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a cis-acting acting element in the promoter

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https://www.readbyqxmd.com/read/27895653/genome-wide-identification-and-expression-analysis-of-the-tubby-like-protein-family-in-the-malus-domestica-genome
#1
Jia-Ning Xu, Shan-Shan Xing, Zheng-Rong Zhang, Xue-Sen Chen, Xiao-Yun Wang
Tubby-like proteins (TLPs), which have a highly conserved β barrel tubby domain, have been found to be associated with some animal-specific characteristics. In the plant kingdom, more than 10 TLP family members were identified in Arabidopsis, rice and maize, and they were found to be involved in responses to stress. The publication of the apple genome makes it feasible to systematically study the TLP family in apple. In this investigation, nine TLP encoding genes (TLPs for short) were identified. When combined with the TLPs from other plant species, the TLPs were divided into three groups (group A, B, and C)...
2016: Frontiers in Plant Science
https://www.readbyqxmd.com/read/27875264/expression-of-wnt4-5-during-reproductive-cycle-of-catfish-and-wnt5-promoter-analysis
#2
Yarikipati Prathibha, Balasubramanian Senthilkumaran
Signaling molecules, Wnt4 and Wnt5, are essential for ovarian growth during developmental stages in mammals. Although these molecules were identified in several teleosts, their precise expression and role in reproductive processes have not yet been explored in any lower vertebrates. In view of this, using catfish, Clarias batrachus as an animal model, cloning and expression analysis of wnt4 and wnt5 were analyzed in different tissues, at various developmental stages, during ovarian reproductive cycle and after gonadotropin induction...
January 2017: Journal of Endocrinology
https://www.readbyqxmd.com/read/27845851/a-ramie-bzip-transcription-factor-bnbzip2-is-involved-in-drought-salt-and-heavy-metal-stress-response
#3
Chengjian Huang, Jinghua Zhou, Yucheng Jie, Hucheng Xing, Yingli Zhong, Weilin Yu, Wei She, Yushen Ma, Zehang Liu, Ying Zhang
bZIP transcription factors play key roles in plant growth, development, and stress signaling. A bZIP gene BnbZIP2 (GenBank accession number: KP642148) was cloned from ramie. BnbZIP2 has a 1416 base pair open reading frame, encoding a 471 amino acid protein containing a characteristic bZIP domain and a leucine zipper. BnbZIP2 shares high sequence similarity with bZIP factors from other plants. The BnbZIP2 protein is localized to both nuclei and cytoplasm. Transcripts of BnbZIP2 were found in various tissues in ramie, with significantly higher levels in female and male flowers...
November 15, 2016: DNA and Cell Biology
https://www.readbyqxmd.com/read/27829020/comparative-genome-wide-analysis-of-the-malate-dehydrogenase-gene-families-in-cotton
#4
Muhammad Imran, Kai Tang, Jin-Yuan Liu
Malate dehydrogenases (MDHs) play crucial roles in the physiological processes of plant growth and development. In this study, 13 and 25 MDH genes were identified from Gossypium raimondii and Gossypium hirsutum, respectively. Using these and 13 previously reported Gossypium arboretum MDH genes, a comparative molecular analysis between identified MDH genes from G. raimondii, G. hirsutum, and G. arboretum was performed. Based on multiple sequence alignments, cotton MDHs were divided into five subgroups: mitochondrial MDH, peroxisomal MDH, plastidial MDH, chloroplastic MDH and cytoplasmic MDH...
2016: PloS One
https://www.readbyqxmd.com/read/27826761/kelch-motif-containing-acyl-coa-binding-proteins-atacbp4-and-atacbp5-are-differentially-expressed-and-function-in-floral-lipid-metabolism
#5
Zi-Wei Ye, Jie Xu, Jianxin Shi, Dabing Zhang, Mee-Len Chye
We herein demonstrated two of the Arabidopsis acyl-CoA-binding proteins (ACBPs), AtACBP4 and AtACBP5, both function in floral lipid metabolism and they may possibly play complementary roles in Arabidopsis microspore-to-pollen development. Histological analysis on transgenic Arabidopsis expressing β-glucuronidase driven from the AtACBP4 and AtACBP5 promoters, as well as, qRTPCR analysis revealed that AtACBP4 was expressed at stages 11-14 in the mature pollen, while AtACBP5 was expressed at stages 7-10 in the microspores and tapetal cells...
November 8, 2016: Plant Molecular Biology
https://www.readbyqxmd.com/read/27808364/genome-wide-identification-phylogenetic-relationships-and-expression-analysis-of-the-carotenoid-cleavage-oxygenase-gene-family-in-pepper
#6
X H Zhang, H Q Liu, Q W Guo, C F Zheng, C S Li, X M Xiang, D F Zhao, J Liu, J Luo, D K Zhao, J Q Zheng, H J Wan
Carotenoid cleavage oxygenases (CCOs) are a family of dioxygenases, which specifically catalyze the cleavage of conjugated double bonds in carotenoids and apocarotenoids in plants. In this study, genome-wide analysis of CCO genes in pepper plants was performed using bioinformatic methods. At least 11 members of the CCO gene family were identified in the pepper genome. Phylogenetic analysis showed that pepper and tomato CCO genes could be divided into two groups (CCDs and NCEDs). The CCD group included five sub-groups (CCD1, CCD4, CCD7, CCD8, and CCD-like)...
October 5, 2016: Genetics and Molecular Research: GMR
https://www.readbyqxmd.com/read/27798958/evaluating-light-induced-promoters-for-the-control-of-heterologous-gene-expression-in-synechocystis-sp-pcc-6803
#7
Stevan C Albers, Christie A M Peebles
Cyanobacteria are enticing microbial factories, but little is understood how their gene control elements respond to the periodic availability to light. This research tested the capability of PpsbAII to control gene expression during light/dark conditions when moved to a neutral location within the Synechocystis sp. PCC 6803 genome. When the eYFP reporter gene was run by PpsbAII in the promoter's native genomic location, mutants exposed to 12-hour light conditions experienced a 15.8X increase in transcript abundance over that observed from the same construct exposed to 12-hour dark conditions...
October 31, 2016: Biotechnology Progress
https://www.readbyqxmd.com/read/27787902/ubc18-mediates-erf1-degradation-under-light-dark-cycles
#8
Mei-Chun Cheng, Wen-Chieh Kuo, Yi-Ming Wang, Hsing-Yu Chen, Tsan-Piao Lin
Ethylene Response Factor 1 (ERF1) plays a crucial role in biotic and abiotic stress responses. Previous studies have shown that ERF1 regulates stress-responsive gene expression by binding to different cis-acting elements in response to various stress signals. ERF1 was also reported to be unstable in the dark, and it regulates hypocotyl elongation. Here, we elucidated the mechanism underlying degradation of ERF1. Yeast two-hybrid screening showed that UBIQUITIN-CONJUGATING ENZYME 18 (UBC18) interacted with ERF1...
October 27, 2016: New Phytologist
https://www.readbyqxmd.com/read/27787603/investigating-triticeae-anther-gene-promoter-activity-in-transgenic-brachypodium-distachyon
#9
Mohsin A Zaidi, Stephen J B O'Leary, Shaobo Wu, Denise Chabot, Steve Gleddie, André Laroche, François Eudes, Laurian S Robert
In this report, we demonstrate that Brachypodium distachyon could serve as a relatively high throughput in planta functional assay system for Triticeae anther-specific gene promoters. There remains a vast gap in our knowledge of the promoter cis-acting elements responsible for the transcriptional regulation of Triticeae anther-specific genes. In an attempt to identify conserved cis-elements, 14 pollen-specific and 8 tapetum-specific Triticeae putative promoter sequences were analyzed using different promoter sequence analysis tools...
October 27, 2016: Planta
https://www.readbyqxmd.com/read/27771502/the-roles-of-cysteine-proteases-and-phytocystatins-in-development-and-germination-of-cereal-seeds
#10
Joanna Szewińska, Joanna Simińska, Wiesław Bielawski
Proteolysis is an important process for development and germination of cereal seeds. Among the many types of proteases identified in plants are the cysteine proteases (CPs) of the papain and legumain families, which play a crucial role in hydrolysing storage proteins during seed germination as well as in processing the precursors of these proteins and the inactive forms of other proteases. Moreover, all of the tissues of cereal seeds undergo progressive degradation via programed cell death, which is integral to their growth...
October 20, 2016: Journal of Plant Physiology
https://www.readbyqxmd.com/read/27744299/retrotransposon-mediated-aluminum-tolerance-through-enhanced-expression-of-the-citrate-transporter-osfrdl4
#11
Kengo Yokosho, Naoki Yamaji, Miho Fujii-Kashino, Jian Feng Ma
High aluminum (Al) tolerance of rice (Oryza sativa) is controlled by multiple tolerance genes, but the regulatory mechanisms underlying the differential expression of these genes are poorly understood. Here, we investigated the factors regulating the expression of OsFRDL4, a gene encoding a citrate efflux transporter involved in Al-induced citrate secretion from the roots. Analysis with chromosome segment substitution lines derived from cv Nipponbare (high OsFRDL4 expression) and cv Kasalath (low OsFRDL4 expression) revealed that the differential expression of OsFRDL4 is responsible for the quantitative trait locus for Al tolerance detected previously on chromosome 1...
December 2016: Plant Physiology
https://www.readbyqxmd.com/read/27733861/genome-wide-analysis-and-expression-profiling-of-the-suc-and-sweet-gene-families-of-sucrose-transporters-in-oilseed-rape-brassica-napus-l
#12
Hongju Jian, Kun Lu, Bo Yang, Tengyue Wang, Li Zhang, Aoxiang Zhang, Jia Wang, Liezhao Liu, Cunmin Qu, Jiana Li
Sucrose is the principal transported product of photosynthesis from source leaves to sink organs. SUTs/SUCs (sucrose transporters or sucrose carriers) and SWEETs (Sugars Will Eventually be Exported Transporters) play significant central roles in phloem loading and unloading. SUTs/SUCs and SWEETs are key players in sucrose translocation and are associated with crop yields. The SUT/SUC and SWEET genes have been characterized in several plant species, but a comprehensive analysis of these two gene families in oilseed rape has not yet been reported...
2016: Frontiers in Plant Science
https://www.readbyqxmd.com/read/27716933/solanum-tuberosum-stcdpk1-is-regulated-by-mir390-at-the-posttranscriptional-level-and-phosphorylates-the-auxin-efflux-carrier-stpin4-in-vitro-a-potential-downstream-target-in-potato-development
#13
Franco Santin, Sneha Bhogale, Elisa Fantino, Carolina Grandellis, Anjan K Banerjee, Rita M Ulloa
Among the many factors that regulate potato tuberization, calcium and Calcium Dependent Protein Kinases (CDPKs) play an important role. CDPK activity increases at the onset of tuber formation with StCDPK1 expression being strongly induced in swollen stolons. However, not much is known about the transcriptional and posttranscriptional regulation of StCDPK1 or its downstream targets in potato development. To elucidate further, we analyzed its expression in different tissues and stages of the life cycle. Histochemical analysis of StCDPK1::GUS plants demonstrated that StCDPK1 is strongly associated with the vascular system in stems, roots, during stolon to tuber transition, and in tuber sprouts...
October 7, 2016: Physiologia Plantarum
https://www.readbyqxmd.com/read/27698117/regulation-of-mir165-166-by-class-ii-and-class-iii-homeodomain-leucine-zipper-proteins-establishes-leaf-polarity
#14
Paz Merelo, Hathi Ram, Monica Pia Caggiano, Carolyn Ohno, Felix Ott, Daniel Straub, Moritz Graeff, Seok Keun Cho, Seong Wook Yang, Stephan Wenkel, Marcus G Heisler
A defining feature of plant leaves is their flattened shape. This shape depends on an antagonism between the genes that specify adaxial (top) and abaxial (bottom) tissue identity; however, the molecular nature of this antagonism remains poorly understood. Class III homeodomain leucine zipper (HD-ZIP) transcription factors are key mediators in the regulation of adaxial-abaxial patterning. Their expression is restricted adaxially during early development by the abaxially expressed microRNA (MIR)165/166, yet the mechanism that restricts MIR165/166 expression to abaxial leaf tissues remains unknown...
October 18, 2016: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/27642289/characterization-of-the-promoter-region-of-biosynthetic-enzyme-genes-involved-in-berberine-biosynthesis-in-coptis-japonica
#15
Yasuyuki Yamada, Tadashi Yoshimoto, Sayumi T Yoshida, Fumihiko Sato
The presence of alkaloids is rather specific to certain plant species. However, berberine, an isoquinoline alkaloid, is relatively broadly distributed in the plant kingdom. Thus, berberine biosynthesis has been intensively investigated, especially using Coptis japonica cell cultures. Almost all biosynthetic enzyme genes have already been characterized at the molecular level. Particularly, two transcription factors (TFs), a plant-specific WRKY-type TF, CjWRKY1, and a basic helix-loop-helix TF, CjbHLH1, were shown to comprehensively regulate berberine biosynthesis in C...
2016: Frontiers in Plant Science
https://www.readbyqxmd.com/read/27625653/in-silico-transcriptional-regulatory-networks-involved-in-tomato-fruit-ripening
#16
Stilianos Arhondakis, Craita E Bita, Andreas Perrakis, Maria E Manioudaki, Afroditi Krokida, Dimitrios Kaloudas, Panagiotis Kalaitzis
Tomato fruit ripening is a complex developmental programme partly mediated by transcriptional regulatory networks. Several transcription factors (TFs) which are members of gene families such as MADS-box and ERF were shown to play a significant role in ripening through interconnections into an intricate network. The accumulation of large datasets of expression profiles corresponding to different stages of tomato fruit ripening and the availability of bioinformatics tools for their analysis provide an opportunity to identify TFs which might regulate gene clusters with similar co-expression patterns...
2016: Frontiers in Plant Science
https://www.readbyqxmd.com/read/27597995/cloning-and-functional-analysis-of-the-promoter-of-an-ascorbate-oxidase-gene-from-gossypium-hirsutum
#17
Shan Xin, Chengcheng Tao, Hongbin Li
Apoplastic ascorbate oxidase (AO) plays significant roles in plant cell growth. However, the mechanism of underlying the transcriptional regulation of AO in Gossypium hirsutum remains unclear. Here, we obtained a 1,920-bp promoter sequence from the Gossypium hirsutum ascorbate oxidase (GhAO1) gene, and this GhAO1 promoter included a number of known cis-elements. Promoter activity analysis in overexpressing pGhAO1::GFP-GUS tobacco (Nicotiana benthamiana) showed that the GhAO1 promoter exhibited high activity, driving strong reporter gene expression in tobacco trichomes, leaves and roots...
2016: PloS One
https://www.readbyqxmd.com/read/27590347/multiple-cis-acting-elements-involved-in-up-regulation-of-a-cytochrome-p450-gene-conferring-resistance-to-deltamethrin-in%C3%A2-smal%C3%A2-brown-planthopper-laodelphax-striatellus-fall%C3%A3-n
#18
Jian Pu, Haina Sun, Jinda Wang, Min Wu, Kangxu Wang, Ian Denholm, Zhaojun Han
As well as arising from single point mutations in binding sites or detoxifying enzymes, it is likely that insecticide resistance mechanisms are frequently controlled by multiple genetic factors, resulting in resistance being inherited as a quantitative trait. However, empirical evidence for this is still rare. Here we analyse the causes of up-regulation of CYP6FU1, a monoxygenase implicated in resistance to deltamethrin in the rice pest Laodelphax striatellus. The 5'-flanking region of this gene was cloned and sequenced from individuals of a susceptible and a resistant strain...
August 31, 2016: Insect Biochemistry and Molecular Biology
https://www.readbyqxmd.com/read/27580343/identification-and-characterization-of-promoters-and-cis-regulatory-elements-of-genes-involved-in-secondary-metabolites-production-in-hop-humulus-lupulus-l
#19
Ganesh Selvaraj Duraisamy, Ajay Kumar Mishra, Tomas Kocabek, Jaroslav Matoušek
Molecular and biochemical studies have shown that gene contains single or combination of different cis-acting regulatory elements are actively controlling the transcriptional regulation of associated genes, downstream effects of these result in the modulation of various biological pathways such as biotic/abiotic stress responses, hormonal responses to growth and development processes and secondary metabolite production. Therefore, the identification of promoters and their cis-regulatory elements is one of intriguing area to study the dynamic complex regulatory network of genes activities by integrating computational, comparative, structural and functional genomics...
August 24, 2016: Computational Biology and Chemistry
https://www.readbyqxmd.com/read/27578551/opposing-control-by-transcription-factors-myb61-and-myb3-increases-freezing-tolerance-by-relieving-c-repeat-binding-factor-suppression
#20
Zhenqian Zhang, Xiaona Hu, Yunqin Zhang, Zhenyan Miao, Can Xie, Xiangzhao Meng, Jie Deng, Jiangqi Wen, Kirankumar S Mysore, Florian Frugier, Tao Wang, Jiangli Dong
Cold acclimation is an important process by which plants respond to low temperature and enhance their winter hardiness. C-REPEAT BINDING FACTOR1 (CBF1), CBF2, and CBF3 genes were shown previously to participate in cold acclimation in Medicago truncatula In addition, MtCBF4 is transcriptionally induced by salt, drought, and cold stresses. We show here that MtCBF4, shown previously to enhance drought and salt tolerance, also positively regulates cold acclimation and freezing tolerance. To identify molecular factors acting upstream and downstream of the MtCBF4 transcription factor (TF) in cold responses, we first identified genes that are differentially regulated upon MtCBF4 overexpression using RNAseq Digital Gene Expression Profiling...
October 2016: Plant Physiology
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