15 November 2017, Volume 37 Issue 11
    

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  • WANG Hui-yu, HE Tong-tong, LIU Jia-jia, FAN Hang, SONG Feng-lin, MEI Lin, TONG Yi-gang, HAN Xue-qing
    China Biotechnology. 2017, 37(11): 1-5. https://doi.org/10.13523/j.cb.20171101
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    Objective:Based on high-throughput sequencing, the diversity of mosquito-borne viruses in different border areas of China was analyzed, which provided information for rapid screening of mosquito-borne virus. Methods:Field samples from different border areas were randomly divided into 6 groups and virus nucleic acids were extracted, followed byhigh-throughput sequencing. After that, bioinformatics methods were used to analyze the sequencing reads as well as the status of virus infection in themosquitoes'sample.Results:In the six samples, four mixed samples were found to containtwo or more suspicious viruses.Conclusion:High throughput sequencing detection system can effectively detect the presence of viruses, and preliminarily revealed the diversity of viruses carried by mosquitoes.
  • LI Jin-man, PEI Guang-qian, FAN Hang, HUANG Yong, TONG Yi-gang
    China Biotechnology. 2017, 37(11): 6-11. https://doi.org/10.13523/j.cb.20171102
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    Objective:Optimize the automatic flow of nucleic acid extraction from intestinal flora. Methods:Fecal samples were collected, and nucleic acids were extracted by manual method and nucleic acid extraction workstation. Then PCR reaction liquid was prepared by liquid workstation, and PCR was amplified and sequenced by library workstation. Results:400μl samples using QIAamp® Fast DNA Stool Mini Kit, compared with nucleic acid extraction method with QIAamp® Fast DNA Stool Mini Kit manual with MagMAXTM Express 96 machine nucleic acid extraction method, sequence number sequencing analysis results obtained are basically the same, there were also no significant differences; the single use of MagMAXTMViral RNA Isolation Kit to extract nucleic acid sequencing results due to sample input limited volume (50μl), low concentration of nucleic acid and littlesequence number, can't meet the requirements of the follow-up analysis.Conclusion:By using two different kits, the whole process automation of nucleic acid extraction, PCR reaction preparation and library preparation can be realized, thus greatly improving the efficiency and stability of the results.
  • AN Yun-he, CHENG Xiao-yan, TIAN Yan-jie, MA Kai, GAO Li-juan, WU Hui-juan
    China Biotechnology. 2017, 37(11): 12-18. https://doi.org/10.13523/j.cb.20171103
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    Using of high throughput sequencing technology to study the microbial diversity in complex samples has become one of the most hot issues in the field of microbial research. In this new technology, the microbial sample preparation, such as DNA extraction and the amplification of 16S variable region, etc., is crucial for the data analysis, especially for the microbial community composition analysis. The soil and sheep rumen chyme samples were used to extract DNA by domestic Kit (TIANamp soil DNA Kit) and imported kit (PowerSoil DNA isolation kit) respectively. Then the 25ng total DNA was used to amplify the 16S V3 region, and the final sequencing library was constructed by mixing equal amounts of purified PCR products. Finally, the OTU amount,rarefaction curve, microbial number and species were compared by data analysis. It was found that under the same amount of DNA template and PCR cycle number, the DNA treated by imported kit can obtain more microbial species. But under the same DNA extraction kit and DNA template amount, the proportion of the community composition was not the best with more PCR cycle numbers, although the number of species was much more. This may be due to the excessive expansion of the inferior bacteria, which lead to the microbial composition imbalance.
  • ZHENG Tian-xiang, QIAN Yu-nong, ZHANG Da-yu
    China Biotechnology. 2017, 37(11): 19-27. https://doi.org/10.13523/j.cb.20171104
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    Fatty acids play an important role in growth, development,reproduction and information exchange in insects. The research progress of Acetyl-coenzyme A carboxylase gene (ACC), fatty acid synthase gene (FAS), elongase of very long chain fatty acid gene (ELO), fatty acyl-CoA reductase gene (FAR) and desaturase gene (desat) is summarized.
  • XIAO Ming, CHEN Ping, HE Hong-yu, ZHANG Le
    China Biotechnology. 2017, 37(11): 28-36. https://doi.org/10.13523/j.cb.20171105
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    It is very important and necessary to develop the regional medical imaging information system to share the various type of the imaging information and provide an efficient medical health service in Chongqing area due to Chongqing's uneven medical level. At present, there are several existing problems for the development of the Chongqing's regional medical imaging information platform. For example, the system integration is not enough, the medical imaging standards are not uniform, data security and quality standards are not complete and the platform does not integrate the big data analysis methods and so on. For these reasons, this study designs the structure of the regional medical imaging information platform in Chongqing area, and puts forward the regional imaging interactive platform with five layer architecture. Secondly, based on the five layer architecture, it establishes and strengthens the imaging data standards and information security system. Also, it integrates the medical imaging big data analysis tools into the established the big imaging data center. The study demonstrates that the platform is not only highly integrated and scalability, but also has efficient interactive capacity as well as high data security and quality standards, because of the development and strengthen of the platform standards. Finally, the platform can efficiently analyze the big imaging data.
  • YAN Peng-cheng, ZHANGY Zhan-jiang, PEI Zhi-yong, FU Yan-ting, CHEN Yu-bao, LIU Tong
    China Biotechnology. 2017, 37(11): 37-44. https://doi.org/10.13523/j.cb.20171106
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    Medicinal plants are important resources for the development of traditional Chinese medicine and biomedical industry. They are also the carrier of traditional Chinese medicine cultural heritage. The conservation of medicinal plants is the basis of their sustainable development and application. With the rapid development of bioinformatics and information technology, there are more and more applications of them, including cloud computing, in the protection and management of traditional germplasm resources. However, their applications in the conservation of medicinal plant resources remain to be developed. A cloud platform system for medicinal plant conservation in China is constructed. In this system, cloud computing, database applications, bioinformatics and other related technologies were used. By collecting, sorting and processing the information of medicinal plant resources, carrying out the information and application development, this system could provide information inquiry service for medicinal plant protection and cultivation of new species. This platform has important application value and social significance for the standardization of data related to medicinal plant research, conservation subject research, and information sharing and service.
  • ZHAO Zheng-de, CHEN Zhen-yin, ZHANG Hui-nan, GONG Jian-ping, XU Shao-dan, LUO Zhong-li
    China Biotechnology. 2017, 37(11): 45-51. https://doi.org/10.13523/j.cb.20171107
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    Objective:To investigate the effect of BMSCs (bone marrow mesenchymal stem cells) at 3D (3-dimensional) culture microenvironment by peptide hydrogel scaffolds using self-assembling peptide GFS-4 on the biological behavior and the process of myocardium differentiation. Methods:The effect of peptides GFS-4 on self-assembling characteristics and the cell membrane disruptive were examined through Congo red staining and erythrocyte membrane lysis. Then, CCK8 and AO/EB staining were used to assess the difference in cell viability and apoptosis level between 2D (2-dimensional) and 3D microenvironment group.And the expression of MLC-2v and GATA-4 gene in the process of myocardium differentiation by Quantitative Real-Time PCR be analyzed, followed by BMSCs cultured at 2D and 3D environment for 3,5,7days. Results:The self-assembling peptide GFS-4 form a dense gel after 24 hours. There was no harmful for the cell membrane of the peptide before and after self-assembling.BMSCs at 3D culture environment showed that spherical shape, lower cell viability and lower apoptosis.When compared with the 2D culture environment group, the expression of MLC-2v and GATA-4 gene were respectively higher in the 3D environment group at 5 days and 7 days in the process of myocardium differentiation (P<0.05). Conclusions:The 3D culture environment constructed by peptide hydrogel scaffolds delayed BMSCs' proliferation and apoptosis rate, and also promoted the expression of MLC-2v and GATA-4 gene during the process of myocardium differentiation.
  • WANG Lu-lu, QUAN Chun-shan, XU Yong-bin, CHEN Jin-li, WU Yi, WANG Guan-tian, DONG Yue-sheng
    China Biotechnology. 2017, 37(11): 52-58. https://doi.org/10.13523/j.cb.20171108
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    Staphylococcus aureus is a crucial opportunistic pathogen, and the expression of virulence factors in S. aureus is regulated by various of two component signal transduction systems (TCSTs). ArlRS TCST has a close relation with the growth and division of bacteria, and the signal transduction of ArlRS TCST is implemented by the autophosphorylation of histidine kinase ArlS. The intracellular domain of ArlS is regarded as an important functional domain that regulates the expression of virulence factors. The research focus on the kinase activity and function of the intracellular domain of ArlS. The recombinant plasmids pProEX-HTa-arls and pProEX-HTa-arlr were constructed and the target proteins were overexpressed in E. coli BL21. Then different kinds of isolation technologies such as the metal ion affinity chromatography, the ion exchange chromatography and the gel filtration chromatography were used for purification of the recombinant proteins. The production of ArlR can reach 25mg with about 98% purity from one liter culture medium, and the production of ArlS can reach 15mg with about 90% purity from one liter culture medium. The circular dichroism detection results showed that the purified ArlR has natural secondary structure. In vitro phosphorylation results showed that ArlS exhibited kinase activity and the ability of autophosphorylation. Furthermore, the phosphorylated ArlS can transfer the phosphate groups to the response regulator protein ArlR. Finally, the recombinant plasmids pProEX-HTa-ArlSCAG418A and pProEX-HTa-ArlSCAG420A were constructed by the method of site-direted mutation, and proteins of ArlSCAG418A and ArlSCAG420A were purified using the metal ion affinity chromatography. The results showed that ArlSCAG418A and ArlSCAG420A did not have the kinase activity, illustrating that the amino acid residues at 418 and 420 are crucial to the autophosphorylation process of ArlS.
  • ZHANG Li-li, XU Bi-yu, LIU Ju-hua, JIA Cai-hong, ZHANG Jian-bin, JIN Zhi-qiang
    China Biotechnology. 2017, 37(11): 59-73. https://doi.org/10.13523/j.cb.20171109
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    Drought is the most important environmental stress. MaASR1 gene of banana plays an important role in plant responding to stress. In order to further study the molecular mechanism of drought resistance for over expressing MaASR1 gene in Arabidopsis thaliana. DNA microarray was used to broad-spectrum screening the differentially expressed genes under natural and drought treatment in wild-type Arabidopsis thaliana and transgenic lines. The results of the DNA microarray were analyzed by bioinformatics and RT-PCR verification of the related genes. The results showed that when the wild-type Arabidopsis thaliana and transgenic lines were all without any treatment, there was a total of 747 differentially expressed genes, including 559 up-regulated genes and 188 down-regulated genes. And when the wild-type Arabidopsis thaliana and transgenic lines were all drought-treated, there was a total of 653 differentially expressed genes, including 256 up-regulated genes and 397 down-regulated genes. MaASR1 gene can increase the drought resistance of Arabidopsis thaliana by affecting the expression of hormone, photosynthesis, zinc finger protein and DREB2A which involved in the ABA-independent pathway. And to lay the foundation for the molecular mechanism of MaASR1 gene as a transcription factor to improve plant drought resistance.
  • RAO Jing-jing, JING Yi-xian, ZOU Ming-yue, HU Xiao-lei, LIAO Fei, YANG Xiao-lan
    China Biotechnology. 2017, 37(11): 74-82. https://doi.org/10.13523/j.cb.20171110
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    Objective:To clone the uricase gene of the Meyerozyma guilliermondii(C.G.M.C.C 2.1008) for recombinant expression in Escherichia coli and further characterization. Methods:The strain was identified by sequences of 28S rRNA D1/D2 and ITS. Partial peptide sequences were recognized through trypsin digestion and MS/MS analyses. The induction expression of the uricase was verified by RNA-seq. The target gene was amplified by PCR through precise primers designed according to the coding sequence of a homologus putative uricase of Meyerozyma guilliermondii ATCC 6260. The cloned coding sequence was inserted into the expression vectors pDE1 and pDE2 to construct the plasmids pDE1-MGU and pDE2-MGU bearing 6His tags. After the deletion of 6His tag and the linking peptide, the vector for the non-tagged MGU was constructed and denoted R-MGU. The plasmids were transformed into E. coli BL21 (DE3) for induced expression. The recombinant protein was characterizedby SDS-PAGE, MALDI-TOF-MS and the related enzymatic properties. Result:The sequences of rRNA supported that it was a strain of Meyerozyma guilliermondii. MS/MS analyses supported its high homology to a putative uricase A5DFP1 deduced from the genomic sequence of Meyerozyma guilliermondii ATCC 6260 and its induced expression by uric acid was further verified by RNA-seq. After PCR cloning with a pair of precise primers, the coding sequence of the targeted MGU showed the only different base at the 435th site but gave the same amino acid residue. After recombinant expression, R-MGU had the peptide weight of about 35kDa by SDS-PAGE, but of 17.43 by MALDI-TOF-MS that was consistent with that of the wildtype, supporting the unidentified chemical modification of MGU. The maximum specific activity of the recombinant form of the uricase was about 6.0U/mg. Of R-MGU, the Km, Ki of representative inhibitors and molecular weight had no significantly differences from the wildtype. However, the thermostability of R-MGU was slightly worse than the wildtype, due primarily to the low purity of the sample. Conclusion:From Meyerozyma guilliermondii(C.G.M.C.C 2.1008), MGU gene was cloned and expressed successfully as the active enzyme in Escherichia coli.
  • SUN Dan, XU Guo-xia, WANG Zi-qiang, WANG Yun-shan, ZHANG Li-ping, SU Zhi-guo
    China Biotechnology. 2017, 37(11): 83-88. https://doi.org/10.13523/j.cb.20171111
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    In order to relieve the inhibitory effect of the metabolites (propionic acid) on the growth of the cells during the production of propionic acid by microbial fermentation, the laboratory storage of Propionibacterium acidipropionici (resistant to 30g/L propionic acid) P-0 as the original strain, a strain of P-10 with good acid-producing ability of 10g/L propionic acid was obtained by propionic acid pressure screening, which reduced the inhibitory effect of propionic acid on cell growth during fermentation.The strain P-10 was subjected to shake flask fermentation, the fermentation cycle was 168h, the concentration of propionic acid was 49.66g/L, the rate of acid production was 0.30g/(L·h), which was 53.04% higher than that of the strain P-0. The experiment of 7L fermentor showed that the fermentation period of the strain P-10 was 168h, the concentration of propionic acid was 55.63g/L, the acid production rate was 0.33g/(L·h). At the same time, the second inoculation experiment was carried out on the strain P-10. The results showed that the optimum period was 84h, and the concentration of propionic acid increased by 17.77% at the second time. The secondary inoculation experiment was not only beneficial to the organic acid but also can improve the acid production capacity and acid resistance of the strains. The tested strain P-10 has excellent acidic stability, which is beneficial to the industrial production and application of the strain and is of great significance to the subsequent fermentation separation and coupling.
  • XU Yi-fan, LIU Ming-qiu
    China Biotechnology. 2017, 37(11): 89-93. https://doi.org/10.13523/j.cb.20171112
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    Objective:To express nonspecific endonuclease Serratia marcescens (Sma), gain the high purity expressed product, and determine its activity. Methods:Sma fragment was produced by PCR. The constructed recombinant plasmid pET28a-ompA-Sma was transformed into E. coli BL21(DE3) to express soluble and high-yielding Sma by optimizing different medium. Target protein was extracted by osmotic shock, purified by ion exchange. Compared Sma with commercial product by activity test of different temperature. Results:PCR and sequencing proved that recombinant plasmid was constructed correctly. The recombinants Sma at an expression level of 7 mg/L, gained 7 300kU Sma per liter media, super-reached a purity of 95% and a specific activity of 273U/μl (commercial product is 250U/μl) after purification. Conclusion:Sma was successfully expressed. The purified Sma showed a high purity and activity. Under various conditions, the activity is not lower than that of commercial products.
  • LUO Dan, WANG Li-juan, SUN Xiu-xuan, ZHANG Zheng, CHEN Zhi-nan
    China Biotechnology. 2017, 37(11): 94-100. https://doi.org/10.13523/j.cb.20171113
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    Objective:to construct miR-362 knockdown 95-D cells by using CRISPR/Cas9 genome engineering technology, and study the function of miR-362 in cancer.Methods:gRNA sequences targeting the miR-362 gene were selected. Px330-gRNA recombination plasmids were constructed and the validity were evaluated by T7E1 assay. Left and right arms of miR-362 were amplified from genomic DNA by PCR, and sequentially cloned into the donor vector. The CRISPR/Cas9 system and donor vector were co-transfection into 95-D cells, and the selection system that allows for marker genes were integrated into the genome through homologous recombination (HR). The expression of miR-362 of 95-D-KnockDown cells sorted through FACS was detected by qPCR, and the migration and invasion were determined by Transwell assay. Results:Compared with 95-D cells, the expression of miR-362 in 95-D-KD cells was significantly down-regulated, and down-regulation of miR-362 expression can suppress the cell migration and invasion capacity of 95-D-KD cells. Conclusion:The miR-362 knockdown lung cancer cell line(95-D-KD cells)had been successfully constructed by using CRISPR/Cas9 system, which lays the foundation for further study of the mechanism and function of miR-362 in cancers.
  • LIANG Shan, JIANG Zi-chuan, FENG Jun
    China Biotechnology. 2017, 37(11): 101-108. https://doi.org/10.13523/j.cb.20171114
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    To explore the extraction technology of anthocyanin from carmine radish, five single factors were studied including solid-liquid ratio, digestion temperature, digestion time, ultrasonic power, and ultrasonic power. MTT and TranswellTM were used to discuss the proliferation, invasion ability of human gastric carcinoma cells(NCI-N87)which effect by anthocyanin from carmine radish. Furthermore, Western blot used to analyze the HER2 pathway. The optimum extraction technology was determined based on response surface analysis:1% acid-ethanol as extracting agent, 1:10 solid-liquid ratio, digestion 2h at 40℃ with 400W ultrasonic disruption for 15min. Under this condition, anthocyanin extraction content was 3.92mg/g. 30μg/ml anthocyanin from carmine radish inhibited NCI-N87 cell proliferating and invasion ability, decreased HER and p-Akt expression.
  • LIU Yan-Xia, FAN Zhen-Chuan
    China Biotechnology. 2017, 37(11): 109-115. https://doi.org/10.13523/j.cb.20171115
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    Leucine zipper transcription factor 1 (LZTFL1) is a protein associated with cilia signaling, and it is unclear about its function and mechanism in signal transduction. While Chlamydomonas reinhardtii as a model organism that studies the signal transmission of cilia, there is little research on the LZTFL1 protein, and no corresponding antibody has been detected. Based on this phenomenon, polyclonal antibody of LZTFL1 was prepared for subsequent study. The aim was to clone and express C. reinhardtii Lztfl1 gene in Escherichia coli (E. coli). The Lztfl1 gene of C.reinhardtii CC125 was amplified by RT-PCR, then was sub-cloned and heterologous expressed in E.coli BL21(DE3) using pET-28a (+) expression vector. Fusion protein 6×His-LZTFL1 was purified and immunized into New Zealand white rabbit so as to prepare polyclonal antibody. Finally, the sensitivity and specificity of the polyclonal antibody were detected through indirect ELISA and Western blot, respectively. The anti-LZTFL1 showed high sensitivity (1:512 000) and specificity. The above results indicate that Lztfl1 gene has been successfully cloned and expressed, and the rabbit anti-C. reinhardtii LZTFL1 polyclonal antibody has been prepared, which laid the foundation for the study of the structure and function of LZTFL1 protein in C. reinhardtii and its interaction in cilia signal transduction.
  • WU Sheng-xing, LI Yan, ZHANG Hai-yan, LIU Yang, LAI Qiong, YANG Ming
    China Biotechnology. 2017, 37(11): 116-122. https://doi.org/10.13523/j.cb.20171116
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    Despite continuous efforts to improve the process of drug discovery and development,achieving success at the clinical stageremains challenging because of a persistent translational gap between the preclinical and clinical settings. Under these circumstances, the discovery of human induced pluripotent stem (iPS) cells has brought new hope to the drug discovery field because they enable scientists to humanize a variety of pharmacological and toxicological models in vitro.Theavailability of human iPS cell-derived cells,their potential to differentiate into specific functional cells, tissues and organs, has provided new avenues for studying diseases and cell therapy. Biomarkers are an essential part of the translational effort to shift new discoveries from bench to bedside as they provide a measurable indicator to evaluate pharmacological and toxicological effects in both preclinical and clinical settings. In general, during the preclinical stage of drug development, in vitro models that are established to recapitulate human diseases are validated by using a set of biomarkers; however, their translatability to a clinical setting remains problematic. An overview of the current strategies for human iPS cell-based drug discovery from the perspective of translational research is provided.
  • ZENG Jie
    China Biotechnology. 2017, 37(11): 123-131. https://doi.org/10.13523/j.cb.20171117
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    L-asparaginase is an anti-neoplastic agent, used in acute lymphoblastic leukemia(ALL) and lymphosarcoma chemotherapy. However, the application in clinic therapeutics is obstructed by its high costs of production. Nevertheless, the expression system of recombinant proteins have solved this problem perfectly. The intrinsic low-rate glutaminase activity of L-asparaginase, however, causes serious side-effects. In addition, L-asparaginase from bacterial origin can cause hypersensitivity in the long-term used, leading to allergic reactions and anaphylaxis. The search for new L-asparaginase sources, which shows less adverse effects, has become the focus of scholar studies. A review of recent progress in development of L-asparaginase with better performance are presented. Furthermore, the successful expression of recombinant L-asparaginase were aslo summarized and analyzed, and the potential perspective of L-asparaginase to be used in clinic therapeutics and food industry was discussed.
  • YANG Xia, LI Ru-ying
    China Biotechnology. 2017, 37(11): 132-140. https://doi.org/10.13523/j.cb.20171118
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    Dark fermentative hydrogen production from the biomass resources can not only treat the organic wastes, but also recover the clean energy to achieve the resource utilization of wastes. However, there are a great amount of hydrogen consuming microorganisms in the seed sludge of dark fermentative hydrogen production system, which reduces the hydrogen yield obviously. Therefore, pretreatment of seed sludge is necessary to enrich hydrogen producing microorganisms for a hydrogen fermentation process. As the variation of substrates used for hydrogen fermentation, pretreatment methods of hydrogen producing seed sludge have also been developed continuously. The research development of hydrogen producing seed sludge pretreatment in the recent decade was reviewed, and the effects of seed sludge pretreatment methods and fermentation temperature on hydrogen fermentation were discussed. Outlook suggestions were also proposed for this study field to provide reference for further related study.