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    26 January 2022, Volume 38 Issue 1
    Research Progress of RNA Editing
    ZHU Lin, XIAN Feng-jun, ZHANG Qian-nan, HU Jun
    2022, 38(1):  1-14.  doi:10.13560/j.cnki.biotech.bull.1985.2021-1326
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    RNA editing is a post-transcriptional process on the target transcripts by base insertion,deletion,or replacement. This important epigenetic phenomenon is also considered as a correction mechanism for genetic restoration at the RNA level. Here,we reviewed the RNA editing systems based on PPR gene family in plants and CRISPR/Cas editing system in animal, introduced the important role of RNA editing in the plant growth and development, and prospected future application of RNA editing. In addition we also summarized the recent research on RNA editing database,which support the follow-up research of RNA editing.

    Application of cryo-Electron Microscopy in Molecular Botany Research
    YIN Guo-liang, SUN Wen-hao, PANG Xiao-yun, SUN Fei
    2022, 38(1):  15-32.  doi:10.13560/j.cnki.biotech.bull.1985.2021-1562
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    Various physiological activities of plants depend on the interaction and dynamic changes of many plant proteins/protein complexes at the molecular level. Understanding their structure and function is very important to study the molecular mechanism of plant physiological activities. With the recent technology advances,including the development of direct electron detectors and sophisticated image processing algorithms,cryo-electron microscopy(cryo-EM)has gradually become an important technique for studying proteins/protein complexes,which provides an efficient research tool to study the molecular mechanism of plant physiological activities. At present,the application of cryo-EM in molecular botany is still in the early stage,and researches on the structure and function of important plant protein complexes are not sufficient. Starting from a brief introduction of the history of cryo-EM development,this review summarizes the recent applications of cryo-EM in studying photosynthesis and plant stress response,aiming to promote the cooperation in the study field of molecular botany and cryo-EM.

    Advances of Single-molecule Fluorescence Detection Techniques and Applications in Plant Biology
    ZHANG Yuan, ZHANG Xue-ping, ZHANG Yue-qian, LI Xiao-juan
    2022, 38(1):  33-43.  doi:10.13560/j.cnki.biotech.bull.1985.2021-0793
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    Single-molecule fluorescence detection techniques(SMD)are used to image and track the conformational changes,dynamics and interactions of fluorescently labeled molecules at single-molecule level. Compared with the traditional molecular and genetic approaches,SMD can analyze the dynamical characteristics of individual molecules,especially instantaneous and occasionally events that may be hidden in massive average measurements. Therefore,SMD has been widely used in animal researches,which made numerous important contributions to molecular mechanisms in biology researches. However,the application of SMD in plants remains to be further developed. In this review,we introduced the most recently advances of SMD techniques. Then we summarized its application cases in plant biology,as well as the application prospect of SMD in plant biology researches in the near future.

    Development of Neo-tetraploid Rice and Research Progress on Its Heterosis Mechanism
    LIU Xiang-dong, WU Jin-wen, SHAHID Muhammad Qasim
    2022, 38(1):  44-50.  doi:10.13560/j.cnki.biotech.bull.1985.2021-0406
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    Neo-tetraploid rice is a kind of new polyploid rice germplasm with high fertility,which harbors several elite genes. Heterosis in yield was found in F1 hybrids of neo-tetraploid rice crossed with autotetraploid rice,which had potential for commercial production. Here,first of all,the research progress on autotetraploid rice was described,focusing on the development procedure,main characteristics,and molecular genetic mechanism of heterosis in neo-tetraploid rice. Finally,the key issues for further research were advanced. It will provide the basis for accelerating the utilization of neo-tetraploid rice in polyploid rice breeding.

    From Functional Genes to Biological Characteristics:The Molecular Basis of Pathogenicity in Verticillium dahliae
    TIAN Li, LI Jun-jiao, DAI Xiao-feng, ZHANG Dan-dan, CHEN Jie-yin
    2022, 38(1):  51-69.  doi:10.13560/j.cnki.biotech.bull.1985.2021-1205
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    Verticillium dahliae is a soil-borne vascular pathogen fungus,excavation and functional analysis of its disease-related genes has been a hotspot in plant pathology research. V. dahliae is characterized of adapting to the plant vascular niche,of inducing foliar wilting either by producing toxins or employing its secretome,of forming microsclerotia for long-term survival,and of evolving a variety of population structures,etc.,thus these traits ultimately support or determine the pathogenic basis of pathogenicity to the host. Evolutionarily,functional genes determine the biological characteristics of a pathogen. Currently,hundreds of functional genes have been identified in V. dahliae,but their relationships to the key biological characteristics and how they contribute to its virulence have remained an unexplored topic. We systematically outlined the development process of identifying the functional genes in V. dahliae,focused on sorting the relationships between pathogenicity of V. dahliae and the functional genes determining its key biological traits based on the logic clue of functional genes determining biological traits,thus clarified the relationships between pathogenicity of V. dahliae and the functional genes determining its key biological traits. This exploration will provide the theoretical foundations for systematically constructing the functional gene networks of key biological characteristics in V. dahliae and explaining the molecular basis of pathogenicity and virulence in V. dahliae from the aspect of the functional genes determining its key biological traits.

    Generation of bdfls2-knockout Mutant in Brachypodium distachyon Mediated by CRISPR/Cas9
    WANG Rui, HAN Lie-bao
    2022, 38(1):  70-76.  doi:10.13560/j.cnki.biotech.bull.1985.2021-0326
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    The FLS2,as an important plant pattern recognition receptor(PRRs),can recognize bacterial flagellins and activate the first level of innate immune response in plants. In order to further study the innate immune of plants in lawn,having the cold-season turfgrass plant Brachypodium distachyon as materials,CRISPR/Cas9 gene editing technology was used to specifically edit the of B. distachyon’s BdFLS2 related to plant resistance and immune,and bdfls2-knockout mutants was obtained,which lays a material foundation for further studying FLS2’s innate immune. We screened transgenic positive plants,carried out sequencing analysis of mutant gene bdfls2,and the results showed that the sequence encoded by gene bdfls2 in the mutant was terminated early due to the deletion of the base. Meanwhile,the bdfls2 mutants didn’t show significant ROS burst or defense-related gene activation after treatment with pathogen-associated molecular pattern flg22 while compared with wild one;suggesting that FLS2 in B. distachyon may play an important role to recognize pathogen-associated molecular pattern flg22 and to activate pattern-triggered immunity.

    Interactions Between ZmJAZ and ZmMYC2 Using Bimolecular Fluorescence Complementation Assay
    LV Di, CHEN Ru-mei, ZHOU Xiao-jin
    2022, 38(1):  77-85.  doi:10.13560/j.cnki.biotech.bull.1985.2021-0181
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    JAZ(Jasmonate ZIM-domain)proteins are negative regulators in the JA signaling pathway,clarifying the interaction between JAZ protein and MYC2 is crucial for understanding the JA signaling pathway. qRT-PCR was applied to examine the expressions of ZmJAZ genes,and discovered seed preferentially expressed ZmJAZ4,reproductive organ predominantly expressed ZmJAZ8,and constitutively expressed ZmJAZ12. Then,the subcellular localizations of these AZ proteins and ZmMYC2 were investigated using protoplasts of maize mesophyll cells transiently expressing vector. Besides,the interactions between these JAZ proteins and ZmMYC2 were analyzed by bimolecular fluorescence complementation(BiFC). The results showed that ZmJAZ4,ZmJAZ8,and ZmJAZ12 were located in cell nucleus,and BiFC assay revealed that these JAZ proteins interacted with ZmMYC2 in cell nucleus,confirming that ZmJAZ family proteins had function of binding key transcription factor ZmMYC2 in JA signal pathway,suggesting that ZmMYC2 can regulate its transcriptional activity by binding to ZmMYC2.

    Diversity and Growth Promotion of Endophytic Bacteria Isolated from Passiflora edulia Sims
    TANG Jia-cheng, LIANG Yi-min, MA Jia-si, PENG Gui-xiang, TAN Zhi-yuan
    2022, 38(1):  86-97.  doi:10.13560/j.cnki.biotech.bull.1985.2021-0144
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    Endophytes can provide nutrients for plants and also promote plant growth through metabolites. Currently,there are few studies on endophytes in Passiflora edulia Sims. P. edulia Sims is a herbaceous vine of the Passiflora genus of the Passiflora family and mainly distributed in tropical and subtropical regions. By isolating and purifying the endophytes of P. edulia Sims,the obtained strains were clustered according to the IS-PCR results,the 16S rRNA genes of the representative strains were sequenced and phylogenetic analysis was performed,and their nitrogenase activity,auxin-producing capacity,phosphorus-dissolving ability,potassium-dissolving ability,protease production ability and physiological and biochemical characteristics were tested. The isolated and purified 51 strains of P. edulia Sims endophytic bacteria,clustered into 12 groups,belonging to Bacillus altitudinis,Bacillus circulans,Lysinibacillus macrolides,Brevibacillus antibioticus,Paenibacillus illinoisensis,Microbacterium zeae,Rhizobium pusense,Beijerinckia fluminensis,Achromobacter mucicolens,Stenotrophomonas maltophilia,Klebsiella michiganensis and Klebsiella pneumonia,the growth-promoting characteristics of the isolated endophytes were determined,and the results showed that the isolated representative endophytes had abundant functions,10 of them had the ability of secreting auxin,5 of them had nitrogen-fixing function,6 of them had phosphorus-dissolving function,7 of them had potassium-dissolving ability,3 of them had the ability of secreting siderophores,and 5 of them had the ability of producing protease. This experiment shows that the endophytes isolated from P. edulia Sims have both population diversity and functional diversity. These strains with different characteristics are expected to be utilized in agricultural production to exert their values.

    Physiological Response of Hibiscus syriacus Varieties to Cadmium Stress and Evaluation of Cadmium Tolerance
    YANG Fu-rong, WANG Xiao-hong, XIAO Qi, FANG Juan, LI Li-hua
    2022, 38(1):  98-107.  doi:10.13560/j.cnki.biotech.bull.1985.2021-0132
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    The objective is to study the physiological effects of cadmium stress on Hibiscus syriacus and compare the cadmium tolerance of H. syriacus varieties,so as to provide basis for the selection of plant materials in cadmium polluted areas. Three H. syriacus cultivars were used as materials,and pot experiment was conducted to determine their growth and physiological indexes. Membership function analysis was used to comprehensively compare the cadmium tolerance of varieties. The growth of height and ground diameter,the content of chlorophyll A+B and soluble protein of H. syriacus first increased and then decreased or gradually decreased with the increase of stress concentration,and the degree of decrease gradually increased with the extension of time. Free proline,malondialdehyde content and SOD activity increased gradually with the increase of stress concentration and time,but decreased in different degrees under long-term high concentration stress. The results of membership function analysis showed that the tolerance of varieties varied with the stress concentration. The growth of H. syriacus under Cd stress was promoted by low concentration and inhibited by high concentration,and with the extension of time,the promotion weakened and the inhibition strengthened. In addition,the performance of ‘Hong xing’ is the best,which is worth of promoting.

    Transformation and Expression Pattern Analysis of Gene MtSAG113 from Medicago truncatula
    LI Shu-wen, LI Yin-rui-zhi, DONG Di, WANG Meng-di, CHAO Yue-hui, HAN Lie-bao
    2022, 38(1):  108-114.  doi:10.13560/j.cnki.biotech.bull.1985.2020-0481
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    Senescence Associated Gene 113(SAG113)genes belong to PP2Cc super family and they are involved in plant senescence. This work aims to analyze the expression characteristics of the gene MtSAG113 of Medicago truncatula and to explore the function of the MtSAG113. This gene was cloned from M. truncatula. Using Nicotiana tabacum L. and M. truncatula R108 as experimental materials,the Agrobacterium-mediated leaf disc method was used to transform tobacco to obtain transgenic plants with resistance. The expression of MtSAG113 from M. truncatula was detected under induction of stress and exogenous hormones. The results showed that 5 transgenic plants successfully expressed in tobacco were obtained by PCR detection and the transgenic plants presented the phenotype of shortness and premature leaf senescence compared with the wild ones. The expressions of MtSAG113 in the senescence leaves were much higher than those in non-senescence leaves. In untreated leaves,the expression of this gene gradually increased with time and the gene was significantly up-regulated expressed under drought stresses. The expressions were significantly up-regulated under salt stresses and reached the peak when suffered for 12 h. The gene was particularly sensitive to 6-BA induction,and the expression increased significantly with time increasing,reached a peak at 4 h,which was about 1 000 times higher than those untreated. Treated with ABA and IAA,MtSAG113 exhibited a similar expression pattern,the expression increased from 4 h,reached a peak at 12 h. The subcellular localization results demonstrated that the gene was located in the nucleus. Above results indicate that MtSAG113 may play a certain role in senescence regulation in M. truncatula,and high salinity,drought and exogenous hormones regulate the expression of MtSAG113,which provides a basis for further function analysis of MtSAG113.

    Screening,Identification and Fermentation Condition Optimization of an Antagonistic Bacterium for Melon Black Spot
    SHI Zhao-rong, SUN Shu-jun, ZHANG Guang-rong, MEI Da-hai, LIU Yan-chao, YANG Cheng-de
    2022, 38(1):  115-124.  doi:10.13560/j.cnki.biotech.bull.1985.2021-0118
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    Endophytic bacterial strains were isolated from the roots,stems,leaves and fruits of healthy melon plants,and the taxonomic status and optimal fermentation conditions of the excellent antagonistic strains were clarified. The dilution plate coating was applied to isolate endophytic bacteria,and the plate confrontation was used to screen the excellent antagonistic bacteria for Alternaria tenuissima. Identification was conducted via morphology and molecular biology,and the fermentation conditions were optimized through single-factor and orthogonal experiment. The results showed that total 50 strains of endophytic bacteria were isolated,21 strains of them had antagonistic effects against A. tenuissima,and the inhibition rate by 11 strains reached > 70%. Among them,strain G2 had the highest inhibition rate,reaching 76.41%,indoor in vitro prevention effect reached 44.90%. According to the results of morphological characteristics and gene sequence analysis,strain G2 was identified as Bacillus subtilis. The optimal culture conditions of strain G2 were with a medium included 20 g glucose,30 g sodium nitrate,10 g yeast extract in 1 000 mL water. The optimal fermentation conditions were as followed:shaking 50 mL liquid(the best inoculum size was 0.2%)in an 150 mL flask at 150 r/min at 32℃,with an initial pH value of 7.5,and the optimal fermentation time was 18 h. The results may supply new strain resource for the biological control of melon black spot and also provide a basis for the industrial development of melon endophytic bacterium strain G2.

    Effects of Microbial Fertilizer on Cucumis sativus L. Growth,Yield and Quality
    WU Qi-man, TIAN Shi-han, LI Yun-ye, PAN Ying-jie, ZHANG Ying
    2022, 38(1):  125-131.  doi:10.13560/j.cnki.biotech.bull.1985.2021-0432
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    In order to explore the application effect of microbial fertilizer on the greenhouse cultivation of cucumbers,fruit Cucumis sativus L. were used as experimental materials,and the 4 treatments of applying “Ningdun” A liquid(T1),“Ningdun” B liquid(T2),both “Ningdun” A liquid and “Ningdun” B liquid(T3),and control(CK)were set up. The results showed that “Ningdun” promoted C. sativus L. plant growth,increased chlorophyll content and yield,and improved fruit nutrient quality. Meanwhile,it improved the activities of invertase and urease in the rhizosphere soil,also increased the content of nitrogen,phosphorus,potassium and other large elements in the rhizosphere soil. Among them,the combined application of “Ningdun” A liquid and B liquid presented the best effect.

    Effects of Phosphorus Level and Arbuscular Mycorrhizal Fungi on the Growth and Quality of Platycodon grandiflorum
    LI Nan-hai, SUN Zhuo, YANG Li-min
    2022, 38(1):  132-140.  doi:10.13560/j.cnki.biotech.bull.1985.2021-0351
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    The aim of this work is to clarify the effects of different phosphorus levels and inoculations of Arbuscular Mycorrhizal Fungi(AMF)on the quality and yield of Platycodon grandiflorum. We used pot method to conduct experiment. There were 4 soil phosphorus levels,P0(20 mg/kg),P1(50 mg/kg),P2(80 mg/kg),and P3(140 mg/kg). Funneliformis mosseae,Rhizophagus intraradices,Diversispora eburnea were inoculated into each soil phosphorus level and no inoculation were set as control group(CK). The infection rate of AMF,the biomass of P. grandiflorum,the resistance index of P. grandiflorum,and the content of P. grandiflorum platycodin in different treatments were determined. At the level of 80 mg/kg,AMF F. mosseae,R. intraradices and D. eburnea had the highest infection rates on P.grandiflorum,which were 57.7%,38.3%,41.7%. The three types of AMF had significant effects on the yield and platycodin content of P. grandiflorum. Compared with the uninoculated control,the fresh weight of P. grandiflorum root increased by 114%,62%,and 90%(P<0.05)respectively. Platycodin D content increased by 20%,18%,and 16%,respectively. Three types of AMF significantly increased the activities of protective enzymes such as SOD and POD,decreased the content of proline and malondialdehyde,thus enhanced the plant stress resistance. Soil phosphorus level 80 mg/kg was the best for the inoculation effect of F. mosseae,R. intraradices and D. eburnea. In addition,inoculating F. mosseae was superior to inoculating R. intraradices and D. eburnea on yield and quality of P. grandiflorum.

    Functions of Arsenic-resistant Gene Cluster in Pseudomonas sp. Tw224
    SUN Jing-ya, MA Yu-chao
    2022, 38(1):  141-149.  doi:10.13560/j.cnki.biotech.bull.1985.2021-0418
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    The mechanisms of arsenic resistance have been gradually evolved in bacteria living in arsenic-contaminated environment. The purpose of this paper is to evaluate the resistance of Pseudomonas sp. Tw224 isolated from contaminated soil of lead-zinc mine in Hunan province to arsenic and its heavy metal-resistant spectrum,and to reveal its function of arsenic-resistant gene/gene clusters. The growth of the bacteria was measured in the presence of arsenic or heavy metals,and their resistances to arsenic and heavy metal-resistant spectrum were evaluated. The arsenic-resistant gene/gene clusters of the bacteria were analyzed by a draft sequence of genome. And finally the gene cluster-deleted mutants were constructed by metabolic engineering method to reveal the functions of the gene clusters. The delayed period prolonged,and the maximum bacterial concentration reduced in the presence of arsenic. The maximum As5+-resistant and As3+-resistant concentrations of Tw224 were 600 and 20 mmol/L,respectively. Moreover,Tw224 was also resistant to Cu,Ni,Zn,Cd,Cr,Ag and Hg at varying level. A total of 20 genes(1 arsH,4 arsC,2 arsB,2 ACR(3)and 11 arsR)related to arsenic resistance were found in the genome of the strain,and arsH-arsC2-arsB-arsR(ars1)and arsH-arsB-arsC2(ars2)existed in the form of gene clusters with the length of 2.8 kb and 2.2 kb,respectively. The ars1-inactivated Pseudomonas sp. QSA1,ars2-inactivated Pseudomonas sp. QSA2,and ars1-ars2-inactivated Pseudomonas sp. QSARS were successfully constructed by homologous recombinant double exchange method. In the absence of arsenic,the growths of the three mutants were not affected,and the minimum inhibitory concentrations of arsenic to QSA1 and QSA2 reduced to 4% and 80% of that of wild one,respectively. The arsenic reduction capacity of the two mutants was about 9.8% and 53.8% of that of wild one at 48 h,respectively. Pseudomonas sp. QSARS,a double gene clusters-deleted mutant,almost completely lost its resistance to arsenic and arsenic reduction ability. In conclusion,Tw224 had strong resistance to arsenic and a broad spectrum of resistance to heavy metals. There are a large number of heavy metal-resistant related genes in its genome,among which there are two arsenic-resistant related gene clusters. The ars1 gene cluster played a major role and the ars2 played an auxiliary role in arsenic-resistant process.

    Breeding High-yield L-isoleucine Escherichia coli by ARTP Mutagenesis
    LI Xiao-fang, LIU Hui-yan, PAN Lin, AI Zhi-yu, LI Yi-ming, ZHANG Heng, FANG Hai-tian
    2022, 38(1):  150-156.  doi:10.13560/j.cnki.biotech.bull.1985.2021-0272
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    This work aims to breed high-yield L-isoleucine-producing Escherichia coli. Using E. coli K12(Met-)as the original strain,regular temperature and atmospheric pressure plasma(ARTP)was for mutagenesis,combined with microbial high-throughput droplet culture system(MMC)was for screening,with α-aminobutane acid(α-AB)resistance was used as a selection marker to obtain a mutagenic E. coli NXU12 producing high yield of L-isoleucine and its genetic stability was studied. The results showed that after the original strain K12(Met-)was subjected to ARTP mutagenesis for 180 s,a strain of high-yield L-isoleucine mutagenesis,E. coli NXU12,was selected through single-factor multi-level experiments,adaptive evolution experiments,fermentation culture re-screening,and genetic stability verification. After 40 h of fermentation and culture,the L-isoleucine yield of this strain reached 17.462 8 g/L,which was 61.23% higher than that by original strain 10.830 9 g/L,and the genetic traits were stable.

    Heterologous Expression and Characterization of the Hyaluronic Acid Lyase HylS from Staphylococcus aureus
    CEN Xiao-long, LEI Xi, MA Shi-yun, CHEN Qian-ru, HUANG Zun-xi, ZHOU Jun-pei, ZHANG Rui
    2022, 38(1):  157-167.  doi:10.13560/j.cnki.biotech.bull.1985.2021-0129
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    Hyaluronidases degrade hyaluronic acid into low molecular weight oligosaccharides with biological activities such as antioxidant. Hyaluronidases from microorganisms have been a hot area of research in the development of hyaluronidase,because of their diverse enzymatic properties and easily recombinant expression. A potential hyaluronic acid(HA)lyase(hylS)gene from Staphylococcus aureus was identified by genome sequencing. It was successfully expressed by Escherichia coli BL21(DE3). The characteristics of the recombinant enzyme were analyzed,and the antioxidation of its enzymolysis products was determined. The optimal pH and temperature of the purified recombinant enzyme rHylS was 5.0 and 45℃,respectively. It showed specific degradation of HA,and specific activity towards the substrate was(1.6×105±5.4)U/mg. It was an endo-hyaluronate lyase that degraded HA to produce low molecular weight unsaturated oligosaccharides(HAP). The scavenging abilities of HAP on ABTS,DPPH,superoxide anions and hydroxyl radicals were significantly higher than that of high molecular weight HA without degradation,and there was a positive correlation with the concentration. All these excellent characters indicate that rHylS from S. aureus is of enzymatic property,and it may be used to produce unsaturated hyaluronic acid oligosaccharides of low molecular weight and antioxidant properties.

    Population Diversity of Isolated Halophilic and Halotolerant Bacteria from Hypersaline Salt Lakes and Evaluation of Ectoine Production
    ZHANG Tian-tian, LI Yong-zhen, SHEN Guo-ping, WANG Rong, ZHU De-rui, XING Jiang-wa
    2022, 38(1):  168-178.  doi:10.13560/j.cnki.biotech.bull.1985.2021-0201
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    To fully understand the population diversity of isolated halophilic and halotolerant bacteria in the Chaka Salt Lake,Keke Salt Lake and Xiaochaidan Salt Lake of 3 major magnesium sulfate subtype hypersaline salt lakes,cultivable halophilic and halotolerant bacteria were screened in RM medium with medium and high salinity. The 16S rRNA gene sequences of the isolated strains were amplified for species identification and canonical correspondence analysis(CCA)of environmental factors. The dominant genera were selected to construct individual phylogenetic trees,and the accumulation of secondary metabolite ectoine was measured by high performance liquid chromatography(HPLC),and finally the strains with high-yield of ectoine were screened. Results showed that a total of 113 halophilic and halotolerant bacteria were isolated from the three major salt lakes. The dominant genera were Bacillus(42 strains),Staphylococcus(30 strains)and Halomonas(26 strains). Their abundance was related to the type of the salt lakes. The dominant genera Bacillus and Halomonas were mostly moderately halophilic bacteria,followed by halotolerant bacteria and weakly halophilic bacteria. Phylogenetic analysis demonstrated that Bacillus bacteria had 5 evolutionary branches,composed of 6 species,and Halomonas bacteria had 6 evolutionary branches,composed of 7 species. The accumulation of ectoine was detected by HPLC,and 7 strains with potential of high ectoine production were obtained. These results indicate that the dominant halophilic and halotolerant bacteria from the magnesium sulfate subtype hypersaline salt lakes in the Qaidam Basin are mainly Bacillus,Staphylococcus and Halomonas,and most of them are moderately halophilic bacteria. The strains with high ectoine production could be used for subsequent application research of ectoine fermentation.

    Eukaryotic Expression Vector Construction of Danio rerio notch3 Gene and Its Expression Analysis
    WU Kun-kun, XU Xing, JI Ce, REN Jian-feng, LI Wei-ming, ZHANG Qing-hua
    2022, 38(1):  179-186.  doi:10.13560/j.cnki.biotech.bull.1985.2021-0289
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    In order to further study the function of notch3 in Danio rerio,the eukaryotic expression vector of notch3 was constructed and it successfully expressed in eukaryotic cells. The coding sequence(CDS)of notch3 gene in D. rerio was obtained from NCBI online database. According to the sequence,Notch intracellular domain(NICD)was cloned,and then the expression vector pCMV-N3ICD was constructed by homologous recombination. The positive recombinant vector was screened by double enzyme digestion and sequencing,and then transfected into HEK293T cells by liposome method. Finally,the expression of N3ICD was verified by immunofluorescence and Western blot. The results showed that the recombinant plasmids were in accordance with the expected results via enzymatic digestion electrophoresis fragment and sequencing comparison. In Western blot,N3ICD protein expressed normally,and the size was consistent with the predicted one. Cell immunofluorescence showed that the recombinant plasmid expressed in the nucleus of the HEK293T cells. Concurrently,the constructed eukaryotic expression vector N3ICD significantly enhanced the activities of rela and nfkb1 promoters in NF-κB family(nuclear factor-κB).

    Expression of Sheep Interferon Alpha in Silkworm and Determination of Its Activity Against Peste Des Petits Ruminants Virus
    LI Dan, DU Meng-tan, XIU Ming-xia, LIU Xing-jian, ZHANG Zhi-fang, LI Yi-nv
    2022, 38(1):  187-193.  doi:10.13560/j.cnki.biotech.bull.1985.2021-0195
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    Interferon has broad-spectrum anti-viral and anti-tumor activities and can enhance the body’s anti-viral ability,thus interferon has been widely used in the prevention and control of viral diseases. Peste des petits ruminants virus(PPRV)is one of the common viruses that harm small ruminants such as goats and sheep. The spread of this virus has resulted in a serious impact on the global breeding industry. In order to express sheep interferon alpha(OviIFN-α)with high antiviral activity,the OviIFN-α gene sequence was optimized and synthesized according to the codon preference of the silkworm to construct pVL1393-OviIFN-α transfer vector,and then the transfer vector and baculovirus genomic DNA with deleted of ORF1629 sequence was recombined in BmN cells by liposome-mediated transfection. The recombinant virus infected the silkworm,and the recombinant protein OviIFN-α was obtained from the silkworm hemolymph. The antiviral titer of the protein detected in the BHK-VSV*GFP system using the cytopathic inhibition method reached about 6.5×105 U/mL. In addition,the experiments on the proliferation inhibition of PPRV showed that OviIFN-α significantly inhibited the replication of PPRV in the BHK cells,with an IC50 of about 136.93 U. This result provided an important theoretical basis for OviIFN-α to be used in the prevention and control of peste des petits ruminants disease.

    Cloning,Expression and Transcriptional Regulation of Interferon-α in Forest Musk Deer
    YANG Wei, WU Xi, CHENG Jian-guo, LUO Yan, WANG Yin, YANG Ze-xiao, YAO Xue-ping
    2022, 38(1):  194-204.  doi:10.13560/j.cnki.biotech.bull.1985.2021-0177
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    Interferon(IFN)has a high clinical application prospect in the prevention and treatment of viral diseases. In order to study and apply the IFN-α of forest musk deer(FMD),nine IFN-α gene sequences of FMD were cloned for the first time via homologous cloning method. Bioinformatics analysis showed that all the sequences were 570 bp and encoding 189 amino acids. Amino acid 1 to 23 were signal peptides. All of them had 4 conserved cysteine residues and 5 conserved proline residues. Among the 9 subtypes,the nucleotide sequence homology was 97.0%-99.6%,and the amino acid sequence homology was 93.7%-99.5%. The secondary structure was mainly composed of 5 α-helices and random coil. The tertiary structure was highly similar to bovine and human IFN-α,and domain predicted that it contained interferon receptor IFNAR binding sites. The expression plasmid of FMD IFN-α was constructed for the first time,and the IFN-α was successfully expressed by Pichia pastoris. The optimal methanol concentration of 1% and the optimal induction time of 96 h were determined. qPCR was used to confirm that IFN-α of FMD regulated the transcription of interferon-stimulated gene in lung fibroblasts FMD-C1 in a dose-dependent manner,and the regulatory effect reached the maximum at 6 h. CCK-8 assay confirmed that FMD IFN-α inhibited the proliferation of FMD-C1 cells in a dose-dependent manner. These results provide a theoretical basis for the antiviral research and application of IFN-α from FMD.

    Effects of Sequence Variation on the Biogenesis and Target Relationship of miR-378
    ZHANG Ting-huan, GUO Zong-yi, CHAI Jie, PAN Hong-mei, ZHANG Liang, CHEN Lei, LONG Xi
    2022, 38(1):  205-214.  doi:10.13560/j.cnki.biotech.bull.1985.2021-0137
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    The aim of this study is to explore the effects of sequence variation on the structure,expression level and targets relationship of miR-378. PCR-sequencing was employed to align the sequence mutations of miR-378 in different pig breeds and to predict the changes of the secondary structure and free energy of miR-378 caused by the mutation. The miR-378 expression vectors was constructed to detect the effect of mutation on the expression level during the processing. TargetScan and TargetRank were used to analyze the change of target relationship caused by the mutation of miR-378. MicroRNA pull-down technique was adapted to verify the effect of mutation on the target relationship of miR-378. The results showed that there were two A>G mutations on the +49 and +68 position of pre-miR-378 in Rongchang and Neijiang pigs,and the secondary structure and free energy of pre-miR-378 were changed. And these two mutations affected the processing from pri-miR-378 to pre-miR-378,and enhanced the expressions of pre-miR-378 and mature miR-378. The mutation of +49/A>G changed the function and target relationship of miR-378,of which GDF6 and RAB10 were the target genes obtained and deleted after mutation,respectively,while the shared targets(Runx1t1 and Galnt3)were not affected by mutation. These results serve to highlight the importance of miRNA mutations and their impacts on miRNA biogenesis.

    Research Progress in Alternative Splicing in Plant Immunity
    JIANG Yan-ke, LU Chong-chong, YIN Zi-yi, LI Yang, DING Xin-hua
    2022, 38(1):  215-227.  doi:10.13560/j.cnki.biotech.bull.1985.2021-0253
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    Alternative splicing emerged as an important post-transcriptional process in organisms,and is the main sources of transcriptome and proteome diversity. Alternative splicing functions in a range of physiological processes,including circadian rhythm,growth,development in plant,especially in responding to biotic and abiotic stress. In recent years,alternative splicing has been considered as an important mechanism for plant resisting pathogen infection. This article reviews the regulating role of alternative splicing in different aspects of plant immunity,including the modulation of key immunity receptors,R genes and key genes of hormone signaling pathways. In addition,the role of the modulation of splicing factor in plant immunity is also notable. This article discusses alternative splicing as a key role during plant-pathogen interactions and in dynamic reprogramming of plant resistance genes at transcriptome level,and prospects on the future research of alternative splicing in plant immunity,aiming to provide a beneficial reference for the alternative splicing in plant immunity.

    Role of BRs in Plant Response to Abiotic Stress
    LI Wen-jiao, ZHANG Zhong-feng, LIU Qing, SUN Jie, YANG Li, WANG Xing-jun, ZHAO Shu-zhen
    2022, 38(1):  228-235.  doi:10.13560/j.cnki.biotech.bull.1985.2021-0448
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    BRs(brassinosteroids)are polyhydroxylated phytosteroid that are common in the plant kingdom,and they not only regulate plant growth and development,but also play important roles in biotic and abiotic stress responses. Here the biosynthesis and signal transduction pathways of BRs are summarized,focusing on the molecular mechanism of BRs in plant response to abiotic stress response. And the future research direction of BRs is prospected. It provides theoretical basis for further understanding BR-mediated regulatory network of abiotic stresses and improving stress resistance of crops to abiotic stresses.

    Research Progress in Endophytic Bacteria in Rice Seeds
    WANG Zhi-shan, LI Ni, WANG Wei-ping, LIU Yang
    2022, 38(1):  236-246.  doi:10.13560/j.cnki.biotech.bull.1985.2021-0437
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    There are a large number of symbiotic and associated microorganisms in roots,stems,leaves,seeds and other organs of rice,which play an important role in plant growth,yield,quality and resistance,among which endophyte is a representative group of seed symbiosis and associated microorganisms. Endophytic communities with rich species and complex structure are common in rice seeds,which will directly or indirectly affect seed germination,growth and population yield characteristics. To provide a reference for the follow-up study of endophytic bacteria in rice seeds,this study reviewed the current studies on endophytic bacteria in rice seeds from four aspects:The diversity of endophytic bacteria in rice seeds,the correlation between rice seeds and the distribution of endophytic bacteria,the biological function of endophytic bacteria in rice seeds,and the vertical transmission of endophytic bacteria in rice seeds. On this basis,this paper discussed and prospected the research on endophytic bacteria in hybrid rice seeds,that is the deficiency of the research on endophytic bacteria in rice seeds,aiming to trigger readers’ thinking.

    Advances in Extrachromosomal Circular DNA and Their Application in Domestic Animal Breeding
    CAO Xiu-kai, WANG Shan, GE Ling, ZHANG Wei-bo, SUN Wei
    2022, 38(1):  247-257.  doi:10.13560/j.cnki.biotech.bull.1985.2021-0217
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    Extrachromosomal circular DNA(eccDNA),exiting as double-stranded circular DNA,arise from and are outside of chromosome. They are common in eukaryote,but have strong heterogeneity in count,length,origin,which lead to functional diversity,including telomere prolonging,rDNA copy number maintenance,aging,drug resistance,tumorigenesis. The associations between eccDNA and domestic animal phenotypes have been reported as well. Here,we review the current knowledge related to eccDNA classification,biogenesis,functions,and identification,and discuss some possible future directions of eccDNA applications in animal breeding.

    Research Progress in the Immobilization of Key Enzymes for Pesticides Residue Detection
    ZHU Yong-an, WANG Miao, CAO Jing, YU He, CAO Zhen, JIN Mao-jun, WANG Jing, SHE Yong-xin
    2022, 38(1):  258-268.  doi:10.13560/j.cnki.biotech.bull.1985.2021-0080
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    In order to detect pesticide residues in agro-products and foods to ensure consumers’ food safety,some fast detection techniques need to be developed urgently. Enzyme inhibition method is one of current main research directions in the rapid detection techniques of pesticide residues. While the immobilized enzyme based on the principle of enzyme inhibition method is an important step in the research of detecting pesticide residue. Applying physical or chemical methods to efficiently fix enzyme on the carrier without losing catalytic activity is the key step to develop all kinds of sensor based on enzyme inhibition method to detect pesticide residues. In this paper,the immobilized enzyme methods,carriers and the practical applications of immobilized enzyme products in pesticide residue detection are reviewed,so as to provide some experiences and references for the applications of immobilized enzyme in pesticide residue detection.

    Research Progress in Microbial Ferritin
    GAO Qi-yu, XU Guang-cui, CUI Cai-xia, ZHANG Wen-bo
    2022, 38(1):  269-277.  doi:10.13560/j.cnki.biotech.bull.1985.2021-0419
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    Ferritin(FTN),an important iron storage protein,is ubiquitous in different microorganisms. Based on the summarized analysis of the structure and function of typical ferritin,it is found that the unique structural characteristics of ferritin plays an important role in the supplement,transport,oxidation,nucleation and storage of iron,and also has a significant impact on various biochemical reactions in organisms. Moreover,the molecular modification of ferritin by genetic engineering technology will expand its application as nanocarrier. The special self-assembly characteristics of ferritin make it a potential carrier for drugs or other substances. Therefore,in order to further explore the characteristics and mechanism of ferritin in microorganisms,the structural characteristics of microbial ferritin,the role and release mechanism of iron,the regulation and storage of iron,the molecular modification of ferritin and its perspectives are systematically summarized in this review.

    Correlative Light and Electron Microscopy and Its Application in Botanical Research
    WU Xin-yuan, WANG Guang-chao, LIN Jin-xing, JING Yan-ping
    2022, 38(1):  278-288.  doi:10.13560/j.cnki.biotech.bull.1985.2021-0167
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    Correlative light and electron microscopy(CLEM)combines the high sensitivity and wide view of light microscopy with the excellent spatial resolution of the electron microscopy,and it overcomes the limitations of their respective imaging,enabling to obtain more comprehensive and fine positioning and structural information in situ,thus widespread attention has been paid to it in recent years. As a powerful attractive technique,CLEM has been widely used in the observation of subcellular structures and specific structures,precise localization of proteins,and the study of vesicle transport and plant immunity. Here,we summarize the concept and principle of CLEM and sum up the probes used in CLEM. Then we discuss the application of CLEM in the field of botany and point out the existing issues. Finally,we propose some aspects for the future development and application of CLEM.

    Directed Evolution of α-1,2-fucosyltransferase by a Single-cell Ultra-high-throughput Screening Method
    ZHANG Xue, TAN Yu-meng, JIANG Hai-xia, YANG Guang-yu
    2022, 38(1):  289-298.  doi:10.13560/j.cnki.biotech.bull.1985.2021-0516
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    2'-fucosyllactose has great application value in the development of infant formula milk powder,health care products and pharmaceutical products. α-1,2-fucosyltransferase(FutC)from Helicobacter pylori NCTC11639 is an important biocatalyst for the synthesis of 2'-fucosyllactose,but it is suffered from poor heterologous expression and low catalytic activity. In this study,an ultra-high-throughput screening method based on fluorescence-activated cell sorting(FACS)of FutC was established,aiming at the problem of lack of screening methods in the directed evolution of α-1,2-fucosyltransferase. Then,directed evolution of α-1,2-fucosyltransferase was carried out. Mutants K282E,K102E,and R105C were successfully obtained after 3 rounds of screening from the 5.4×105 random mutation library,which showed 2.6 times,2.7 times and 3 times higher activities than the wild-type enzyme,thus the effectiveness of this screening method was proved. This study laid a good foundation for the further molecular directed evolution of α-1,2-fucosyltransferase.

    Application of Environmental DNA Metabarcoding in Biodiversity Research and Monitoring
    KANG Zi-qing, ZHANG Yin-long, WU Yong-bo, XIE Dong, XUE Jian-hui, HUA Jian-feng
    2022, 38(1):  299-310.  doi:10.13560/j.cnki.biotech.bull.1985.2021-0176
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    Environmental DNA metabarcoding(eDNA)is used to identify species and assess biodiversity by extracting environmental DNA from water,soil and air and using primers for PCR amplification and high-throughput sequencing. As a new monitoring technology,it is faster,more accurate and less destructive to the natural environment while compared with traditional monitoring technology. Therefore,it has changed the way we investigate the biodiversity of the earth to some extent. In this paper,the development and operation process of environmental DNA metabarcoding technology are reviewed. The application status in water,soil and air environment is summarized,and the unique indirect biodiversity monitoring methods are summarized. Concurrently,the advantages and existing problems are discussed in order to provide new ideas and inspirations for the follow-up research and monitoring of biodiversity.

    Application Progress of Metabolomics in Tumor Drug Target Screening
    WU Yu-ping, ZHOU Yong, PU Juan, LI Hui, ZHANG Jin-gang, ZHU Yan-ping
    2022, 38(1):  311-318.  doi:10.13560/j.cnki.biotech.bull.1985.2021-0204
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    Tumor is a metabolic disease that is involved in various factors and causes the disorder of the function balance of various systems of the body. Metabolic reprogramming is an important sign of malignant tumor. Metabolomics of studying “metabolic fingerprint” can be used to mine the key metabolites related to tumor and their metabolic reprogramming pathways,and is widely used in the screening of tumor target drugs. However,there are few overall reviews on metabonomics in tumor drug target screening. This paper firstly introduces the process of metabolomics screening tumor drug targets,then elaborates the metabolomics in the screening of tumor drug targets in the fields of glucose metabolism,amino acid metabolism,lipid metabolism and other fields,revealing tumor drug-resistant mechanism,and in the application of screening target drugs. Finally the paper discusses the existing issues and future development trend of metabolomics in the research of tumor drug targets,aiming to provide reference and scientific basis for further studying and understanding the important role of metabolomics in tumor pathogenesis and drug target uncovering.