scholarly journals Differential Transcription of Phycobiliprotein Components in Rhodella violacea (Light and Nitrogen Effects on the 33-Kilodalton Phycoerythrin Rod Linker Polypeptide, Phycocyanin, and Phycoerythrin Transcripts)

1996 ◽  
Vol 112 (3) ◽  
pp. 1045-1054 ◽  
Author(s):  
C. Lichtle ◽  
F. Garnier ◽  
C. Bernard ◽  
G. Zabulon ◽  
A. Spilar ◽  
...  
Keyword(s):  
Differential Transcription ◽  
Rhodella Violacea

scholarly journals Differential transcription of Xenopus oocyte and somatic-type 5 S genes in a Xenopus oocyte extract.

1987 ◽  
Vol 262 (35) ◽  
pp. 17100-17110 ◽  
Author(s):  
L Millstein ◽  
P Eversole-Cire ◽  
J Blanco ◽  
J M Gottesfeld
Keyword(s):  
Xenopus Oocyte ◽  
Differential Transcription ◽  
S Genes

RNA-Seq-derived identification of differential transcription in the eggplant ( Solanum melongena ) following inoculation with bacterial wilt

Gene ◽  
2018 ◽  
Vol 644 ◽  
pp. 137-147 ◽  
Author(s):  
Na Chen ◽  
Bingwei Yu ◽  
Riyue Dong ◽  
Jianjun Lei ◽  
Changming Chen ◽  
...  
Keyword(s):  
Bacterial Wilt ◽  
Solanum Melongena ◽  
Rna Seq ◽  
Differential Transcription

scholarly journals A day in the life of mitochondria reveals shifting workloads

2019 ◽  
Vol 9 (1) ◽  
Author(s):  
Tobias W. Weinrich ◽  
Jaimie Hoh Kam ◽  
Bill T. Ferrara ◽  
Elinor P. Thompson ◽  
John Mitrofanis ◽  
...  
Keyword(s):  
Complex I ◽  
Energy Capacity ◽  
Complex Activity ◽  
Spare Capacity ◽  
Atp Production ◽  
Cellular Energy ◽  
Changing Patterns ◽  
Differential Transcription ◽  
Stimulation Of

Abstract Mitochondria provide energy for cellular function. We examine daily changing patterns of mitochondrial function and metabolism in Drosophila in vivo in terms of their complex (I-IV) activity, ATP production, glycolysis, and whole fly respiration in the morning, afternoon and night. Complex activity and respiration showed significant and unexpected variation, peaking in the afternoon. However, ATP levels by contrast are >40% greater in the morning and lowest at night when glycolysis peaks. Complex activity modulation was at the protein level with no evidence for differential transcription over the day. Timing differences between increased ATP production and peaks of complex activity may result from more efficient ATP production early in the day leaving complex activity with spare capacity. Optical stimulation of mitochondria is only possible in the mornings when there is such spare capacity. These results provide first evidence of shifts in cellular energy capacity at the organism level. Understanding their translation may be significant to the chosen timing of energy demanding interventions to improve function and health.

scholarly journals A Bayesian approach for analysis of whole-genome bisulphite sequencing data identifies disease-associated changes in DNA methylation

2016 ◽  
Author(s):  
Owen J.L. Rackham ◽  
Sarah R. Langley ◽  
Thomas Oates ◽  
Eleni Vradi ◽  
Nathan Harmston ◽  
...  
Keyword(s):  
Dna Methylation ◽  
Epigenetic Modification ◽  
Promoter Hypermethylation ◽  
Whole Genome ◽  
Sequencing Data ◽  
Accurate Identification ◽  
Bisulphite Sequencing ◽  
Consistent Change ◽  
Rat Strain ◽  
Differential Transcription

ABSTRACTDNA methylation is a key epigenetic modification involved in gene regulation whose contribution to disease susceptibility remains to be fully understood. Here, we present a novel Bayesian smoothing approach (called ABBA) to detect differentially methylated regions (DMRs) from whole-genome bisulphite sequencing (WGBS). We also show how this approach can be leveraged to identify disease-associated changes in DNA methylation, suggesting mechanisms through which these alterations might affect disease. From a data modeling perspective, ABBA has the distinctive feature of automatically adapting to different correlation structures in CpG methylation levels across the genome whilst taking into account the distance between CpG sites as a covariate. Our simulation study shows that ABBA has greater power to detect DMRs than existing methods, providing an accurate identification of DMRs in the large majority of simulated cases. To empirically demonstrate the method’s efficacy in generating biological hypotheses, we performed WGBS of primary macrophages derived from an experimental rat system of glomerulonephritis and used ABBA to identify >1,000 disease-associated DMRs. Investigation of these DMRs revealed differential DNA methylation localized to a 600bp region in the promoter of the Ifitm3 gene. This was confirmed by ChIP-seq and RNA-seq analyses, showing differential transcription factor binding at the Ifitm3 promoter by JunD (an established determinant of glomerulonephritis) and a consistent change in Ifitm3 expression. Our ABBA analysis allowed us to propose a new role for Ifitm3 in the pathogenesis of glomerulonephritis via a mechanism involving promoter hypermethylation that is associated with Ifitm3 repression in the rat strain susceptible to glomerulonephritis.

scholarly journals Adult Plant Resistance in Maize to Northern Leaf Spot Is a Feature of Partial Loss-of-function Alleles ofHm1

2018 ◽  
Author(s):  
Sandeep R. Marla ◽  
Kevin Chu ◽  
Satya Chintamanani ◽  
Dilbag Multani ◽  
Antje Klempien ◽  
...  
Keyword(s):  
Disease Resistance ◽  
Resistance Genes ◽  
Plant Resistance ◽  
Leaf Spot ◽  
Adult Plant Resistance ◽  
Plant Diseases ◽  
Adult Plant ◽  
Hc Toxin ◽  
Differential Transcription

ABSTRACTAdult plant resistance (APR) is an enigmatic phenomenon in which resistance genes are ineffective in protecting seedlings from disease but confer robust resistance at maturity. Maize has multiple cases in which genes confer APR to northern leaf spot, a lethal disease caused byCochliobolus carbonumrace 1 (CCR1). The first identified case of APR in maize is encoded by a hypomorphic allele,Hm1A, at thehm1locus. In contrast, wild type alleles ofhm1provide complete protection at all developmental stages and in every part of the maize plant.Hm1encodes an NADPH-dependent reductase, which inactivates HC-toxin, a key virulence effector of CCR1. Cloning and characterization ofHm1Aruled out differential transcription or translation for its APR phenotype and identified an amino acid substitution that reduced HC-toxin reductase (HCTR) activity. The possibility of a causal relationship between the weak nature ofHm1Aand its APR phenotype was confirmed by the generation of two new APR alleles ofHm1by mutagenesis. The HCTRs encoded by these new APR alleles had undergone relatively conservative missense changes that partially reduced their enzymatic activity similar to HM1A. No difference in accumulation of HCTR was observed between adult and juvenile plants, suggesting that the susceptibility of seedlings derives from a greater need for HCTR activity, not reduced accumulation of the gene product. Conditions and treatments that altered the photosynthetic output of the host had a dramatic effect on resistance imparted by the APR alleles, demonstrating a link between the energetic or metabolic status of the host and disease resistance affected by HC-toxin catabolism by the APR alleles of HCTR.AUTHOR SUMMARYAdult plant resistance (APR) is a phenomenon in which disease resistance genes are able to confer resistance at the adult stages of the plant but somehow fail to do so at the seedling stages. Despite the widespread occurrence of APR in various plant diseases, the mechanism underlying this trait remains obscure. It is not due to the differential transcription of these genes, and here we show that it is also not due to the differential translation or activity of the APR alleles of the maizehm1gene at different stages of development. Using a combination of molecular genetics, biochemistry and physiology, we present multiple lines of evidence that demonstrate that APR is a feature or symptom of weak forms of resistance. While the mature parts of the plant are metabolically robust enough to manifest resistance, seedling tissues are not, leaving them vulnerable to disease. Growth conditions that compromise the photosynthetic output of the plant further deteriorate the ability of the seedlings to protect themselves from pathogens.One sentence summaryCharacterization of adult plant resistance in the maize-CCR1 pathosystem reveals a causal link between weak resistance and APR.

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