Phenotypic dissection of bone mineral density facilitates the identification of skeletal site specificity on the genetic regulation of bone

2013 ◽  
Author(s):  
P Kemp John ◽  
Medina-Gomez Carolina ◽  
Estrada Karol ◽  
H M Heppe Denise ◽  
M Zillikens Carola ◽  
...  
Keyword(s):  
Bone Mineral Density ◽  
Bone Mineral ◽  
Genetic Regulation ◽  
Site Specificity ◽  
Mineral Density ◽  
Skeletal Site

Principal component-derived bone density phenotypes and genetic regulation of the pediatric skeleton

2017 ◽  
Author(s):  
Jonathan Mitchell ◽  
Alessandra Chesi ◽  
Shana McCormack ◽  
Diana Cousminer ◽  
Heidi Kalkwarf ◽  
...  
Keyword(s):  
Bone Density ◽  
Genetic Regulation ◽  
Principal Component

Aflatoxins biosynthesis, toxicity and intervention strategies: A review

2019 ◽  
Author(s):  
Chem Int
Keyword(s):  
Developing Countries ◽  
Molecular Basis ◽  
Genetic Regulation ◽  
Intervention Strategies ◽  
Historical Background ◽  
Economic Losses ◽  
Factors Affecting ◽  
Biomarkers Of Exposure ◽  
Food Commodities

Aflatoxins (AFTs) are toxic products of fungal metabolism, associated with serious health consequences and substantial economic losses to agriculture, livestock and poultry sectors, particularly in the developing countries. This review outlines the current information on AFTs in terms of historical background, classification, relative occurrence and co-existence with other mycotoxins in various food commodities. The phenomenon of aflatoxin (AFT) biosynthesis has been elucidated with reference to molecular basis, genetic regulation and factors affecting the AFT production. Moreover, the in vivo disposition kinetics, toxicological action and toxico-pathological consequences of AFTs have also been highlighted. Currently employed strategies for the detection and detoxification of AFTs, biomarkers of exposure assessment, potential economic impact and regulatory considerations regarding the AFTs have been emphasized.

scholarly journals Further Studies on the 3-Ketosteroid 9α-Hydroxylase of Rhodococcus ruber Chol-4, a Rieske Oxygenase of the Steroid Degradation Pathway

2021 ◽  
Vol 9 (6) ◽  
pp. 1171
Author(s):  
Sara Baldanta ◽  
Juana María Navarro Llorens ◽  
Govinda Guevara
Keyword(s):  
Cholesterol Metabolism ◽  
Genetic Regulation ◽  
Degradation Pathway ◽  
Rhodococcus Ruber ◽  
Promoter Regions ◽  
Steroid Nucleus ◽  
Steroid Substrate ◽  
Fine Regulation ◽  
Rieske Oxygenase ◽  
Steroid Catabolism

The biochemistry and genetics of the bacterial steroid catabolism have been extensively studied during the last years and their findings have been essential to the development of biotechnological applications. For instance, metabolic engineering of the steroid-eater strains has allowed to obtain intermediaries of industrial value. However, there are still some drawbacks that must be overcome, such as the redundancy of the steroid catabolism genes in the genome and a better knowledge of its genetic regulation. KshABs and KstDs are key enzymes involved in the aerobic breakage of the steroid nucleus. Rhodococcus ruber Chol-4 contains three kshAs genes, a single kshB gene and three kstDs genes within its genome. In the present work, the growth of R. ruber ΔkshA strains was evaluated on different steroids substrates; the promoter regions of these genes were analyzed; and their expression was followed by qRT-PCR in both wild type and ksh mutants. Additionally, the transcription level of the kstDs genes was studied in the ksh mutants. The results show that KshA2B and KshA1B are involved in AD metabolism, while KshA3B and KshA1B contribute to the cholesterol metabolism in R. ruber. In the kshA single mutants, expression of the remaining kshA and kstD genes is re-organized to survive on the steroid substrate. These data give insight into the fine regulation of steroid genes when several isoforms are present.

scholarly journals Adaptation assessment of drought tolerance in maize populations from the Sahara in both shores of the Mediterranean Sea

Euphytica ◽  
2021 ◽  
Vol 217 (8) ◽  
Author(s):  
Oula Maafi ◽  
Pedro Revilla ◽  
Lorena Álvarez-Iglesias ◽  
Rosa Ana Malvar ◽  
Abderahmane Djemel
Keyword(s):  
Drought Tolerance ◽  
Biomass Production ◽  
Genetic Regulation ◽  
Breeding Programs ◽  
Favorable Alleles ◽  
Maize Germplasm ◽  
Maize Populations ◽  
Potential Source ◽  
Main Stress ◽  
And Control

AbstractDrought is the main stress for agriculture, and maize (Zea mays L.) germplasm from the Sahara has been identified as potential source of drought tolerance; however, information about adaptation of semitropical maize germplasm from the Sahara to temperate areas has not been reported. Our objective was assessing the adaptation of maize germplasm from Saharan oases as sources of drought tolerance for improving yield and biomass production under drought conditions in temperate environments. A collection of maize populations from Saharan oases was evaluated under drought and control conditions in Spain and Algeria. Algerian populations were significantly different under drought for most traits, and the significant genotype × environment interactions indicated that drought tolerance is genotype-dependent, but tolerance differences among genotypes change across environments. Based on yield, the Algerian maize populations PI527474, PI527478, PI527472, PI527467, PI527470, and PI527473 would be appropriate sources of drought tolerance for temperate environments. Concerning biomass production, the most interesting populations were PI527467, PI542685, PI527478, and PI527472. These Saharan populations could provide favorable alleles for drought tolerance for temperate breeding programs, and could also be used for studying mechanisms and genetic regulation of drought tolerance.

scholarly journals Increased peak detection accuracy in over-dispersed ChIP-seq data with supervised segmentation models

2021 ◽  
Vol 22 (1) ◽  
Author(s):  
Arnaud Liehrmann ◽  
Guillem Rigaill ◽  
Toby Dylan Hocking
Keyword(s):  
Histone Modifications ◽  
Count Data ◽  
High Throughput Sequencing ◽  
Genetic Regulation ◽  
Regulation Of Gene Expression ◽  
Basic Mechanism ◽  
R Package ◽  
Detection Accuracy ◽  
Full Potential ◽  
Segmentation Models

Abstract Background Histone modification constitutes a basic mechanism for the genetic regulation of gene expression. In early 2000s, a powerful technique has emerged that couples chromatin immunoprecipitation with high-throughput sequencing (ChIP-seq). This technique provides a direct survey of the DNA regions associated to these modifications. In order to realize the full potential of this technique, increasingly sophisticated statistical algorithms have been developed or adapted to analyze the massive amount of data it generates. Many of these algorithms were built around natural assumptions such as the Poisson distribution to model the noise in the count data. In this work we start from these natural assumptions and show that it is possible to improve upon them. Results Our comparisons on seven reference datasets of histone modifications (H3K36me3 & H3K4me3) suggest that natural assumptions are not always realistic under application conditions. We show that the unconstrained multiple changepoint detection model with alternative noise assumptions and supervised learning of the penalty parameter reduces the over-dispersion exhibited by count data. These models, implemented in the R package CROCS (https://github.com/aLiehrmann/CROCS), detect the peaks more accurately than algorithms which rely on natural assumptions. Conclusion The segmentation models we propose can benefit researchers in the field of epigenetics by providing new high-quality peak prediction tracks for H3K36me3 and H3K4me3 histone modifications.

scholarly journals Genetic Analysis of Mutations Affecting pckA Regulation in Rhizobium (Sinorhizobium) meliloti

Genetics ◽  
1997 ◽  
Vol 147 (4) ◽  
pp. 1521-1531 ◽  
Author(s):  
Magne Østerås ◽  
Shelley A P O'Brien ◽  
Turlough M Finan
Keyword(s):  
Sinorhizobium Meliloti ◽  
Phosphoenolpyruvate Carboxykinase ◽  
Root Nodules ◽  
Genetic Regulation ◽  
Carbon Sources ◽  
Dicarboxylic Acids ◽  
Phenotypic Analysis ◽  
Gene Encoding ◽  
Type Locus ◽  
Rapid Induction

Abstract The enzyme phosphoenolpyruvate carboxykinase (Pck) catalyzes the first step in the gluconeogenic pathway in most organisms. We are examining the genetic regulation of the gene encoding Pck, pckA, in Rhizobium (now Sinorhizobium) meliloti. This bacterium forms N2-fixing root nodules on alfalfa, and the major energy sources supplied to the bacteria within these nodules are C4-dicarboxylic acids such as malate and succinate. R. meliloti cells growing in glucose minimal medium show very low pckA expression whereas addition of succinate to this medium results in a rapid induction of pckA transcription. We identified spontaneous mutations (rpk) that alter the regulation of pckA expression such that pckA is expressed in media containing the non-inducing carbon sources lactose and glucose. Genetic and phenotypic analysis allowed us to differentiate at least four rpk mutant classes that map to different locations on the R. meliloti chromosome. The wild-type locus corresponding to one of these rpk loci was cloned by complementation, and two Tn5 insertions within the insert DNA that no longer complemented the rpk mutation were identified. The nucleotide sequence of this region revealed that both Tn5 insertions lay within a gene encoding a protein homologous to the Ga1R/LacI family of transcriptional regulators that are involved in metabolism.

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