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A genome-wide analysis of SWEET gene family in cotton and their expressions under different stresses

Journal of Cotton Research 2018年第2期1卷 12-26页

作者： zhao lanjie YAO Jinbo CHEN Wei LI Yan L Youjun GUO Yan WANG Junyi YUAN Li LIU Ziyang ZHANG Yongshan State Key Laboratory of Cotton Biology Institute of Cotton Research of Chinese Academy of Agricultural Sciences Anyang Institute of Technology University of Saskatchewan

Background： The SWEET （Sugars will eventually be exported transporters） gene family plays multiple roles in plant physiological activities and development process. It participates in reproductive development and in the process of sugar transport and absorption, plant senescence and stress responses and plant-pathogen interaction. However, thecomprehensive analysis of SWEET genes has not been reported in cotton. Results： In this study, we identified 22, 31, 55 and 60 SWEETgenes from the sequenced genomes of Gossypium orboreum, G. rairnondii, G. hirsutum and G. borbadense, respectively. Phylogenetic tree analysis showed that the SWEET genes could be divided into four groups, which were further classified into 14 sub-clades. Further analysis of chromosomal location, synteny analysis and gene duplication suggested that the orthologs showed a good collinearity and segmental duplication events played a crucial role in the expansion of the family in cotton. Specific MtN3_slv domains were highly conserved between Arabidopsis and cotton by exon-intron organization and motif analysis. In addition, the expression pattern in different tissues indicated that the duplicated genes in cotton might have acquired new functions as a result of sub-functionalization or neo-functionalization. The expression pattern of SWEET genes showed that the different genes were induced by diverse stresses. The identification and functional analysis of SWEET genes in cotton may provide more candidate genes for genetic modification. Conclusion： SWEET genes were classified into four clades in cotton. The expression patterns suggested that the duplicated genes might have experienced a functional divergence. This work provides insights into the evolution of SWEETgenes and more candidates for specific genetic modification, which will be useful in future research.

关键词： Gossypium Sugars will eventually be exported transporters (SWEETs) Gene expression patterns Stress

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Characters and structures of the nucleobase-ascorbate transporters(NAT)family genes in Gossypium hirsutum and their roles in responding to salt and drought stresses

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Journal of Cotton Research 2022年第2期5卷 115-129页

作者： GUO Lixue zhao lanjie LU Xuke CHEN Xiugui WANG Shuai WANG Junjuan WANG Delong YIN Zujun CHEN Chao FAN Yapeng ZHANG Yuexin YE Wuwei State Key Laboratory of C otton Biology/I nstitute of Cott on Research of Chinese Academy of Agricultural Sciences/Zhengzhou Research Base School of Agricultural SciencesZhengzhou University/Key Laboratory for Cotton Genetic ImprovementMOARAAnyang 455000HenanChina

Background: Nucleobase-ascorbate transporters(NAT), synonymously called nucleobase-cation symporter 2(NCS2) proteins, were earlier reported to be involved in plant growth, development and resistance to stress. Previous studies concluded that s a polymorphic SNP associated with NAT12 was significant di erent between salt-tolerant and salt-sensitive materials of upland cotton. In current study, a comprehensive analysis of NAT family genes was conducted for the first time in ***: In this study, we discovered 32, 32, 18, and 16 NAT genes in Gossypium hirsutum, G. barbadense, G. raimondii and G. arboreum, respectively, which were classified into four groups(groups I–IV) based on the multiple sequence analysis. These GhNAT genes were unevenly distributed on At and Dt sub-genome in G. hirsutum. Most GhNAT members in the same group had similar gene structure characteristics and motif composition. The collinearity analysis revealed segmental duplication as well as tandem duplication contributing to the expansion of the GhNATs. The analysis of cis-acting regulatory elements of GhNATs showed that the function of GhNAT genes in cotton might be related to plant hormone and stress response. Under di erent conditions, the expression levels further suggested the GhNAT family genes were associated with plant response to various abiotic stresses. GhNAT12 was detected in the plasma membrane. And it was validated that the GhNAT12 gene played an important role in regulating cotton resistance to salt and drought stress through the virus-induced gene silencing(VIGS) ***: A comprehensive analysis of NAT gene family was performed in cotton, including phylogenetic analysis, chromosomal location, collinearity analysis, motifs, gene structure and so on. Our results will further broaden the insight into the evolution and potential functions of NAT genes in cotton. Current findings could make significant contribution towards screening more candidate genes related to b

关键词： Gossypium hirsutum NAT gene family VIGS Salt and drought stresses

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Zinc finger transcription factor ZAT family genes confer multi-tolerances in Gossypium hirsutum L.

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Journal of Cotton Research 2021年第3期4卷 268-281页

作者： FAN Yapeng ZHANG Yuexin RUI Cun XU Nan ZHANG Hong WANG Jing MALIK Waqar Afeal HAN Mingge zhao lanjie LU Xuke CHEN Xiugui CHEN Chao YE Wuwei Key Laboratory of Cotton Biology Institute of Cotton Research of Chinese Academy of Agricultural SciencesAnyang 455000HenanChina

ZAT(Zinc Finger of Arabidopsis thaliana)proteins are composed of a plant-specific transcription factor family,which play an important role in plant growth,development,and stress resista *** study the potential function of ZAT family in cotton,the whole genome identification,expression,and structure analysis of ZAT gene family were carried *** this study,our analysis revealed the presenee of 115Z 56,59,and 115 ZAT genes in Gossypium hirsutum,G raimondii,*** and G barbadense,*** to the number of domains and phylogenetic characteristics,we divided ZAT genes of four Gossypium species into 4 different clades,and further divided them into 11 *** results of collinearity an alysis showed that segmental duplicati on was the main method to amplify the cotton ZAT genes *** of c/s-elements of promoters indicated that most GhZAT genes contained c/5-elements related to plant hormones and abiotic *** to heatmap analysis,the expression patterns of GhZAT genes under different stresses indicated that GhZAT genes were significantly involved in the response to cold,heat,salt,and PEG stress,possibly through different *** the highly expressed genes,we cloned a G hirsutum gene *** virus-induced gene silencing(VIGS),we found that its expression level decreased significantly after being *** alkaline treatment,the wilting degree of silenced plants was even greater than the wild type,which proved that GhZAT67 gene was involved in the response to alkaline stress.

关键词： ZAT Phylogenetic analysis Collinearity analysis c/s-element VIGS

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Functional structure analysis and genome‑wide identification of CNX gene family in cotton

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Journal of Cotton Research 2022年第3期5卷 285-301页

作者： XU Nan ZHANG Hong ZHANG Yuexin FAN Yapeng WANG Jing MALIK Waqar Afzal RUI Cun HAN Mingge LU Xuke CHEN Xiugui WANG Junjuan WANG Delong WANG Shuai CHEN Chao GUO Lixue zhao lanjie YE Wuwei Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Zhengzhou Research Base State Key Laboratory of Cotton Biology/School of Agricultural SciencesZhengzhou UniversityAnyang 455000HenanChina

Background:Under abiotic stress conditions,cotton growth is inhibited and yield losses are *** of calnexin family members and function analysis under abiotic stress laid the foundation for the screening of stressrelated candidate ***:A total of 60 CNX family members have been identified in Gossypium hirsutum,***,***,and ***,and they were divided into two categories:CNX and CRT *** the construction of a phylogenetic tree,they were subdivided into three *** analysis of chromosome localization,conserved promoters,gene structure and selection under pressure showed that the family members were highly conserved in the evolution *** of cis-acting elements in the promoter regions showed that CNX family genes contain regulatory elements for growth and development,anaerobic,drought,defense and stress response,and plant *** RNA-seq data to study the expression pattern of GhCNX genes under cold,hot,salt stress and Polyethylene glycol,it was observed that the gene expression levels changed by different degrees under different stress conditions,indicating that GhCNX members were involved in the regulation of multiple biological ***:This study provides an insight into the members of cotton CNX *** results of this study suggested that CNX family members play a role in defense against adversity and provide a foundation for the discovery of stress-related genes.

关键词： Calnexin GhCNX Conserved motifs Selection pressure Collinearity Differential expression

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早熟棉花品种湘棉早3号

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中国棉花 2024年第8期51卷 47-48,51,F0002页

作者：王俊娟王帅彭凡嘉王德龙陆许可阴祖军陈修贵郭丽雪赵兰杰陈超叶武威中国农业科学院棉花研究所/棉花生物育种及产业技术国家工程研究中心/农业农村部棉花遗传改良重点开放实验室河南安阳455000 湖南省棉花科学研究所湖南常德415101

湘棉早3号于2022年4月通过湖南省农作物品种审定委员会审定,2023年5月获得植物新品种权授权。该品种为非转基因早熟常规棉品种,2020年湖南省早熟棉生产试验中平均每666.7 m^(2)皮棉产量为93.3 kg,比对照省工棉2号增产3.9%。概述了湘棉早... 详细信息

湘棉早3号于2022年4月通过湖南省农作物品种审定委员会审定,2023年5月获得植物新品种权授权。该品种为非转基因早熟常规棉品种,2020年湖南省早熟棉生产试验中平均每666.7 m^(2)皮棉产量为93.3 kg,比对照省工棉2号增产3.9%。概述了湘棉早3号的选育经过、特征特性、适宜种植区域,并总结了其关键栽培技术。

关键词：棉花湘棉早3号品种选育早熟适应性

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海岛棉耐盐相关基因GbPLA1-32的克隆及生物信息学分析

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分子植物育种 2024年第5期22卷 1421-1429页

作者：张红张悦新徐楠芮存范亚朋王晶韩明格王琴琴孙亮庆陈修贵陆许可王俊娟王德龙王帅郭丽雪赵兰杰陈超陈全家叶武威新疆农业大学农学院教育部棉花工程研究中心乌鲁木齐830052 中国农业科学院棉花研究所棉花生物学国家重点实验室郑州大学研究基地农业部棉花遗传改良重点开放实验室安阳455000

为了解海岛棉GbPLA1-32基因结构特征及功能,本研究以海岛棉‘海7124’为实验材料,利用前期耐盐转录组测序结果筛选得到差异表达基因并进行克隆。通过生物信息学分析,获得‘海7124’GbPLA1-32基因全长CDS,分析该基因编码蛋白的理化性质... 详细信息

为了解海岛棉GbPLA1-32基因结构特征及功能,本研究以海岛棉‘海7124’为实验材料,利用前期耐盐转录组测序结果筛选得到差异表达基因并进行克隆。通过生物信息学分析,获得‘海7124’GbPLA1-32基因全长CDS,分析该基因编码蛋白的理化性质、鉴定其亲水性与疏水性,对磷酸化和糖基化位点、信号肽和跨膜区以及蛋白质结构进行预测,确定亚细胞定位并构建系统进化树。结果表明,该基因编码区全长1530 bp,编码509个氨基酸,编码蛋白在磷脂酶A1家族,属α/β-水解酶超家族。它属于亲水性蛋白,不存在明显信号肽且不具有跨膜结构,亚细胞定位于叶绿体中。同时,α-螺旋、延伸链、β-转角和无规则卷曲这4个元件构成了Gb PLA1-32蛋白的二级结构。进化树分析表明海岛棉与陆地棉亲缘关系最为接近,根据其编码蛋白将该基因命名为GbPLA1-32。RT-qPCR分析结果表明,GbPLA1-32基因能够对PEG和盐两种胁迫做出响应。本研究结果可为进一步阐明GbPLA1-32在海岛棉中的生物学功能提供参考。

关键词：海岛棉磷脂酶A1 基因克隆表达分析生物信息学分析

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Bioinformatics analysis of genomic structure and intron of GhLEA3 from cotton

Bioinformatics analysis of genomic structure and intron of G...

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中国农学会棉花分会2021年年会

作者： Wang Junjuan Chen Xiugui Wang Shuai Lu Xuke Yin Zujun Wang Delong Guo Lixue zhao lanjie Chen Chao Ye Wuwei Institute of Cotton Research of Chinese Academy of Agricultural Sciences/State Key Laboratory of Cotton Biology

Late embryogenesis abundant proteins(LEAs) are a suite of important family proteins subjected to environmental stresses in *** analyzed the full-length sequence and intron structure of GhLEA3 gene in Gossypium hirsutum to predict its possible function by using bioinformatics *** analysis showed that the full-length coding sequence(CDS) of GhLEA3 gene is 1 218 bp containing an intron of 82 bp in length and two *** A+T bases content of GhLEA3 CDS was 51.69%.The length of the first exon was four times more than that of the second exon,indicating that it may play a key role in gene expression and *** intron of GhLEA3 had higher A+T bases content(74.39%).The exon and intron had GT-AG regular splicing *** intron of GhLEA3 contains a common cis-acting element of promoter and enhancer(CAAT box),TATA box,and cis-acting element in salicylic acid reaction(TCA element).We speculated that the intron of GhLEA3 may participate in the transcription or regulation of the gene and respond to the induction of salicylic acid.

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棉花WOX转录因子家族基因的全基因组鉴定与分析

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华北农学报 2017年第2期32卷 21-31页

作者：吕有军杨卫军赵兰杰刘子洋张永山安阳工学院河南安阳455000 中国农业科学院棉花研究所河南安阳455000 棉花生物学国家重点实验室河南安阳455000 萨斯喀彻温大学

为了挖掘可用于棉花花器官或纤维发育研究的候选基因,基于已发布的陆地棉全基因组数据,利用生物信息学的分析方法鉴定了陆地棉WOX(WUSCHEL-related homeobox,WOX)转录因子基因家族,并从染色体分布、基因及蛋白理化性质、蛋白结构、多重... 详细信息

为了挖掘可用于棉花花器官或纤维发育研究的候选基因,基于已发布的陆地棉全基因组数据,利用生物信息学的分析方法鉴定了陆地棉WOX(WUSCHEL-related homeobox,WOX)转录因子基因家族,并从染色体分布、基因及蛋白理化性质、蛋白结构、多重序列比对、系统进化树和基因表达模式等方面对该基因家族的特征进行了比较分析。结果表明,鉴定到37个陆地棉WOX转录因子家族基因,命名为GhWOX1~GhWOX37。亚基因组定位结果显示,37个陆地棉WOX转录因子家族基因分布在除了A04、A06、A09、D04、D06和D09号亚基因组以外的20个亚基因组,A亚组比D亚组多1个GhWOX转录因子家族基因。多重序列比对分析棉花WOX转录因子家族成员均具有高度保守的同源异型结构域;系统进化树分析发现棉花WOX转录因子家族可以分为3个亚家族(Ⅰ类、Ⅱ类和Ⅲ类),各亚类分别含有23,7,7个GhWOX转录因子家族基因成员。对NCBI中陆地棉的EST数据库比对分析,有11个GhWOX转录因子家族成员没有可匹配的EST序列,其他26个GhWOX转录因子家族成员在棉花的根、茎、叶、花、胚珠、纤维和种子等组织和器官中广泛表达。为深入研究棉花和其他植物中WOX家族的鉴定和功能研究奠定了基础。

关键词：棉花 WOX 花纤维发育

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大比例尺航测成图质量控制探讨

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矿山测量 2017年第3期45卷 84-87页

作者：吴卓蕾赵礼剑曹兰杰国家测绘地理信息局重庆测绘院重庆400015 华北理工大学河北唐山063210

文中根据生产项目实例,对采用航空摄影测量方法生产大比例尺地形图的质量控制进行探讨,并结合个人实践经验,提出几点体会。

关键词：大比例尺地形图航空摄影质量控制

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盐胁迫对拟南芥AtPUB18基因的诱导表达及其启动子分析

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西北植物学报 2014年第1期34卷 54-59页

作者：张新宇赵兰杰李艳军孙杰刘永昌石河子大学农学院/新疆生产建设兵团绿洲生态农业重点实验室新疆石河子832000 石河子大学生命科学学院新疆石河子832000

用300mmol/L NaCl处理拟南芥幼苗,分别于处理后0、1、2、4、8、16、24、48h通过Northern Blot检测其AtPUB18基因的表达量。结果显示:拟南芥AtPUB18基因的表达量受高盐胁迫的诱导而升高,于处理后4h表达量达到最高,处理后16h表达量最低。... 详细信息

用300mmol/L NaCl处理拟南芥幼苗,分别于处理后0、1、2、4、8、16、24、48h通过Northern Blot检测其AtPUB18基因的表达量。结果显示:拟南芥AtPUB18基因的表达量受高盐胁迫的诱导而升高,于处理后4h表达量达到最高,处理后16h表达量最低。采用PCR技术克隆AtPUB18的启动子,序列为1 974bp;序列分析发现启动子内含有大量与非生物胁迫相关的顺式作用元件,如HSE、LTR、MBS及ABRE;将启动子克隆到表达载体pCambia1300-221-GUS中,驱动报告基因GUS表达。组织化学染色结果表明,未经过高盐处理的幼苗中GUS基因表达水平很低;300mmol/L NaCl处理后GUS基因表达量显著升高。研究表明,AtPUB18的表达受高盐胁迫诱导,且AtPUB18基因的启动子是一个盐胁迫诱导型启动子。

关键词：拟南芥盐胁迫 AtPUB18基因启动子

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