inhibitors. Firstly, we analyzed the sequences of several native endogenous promoters(PTRR1, PTRX2, and PMET16)in S. cerevisiae that can be regulated by the redox-sensitive biosensor Yapl and their response strengths to typical inhibitors in lignocellulosic hydrolysates. Secondly, we designed redox-sensitive genetic parts in order to improve the stress resistance of S. cerevisiae by combining the promoters with corresponding resistance genes. Finally, we tried to integrate the better performing GP-CTT and GP-ADH in tandem to construct a dual-genetic parts system, which was named GP-AC. The integration greatly improved the ability of S. cerevisiae to cope with multiple complex stresses, and the cell death rate decreased by 69.6% under the coexistence of aldehyde and oxidation stress. Compared with GP-CTT, the specific growth rate, glucose consumption rate and ethanol production rate of GP-AC increased by 64.2%, 60.1%, and 58.9%, respectively. At the same time, the catalase activity of the recombinant strain increased by 40.2% compared with the single genetic part. In conclusion, this study systematically improved the stress tolerance of S. cerevisiae by rationally designing the genetic circuit of redox-sensitive genetic parts and strengthening the intracellular vital antioxidant enzymes and aldehyde degradation pathways. It provides new insights for rationally designing and constructing feedback genetic circuits to dynamically improve yeast robustness.