Wild soybean roots depend on specific transcription factors and oxidation reduction related genesin response to alkaline stress

2015 ◽  
Vol 15 (6) ◽  
pp. 651-660 ◽  
Author(s):  
Huizi DuanMu ◽  
Yang Wang ◽  
Xi Bai ◽  
Shufei Cheng ◽  
Michael K. Deyholos ◽  
...  
Keyword(s):  
Transcription Factors ◽  
Wild Soybean ◽  
Alkaline Stress ◽  
Oxidation Reduction ◽  
Soybean Roots

scholarly journals Changes in the Vascular Cylinder of Wild Soybean Roots Under Alkaline Stress

2014 ◽  
Vol 13 (10) ◽  
pp. 2164-2169
Author(s):  
Lu NIU ◽  
Jing-mei LU ◽  
Dong-mei WU ◽  
Yan LI ◽  
Ting-ting GAO
Keyword(s):  
Wild Soybean ◽  
Alkaline Stress ◽  
Vascular Cylinder ◽  
Soybean Roots

scholarly journals Oxidative Stress Alters the Profile of Transcription Factors Related to Early Development on In Vitro Produced Embryos

2017 ◽  
Vol 2017 ◽  
pp. 1-14 ◽  
Author(s):  
Roberta Ferreira Leite ◽  
Kelly Annes ◽  
Jessica Ispada ◽  
Camila Bruna de Lima ◽  
Érika Cristina dos Santos ◽  
...  
Keyword(s):  
Oxidative Stress ◽  
Transcription Factors ◽  
Embryo Development ◽  
Cell Biology ◽  
Bos Taurus ◽  
Early Embryo ◽  
Blastocyst Development ◽  
Oxidation Reduction ◽  
Number Of Cells

High oxygen levels during in vitro culture (IVC) can induce oxidative stress through accumulation of reactive oxygen species (ROS), negatively affecting embryo development. This study evaluated the effect of different O2 tensions during IVC on bovine blastocyst development and transcriptional status, considering transcription factors that play an essential role during early embryo development. For this purpose, embryos were produced in vitro by conventional protocols and cultured in two different oxygen tensions, physiological (5%) and atmospheric (20%). Expanded blastocysts were subjected to transcript quantitation analysis by RT-qPCR with Biomark™ HD System (Fluidigm, US), using 67 TaqMan assays specific for Bos taurus. Differences were observed in genes related to oxidation-reduction processes, DNA-dependent transcription factors, and factors related to important functional pathways for embryo development. Blastocyst rate was higher in the 5% O2 group and the number of cells was assessed, with the 5% O2 group having a higher number of cells. ROS concentration was evaluated, with a higher ROS presence in the 20% O2 group. Taken together, these results allow us to conclude that IVC of embryos at atmospheric O2 tension affects the expression of important transcription factors involved in multiple cell biology pathways that can affect embryo development, quality, and viability.

Intracellular oxidation/reduction status in the regulation of transcription factors NF-κB and AP-1

1999 ◽  
Vol 106 (2-3) ◽  
pp. 93-106 ◽  
Author(s):  
David Gius ◽  
Ana Botero ◽  
Sunita Shah ◽  
Heather A. Curry
Keyword(s):  
Transcription Factors ◽  
Regulation Of Transcription ◽  
Oxidation Reduction

scholarly journals Genomic Features of Open Chromatin Regions (OCRs) in Wild Soybean and Their Effects on Gene Expressions

Genes ◽  
2021 ◽  
Vol 12 (5) ◽  
pp. 640
Author(s):  
Ming-Kun Huang ◽  
Ling Zhang ◽  
Li-Meng Zhou ◽  
Wai-Shing Yung ◽  
Man-Wah Li ◽  
...  
Keyword(s):  
Gene Expression ◽  
Transcription Factors ◽  
Glycine Soja ◽  
Gene Activation ◽  
Wild Soybean ◽  
Plant Genome ◽  
Homologous Gene ◽  
Open Chromatin ◽  
Gene Expressions ◽  
In The Wild

Transcription activation is tightly associated with the openness of chromatin, which allows direct contact between transcriptional regulators, such as transcription factors, and their targeted DNA for downstream gene activation. However, the annotation of open chromatin regions (OCRs) in the wild soybean (Glycine soja) genome is limited. We performed assay for transposase-accessible chromatin using sequencing (ATAC-seq) and successfully identified 22,333 OCRs in the leaf of W05 (a wild soybean accession). These OCRs were enriched in gene transcription start sites (TSS) and were positively correlated with downstream gene expression. Several known transcription factor (TF)-binding motifs were also enriched at the OCRs. A potential regulatory network was constructed using these transcription factors and the OCR-marked genes. Furthermore, by overlapping the OCR distribution with those of histone modifications from chromatin immunoprecipitation followed by sequencing (ChIP-seq), we found that the distribution of the activation histone mark, H3K4me3, but not that of the repressive H3K27me3 mark, was closely associated with OCRs for gene activation. Several putative enhancer-like distal OCRs were also found to overlap with LincRNA-encoding loci. Moreover, our data suggest that homologous OCRs could potentially influence homologous gene expression. Hence, the duplication of OCRs might be essential for plant genome architecture as well as for regulating gene expression.

Alkaline-stress response in Glycine soja leaf identifies specific transcription factors and ABA-mediated signaling factors

2010 ◽  
Vol 11 (2) ◽  
pp. 369-379 ◽  
Author(s):  
Ying Ge ◽  
Yong Li ◽  
De-Kang Lv ◽  
Xi Bai ◽  
Wei Ji ◽  
...  
Keyword(s):  
Transcription Factors ◽  
Stress Response ◽  
Glycine Soja ◽  
Alkaline Stress

scholarly journals Transcription factors expressed in soybean roots under drought stress

2011 ◽  
Vol 10 (4) ◽  
pp. 3689-3701 ◽  
Author(s):  
S.S. Pereira ◽  
F.C.M. Guimarães ◽  
J.F.C. Carvalho ◽  
R. Stolf-Moreira ◽  
M.C.N. Oliveira ◽  
...  
Keyword(s):  
Transcription Factors ◽  
Drought Stress ◽  
Soybean Roots

scholarly journals Effects of salinity on photosynthetic traits, ion homeostasis and nitrogen metabolism in wild and cultivated soybean

PeerJ ◽  
2019 ◽  
Vol 7 ◽  
pp. e8191 ◽  
Author(s):  
Abd Ullah ◽  
Mingxia Li ◽  
Javaria Noor ◽  
Akash Tariq ◽  
Yuan Liu ◽  
...  
Keyword(s):  
Glutamate Dehydrogenase ◽  
Nitrogen Metabolism ◽  
Nitrogen Assimilation ◽  
Wild Soybean ◽  
Nitrate Assimilation ◽  
Saline Stress ◽  
Alkaline Stress ◽  
Ion Regulation ◽  
Cultivated Soybean ◽  
The Impact

Background Carbon and nitrogen metabolism need to be highly regulated to achieve cell acclimation to changing environmental conditions. The understanding of physio-biochemical responses of crops to salinity stress could help to stabilize their performance and yield. In this study we have analyzed the roles of photosynthesis, ion physiology and nitrate assimilation toward saline/alkaline stress acclimation in wild and cultivated soybean seedlings. Methods Growth and photosynthetic parameters, ion concentrations and the activity of enzymes involved in nitrogen assimilation were determined in seedlings of one wild and one cultivated soybean accession subjected to saline or alkaline stresses. Results Both saline and alkaline stresses had a negative impact on the growth and metabolism of both wild and cultivated soybean.The growth, photosynthesis, and gas exchange parameters showed a significant decrease in response to increasing salt concentration. Additionally, a significant increase in root Na+ and Cl– concentration was observed. However, photosynthetic performance and ion regulation were higher in wild than in cultivated soybean under saline and alkaline stresses. Nitrate reductase (NR) and the glutamine synthetase/glutamate synthase (GS/GOGAT) cycle showed a significant decrease in leaves of both genotypes. The reduction in the GS/GOGAT cycle was accompanied by high aminating glutamate dehydrogenase (NADH-glutamate dehydrogenase) activity, indicating the assimilation of high levels of NH4+. A significant increase in the activities of aminating and deaminating enzymes, including glutamate dehydrogenase (GDH), alanine aminotransferase (AlaAT) and aspartate aminotransferase (AspAT), was observed, probably due to the high glutamate demand and maintenance of the Krebs cycle to correct the C: N status. Conclusions Cultivated soybean was much more stress sensitive than was the wild soybean. The decrease in growth, photosynthesis, ion regulation and nitrogen assimilation enzymes was greater in cultivated soybean than in wild soybean. The impact of alkaline stress was more pronounced than that of saline stress. Wild soybean regulated the physiological mechanisms of photosynthesis and nitrate assimilation more effectively than did cultivated soybean. The present findings provide a theoretical basis with which to screen and utilize wild and cultivated soybean germplasm for breeding new stress-tolerant soybean.

scholarly journals Opposing transcriptional mechanisms regulateToxoplasmadevelopment

2016 ◽  
Author(s):  
Dong-Pyo Hong ◽  
Joshua B. Radke ◽  
Michael W. White
Keyword(s):  
Gene Expression ◽  
Transcription Factors ◽  
Cyst Formation ◽  
Tissue Cyst ◽  
Luciferase Reporter ◽  
Alkaline Stress ◽  
Developmental Pathway ◽  
Reciprocal Effect ◽  
Gene Target ◽  
Term Survival

ABSTRACTTheToxoplasmabiology that underlies human chronic infection is developmental conversion of the acute tachyzoite stage into the latent bradyzoite stage. We investigated the role of two alkaline-stress induced ApiAP2 transcription factors, AP2IV-3 and AP2IX-9, in bradyzoite development. These factors were expressed in two overlapping waves during bradyzoite development with AP2IX-9 increasing expression earlier than AP2IV-3, which peaked as AP2IX-9 expression was declining. Disruption of the AP2IX-9 gene enhanced, while deletion of AP2IV-3 gene decreased tissue cyst formation demonstrating these factors have opposite functions in bradyzoite development. Conversely, conditional overexpression of FKBP-modified of AP2IX-9 or AP2IV-3 with the small molecule Shield 1 had a reciprocal effect on tissue cyst formation confirming the conclusions of the knockout experiments. The AP2IX-9 repressor and AP2IV-3 activator tissue cyst phenotypes were borne out in gene expression studies that determined many of the same bradyzoite genes were regulated in an opposite manner by these transcription factors. A common gene target was the canonical bradyzoite marker, BAG1, and mechanistic experiments determined that like AP2IX-9, AP2IV-3 regulates a BAG1 promoter-luciferase reporter and specific binds the BAG1 promoter in parasite chromatin. Altogether, these results suggest the AP2IX-9 transcriptional repressor and AP2IV-3 transcriptional activator likely compete to control bradyzoite gene expression, which may permitToxoplasmato better adapt to different tissue environments and select a suitable host cell for long term survival of the dormant tissue cyst.IMPORTANCEToxoplasmainfections are life-long due to the development of the bradyzoite tissue cyst, which is effectively invisible to the immune system. Despite the important clinical consequences of this developmental pathway, the molecular basis of the switch mechanisms that control formation of the tissue cyst is still poorly understood. Significant changes in gene expression are associated with tissue cyst development and ApiAP2 transcription factors are an important mechanism regulating this developmental transcriptome. However, the molecular composition of these ApiAP2 mechanisms are not well defined and the operating principles of ApiAP2 mechanisms are poorly understood. Here we establish that competing ApiAP2 transcriptional mechanisms operate to regulate this clinically important developmental pathway.

scholarly journals Differential Impact of Acclimation and Acute Water Deprivation in the Expression of Key Transcription Factors in Soybean Roots

2016 ◽  
Vol 34 (6) ◽  
pp. 1167-1180
Author(s):  
Fábia Guimarães-Dias ◽  
Anna C. Neves-Borges ◽  
Alessandra J. Conforte ◽  
Leonardo Giovanella-Kampmann ◽  
André V. J. Ferreira ◽  
...  
Keyword(s):  
Transcription Factors ◽  
Water Deprivation ◽  
Differential Impact ◽  
Soybean Roots

scholarly journals Alkaline stress triggers an immediate calcium fluctuation in Candida albicans mediated by Rim101p and Crz1p transcription factors

2011 ◽  
Vol 11 (5) ◽  
pp. 430-439 ◽  
Author(s):  
Hui Wang ◽  
Yong Liang ◽  
Biao Zhang ◽  
Wen Zheng ◽  
LaiJun Xing ◽  
...  
Keyword(s):  
Candida Albicans ◽  
Transcription Factors ◽  
Alkaline Stress
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