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The proposed role of MSL-lncRNAs in causing sex lability of female poplars

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Horticulture Research 2023年第5期10卷 29-37页

作者： Jinyan Mao suyun wei Yingnan Chen Yonghua Yang Tongming Yin State Key Laboratory for Tree Genetics and Breeding Co-Innovation Center for Sustainable Forestry in Southern ChinaKey Laboratory of Tree Genetics and Biotechnology of Educational Department of ChinaKey Laboratory of Tree Genetics and Breeding of Jiangsu ProvinceNanjing Forestry UniversityNanjing210037China Institute for Plant Molecular Biology State Key Laboratory of Pharmaceutical BiotechnologySchool of Life SciencesNanjing UniversityNanjing 210023China

Labile sex expression is frequently observed in dioecious plants,but the underlying genetic mechanism remains largely *** plasticity is also observed in many Populus *** we carried out a systematic study on a maleness-promoting gene,MSL,detected in the Populus deltoides *** results showed that both strands of MSL contained multiple cis-activating elements,which generated long non-coding RNAs(lncRNAs)promoting *** female *** did not have the male-specific MSL gene,a large number of partial sequences with high sequence similarity to this gene were detected in the female poplar *** on sequence alignment,the MSL sequence could be divided into three partial sequences,and heterologous expression of these partial sequences in Arabidopsis confirmed that they could promote *** activation of the MSL sequences can only result in female sex lability,we propose that MSL-lncRNAs might play a role in causing sex lability of female poplars.

关键词： female similarity alignment

Uneven selection pressure accelerating divergence of Populus and Salix

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Horticulture Research 2019年第1期6卷 1165-1175页

作者： Jing Hou suyun wei Huixin Pan Qiang Zhuge Tongming Yin The Key Laboratory for Cultivar Innovation and Germplasm Improvement for Salicaceae Species College of ForestryNanjing Forestry UniversityNanjing 210037China

Populus(poplars)and Salix(willows)are sister genera in the Salicaceae family that arise from a common tetraploid *** karyotypes of these two lineages are distinguished by two major interchromosomal and some minor intrachromosomal rearrangements,but which one is evolutionarily more primitive remains *** this study,we compare the selection pressure acting on the paralogous genes resulting from salicoid duplication(PGRS)within and between the genomes of the two *** selection was determined to act more strongly on the PGRS in willow than on those in poplar,which would cause a faster loss of paralogous duplicates in ***,Salix species are supposed to evolve faster than Populus species,which is consistent with the observation that the former are taxonomically and morphologically more diverse than the *** these two lineages,different autosomes were found to have been evolving into sex *** theωratio and the PGRS in the sex determination regions in willow and poplar revealed higher convergent selection pressure and a faster loss of PGRS in the sex determination regions of both *** the chromosome level,the sex chromosome in poplar is characterized by the lowest gene density among all chromosome members,while this feature is not observed on the sex chromosome in willow,suggesting that Populus species may inherit the more incipient sex chromosome from their *** together,Salix is supposed to be the nascent lineage arising from the additional round of genome reorganization that distinguishes the karyotypes of the two sister *** this study,assessment ofωratios also detected a list of paralogous genes under unusual selection pressure,which could have special consequences for the adaptive evolution of Salicaceae *** conclusion,the results of this study provide unique information for better understanding the genetic mechanism accelerating the divergence of these two closely related

关键词： divergence faster consequences

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分布式环境下约束性关联规则的快速更新

东南大学学报（自然科学版） 2006年第1期36卷 34-38页

作者：吉根林韦素云南京师范大学计算机科学系南京210097 苏州大学江苏省计算机信息处理技术重点实验室苏州215006

研究分布式环境下约束性关联规则更新问题,包括数据库中事务增加和删除2种情况.引入向导集的概念,提出基于全局局部模式的约束性关联规则增量式更新算法DUCAR,其中包括局部约束性频繁项目集更新算法ULFC和全局约束性频繁项目集更新算法U... 详细信息

研究分布式环境下约束性关联规则更新问题,包括数据库中事务增加和删除2种情况.引入向导集的概念,提出基于全局局部模式的约束性关联规则增量式更新算法DUCAR,其中包括局部约束性频繁项目集更新算法ULFC和全局约束性频繁项目集更新算法UGFC.该算法充分利用原先的挖掘结果提高更新效率,首先从最高维的频繁n项目集进行更新,在更新过程中考虑约束条件,结合剪枝算法,生成较少数量的满足约束条件的候选项目集.将该算法用Java加以实现,采用多组数据对此算法的性能进行测试,并与其他算法作对比实验,实验结果表明,该算法是高效可行的.

关键词：关联规则项约束约束性频繁项目集频繁项目集更新分布式数据挖掘

Organellar genome assembly methods and comparative analysis of horticultural plants

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Horticulture Research 2018年第1期5卷 918-930页

作者： Xuelin Wang Feng Cheng Dekai Rohlsen Changwei Bi Chunyan Wang Yiqing Xu suyun wei Qiaolin Ye Tongming Yin Ning Ye College of Information Science and Technology Nanjing Forestry UniversityNanjingJiangsuChina Department of Pharmaceutical Science College of PharmacyUniversity of South FloridaTampaFL33612USA School of Biological Science and Medical Engineering Southeast UniversityNanjingJiangsuChina College of Forestry Nanjing Forestry UniversityNanjingJiangsuChina

Although organellar genomes(including chloroplast and mitochondrial genomes)are smaller than nuclear genomes in size and gene number,organellar genomes are very important for the investigation of plant evolution and molecular ecology *** studies have focused on the organellar genomes of horticultural *** 1193 chloroplast genomes and 199 mitochondrial genomes of land plants are available in the National Center for Biotechnology Information(NCBI),of which only 39 are from horticultural *** this paper,we report an innovative and efficient method for high-quality horticultural organellar genome assembly from next-generation sequencing(NGS)*** reads were first assembled by Newbler,Amos,and Minimus software with default *** remaining gaps were then filled through BLASTN search and *** complete DNA sequence was corrected based on Illumina sequencing data using BWA(Burrows–Wheeler Alignment tool)*** advantage of this approach is that there is no need to isolate organellar DNA from total DNA during sample *** this procedure,the complete mitochondrial and chloroplast genomes of an ornamental plant,Salix suchowensis,and a fruit tree,Ziziphus jujuba,were *** study shows that horticultural plants have similar mitochondrial and chloroplast sequence organization to other seed *** horticultural plants demonstrate a slight bias toward A+T rich features in the mitochondrial *** addition,a phylogenetic analysis of 39 horticultural plants based on 15 protein-coding genes showed that some mitochondrial genes are horizontally transferred from chloroplast *** study will provide an important reference for organellar genome assembly in other horticultural ***,phylogenetic analysis of the organellar genomes of horticultural plants could accurately clarify the unanticipated relationships among these plants.

关键词： analysis default transferred

一种基于DOM树的XML数据频繁模式挖掘算法

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南京航空航天大学学报 2006年第2期38卷 206-211页

作者：吉根林韦素云鲍培明南京师范大学计算机系南京210097

由于XM L数据具有半结构化特性,使得面向XM L数据的数据挖掘不同于面向关系数据库的数据挖掘,它具有更复杂的层次结构。研究基于DOM树的XM L数据频繁模式挖掘算法,提出面向XM L数据的频繁模式增量式挖掘算法F reqtT ree。该算法首先将X... 详细信息

由于XM L数据具有半结构化特性,使得面向XM L数据的数据挖掘不同于面向关系数据库的数据挖掘,它具有更复杂的层次结构。研究基于DOM树的XM L数据频繁模式挖掘算法,提出面向XM L数据的频繁模式增量式挖掘算法F reqtT ree。该算法首先将XM L数据转化成DOM树,然后从DOM树挖掘所有频繁模式。F reqtT ree算法采用最右扩展技术,只在树的最右分支上增加新结点生成新树。同时充分利用已生成的频繁模式信息,使得产生的候选模式数量较少。F reqtT ree算法利用频繁k-1模式的支持数计算候选k模式的支持数,该算法只对DOM树遍历一次,具有较高的效率。采用多组数据对此算法的性能进行检验,并与其他算法作对比实验,实验结果表明该算法高效可行。

关键词： XML DOM树频繁模式增量式挖掘数据挖掘

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基于平行坐标的关联规则可视化新技术

计算机工程 2005年第24期31卷 87-89页

作者：吉根林韦素云曲维光南京师范大学计算机科学系

详细讨论了用于关联规则可视化的几种常用技术,分析了各自的优缺点。提出了关联规则可视化的一种新方法ARVir,该方法巧妙地利用平行坐标技术的思想,对原有的可视化技术进行改进,能够解决当前关联规则可视化技术中普遍存在的界面紊乱、... 详细信息

详细讨论了用于关联规则可视化的几种常用技术,分析了各自的优缺点。提出了关联规则可视化的一种新方法ARVir,该方法巧妙地利用平行坐标技术的思想,对原有的可视化技术进行改进,能够解决当前关联规则可视化技术中普遍存在的界面紊乱、产生歧义等多种问题。利用Java3D技术实现了基于ARVir的关联规则可视化系统原型,实验表明该系统不仅能够有效地显示大量关联规则,而且用户可以给定约束条件对挖掘结果进行过滤。

关键词：关联规则可视化数据挖掘

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基于联合聚类平滑的协同过滤算法

计算机研究与发展 2013年第S2期50卷 163-169页

作者：韦素云肖静静业宁南京林业大学信息科学技术学院南京210037

协同过滤是电子商务推荐系统中被广泛采用的技术,但还存在诸如稀疏性、冷启动、可扩展性等制约其进一步发展的瓶颈问题.针对上述问题,提出一种基于联合聚类平滑的协同过滤推荐算法.在该算法中,首先对原始矩阵中的评分模式进行用户和项目... 详细信息

协同过滤是电子商务推荐系统中被广泛采用的技术,但还存在诸如稀疏性、冷启动、可扩展性等制约其进一步发展的瓶颈问题.针对上述问题,提出一种基于联合聚类平滑的协同过滤推荐算法.在该算法中,首先对原始矩阵中的评分模式进行用户和项目2个维度的联合聚类;然后采用联合聚类平滑的方法预测用户对未评分项目的评分值,分别从用户聚类簇、项目聚类簇和联合聚类簇多方面对评分矩阵空缺项进行平滑填充;最后结合基于项目的协同过滤算法查找项目最近邻并进行推荐.实验结果表明,该算法可以有效缓解用户评分数据稀疏带来的不良影响,一定程度上解决冷启动问题,提高预测准确率和推荐质量.

关键词：推荐系统协同过滤项目相似性联合聚类数据平滑

Type-A细胞分裂素响应调节因子基因家族研究进展

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园艺学报 2023年第9期50卷 1867-1888页

作者：陆静韦素云尹佟明陈赢男南京林业大学林木遗传与生物技术省部共建教育部重点实验室南京林业大学林学院南方现代林业协同创新中心南京210037

Type-A response regulators(RR)是细胞分裂素信号转导的末端组分,仅具有REC接收域,不仅影响植物生长发育,还响应非生物胁迫。本文中详细梳理了近年来草本和木本植物type-A RR鉴定、进化关系、表达模式、功能特征等研究进展,总结了潜在... 详细信息

Type-A response regulators(RR)是细胞分裂素信号转导的末端组分,仅具有REC接收域,不仅影响植物生长发育,还响应非生物胁迫。本文中详细梳理了近年来草本和木本植物type-A RR鉴定、进化关系、表达模式、功能特征等研究进展,总结了潜在的调控网络,以期为深入理解type-A RR负调节细胞分裂素信号的机制提供参考。

关键词：细胞分裂素 A型响应调节因子表达模式基因功能调控网络

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基于加权颜色直方图和颜色对的图像检索系统

南京师范大学学报（工程技术版） 2005年第1期5卷 53-56页

作者：韦素云吉根林南京师范大学数学与计算机科学学院江苏南京210097

提出了基于加权颜色直方图的图像检索算法以及基于颜色对的图像检索算法,该算法分别利用图像的加权颜色直方图和颜色对作为图像特征,通过图像的相似性计算实现图像匹配.用VisualC++实现了基于加权颜色直方图和颜色对的图像检索... 详细信息

提出了基于加权颜色直方图的图像检索算法以及基于颜色对的图像检索算法,该算法分别利用图像的加权颜色直方图和颜色对作为图像特征,通过图像的相似性计算实现图像匹配.用VisualC++实现了基于加权颜色直方图和颜色对的图像检索系统,阐述了该系统的组成结构,同时给出图像检索实例,并对该系统的检索效果和性能进行了详细分析,实验结果表明该系统具有较好的检索效果和性能.

关键词：基于内容的图像检索颜色直方图颜色对