High-density single nucleotide polymorphism chip-based conservation genetic analysis of indigenous pig breeds from Shandong Province, China

Wang, Yanping,Zhao, Xueyan,Wang, Cheng,Wang, Wenwen,Zhang, Qin,Wu, Ying,Wang, Jiying Asian Australasian Association of Animal Productio 2021 Animal Bioscience Vol.34 No.7

Objective: Shandong indigenous pig breeds are important Chinese pig resources. Their progressive population decline in recent decades has attracted attention towards their conservation. Conservation genetics of these indigenous breeds are essential for developing a conservation and utilization scheme. Methods: A high-density single nucleotide polymorphism (HD-SNP) chip-based comparative analysis of genetic characteristics was performed for seven Shandong indigenous pig breeds in the context of five Western commercial breeds. Results: The results showed that Shandong indigenous pig breeds varied greatly in genetic diversity, effective population size, inbreeding level, and genetic distance with the Western commercial breeds. Specifically, Laiwu and Dapulian displayed low genetic diversity, and had a genetically distant relationship with the Western commercial breeds (average F statistics [F_ST] value of 0.3226 and 0.2666, respectively). Contrastingly, the other five breeds (Yantai, Licha, Yimeng, Wulain, and Heigai) displayed high genetic diversity within breed and had some extent of mixture pattern with the Western commercial breeds, especially Duroc and Landrace (F_ST values from 0.1043 to 0.2536). Furthermore, intensive gene flow was discovered among the seven Shandong indigenous breeds, particularly Wulian, Licha, and Heigai, as indicated by the large cluster formed in the principal component analysis scatterplot and small population differentiation (average of 0.1253) among them. Conclusion: Our study advances the understanding of genetic characteristics of Shandong indigenous breeds and provides essential information for developing an appropriate conservation and utilization scheme for these breeds.

Research on a New Hybrid Intelligent Fault Diagnosis Method and its Application

Zhenhua Wang,Zhentao Liu,Xueyan Lan,Jian Liu,Shaowei Wang,Yangming Wu,Yanbing Xue 보안공학연구지원센터 2016 International Journal of Smart Home Vol.10 No.7

In order to overcome the shortcomings of slow convergence speed and easy falling into the local minimum values of the BP neural network, an improved particle swarm optimization(PSO) algorithm is proposed to optimize the redial basic function (RBF) neural network, in order to propose a new hybrid intelligent fault diagnosis(IMPSO-RBFNN) method. In the IMPSO-RBFNN method, the adaptive dynamic adjusting strategy is used to control the inertia weight of the PSO algorithm in order to an improved particle swarm optimization(IMPSO) algorithm. Then the IMPSO algorithm is selected to optimize the parameters of RBF neural network by encoding the particle and continuous iteration of the IMPSO algorithm in order to obtain the optimal combination values of the parameters of RBF neural network. The optimal combination values are regarded as the values of these parameters of the RBFNN for constructing the final IMPSO-RBFNN method. In order to test the effectiveness of the proposed IMPSO-RBFNN method, the data from bearing data center of CWRU is selected in this paper. The experiment results show that the IMPSO algorithm can effectively optimize the weights of RBFNN, the IMPSO-RBFNN method can accurately realize high precision fault diagnosis of rolling bearing.

Correlation analyses of CpG island methylation of cluster of differentiation 4 protein with gene expression and T lymphocyte subpopulation traits

Zhao, Xueyan,Wang, Yanping,Guo, Jianfeng,Wang, Jiying Asian Australasian Association of Animal Productio 2018 Animal Bioscience Vol.31 No.8

Objective: Cluster of differentiation 4 protein (CD4) gene is an important immune related gene which plays a significant role in T cell development and host resistance during viral infection. Methods: In order to unravel the relationship of CpG island methylation level of CD4 gene with its gene expression and T lymphocyte subpopulation traits, we used one typical Chinese indigenous breed (Dapulian, DP) and one commercial breed (Landrace), then predicted the CpG island of CD4 gene, determined the methylation status of CpG sites by bisulfite sequencing polymerase chain reaction (BSP), and carried out the correlation analyses of methylation frequencies of CpG sites with mRNA expression and T lymphocyte subpopulation traits. Results: There was one CpG island predicted in the upstream -2 kb region and exon one of porcine CD4 gene, which located 333 bp upstream from the start site of gene and contained nine CpG sites. The correlation analysis results indicated that the methylation frequency of CpG_2 significantly correlated with CD4 mRNA expression in the DP and Landrace combined population, though it did not reach significance level in DP and Landrace separately. Additionally, 15 potential binding transcription factors (TFs) were predicted within the CpG island, and one of them (Jumonji) contained CpG_2 site, suggesting that it may influence the CD4 gene expression through the potential binding TFs. We also found methylation frequency of CpG_2 negatively correlated with T lymphocyte subpopulation traits CD4+CD8-CD3-, CD4-CD8+CD3- and CD4+/CD8+, and positively correlated with CD4-CD8+CD3+ and CD4+CD8+CD3+ (for all correlation, p<0.01) in DP and Landrace combined population. Thus, the CpG_2 was a critical methylation site for porcine CD4 gene expression and T lymphocyte subpopulation traits. Conclusion: We speculated that increased methylation frequency of CpG_2 may lead to the decreased expression of CD4, which may have some kind of influence on T lymphocyte subpopulation traits and the immunity of DP population.

Influence of thermal treatment on the performance of copper phthalocyanine thin-film transistors

Xueyan Tian,Zheng Xu,Fujun Zhang,Suling Zhao,Guangcai Yuan,Jing Li,Qinjun Sun,Ying Wang 한국물리학회 2010 Current Applied Physics Vol.10 No.1

Organic thin-film transistors (OTFTs) with bottom-gate and bottom-contact configuration based on copper phthalocyanines (CuPc) as active layer were fabricated. The performance of CuPc OTFTs was studied before and after thermal treatment on CuPc layer. The values of the threshold voltage before and after thermal treatment are -6.3 and -5.7 V, respectively. The field-effect mobility values in saturation regime of CuPc thin-film transistors before and after thermal treatment are 0.014 ㎠/Vs and 0.0068 ㎠/Vs,respectively. The experimental results indicate that there is a heavy decay on the mobility of CuPc based OTFTs mostly due to the crystalline morphology change induced by the thermal treatment, and absolute value of the threshold voltage after thermal treatment decreases with the decrease of the CuPc film thickness and the roughness.

An Enzymolysis-Assisted Agrobacterium tumefaciens-Mediated Transformation Method for the Yeast-Like Cells of Tremella fuciformis

( Yuanyuan Wang ),( Danyun Xu ),( Xueyan Sun ),( Lisheng Zheng ),( Liguo Chen ),( Aimin Ma ) 한국균학회 2019 Mycobiology Vol.47 No.1

Agrobacterium tumefaciens-mediated transformation (ATMT), as a simple and versatile method, achieves successful transformation in the yeast-like cells (YLCs) of Tremella fuciformis with lower efficiency. Establishment of a more efficient transformation system of YLCs is important for functional genomics research and biotechnological application. In this study, an enzymolysis-assisted ATMT method was developed. The degradation degree of YLCs depends on the concentration and digestion time of Lywallzyme. Lower concentration (_0.1%) of Lywallzyme was capable of formation of limited wounds on the surface of YLCs and has less influence on their growth. In addition, there is no significant difference of YLCs growth among groups treated with 0.1% Lywallzyme for different time. The binary vector pGEH under the control of T. fuciformis glyceraldehyde-3-phosphate dehydrogenase gene (gpd) promoter was utilized to transform the enzymolytic wounded YLCs with different concentrations and digestion time. The results of PCR, Southern blot, quantitative real-time PCR (qRT-PCR) and fluorescence microscopy revealed that the T-DNA was integrated into the YLCs genome, suggesting an efficient enzymolysis-assisted ATMT method of YLCs was established. The highest transformation frequency reached 1200 transformants per 10⁶ YLCs by 0.05% (w/v) Lywallzyme digestion for 15 min, and the transformants were genetically stable. Compared with the mechanical wounding methods, enzymolytic wounding is thought to be a tender, safer and more effective method.

A Rapid and Effective Colony PCR Procedure for Screening Transformants in Several Common Mushrooms

( Yuanyuan Wang ),( Danyun Xu ),( Dongmei Liu ),( Xueyan Sun ),( Yue Chen ),( Lisheng Zheng ),( Liguo Chen ),( Aimin Ma ) 한국균학회 2019 Mycobiology Vol.47 No.3

In the post-genomic era, gene function analysis has attracted much attention. Transformation is often needed to investigate gene function. In this study, an easy, rapid, reliable, and cost-effective colony polymerase chain reaction (PCR) method for screening mushroom transformants was developed: picking up a suitable amount of transformant’s tissue (1-10 lg) to 20 ll 0.25% Lywallzyme solution, and vortexing for 10 s followed by incubation at 34 ℃ for 15 min. Finally, 2 ll of the suspension was used as templates to perform PCR and single target bands were successfully amplified from respective transformants of Tremella fuciformis, Pleurotus ostreatus, and Pleurotus tuber-regium. This procedure could be widely employed for screening transformants in mushroom transformation experiments.

Cellulosic Carbon Fibers with Branching Carbon Nanotubes for Enhanced Electrochemical Activities for Bioprocessing Applications

Zhao, Xueyan,Lu, Xin,Tze, William Tai Yin,Kim, Jungbae,Wang, Ping American Chemical Society 2013 ACS APPLIED MATERIALS & INTERFACES Vol.5 No.18

<P>Renewable biobased carbon fibers are promising materials for large-scale electrochemical applications including chemical processing, energy storage, and biofuel cells. Their performance is, however, often limited by low activity. Herein we report that branching carbon nanotubes can enhance the activity of carbonized cellulosic fibers, such that the oxidation potential of NAD(H) was reduced to 0.55 V from 0.9 V when applied for bioprocessing. Coordinating with enzyme catalysts, such hierarchical carbon materials effectively facilitated the biotransformation of glycerol, with the total turnover number of NAD(H) over 3500 within 5 h of reaction.</P><P><B>Graphic Abstract</B> <IMG SRC='http://pubs.acs.org/appl/literatum/publisher/achs/journals/content/aamick/2013/aamick.2013.5.issue-18/am402916g/production/images/medium/am-2013-02916g_0005.gif'></P><P><A href='http://pubs.acs.org/doi/suppl/10.1021/am402916g'>ACS Electronic Supporting Info</A></P>

Kinetic limitations of a bioelectrochemical electrode using carbon nanotube-attached glucose oxidase for biofuel cells

Zhao, Xueyan,Jia, Hongfei,Kim, Jungbae,Wang, Ping Wiley Subscription Services, Inc., A Wiley Company 2009 Biotechnology and bioengineering Vol.104 No.6

<P>Carbon nanotubes (CNTs) have been used for various bioelectrochemical applications, presumably for substantial improvement in performance. However, often only moderate results observed, with many governing factors have been considered and suggested yet without much systematic evaluation and verification. In this study, CNT-supported glucose oxidase (CNT–GOx) was examined in the presence of 1,4-benzoquinone (BQ). The intrinsic Michaelis parameters of the reaction catalyzed by CNT–GOx were found very close to those of native GOx. However, the Nafion entrapment of CNT–GOx for an electrode resulted in a much lower activity due to the limited availability of the embedded enzyme. Interestingly, kinetic studies revealed that the biofuel cell employing such an enzyme electrode only generated a power density equivalent to <40% of the reaction capability of the enzyme on electrode. It appeared to us that factors such as electron and proton transfer resistances can be more overwhelming than the heterogeneous reaction kinetics in limiting the power generation of such biofuel cells. Biotechnol. Bioeng. 2009; 104: 1068–1074. © 2009 Wiley Periodicals, Inc.</P>

Identification and Functional Characterization of R3 MYB Transcription Factor Genes in Soybean

Shucai Wang,Jinsong Pang,Hongwei Xun,Zhibing Zhang,Yunxiao Zhou,Xueyan Qian,Yingshan Dong,Xianzhong Feng,Bao Liu 한국식물학회 2018 Journal of Plant Biology Vol.61 No.2

In Arabidopsis, trichome formation is regulatedby a MYB-bHLH-WD40 (MBW) transcriptional activatorcomplex, which can activate the expression of GLABRA2(GL2) and R3 MYB genes. GL2 is required for trichomeformation, whereas R3 MYBs inhibit trichome formation byblocking the formation of the MBW complex, thus inhibitingthe expression of GL2. By using the amino acid sequence of theArabidopsis R3 MYB transcription factor TRICHOMELESS1(TCL1) to BLAST the soybean (Glycine max) protein database,we found that there are a total of six R3 MYB genes insoybean, namely Glycine max TRICHOMELESS1 through 6(GmTCL1-GmTCL6). By generating transgenic plants, wefound that trichome formation in soybean plants overexpressingeach of the GmTCLs remained largely unchanged, and theexpression of putative GL1 and GL2 genes in the transgenicplants was unaffected. However, all the GmTCLs interactedwith GLABRA3 (GL3) in transfected Arabidopsis protoplasts,expression each of the GmTCLs in Arabidopsis inhibitedtrichome formation, and the expression levels of GL1 andGL2 were greatly reduced in the Arabidopsis transgenicplants. Moreover, phenotypic complementary analysis showedthat GmTCL1 is functionally equivalent to TCL1. Takentogether, these results suggest that GmTCLs are functionalR3 MYBs, however, they do not regulate trichome formationin soybean.

ENZYMATIC PRODUCTION OF AGAROSE FROM RED ALGAE

Xiaoting Fu,Xueyan Wang 한국수산과학회 양식분과 2015 한국수산과학회 양식분과 학술대회 Vol.2015 No.5