Identifi cation of key leaf color-associated genes in Gleditsia sinensis using bioinformatics

Chong Wu,Xuemei Yang,Lijuan Feng,Fei Wang,Haixia Tang,Yanlei Yin 한국원예학회 2019 Horticulture, Environment, and Biotechnology Vol.60 No.5

This study aimed to explore leaf-color associated genes in Gleditsia sinensis ( G. sinensis ) using bioinformatics methods. Green, purple, and yellow leaves were collected from G. sinensis in Shandong Institute of Pomology. Total RNA was collectedfrom leaves and subjected to transcriptome sequencing. Diff erentially expressed genes (DEGs) were identifi ed amongthe diff erent colored leaves using RSEM method followed by functional enrichment analysis. Finally, qRT-PCR analysis wasused to assess the expression of several pigment-related genes enriched in signifi cant GO or KEGG terms. A total of 10,953,14,961, and 8916 DEGs were identifi ed between green vs. purple leaves, green vs. yellow leaves, and purple vs. yellow leaves,respectively. Among the green vs. purple leaves, DEGs were signifi cantly enriched in terms of iron ion binding, tetrapyrrolebinding, (e.g., CYP26A1 , CYP97A3 , and CYP86A1 ), and starch and sucrose metabolism (e.g., TPS and VTC2 ). DEGsfor green/purple vs. yellow groups were markedly enriched in circadian rhythm-plant KEGG pathway, including ELF3 andCHS . Compared with their expression in green leaves, CYP26A1 , CYP97A3 , CYP86A1 , TPS and VTC2 were signifi cantlydownregulated in purple leaves, while downregulation of ELF3 and upregulation of CHS was detected in yellow leaves. CYPs (e.g., CYP26A1 and CYP97A3 ) might play critical roles in the determination of leaf color in G. sinensis via iron ionand tetrapyrrole binding. In addition, genes related to starch and sucrose metabolism (e.g., TPS and VTC2 ), and circadianrhythms (e.g., ELF3 and CHS ) might also be involved in controlling leaf color.

Accurate Range-free Localization Based on Quantum Particle Swarm Optimization in Heterogeneous Wireless Sensor Networks

( Wenlan Wu ),( Xianbin Wen ),( Haixia Xu ),( Liming Yuan ),( Qingxia Meng ) 한국인터넷정보학회 2018 KSII Transactions on Internet and Information Syst Vol.12 No.3

This paper presents a novel range-free localization algorithm based on quantum particle swarm optimization. The proposed algorithm is capable of estimating the distance between two non-neighboring sensors for multi-hop heterogeneous wireless sensor networks where all nodes’ communication ranges are different. Firstly, we construct a new cumulative distribution function of expected hop progress for sensor nodes with different transmission capability. Then, the distance between any two nodes can be computed accurately and effectively by deriving the mathematical expectation of cumulative distribution function. Finally, quantum particle swarm optimization algorithm is used to improve the positioning accuracy. Simulation results show that the proposed algorithm is superior in the localization accuracy and efficiency when used in random and uniform placement of nodes for heterogeneous wireless sensor networks.

Nanostructured Lithium Nickel Manganese Oxides for Lithium-Ion Batteries

Deng, Haixia,Belharouak, Ilias,Cook, Russel E.,Wu, Huiming,Sun, Yang-Kook,Amine, Khalil The Electrochemical Society 2010 Journal of the Electrochemical Society Vol.157 No.4

Isolation, identification and characterization of a novel elastase from Chryseobacterium indologenes

Yunlong Lei,Peipei Zhao,Chenglei Li,Haixia Zhao,Zhi Shan,Qi Wu 한국응용생명화학회 2018 Applied Biological Chemistry (Appl Biol Chem) Vol.61 No.3

Elastase is a type of protease that specifically degrades elastin. It has broad application prospects in medicine, food industry, and daily-use chemical industry. In this study, we isolated a bacterial strain WZE87 with high elastin-hydrolysis activity, which was identified as Chryseobacterium indologenes based on morphology, physiological and biochemical characteristics, and 16S rDNA sequence analysis. The elastase produced by this strain was purified by three steps: ammonium sulfate precipitation, Q-Sepharose fast-flow anion-exchange chromatography, and Sephadex G-75 gel-filtration chromatography. The purified elastase was 2376.5 U/mg in activity (a 8.3-fold increase in specific activity), and the recovery was 5.8%. Its molecular mass was estimated to be 26 kDa by sodium dodecyl sulfate–polyacrylamide gel electrophoresis. This enzyme was stable in the pH range of 5.0–10.5 at 37 C. The optimal temperature and pH were 37 C and 7.5, respectively. The activity of this elastase was found to decrease when the temperature was higher than 50 C. The activity was also inhibited by Zn2?, Fe2?, Fe3?, and Mn2? ions. The specific hydrolytic ability of this enzyme was similar to that of papain on substrates like gelatin, casein, soybean-isolated protein and bovine hemoglobin. However, this elastase preferentially hydrolyzed elastin in a protein mixture because of its specific adsorption. Considering its promising properties, this protease may be considered a potential candidate for applications in related industries.

Exhaust gas based nanoarchitectonics for porous carbon materials for high-performance supercapacitor

Juan Du,Aibing Chen,Xueqing Gao,Haixia Wu 한국공업화학회 2022 Journal of Industrial and Engineering Chemistry Vol.109 No.-

Pyrolyzing carbon precursors will also lead to a large amount of exhaust gas, which is a waste ofresources and a huge pollution. Therefore, realizing the full utilization of exhaust gas from carbon precursorsis significant. Herein, cobalt (Co) modified hard templates with micropores or mesopores is used toprepare porous carbon for supercapacitors, in which Co species provide the active sites for the captureand deposition of exhaust gas derived from zeoliticimidazolate framework. Using N2 as protective andcarrier gas, the whole process can be realized in a simple tubular furnace. The obtained PC can replicatethe morphology and pore structure of the hard template with the characteristics of micropores or mesoporesrespectively. The microporous structure of PC gives it higher surface area and pore volume than PCwith mesopores, which makes it have high capacitance of 445.7 F g1 in supercapacitor.

The multifunctional RNA-binding protein hnRNPK is critical for the proliferation and differentiation of myoblasts

( Yongjie Xu ),( Rui Li ),( Kaili Zhang ),( Wei Wu ),( Suying Wang ),( Pengpeng Zhang ),( Haixia Xu ) 생화학분자생물학회(구 한국생화학분자생물학회) 2018 BMB Reports Vol.51 No.7

HnRNPK is a multifunctional protein that participates in chromatin remodeling, transcription, RNA splicing, mRNA stability and translation. Here, we uncovered the function of hnRNPK in regulating the proliferation and differentiation of myoblasts. hnRNPK was mutated in the C2C12 myoblast cell line using the CRISPR/Cas9 system. A decreased proliferation rate was observed in hnRNPK-mutated cells, suggesting an impaired proliferation phenotype. Furthermore, increased G2/M phase, decreased S phase and increased sub-G1 phase cells were detected in the hnRNPK-mutated cell lines. The expression analysis of key cell cycle regulators indicated mRNA of Cyclin A2 was significantly increased in the mutant myoblasts compared to the control cells, while Cyclin B1, Cdc25b and Cdc25c were decreased sharply. In addition to the myoblast proliferation defect, the mutant cells exhibited defect in myotube formation. The myotube formation marker, myosin heavy chain (MHC), was decreased sharply in hnRNPK-mutated cells compared to control myoblasts during differentiation. The deficiency in hnRNPK also resulted in the repression of Myog expression, a key myogenic regulator during differentiation. Together, our data demonstrate that hnRNPK is required for myoblast proliferation and differentiation and may be an essential regulator of myoblast function. [BMB Reports 2018; 51(7): 350-355]

Isolation, identification and characterization of a novel elastase from Chryseobacterium indologenes

Lei, Yunlong,Zhao, Peipei,Li, Chenglei,Zhao, Haixia,Shan, Zhi,Wu, Qi The Korean Society for Applied Biological Chemistr 2018 Applied Biological Chemistry (Appl Biol Chem) Vol.61 No.3

Elastase is a type of protease that specifically degrades elastin. It has broad application prospects in medicine, food industry, and daily-use chemical industry. In this study, we isolated a bacterial strain WZE87 with high elastin-hydrolysis activity, which was identified as Chryseobacterium indologenes based on morphology, physiological and biochemical characteristics, and 16S rDNA sequence analysis. The elastase produced by this strain was purified by three steps: ammonium sulfate precipitation, Q-Sepharose fast-flow anion-exchange chromatography, and Sephadex G-75 gel-filtration chromatography. The purified elastase was 2376.5 U/mg in activity (a 8.3-fold increase in specific activity), and the recovery was 5.8%. Its molecular mass was estimated to be 26 kDa by sodium dodecyl sulfate-polyacrylamide gel electrophoresis. This enzyme was stable in the pH range of 5.0-10.5 at $37^{\circ}C$. The optimal temperature and pH were $37^{\circ}C$ and 7.5, respectively. The activity of this elastase was found to decrease when the temperature was higher than $50^{\circ}C$. The activity was also inhibited by $Zn^{2+}$, $Fe^{2+}$, $Fe^{3+}$, and $Mn^{2+}$ ions. The specific hydrolytic ability of this enzyme was similar to that of papain on substrates like gelatin, casein, soybean-isolated protein and bovine hemoglobin. However, this elastase preferentially hydrolyzed elastin in a protein mixture because of its specific adsorption. Considering its promising properties, this protease may be considered a potential candidate for applications in related industries.

A Novel Data Filling Algorithm for Incomplete Information System Based on Valued Limited Tolerance Relation

Xiuling Bai,Mingchuan Zhang,Qingtao Wu,Ruijuan Zheng,Haixia Zhao,Wangyang Wei 보안공학연구지원센터 2015 International Journal of Database Theory and Appli Vol.8 No.6

Due to various reasons, there are generally missing data in datasets. Usually the missing data in these incomplete datasets need to be filled. In this paper, the drawbacks of some existing data filling approaches for incomplete information systems are analyzed based on Rough Set theory. Several similarity relation models are discussed and the Valued Limited Tolerance Relation model is proposed. A data filling algorithm based on the Valued Limited Tolerance Relation model is put forward. This approach makes full use of the similarity of objects and selects the object which is the most similar to the incomplete object. More missing data can be filled scientifically. The experimental results show that this approach is effective.

Cycle-Consistent Generative Adversarial Network: Effect on Radiation Dose Reduction and Image Quality Improvement in Ultralow-Dose CT for Evaluation of Pulmonary Tuberculosis

Yan Chenggong,Lin Jie,Li Haixia,Xu Jun,Zhang Tianjing,Chen Hao,Woodruff Henry C.,Wu Guangyao,Zhang Siqi,Xu Yikai,Lambin Philippe 대한영상의학회 2021 Korean Journal of Radiology Vol.22 No.6

Objective: To investigate the image quality of ultralow-dose CT (ULDCT) of the chest reconstructed using a cycle-consistent generative adversarial network (CycleGAN)-based deep learning method in the evaluation of pulmonary tuberculosis. Materials and Methods: Between June 2019 and November 2019, 103 patients (mean age, 40.8 ± 13.6 years; 61 men and 42 women) with pulmonary tuberculosis were prospectively enrolled to undergo standard-dose CT (120 kVp with automated exposure control), followed immediately by ULDCT (80 kVp and 10 mAs). The images of the two successive scans were used to train the CycleGAN framework for image-to-image translation. The denoising efficacy of the CycleGAN algorithm was compared with that of hybrid and model-based iterative reconstruction. Repeated-measures analysis of variance and Wilcoxon signedrank test were performed to compare the objective measurements and the subjective image quality scores, respectively. Results: With the optimized CycleGAN denoising model, using the ULDCT images as input, the peak signal-to-noise ratio and structural similarity index improved by 2.0 dB and 0.21, respectively. The CycleGAN-generated denoised ULDCT images typically provided satisfactory image quality for optimal visibility of anatomic structures and pathological findings, with a lower level of image noise (mean ± standard deviation [SD], 19.5 ± 3.0 Hounsfield unit [HU]) than that of the hybrid (66.3 ± 10.5 HU, p < 0.001) and a similar noise level to model-based iterative reconstruction (19.6 ± 2.6 HU, p > 0.908). The CycleGAN-generated images showed the highest contrast-to-noise ratios for the pulmonary lesions, followed by the model-based and hybrid iterative reconstruction. The mean effective radiation dose of ULDCT was 0.12 mSv with a mean 93.9% reduction compared to standard-dose CT. Conclusion: The optimized CycleGAN technique may allow the synthesis of diagnostically acceptable images from ULDCT of the chest for the evaluation of pulmonary tuberculosis.

Vascular bundle xylem water transport repression and cell anatomical structure differences may lead to berry cracking near the proximal end

Zhang Chuan,Cui Liwen,Shen Meng,Yadav Vivek,Zhong Haixia,Zhang Fuchun,Zhou Xiaoming,Wu Xinyu 한국원예학회 2024 Horticulture, Environment, and Biotechnology Vol.65 No.2

Grape berries often crack near the proximal end, which may be related to water absorption and their cellular anatomical structure. To study the relationship between water absorption, cell anatomical structures, and berry cracking near the proxi mal end, 49 varieties were selected. Eighteen were prone to cracking near the proximal end, while 31 were resistant. An in vitro soaking experiment on ripe berries measured the diff erence in berry-cracking degrees among diff erent varieties. In vitro staining was used to trace water absorption and paraffi n sections were prepared to observe and analyze the struc tural parameters of diff erent tissues. Results showed that the cracking rate and water uptake of the crack-prone berries were signifi cantly higher than those of the crack-resistant berries. Fruit prone to cracking was characterized by a thinner cuticle, epidermis, and sub-epidermis. After staining, it was found that dye absorption was limited to the berry near the proximal end. Other cell size parameters may also lead to cracking near the proximal end. By tracing water transport and analyzing diff erences in cell structure characteristics among varieties, we speculated that the vascular bundle xylem water transport repression and diff erences in cell anatomical structures may have led to berry cracking near the proximal end. The reasons for berry cracking near the proximal end were preliminarily explained, providing theoretical support for further screening of crack-resistant varieties.