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Transcriptome analysis of kelp Saccharina japonica unveils its weird transcripts and metabolite shift of main components at different sporophyte developmental stages

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Journal of Oceanology and Limnology 2019年第2期37卷 640-650页

作者： ding haiyan GUO Li LI Xiaojie YANG Guanpin College of Marine Life Sciences Ocean University of China Qingdao 266003 China Shandong Oriental Ocean Sci-Tech Co. Ltd. Yantai 264003 China Key Laboratory of Marine Genetics and Breeding of Ministry of Education Ocean University of China Qingdao 266003 China Institutes of Evolution and Marine Biodiversity Ocean University of China Qingdao 266003 China

Saccharina japonica is an economically important cold water brown alga extensively cultivated in China. It is cultivated upside down under a floating rope net with its holdfast and meristematic area facing sunlight and UV irradiation and its blade tip toward dark, and other worse cultivation environmental factors also make S . japonic a face more stresses. In this study, S . japonica transcriptomes corresponding to its four developmental stages were analyzed. In total, 7 800 genes predicted in the genome were transcribed. We found that 1 208 of the 7 800 expressed and 2 697 annotated were virus associating genes. Of 778 diff erentially expressed genes (DEGs), 372 were annotatable and 209 were virus associating. Such portion of virus associating genes indicated that the S . japonica genome contained a large portion of active virus originating genes. It was found that the transcripts abundance associated with sugar biosynthesis was about 2.13 folds of all the expressed, indicating that the biosyntheses of structural and storage sugars were very important cellular processes. The total abundance of genes involved in the biosynthesis of alginate and laminarin were similar among all developmental stages, however, that of genes involved in the biosynthesis of mannitol increased about 2-folds from mushroom and adult stages to mature and aging stages. This trend explained our observation that the content of alginate was almost constant at diff erent development stages, while that of mannitol increased sharply. In addition, we found that a set of defense and cell recurring genes highly expressed and many of them expressed diff erentially among stages. On average, the sum abundance of the transcripts of these genes at four stages were 3.40-and 4.96-folds of all the annotated and all the expressed, respectively. This indicated that S . japonica sporophytes persistently respond possible pathogen and environment stresses. The findings are important for timing S . japonica harvest

关键词： Saccharina japonica transcriptome developmental stage sugar biosynthesis defense

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Molecular Grouping of Grateloupia Tissues Collected Along Chinese Coast and Microsatellite Diversity Analysis of G. asiatica

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Journal of Ocean University of China 2018年第4期17卷 925-931页

作者： PENG Chong ding haiyan TANG Zhihong GUO Li YANG Guanpin College of Marine Life Sciences Ocean University of China Institute of Evolution & Marine Biodiversity Ocean University of China Key Laboratory of Marine Genetics and Breeding of Chinese Ministry of Education Ocean University of China

Genus Grateloupia is one of the most speciose genera in family Halymeniales. It is also one of the sources for natural materials, food and medicine. With different environments, Grateloupia change their morphological characteristics, making their morphological identification very difficult. In addition, few of the species diversity in this genus has been described before. In this study, phylogenetic analysis based on rbc L gene sequence was employed to group Grateloupia collected from three locations along Chinese coast. The microsatellites were also used to evaluate their genetic diversity. In total, the tissue parts of 6 putative species were collected from G. asiatica, G. livida, G. lanceolate, G. catenata, G. turuturu and G. filicina. In order to evaluate their genetic diversity and then conserve them better, 40 microsatellites available for Grateloupia were used to evaluate their genetic diversity, and 11 microsatellites were found to be applicable to determine the genetic diversity of G. asiatica. It was found that the genetic diversity of G. asiatica around Qingdao was very rich. We suggested that the species of genus Grateloupia should be identified based on rbc L phylogenetic analysis before the diversity evaluation with microsatellites. The microsatellites should be developed for each species of Grateloupia so that their genetic diversity can be evaluated appropriately.

关键词： Grateloupia rbc L molecular grouping microsatellite genetic diversity

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Structural Variation Analysis of Mutated Nannochloropsis oceanica Caused by Zeocin Through Genome Re-Sequencing

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Journal of Ocean University of China 2018年第5期17卷 1225-1230页

作者： LIN Genmei ZHANG Zhongyi GUO Li ding haiyan YANG Guanpin Laboratory of Marine Genetics and Breeding Ocean University of China College of Marine Life Sciences Ocean University of China Institutes of Evolution and Marine Biodiversity Ocean University of China

Zeocin can cause double strand breaks of DNA and thus may be employed as a mutagen. In this study, two strains of Nannochloropsis oceanica, the wild and the Zeocin-tolerant strains, were re-sequenced to verify such function of Zeocin, The results showed that Zeocin can mutate the N. oceanica genome and cause the structural variation. Zeocin either swept away or selected the alleles of genes functioning in ubiquitin-mediated proteolysis, alpha-linolenic acid metabolism, ascorbate and aldarate metabolism, ribosome biogenesis, and circadian rhythm, indicating that N. oceanica may have adjusted its metabolic performances for protein, carbohydrate, and lipid, and changed its ribosome biosynthesis and living rhythm to survive in Zeocin containing medium. In addition, Zeocin caused mutation may have influenced the expression of a set of tanscription factors. It was concluded that Zeocin effectively caused the structural variation of the genome of N. oceanica, and forced the microalgae to select out the alleles of a set of genes around these variations in order to adapt to Zeocin containing medium. Further studies on the genetic basis of the phenotypic adaptation of this haploid and asexual microalga and the application of Zeocin to its genetic improvement are very important.

关键词： Nannochloropsis oceanica Zeocin mutation genome re-sequencing structural variation

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Multi-Task Deep Learning with Task Attention for Post-Click Conversion Rate Prediction

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Intelligent Automation & Soft Computing 2023年第6期36卷 3583-3593页

作者： Hongxin Luo Xiaobing Zhou haiyan ding Liqing Wang School of Information Science and Engineering Yunnan UniversityKunming650500China

Online advertising has gained much attention on various platforms as a hugely lucrative *** promoting content and advertisements in real life,the acquisition of user target actions is usually a multi-step process,such as impres-sion→click→conversion,which means the process from the delivery of the recommended item to the user’s click to the final *** to data sparsity or sample selection bias,it is difficult for the trained model to achieve the business goal of the target ***-task learning,a classical solution to this pro-blem,aims to generalize better on the original task given several related tasks by exploiting the knowledge between tasks to share the same feature and label *** learned task relations bring better performance to make full use of the correlation between *** train a general model capable of captur-ing the relationships between various tasks on all existing active tasks from a meta-learning *** addition,this paper proposes a Multi-task Attention Network(MAN)to identify commonalities and differences between tasks in the feature *** model performance is improved by explicitly learning the stacking of task relationships in the label *** illustrate the effectiveness of our method,experiments are conducted on Alibaba Click and Conversion Pre-diction(Ali-CCP)*** results show that the method outperforms the state-of-the-art multi-task learning methods.

关键词： Multi-task learning recommend system attention meta-learning

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Development of a new method for analyzing free aluminum ions(Al^(3+)) in seafood using HPLC-ICP-MS

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Chinese Science Bulletin 2013年第35期58卷 4437-4442页

作者： SHANG DeRong ZHAO YanFang ZHAI YuXiu NING JinSong ding haiyan SHENG XiaoFeng Yellow Sea Fishery Research Institute Chinese Academy of Fishery Sciences

This paper presents a novel method for simultaneous online examination of free aluminum ions(Al3+)in seafood,using solidphase extraction and high-performance liquid chromatography online with inductively coupled plasma mass spectrometry(SPEHPLC-ICP-MS),without post-column *** optimum conditions for chromatographic separation of Al3+were achieved using an IonPac CS5A analytical column with an IonPac CG5A guard *** mobile phase consisted of 0.040 mol/L LiOH,0.0060 mol/L 2,6-pyridinedicarboxylic acid,and 0.090 mol/L CH3COOH(pH 4.7).The free Al3+ions in seafood were extracted by shaking with the mobile phase at 70°C for 2 *** was conducted using an Oasis MCX,3cc/60 mg,30μm column,which was activated and equilibrated with 2 mL of methanol and 4 mL of deionized water before ***(0.075 mol/L,2 mL)was used to wash inorganic Al from the SPE *** standard recoveries of Al3+were all above 89%and the relative standard deviations were all below 5%.The proposed method was successfully used for the examination of Al3+in seafood samples,and the results were similar to those obtained using the static equilibrium method.

关键词：铝离子游离海鲜电感耦合等离子体质谱法 IonPac 高效液相色谱相对标准偏差固相萃取

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Verification of Mutagen Function of Zeocin in Nannochloropsis oceanica Through Transcriptome Analysis

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Journal of Ocean University of China 2017年第3期16卷 501-508页

作者： LIN Genmei WANG Yamei GUO Li ding haiyan HU Yongmei LIANG Sijie ZHANG Zhongyi YANG Guanpin Laboratory of Marine Genetics and Breeding Ocean University of ChinaQingdao 266003P.R.China College of Marine Life Sciences Ocean University of ChinaQingdao 266003P.R.China Institutes of Evolution and Marine Biodiversity Ocean University of ChinaQingdao 266003P.R.China

Zeocin can cause double strand breaks of DNA and thus is frequently used as a selective antibiotic of eukaryotic Sh ble transformants. In non-transformation system, Zeocin may function as a mutagen if not totally lethal. To verify such function of Zeocin, we mutated Nannochloropsis oceanica by increasing the concentration of Zeocin in medium gradually, and isolated a N. oceanica strain(single cell culture) which survived Zeocin up to 10.0μg mL^(-1). The Zeocin-tolerant strain entered the exponential growth phase later and grew slower than the wild strain. Transcriptome profiling showed that the Zeocin-tolerant N. oceanica strain survived Zeocin mainly by adapting(heritable), rather than acclimating(plastic) to Zeocin. Hence mutating N. oceanica with Zeocin was approved effective. Meanwhile, the physiological characteristics of this Zeocin-tolerant strain were demonstrated. As we proposed, N. oceanica tolerated Zeocin by strengthening its protein degradation and antioxidation. The genes controlling cell division and cellular response to stimuli may also have played important roles in the reduction of growth and the tolerance to Zeocin. Our findings evidenced that Zeocin can serve as an appropriate mutagen of microalgae. Creating variations through mutation with Zeocin may help to study the genetic basis of the traits of this monoploidy and asexual microalga, as well as improve its production.

关键词： Nannochloropsis oceanica mutation Zeocin tolerance transcriptome

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Calculation of compact amplitude-integrated EEG tracing and upper and lower margins using raw EEG data

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Health 2013年第5期5卷 885-891页

作者： Dandan Zhang haiyan ding Department of Biomedical Engineering Tsinghua University Beijing China

Amplitude-integrated EEG (aEEG) is a popular method for monitoring cerebral function. Although various commercial aEEG recorders have been produced, a detailed aEEG algorithm currently is not available. The upper and lower margins in the aEEG tracing are the discriminating features for data inspection and tracing classification. However, most aEEG devices require that these margins be measured semi-subjectively. This paper proposes a step-by-step signal-processing method to calculate a compact aEEG tracing and the upper/lower margin using raw EEG data. The high accuracy of the algorithm was verified by comparison with a recognized commercial aEEG device based on a representative testing dataset composed of 72 aEEG data. The introduced digital algorithm achieved compact aEEG tracing with a small data size. Moreover, the algorithm precisely represented the upper and lower margins in the tracing for objective data interpretation. The described method should facilitate aEEG signal processing and further establish the clinical and experimental application of aEEG methods.

关键词： Amplitude-Integrated EEG Digital Algorithm Upper Margin Lower Margin Compact Tracing

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Plant natural products as effective options for inhibiting foodborne pathogens: A comprehensive review of their activities， mechanisms， and applications in food preservation

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Food Science and Human Wellness 2024年

作者： Menglong Liu haiyan ding Yu Cao Lijing Liu Qiaoli Xue Yongjin Hu College of Food Science and Technology， Yunnan Agricultural University School of Public Health， Dali University Editorial Department of Journal of Yunnan Agricultural University

In order to ensure food safety， controlling foodborne pathogen contamination is of utmost importance. Growing apprehensions regarding the safety of synthetic antimicrobials， due to their adverse health effects， have prompted a search for alternative options. Plant natural products (PNPs) with antimicrobial activity are being explored as a viable alternative. Among the various antimicrobial natural products studied， plant essential oils， plant flavonoids， plant polyphenols， plant polysaccharides， and plant antimicrobial peptides have been identified as potential candidates. PNPs demonstrate a diverse array of antimicrobial mechanisms， encompassing cell wall and membrane damage， interference with genetic replication， disruption of energy metabolism， and induction of oxidative stress at the single-cell level， as well as inhibition of biofilm formation and quorum sensing at the population level. Certain PNPs have been harnessed as natural antimicrobial agents for the food preservation. The utilization of encapsulation technology proves to be an effective strategy in protecting PNPs， thereby ensuring good antimicrobial efficacy， enhanced dispersibility， and controlled release within food products. The utilization of nanoemulsions， nanoliposomes， edible packaging， electrospun nanofibers， and microcapsules formed by encapsulation has enriched the ways in which PNPs can be applied in food preservation. Although PNPs have great potential in food preservation， their widespread application in the food industry is currently constrained by factors such as production costs， safety concerns， and legal considerations. Chemical synthesis and biosynthesis pathways offer viable strategies for reducing the cost of producing PNPs， and ongoing efforts to assess safety and improve regulatory frameworks are likely to facilitate the broader adoption of PNPs in food preservation practices. This article provides an overview of the main types of PNPs with antimicrobial activity and their prope

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助动词“好”的语法化及相关词汇化现象

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语言教学与研究 2009年第5期 31-38页

作者：张定丁海燕中国社会科学院研究生院语言学系 100102 合肥师范学院中文系 230061

现代汉语中"好+动"的相关句法限制是由助动词"好"的语法化及整个"好+动"结构的词汇化造成的。助动词"好"产生于六朝时期,它的形成是"外置"和"难易移位"句法操作先后作用的结果,而"适合、适宜"义则是其语法化过程中语义演变的关键。"好+... 详细信息

现代汉语中"好+动"的相关句法限制是由助动词"好"的语法化及整个"好+动"结构的词汇化造成的。助动词"好"产生于六朝时期,它的形成是"外置"和"难易移位"句法操作先后作用的结果,而"适合、适宜"义则是其语法化过程中语义演变的关键。"好+动"的词汇化大约肇端于元代,随后逐渐普遍,至今尚未最终完成。

关键词：助动词好语法化词汇化外置难易移位

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小麦籽粒DNA提取方法的比较及SSR反应体系的优化研究

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麦类作物学报 2016年第3期36卷 287-291页

作者：丁海燕丁晨大庆师范学院生物工程学院黑龙江大庆163712

为了快速获得较高质量的DNA用于SSR分析,并建立一套稳定的SSR反应体系,以小麦单粒干种子为材料,比较了CTAB法和SDS法获得的DNA条带清晰度和RNA残留带的清晰度;同时,研究了模板DNA浓度、引物浓度、dNTPs浓度以及Taq酶用量对SSR结果的影... 详细信息

为了快速获得较高质量的DNA用于SSR分析,并建立一套稳定的SSR反应体系,以小麦单粒干种子为材料,比较了CTAB法和SDS法获得的DNA条带清晰度和RNA残留带的清晰度;同时,研究了模板DNA浓度、引物浓度、dNTPs浓度以及Taq酶用量对SSR结果的影响。结果表明,CTAB法微量提取小麦干种子DNA可获得理想的扩增结果;SSR的最佳反应体系是：模板DNA浓度为4.0～4.8ng·μL^（-1）,Taq酶用量为1U,引物浓度为50～200nmol·L^（-1）,dNTPs浓度为50～500μmol·L^（-1）。

关键词：小麦种子 CTAB法 SDS法 SSR

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