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Morphological changes and gibberellin-related gene expression patterns during fruit growth and development of Amomum villosum 认领 引用 被引量：1
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作者 LÜ Bingding ZHANG Yuyi +5 位作者 TANG Liyun HU Jiajia SU Jing XU Jie HE Zhuohang HE Guozhen 《中山大学学报（自然科学版）（中英文）》 CAS CSCD 北大核心 2026年第3期19-32,共14页
The fruit of Amomum villosum is highly valued for its medicinal and edible properties.However,the fruit abscission rate is exceptionally high,resulting in low unit yield.To better understand the fruit growth and devel... The fruit of Amomum villosum is highly valued for its medicinal and edible properties.However,the fruit abscission rate is exceptionally high,resulting in low unit yield.To better understand the fruit growth and development,this study investigated the characteristic changes of fruits and the expression patterns of GA-related genes in both fruits and fruit stalks.Results revealed that it takes approximately 90 days for the ovary of A.villosum to reach maturity.Fruit growth pattern exhibited a slow-fast-slow trend,with the peak of fruit weight accumulation occurring between the 14 and 25 days after artificial pollination(DAP).Before the 27 DAP,significant changes were observed in the ovary,fruit color,pericarp thickness,and fruit thorn length.Additionally,ten candidate GA-related genes,including 1 GA13ox,1 GA20ox,1 GA3ox,2 GA2oxs,4 GID1cs,and 1 DELLA,were analyzed using bioinformatics tools.The GA-related genes in fruit and fruit stalk exhibited significant correlations with fruit growth/development and fruit dropping.Overall,the fruit growth and development law,and the expression patterns of GA-related genes provided a theoretical foundation for further functional study and the screening of candidate genes for potential applications in A.villosum. 展开更多
关键词 Amomum villosum gibberellin fruit development gene expression pattern bioinformatic
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Molecular evolutionary analysis and expression patterns of nitrogen assimilation-related gene families in Lycium ruthenicum under salt stress 认领 引用
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作者 Jianwei Qi Jun Zhao +6 位作者 Songsong Lu Qianwen Song Luna Xing Weibo Du Xiaowei Zhang Xiaolei Zhou Yanjun Ma 《Fruit Research》 2025年第1期162-177,共16页
Nitrogen assimilation plays a critical role in the response of plants to salt stress.In this study,bioinformatics and computational biology methods were employed to identify members of the Lycium GS,GOGAT,and GDH gene... Nitrogen assimilation plays a critical role in the response of plants to salt stress.In this study,bioinformatics and computational biology methods were employed to identify members of the Lycium GS,GOGAT,and GDH gene families,and analyzed their expression patterns and transcriptional regulatory networks under salt stress in black wolfberry(Lycium ruthenicum).In addition,the adaptive evolutionary mechanisms of the black wolfberry Fd-GOGAT gene were explored.The results showed that the genomes or transcriptomes of Lycium species contain two to four GS genes,two GOGAT genes,and three to four GDH genes.Following NaCl stress,the expression of Fd-GOGAT and NADH-GOGAT in the leaves of black wolfberry was downregulated with increasing time and NaCl concentration;in the roots,Fd-GOGAT and NADH-GOGAT were upregulated by 1.79-fold and 1.40-fold,respectively,12 h after severe NaCl stress.GS2 and GS1.1 are highly expressed in leaves and roots,respectively,and their expression is significantly upregulated under NaCl stress.The expression of GDH in leaves is downregulated under salt stress,whereas in roots,the expression of NADP-GDH and GDH2 is upregulated under NaCl stress.C2H2-63,a key transcription factor regulating nitrogen assimilation in black wolfberry under salt stress,is likely to promote nitrogen assimilation through its upregulated expression.Additionally,seven positively selected sites(p.Glu220,p.Ala388,p.Ala880,p.Ser921,p.Leu1319,p.Ser1350,and p.Ser1570)were found in the Fd-GOGAT protein of black wolfberry.Compared to Ningxia wolfberry(L.barbarum),these mutation sites enhance the affinity of Fd-GOGAT for its substrate Glu,which helps to increase the catalytic efficiency of Fd-GOGAT in black wolfberry under salt stress.In conclusion,the adaptation of salt stress-related nitrogen assimilation genes in black wolfberry involves both gene expression regulation and adaptive evolution.Enhancing the GS/GOGAT pathway under salt stress is a primary strategic choice for nitrogen assimilation in black wolfberry. 展开更多
关键词 transcriptional regulatory networks computational biology methods salt stress genomes transcriptome molecular evolutionary analysis expression patterns nitrogen assimilation adaptive evolutionary mechanisms
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The age-related expression patterns of Larix kaempferi AP2 subfamily genes and functional dissection of LkTOE1-2 in seed formation and germination 认领 引用
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作者 Zha-Long Ye Xiang-Yi Li +2 位作者 Man-Li Nong Xiao-Mei Sun Wanfeng Li 《Forestry Research》 2025年第1期50-58,共9页
Conifers pose challenges for breeding programs due to their extended vegetative phases.Despite the critical role of APETALA2(AP2)in regulating phase transitions,the AP2/ERF superfamily remains largely unexplored in gy... Conifers pose challenges for breeding programs due to their extended vegetative phases.Despite the critical role of APETALA2(AP2)in regulating phase transitions,the AP2/ERF superfamily remains largely unexplored in gymnosperms.Here,the first genome-wide analysis of the AP2/ERF superfamily in a conifer,Larix kaempferi(Japanese larch)is presented,and 374 members were identified.Among all eight paralogs,four euAP2 lineage genes,TARGET OF EATs(TOEs),exhibit age-decreased expression patterns.Functional characterization of LkTOE1-2 demonstrates its involvement in somatic embryogenesis and seed germination.Importantly,the RUBY reporter system confirmed an enhanced promoter activity in somatic embryo maturation.Over-expression of LkTOE1-2 in Arabidopsis accelerates seed germination by 23.77%,bolting by 6.93%,and flowering by 5.92%.This study provides not only an expanded genomic resource for gymnosperms but also a candidate gene(LkTOE1-2)to shorten the juvenile phase of larch via molecular breeding. 展开更多
关键词 molecular breeding coniferlarix kaempferi japanese euap lineage genestarget age related expression patterns ap erf superfamily somatic embryogenesis juvenile phase seed germination
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The lawc gene emerged de novo from conserved genomic elements and acquired a broad expression pattern in Drosophila 认领 引用
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作者 Roman O.Cherezov Julia E.Vorontsova +3 位作者 Elena E.Kuvaeva Angelina A.Akishina Ekaterina L.Zavoloka Olga B.Simonova 《Journal of Genetics and Genomics》 SCIE CAS CSCD 2025年第7期901-914,共14页
It has recently become evident that the de novo emergence of genes is widespread and documented for a variety of organisms.De novo genes frequently emerge in proximity to existing genes,forming gene overlaps.Here,we p... It has recently become evident that the de novo emergence of genes is widespread and documented for a variety of organisms.De novo genes frequently emerge in proximity to existing genes,forming gene overlaps.Here,we present an analysis of the evolutionary history of a putative de novo gene,lawc,which overlaps with the conserved Trf2 gene,which encodes a general transcription factor in Drosophila melanogaster.We demonstrate that lawc emerged approximately 68 million years ago in the 5'-untranslated region(UTR)of Trf2 and displays an extensive spatiotemporal expression pattern.One of the most remarkable features of the lawc evolutionary history is that its emergence was facilitated by the engagement of Drosophilidae-specific short,highly conserved regions located in Trf2 introns.This represents a unique example of putative de novo gene birth involving conserved DNA regions localized in introns of conserved genes.The observed lawc expression pattern may be due to the overlap of lawc with the 5'-UTR of Trf2.This study not only enriches our understanding of gene evolution but also highlights the complex interplay between genetic conservation and innovation. 展开更多
关键词 De novo gene Overlapping genes Conserved regulatory element Expression pattern Drosophila
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Tissue Expression Pattern and Bioinformatics Analysis of OsKMP2 Gene in Rice 认领 引用
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作者 Jiaqi DING Ziang YI +2 位作者 Qi QIU Chenzhong JIN Taoli LIU 《Agricultural Biotechnology》 2025年第3期1-5,共5页
Kinesins are a superfamily of proteins widely present in eukaryotes,playing crucial roles in plant cell wall assembly,cell elongation regulation,gravity sensing,and fertility control.In this study,bioinformatics analy... Kinesins are a superfamily of proteins widely present in eukaryotes,playing crucial roles in plant cell wall assembly,cell elongation regulation,gravity sensing,and fertility control.In this study,bioinformatics analysis of the OsKMP2 gene(LOC_Os02g28850)was performed using online tools such as ExPASy-ProtParam,ProtScale,CD-search,and DNAMAN software.Additionally,qRT-PCR was employed to analyze the tissue expression pattern of OsKMP2.The results showed that the molecular weight of the OsKMP2 is 118.39728 kDa,and it is a hydrophilic and unstable acidic protein.Secondary structure prediction revealed that it primarily consists ofα-helices(69.45%),random coils(25.19%),and extended strands(5.36%).The gene was expressed in various rice tissues,with the highest expression level observed in leaves.These results indicate that the OsKMP2 gene exhibits high evolutionary conservation and functional diversity in rice. 展开更多
关键词 Rice OsKMP Tissue expression pattern Bioinformatics analysis
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Genome-wide identification and expression pattern analysis of the ACS gene family during fruit development in peach 认领 引用
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作者 Xiaofei Wang Kang Dong +6 位作者 Jun Cheng Bin Tan Xianbo Zheng Xia Ye Wei Wang Langlang Zhang Jiancan Feng 《Fruit Research》 2024年第1期355-363,共9页
Ethylene plays an important role in regulating the development and ripening of fruits,and 1-aminocyclopropane carboxylic acid synthase is the key rate-limiting enzyme in ethylene synthesis pathway.In this study,eight ... Ethylene plays an important role in regulating the development and ripening of fruits,and 1-aminocyclopropane carboxylic acid synthase is the key rate-limiting enzyme in ethylene synthesis pathway.In this study,eight PpACS genes were identified from the peach genome[Prunus persica(L.)Batsch],and their phylogeny,gene structures,promoter motifs and expression patterns were analyzed.The PpACS genes could be divided into four types,and the genes with similar structures and motif distribution clustered together.Identification of the cis-elements in the promoters revealed that the PpACS genes may respond to various hormones.Furthermore,expression analysis showed that five(PpACS1,PpACS5,PpACS6,PpACS7 and PpACS8)of the eight PpACS genes were expressed at different stages during peach fruit development.Among them,PpACS1 was highly expressed at the ripening stage and induced by ethylene.The expression peaks of PpACS5,PpACS6,PpACS7 and PpACS8 during the transition from first exponential growth to pit hardening(S1 to S2)indicated a potential function of ethylene during this important transition.Taken together,these results provide valuable information for future investigation into the functions of the PpACS genes during peach fruit development and ripening. 展开更多
关键词 fruit development acs gene family expression pattern analysis genome wide identification peach ppacs genes expression patterns ethylene
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Expression Patterns of Inducible Cre Recombinase Driven by Differential Astrocyte-Specific Promoters in Transgenic Mouse Lines 认领 引用 被引量：8
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作者 Neng-Yuan Hu Ya-Ting Chen +9 位作者 Qian Wang Wei Jie Yi-Si Liu Qiang-Long You Ze-Lin Li Xiao-Wen Li Sophie Reibel Frank W.Pfrieger Jian-Ming Yang Tian-Ming Gao 《Neuroscience Bulletin》 SCIE CAS CSCD 2020年第5期530-544,共15页
Astrocytes are the most abundant cell type in the central nervous system(CNS).They provide trophic support for neurons,modulate synaptic transmission and plasticity,and contribute to neuronal dysfunction.Many transgen... Astrocytes are the most abundant cell type in the central nervous system(CNS).They provide trophic support for neurons,modulate synaptic transmission and plasticity,and contribute to neuronal dysfunction.Many transgenic mouse lines have been generated to obtain astrocyte-specific expression of inducible Cre recombinase for functional studies;however,the expression patterns of inducible Cre recombinase in these lines have not been systematically characterized.We generated a new astrocyte-specific Aldh1 l1-CreERT2knock-in mouse line and compared the expression pattern of Cre recombinase between this and five widely-used transgenic lines(hGfap-CreERT2from The Jackson Laboratory and The Mutant Mouse Resource and Research Center,Glast-CreERT2,Cx30-CreERT2,and Fgfr3-iCreERT2)by crossing with Ai14 mice,which express tdTomato fluorescence following Cre-mediated recombination.In adult Aldh1 l1-CreERT2:Ai 14 transgenic mice,tdTomato was detected throughout the CNS,and five novel morphologicallydefined types of astrocyte were described.Among the six evaluated lines,the specificity of Cre-mediated recombination was highest when driven by Aldh1 l1 and lowest when driven by hGfap;in the latter mice,co-staining between tdTomato and NeuN was observed in the hippocampus and cortex.Notably,evident leakage was noted in Fgfr3-iCreERT2mice,and the expression level of tdTomato was low in the thalamus when Cre recombinase expression was driven by Glast and in the capsular part of the central amygdaloid nucleus when driven by Cx30.Furthermore,tdTomato was clearly expressed in peripheral organs in four of the lines.Our results emphasize that the astrocyte-specific CreERT2transgenic lines used in functional studies should be carefully selected. 展开更多
关键词 Astrocytes Cre recombinase Expression pattern Aldh111 Morphology
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Assignment and expression patterns of porcine muscle-specific isoform of phosphoglycerate mutase gene 认领 引用 被引量：6
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作者 Haifang Qiu Shuhong Zhao +2 位作者 Xuewen Xu Martine Yerle Bang Liu 《Journal of Genetics and Genomics》 SCIE CAS 北大核心 2008年第5期257-260,共4页
It has been reported that the muscle-specific isoform （type M, PGAM2） of phosphoglycerate mutase （PGAM） is a housekeeping enzyme; it catalyzes the conversion of 3-phosphoglycerate into 2-phosphoglycerate in the gl... It has been reported that the muscle-specific isoform （type M, PGAM2） of phosphoglycerate mutase （PGAM） is a housekeeping enzyme; it catalyzes the conversion of 3-phosphoglycerate into 2-phosphoglycerate in the glycolysis process to release energy. It is encoded by the Pgam2 gene. In this study, the cDNA of the porcine Pgam2 was cloned. This gene contains an open reading frame of 765 bp encoding a protein of 253 residues, and the predicted protein sequences share high similarity with other mammalians, 96% identity with humans, and 94% identity with mouse and rats. Pgam2 was mapped to SSC18q13-q21 by the RH panel. In this region, there are several QTLs, such as fat ratio, lean percentage, and diameter of muslce fiber, which affect meat production and quality. The reverse transcriptase-polymerase chain reaction revealed that the porcine Pgam2 gene was mainly expressed in the muscle tissue （skeletal muscle and cardiac muscle）, and was expressed highly at skeletal muscle development stages （embryonic periods： 33, 65, and 90 days post-conception （dpo）; postnatal pigs： 4 days and adult）. This indicates that the Pgam2 gene plays an important role in muscle growth and development. In addition, it was demonstrated that PGAM2 locates both in cytoplasm and nuclei, and takes part in the glycometabolism process of cytoplasm and nuclei. 展开更多
关键词 assignment expression patterns subcellular localization porcine pgma2
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Genetic basis of negative heterosis for growth traits in chickens revealed by genome-wide gene expression pattern analysis 认领 引用 被引量：6
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作者 Chunning Mai Chaoliang Wen +5 位作者 Zhiyuan Xu Guiyun Xu Sirui Chen Jiangxia Zheng Congjiao Sun Ning Yang 《Journal of Animal Science and Biotechnology》 SCIE CAS CSCD 2021年第4期1267-1280,共14页
Background:Heterosis is an important biological phenomenon that has been extensively utilized in agricultural breeding.However,negative heterosis is also pervasively observed in nature,which can cause unfavorable impa... Background:Heterosis is an important biological phenomenon that has been extensively utilized in agricultural breeding.However,negative heterosis is also pervasively observed in nature,which can cause unfavorable impacts on production performance.Compared with systematic studies of positive heterosis,the phenomenon of negative heterosis has been largely ignored in genetic studies and breeding programs,and the genetic mechanism of this phenomenon has not been thoroughly elucidated to date.Here,we used chickens,the most common agricultural animals worldwide,to determine the genetic and molecular mechanisms of negative heterosis.Results:We performed reciprocal crossing experiments with two distinct chicken lines and found that the body weight presented widely negative heterosis in the early growth of chickens.Negative heterosis of carcass traits was more common than positive heterosis,especially breast muscle mass,which was over−40%in reciprocal progenies.Genome-wide gene expression pattern analyses of breast muscle tissues revealed that nonadditivity,including dominance and overdominace,was the major gene inheritance pattern.Nonadditive genes,including a substantial number of genes encoding ATPase and NADH dehydrogenase,accounted for more than 68%of differentially expressed genes in reciprocal crosses(4257 of 5587 and 3617 of 5243,respectively).Moreover,nonadditive genes were significantly associated with the biological process of oxidative phosphorylation,which is the major metabolic pathway for energy release and animal growth and development.The detection of ATP content and ATPase activity for purebred and crossbred progenies further confirmed that chickens with lower muscle yield had lower ATP concentrations but higher hydrolysis activity,which supported the important role of oxidative phosphorylation in negative heterosis for growth traits in chickens.Conclusions:These findings revealed that nonadditive genes and their related oxidative phosphorylation were the major genetic and molecular factors in the negative heterosis of growth in chickens,which would be beneficial to future breeding strategies. 展开更多
关键词 Chicken Growth Gene expression patterns Heterosis Oxidative phosphorylation
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Genome-Wide Analysis and Expression Patterns of the YUCCA Genes in Maize 认领 引用 被引量：11
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作者 Wenlan Li Xiangyu Zhao Xiansheng Zhang 《Journal of Genetics and Genomics》 SCIE CAS CSCD 2015年第12期707-710,共4页
Auxin plays important roles in various aspects of plant growth and development （Zhao, 2010）. In Arabidopsis, a number of YUCCA （YUC） genes, which are involved in auxin biosyn- thesis, have been identified （Zhao e... Auxin plays important roles in various aspects of plant growth and development （Zhao, 2010）. In Arabidopsis, a number of YUCCA （YUC） genes, which are involved in auxin biosyn- thesis, have been identified （Zhao et al., 2001; Woodward et al., 2005; Cheng et al., 2006, 2007; Kim et al., 2007; Chen et al., 2014）. YUC genes encode flavin monooxygenases （FMOs） that convert indole-3-pyruvate （IPA） to indole-3-acetic acid （IAA） （Zhao, 2012）. The Arabidopsis YUC family is comprised of 11 members （Zhao et al., 2001; 展开更多
关键词 Genome-Wide Analysis and Expression Patterns of the YUCCA Genes in Maize SPI
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Transcriptomic analyses to summarize gene expression patterns that occur during leaf initiation of Chinese cabbage 认领 引用 被引量：1
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作者 XiaoXue Sun Zihan Liu +4 位作者 Rui Liu Johan Bucher Jianjun Zhao Richard G.F.Visser Guusje Bonnema 《Horticulture Research》 SCIE CSCD 2024年第4期251-260,共10页
In Chinese cabbage,rosette leaves expose their adaxial side to the light converting light energy into chemical energy,acting as a source for the growth of the leafy head.In the leafy head,the outer heading leaves expo... In Chinese cabbage,rosette leaves expose their adaxial side to the light converting light energy into chemical energy,acting as a source for the growth of the leafy head.In the leafy head,the outer heading leaves expose their abaxial side to the light while the inner leaves are shielded from the light and have become a sink organ of the growing Chinese cabbage plant.Interestingly,variation in several ad/abaxial polarity genes is associated with the typical leafy head morphotype.The initiation of leaf primordia and the establishment of leaf ad/abaxial polarity are essential steps in the initiation of marginal meristem activity leading to leaf formation.Understanding the molecular genetic mechanisms of leaf primordia formation,polar differentiation,and leaf expansion is thus relevant to understand leafy head formation.As Brassica’s are mesa-hexaploids,many genes have multiple paralogues,complicating analysis of the genetic regulation of leaf development.In this study,we used laser dissection of Chinese cabbage leaf primordia and the shoot apical meristem(SAM)to compare gene expression profiles between both adaxial and abaxial sides and the SAM aiming to capture transcriptome changes underlying leaf primordia development.We highlight genes with roles in hormone pathways and transcription factors.We also assessed gene expression gradients along expanded leaf blades from the same plants to analyze regulatory links between SAM,leaf primordia and the expanding rosette leaf.The catalogue of differentially expressed genes provides insights in gene expression patterns involved in leaf development and form a starting point to unravel leafy head formation. 展开更多
关键词 leaf primordi leafy headthe leafy head leafy headin transcriptomic analyses Chinese cabbage gene expression patterns sink organ
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Molecular characterization and developmental expression patterns of thyroid hormone receptors(TRs) and their responsiveness to TR agonist and antagonist in Rana nigromaculata 认领 引用 被引量：4
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作者 Qinqin Lou Yinfeng Zhang +4 位作者 Dongkai Ren Haiming Xu Yaxian Zhao Zhanfen Qin Wuji Wei 《Journal of Environmental Sciences》 SCIE EI CAS CSCD 2014年第10期2084-2094,共11页
Considering some advantages of Rana nigromaculata as an experimental species, we propose that this species, like Xenopus laevis, could be used to assay thyroid hormone（TH） signaling disrupting actions. To validate t... Considering some advantages of Rana nigromaculata as an experimental species, we propose that this species, like Xenopus laevis, could be used to assay thyroid hormone（TH） signaling disrupting actions. To validate the utilizability of R. nigromaculata, we investigated the responsiveness of R. nigromaculata to a TH receptor（TR） agonist（T3） and antagonist（amiodarone） by analyzing expression, based on characterizing TR cDNA and developmental expression patterns. With high levels of identity with the corresponding genes in X. laevis, both TRα and TRβ in R. nigromaculata exhibited roughly similar developmental expression patterns to those of X. laevis, in spite of some species-specific differences. Both TRα and TRβ expression had greater changes in the liver and intestine than in the tail and brain during metamorphosis. T3 exposure for 2 days induced more dramatic increases of TRβ expression in stage 27 than in stage34 tadpoles but not in stage 42 tadpoles, showing that the responsiveness of R. nigromaculata to TH decreased with development and disappeared at the onset of metamorphic climax.Corresponding to greater changes of TRβ expression in the liver and intestine than in the tail and brain during metamorphosis, the liver and intestine had higher responsiveness to exogenous T3 than the tail and brain. Amiodarone inhibited T3-induced TRβ expression. Our results show that R. nigromaculata can be used as a model species for assaying TH signaling disrupting actions by analyzing TRβ expression, and intestine tissues at stage 27 are ideal test materials due to high responsiveness and easy accessibility. 展开更多
关键词 Rana nigromaculata Thyroid hormone receptor Thyroid hormone signaling Developmental expression pattern Responsiveness
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Detection of Cytokine Expression Patterns in the Peripheral Blood of Patients with Acute Leukemia by Antibody Microarray Analysis 认领 引用 被引量：1
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作者 李青 李梅 +4 位作者 吴耀辉 朱晓健 曾辰 邹萍 陈智超 《Journal of Huazhong University of Science and Technology(Medical Sciences)》 2014年第2期176-180,共5页
The cytokines of acute leukemia （AL） patients have certain expression patterns, forming a complex network involved in diagnosis, progression, and prognosis. We collected the serum of different AL patients before and... The cytokines of acute leukemia （AL） patients have certain expression patterns, forming a complex network involved in diagnosis, progression, and prognosis. We collected the serum of different AL patients before and after complete remission （CR） for detection of cytokines by using an antibody chip. The expression patterns of cytokines were determined by using bioinformatics computational analysis. The results showed that there were significant differences in the cytokine expression patterns between AL patients and normal controls, as well as between acute myeloid leukemia （AML） and acute lymphoblastic leukemia （ALL）. In confirmatory test, ELISA revealed the expression of uPAR in AL. Moreover, the bioinformatic analysis showed that the differentially expressed cytokines among the AL groups were involved in different biological behaviors and were closely related with the development of the disease. It was concluded that the cytokine expression pattern of AL patients is significantly different from that of healthy volunteers. Also, differences of cytokine expression patterns exist between AML and ALL, and between before and after CR in the same subtype of AL, which holds important clinical significance for revealing disease progression. 展开更多
关键词 cytokine microarray acute leukemia expression patterns bioinformatics
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Cloning and Expression Pattern Analysis of Nitrogen- Starvation-induced Genes in Rice 认领 引用 被引量：8
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作者 陈青爽 易可可 +4 位作者 黄帼 王小兵 刘非燕 吴运荣 吴平 《Acta Botanica Sinica》 2003年第8期974-980,共7页
To understand the regulation system of nitrogen X-starvation in higher plants, a cDNA library from N-starved rice (Oryza sativa L.) seedlings was constructed using rapid subtraction hybridization (RaSH) procedure. Thr... To understand the regulation system of nitrogen X-starvation in higher plants, a cDNA library from N-starved rice (Oryza sativa L.) seedlings was constructed using rapid subtraction hybridization (RaSH) procedure. Through reverse Northern analysis and Northern blotting, 18 unique known genes and two unique unknown genes were identified, which were up-regulated by N-starvation in rice. The known genes are involved in several metabolisms including carbon metabolism, secondary metabolite synthesis, ubiquitylation and protein degradation, phytohormone metabolism, signal transduction, growth regulator and transcription factors. Different induced expression patterns based on spatial and temporal express ions were found for these genes. The results indicate the cross-talks between N-starvation response and various metabolisms in plants. 展开更多
关键词 Oryza sativa RaSH expression pattern nitrogen-starvation
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Genome-wide identification and characterization of the Lateral Organ Boundaries Domain(LBD)gene family in nine Rosaceae species and expression pattern in Prunus mume 认领 引用 被引量：1
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作者 Weichao Liu Xiaoyu Guo +5 位作者 Tangchun Zheng Xue Li Sagheer Ahmad Jia Wang Qixiang Zhang Tangren Cheng 《Ornamental Plant Research》 2024年第1期271-284,共14页
Transcription factors(TFs)encoded by the lateral organ boundaries domain(LBD)gene family are known to control many plant-specific developmental processes.However,the comparative analysis of the LBD gene family in Rosa... Transcription factors(TFs)encoded by the lateral organ boundaries domain(LBD)gene family are known to control many plant-specific developmental processes.However,the comparative analysis of the LBD gene family in Rosaceae species and its expression pattern in mei remains unclear.Here,we identified a total of 406 LBDs in nine Rosaceae species,including 39 in black raspberry(Rubus occidentalis),34 in strawberry(Fragaria vesca),39 in Chinese rose(Rosa chinensis),42 in peach(Prunus persica),41 in apricot(Prunus armeniaca),41 in mei(Prunus mume var.tortuosa),60 in pear(Pyrus communis),41 in hawthorn(Crataegus pinnatifida)and 69 in apple(Malus domestica),respectively.The LBDs of nine Rosaceae species were classified into seven major subclasses.The chromosome localization,collinearity analysis,and gene duplication relationship revealed that segment duplication was the main driving force for the amplification of LBDs in the Rosoideae and Amygdaloideae.Ka/Ks analysis suggested most of the LBD gene pairs might be under purification selection.GO and cis-acting elements analysis showed that LBDs may play important roles in many biological processes and could respond to hormones and stresses.RNA-seq data showed that PmLBD17/19/41 genes contained both low-temperature and MeJA response elements and played a significant variation across different geographic locations and periods.PmLBD30,the ortholog of EgLBD29,exhibited an up-regulation followed by a decrease,which is hypothesized to possibly play a role in the formation of a weeping trait in mei.Our studies offer important data about the development of the LBD family in Rosaceae and the subsequent validation of LBDs'functional genes in P.mume. 展开更多
关键词 lateral organ boundaries domain gene family expression pattern developmental processes lateral organ boundaries domain lbd gene transcription factors genome wide identification Prunus mume characterization
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Molecular Cloning, Expression Pattern, and 3D Structural Prediction of the Cold Inducible RNA- Binding Protein(CIRP) in Japanese Flounder(Paralichthys olivaceus) 认领 引用
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作者 YANG Xiao GAO Jinning +8 位作者 MA Liman LI Zan WANG Wenji WANG Zhongkai YU Haiyang QI Jie WANG Xubo WANG Zhigang ZHANG Quanqi 《Journal of Ocean University of China》 SCIE CAS 2015年第1期161-170,共10页
Cold-inducible RNA-binding protein(CIRP) is a kind of RNA binding proteins that plays important roles in many physiological processes. The CIRP has been widely studied in mammals and amphibians since it was first clon... Cold-inducible RNA-binding protein(CIRP) is a kind of RNA binding proteins that plays important roles in many physiological processes. The CIRP has been widely studied in mammals and amphibians since it was first cloned from mammals. On the contrary, there are little reports in teleosts. In this study, the Po CIRP gene of the Japanese flounder was cloned and sequenced. The genomic sequence consists of seven exons and six introns. The putative Po CIRP protein of flounder was 198 amino acid residues long containing the RNA recognition motif(RRM). Phylogenetic analysis showed that the flounder Po CIRP is highly conserved with other teleost CIRPs. The 5' flanking sequence was cloned by genome walking and many transcription factor binding sites were identified. There is a Cp Gs region located in promoter and exon I region and the methylation state is low. Quantitative real-time PCR analysis uncovered that Po CIRP gene was widely expressed in adult tissues with the highest expression level in the ovary. The m RNA of the Po CIRP was maternally deposited and the expression level of the gene was regulated up during the gastrula and neurula stages. In order to gain the information how the protein interacts with m RNA, we performed the modeling of the 3D structure of the flounder Po CIRP. The results showed a cleft existing the surface of the molecular. Taken together, the results indicate that the CIRP is a multifunctional molecular in teleosts and the findings about the structure provide valuable information for understanding the basis of this protein's function. 展开更多
关键词 cold-inducible RNA-binding protein CIRP Paralichthys olivaceus expression pattern 3D modeling CpGs
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Molecular Characterization and Expression Pattern of Rheb Gene in Inner Mongolia Cashmere Goat(Capra hircus) 认领 引用
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作者 ZHENG Xu YANG Jiao-fu +9 位作者 WANG Xiao-jing LIANG Yan WU Man-lin SHI Jie-jun ZHANG Tao QIN Yin LI Shu-yu HAO Xi-yan WANG Zhi-gang LIU Dong-jun 《Agricultural Sciences in China》 CSCD 2011年第9期1452-1458,共7页
As one member of the Ras super family,Rheb is an upstream regulator of mTOR signaling pathway,which regulates the process of cell-growth,proliferation and differentiation.In order to study the relationship between Rhe... As one member of the Ras super family,Rheb is an upstream regulator of mTOR signaling pathway,which regulates the process of cell-growth,proliferation and differentiation.In order to study the relationship between Rheb and mTOR in Inner Mongolian Cashmere goat(Capra hircus)cells,Ras homolog enriched in brain(Rheb)gene eDNA was amplified by RT-PCR.It is 555 bp in length and includes the complete ORF encoding 184 amino acids(GenBank accession no.HM569224).The full eDNA nucleotide sequence has a 99%identity with that of sheep,98%with cattle and 93%with human while their amino acids sequence shares identity with 98,97 and 97%of them,correspondingly.The bioinformatics analysis showed that Rheb has a Ras family domain,two casein kinase II phosphorylation sites,two ATP/GTP-binding sites motifA(P-loop),a prenyl group binding site(CAAX box).Tissue-specific expression analysis performed by semi-quantitative RT-PCR.The Rheb gene was expressed in all the tested tissues and the highest level ofmRNA accumulation was detected in brain,suggesting that Rheb played an important role in goat cells. 展开更多
关键词 Inner Mongolia Cashmere goat Rheb gene expression pattern
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Expression Pattern, Interaction Network, and Functional Analysis of the Arabidopsis Botrytis Susceptible1 Interactor 认领 引用
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作者 Jianzhong Huang Hongbin Zhang +4 位作者 Zhuojun Li Xiuying Guan Xiaoju Zhong Peng Jia Kai Chen 《Journal of Biomedical Science and Engineering》 2024年第10期171-178,共8页
E3 ubiquitin ligases are participated in numerous processes, regulating the response to biotic and abiotic stresses. Botrytis susceptible1 interactor (BOI) is a RING (Really Interesting New Gene)-type E3 ligase that m... E3 ubiquitin ligases are participated in numerous processes, regulating the response to biotic and abiotic stresses. Botrytis susceptible1 interactor (BOI) is a RING (Really Interesting New Gene)-type E3 ligase that mediates the ubiquitination of BOS1 (Botrytis susceptible1), a transcription factor involved in stress and pathogen responses. Although BOI is an E3 ligase, there are reports to show that BOI interacts with target proteins such as DELLAs or CONSTANS to repress gibberellin responses and flowering without the degradation of the target proteins. In this article, we utilize diversified methods to comprehensively analyze the expression pattern, interaction network and function of BOI gene. Firstly, 1800 bp upstream region of BOI gene from Arabidopsis thaliana (Arabidopsis) genome was isolated, and fused GUS reporter gene. The resulting expression cassette was introduced into wild-type Arabidopsis through Agrobacterium-mediated transformation. The result demonstrated that BOI gene was expressed predominantly in leaves, siliques, young roots, and flowering tissues, indicating that BOI gene may be involved in multiple processes in plant growth and development in Arabidopsis. Besides, eight candidate interacting proteins were obtained from the Arabidopsis cDNA library via yeast two-hybrid technology, including EXO70E2 (AT5G61010), WRKY7 (AT4G24240), WRKY11 (AT4G31550), WRKY17 (AT2G24570), UBP20 (AT4G17895), L5 (AT1G12290), SAUR9 (AT4G36110) and TCP21 (AT5G08330). Functional analysis of these candidate interacting proteins manifested that they related to multiple pathways, including biological and abiotic stress, programmed cell death, protein degradation, material metabolism and transcriptional regulation. In addition, the results of the transient assay proclaimed that BOI protein affects the protein stability of EXO70E2 and L5 through its E3 ubiquitin ligase activity. Our results provide novel clues for a better understanding of molecular mechanisms underlying BOI-mediated regulations. 展开更多
关键词 E3 Ubiquitin Ligases Expression Pattern Interaction Network Arabidopsis
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Genome-wide identification and characterization of the JAZ gene family and its expression patterns under various abiotic stresses in Sorghum bicolor 认领 引用 被引量：5
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作者 DU Qiao-li FANG Yuan-peng +3 位作者 JIANG Jun-mei CHEN Mei-qing LI Xiang-yang XIE Xin 《Journal of Integrative Agriculture》 SCIE CAS CSCD 2022年第12期3540-3555,共16页
The jasmonate ZIM domain(JAZ)protein belongs to the TIFY((TIF[F/Y]XG)domain protein)family,which is composed of several plant-specific proteins that play important roles in plant growth,development,and defense respons... The jasmonate ZIM domain(JAZ)protein belongs to the TIFY((TIF[F/Y]XG)domain protein)family,which is composed of several plant-specific proteins that play important roles in plant growth,development,and defense responses.However,the mechanism of the sorghum JAZ family in response to abiotic stress remains unclear.In the present study,a total of 17 JAZ genes were identified in sorghum using a Hidden Markov Model search.In addition,real-time quantification polymerase chain reaction(RT-qPCR)was used to analyze the gene expression patterns under abiotic stress.Based on phylogenetic tree analysis,the sorghum JAZ proteins were mainly divided into nine subfamilies.A promoter analysis revealed that the SbJAZ family contains diverse types of promoter cis-acting elements,indicating that JAZ proteins function in multiple pathways upon stress stimulation in plants.According to RT-qPCR,SbJAZ gene expression is tissuespecific.Additionally,under cold,hot,polyethylene glycol,jasmonic acid,abscisic acid,and gibberellin treatments,the expression patterns of SbJAZ genes were distinctly different,indicating that the expression of SbJAZ genes may be coordinated with different stresses.Furthermore,the overexpression of SbJAZ1 in Escherichia coli was found to promote the growth of recombinant cells under abiotic stresses,such as PEG 6000,NaCl,and 40℃ treatments.Altogether,our findings help us to better understand the potential molecular mechanisms of the SbJAZ family in sorghum in response to abiotic stresses. 展开更多
关键词 Sorghum bicolor gene family identification JAZ family abiotic stress expression pattern
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Expression Pattern of Peptide and Amino Acid Genes in Digestive Tract of Transporter Juvenile Turbot(Scophthalmus maximus L.) 认领 引用 被引量：4
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作者 XU Dandan HE Gen +3 位作者 MAI Kangsen ZHOU Huihui XU Wei SONG Fei 《Journal of Ocean University of China》 SCIE CAS 2016年第2期334-340,共7页
Turbot(Scophthalmus maximus L.),a carnivorous fish species with high dietary protein requirement,was chosen to examine the expression pattern of peptide and amino acid transporter genes along its digestive tract which... Turbot(Scophthalmus maximus L.),a carnivorous fish species with high dietary protein requirement,was chosen to examine the expression pattern of peptide and amino acid transporter genes along its digestive tract which was divided into six segments including stomach,pyloric caeca,rectum,and three equal parts of the remainder of the intestine.The results showed that the expression of two peptide and eleven amino acid transporters genes exhibited distinct patterns.Peptide transporter 1(Pep T1) was rich in proximal intestine while peptide transporter 2(PepT2) was abundant in distal intestine.A number of neutral and cationic amino acid transporters expressed richly in whole intestine including B^0-type amino acid transporter 1(B^0AT1),L-type amino acid transporter 2(LAT2),T-type amino acid transporter 1(TAT1),proton-coupled amino acid transporter 1(PAT1),y^+L-type amino acid transporter 1(y^+LAT1),and cationic amino acid transporter 2(CAT2) while ASC amino acid transporter 2(ASCT2),sodium-coupled neutral amino acid transporter 2(SNAT2),and y^+L-type amino acid transporter 2(y^+LAT2) abundantly expressed in stomach.In addition,system b0,+ transporters(rBAT and b0,+AT) existed richly in distal intestine.These findings comprehensively characterized the distribution of solute carrier family proteins,which revealed the relative importance of peptide and amino acid absorption through luminal membrane.Our findings are helpful to understand the mechanism of the utilization of dietary protein in fish with a short digestive tract. 展开更多
关键词 turbot digestive tract amino acid peptide transporter expression pattern
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