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Current Genomics

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https://www.readbyqxmd.com/read/28217010/acknowledgements-to-reviewers
#1
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December 2016: Current Genomics
https://www.readbyqxmd.com/read/28217009/meta-analysis-reveals-no-association-of-dnmt3b-149-c-t-gene-polymorphism-with-overall-cancer-risk
#2
Raju Kumar Mandal, Shafiul Haque, Mohd Wahid, Arshad Jawed, Naseem Akhter, Md Ekhlaque Ahmed Khan, Aditya Kumar Panda, Mohammed Yahya Areeshi, Sajad Ahmad Dar
BACKGROUND: DNA methyltransferase-3B (DNMT3B) plays a key role in establishment and maintenance of genomic methylation patterns. Polymorphism in promoter region -149 C>T (C46359T) of DNMT3B gene may alter DNMT3B activity which leads to increased susceptibility to cancer. Inconsistent results regarding this have been reported in a number of studies. OBJECTIVE: To carry out a meta-analysis of the studies reported to assess the precise relationship between the DNMT3B -149 C>T polymorphism and the overall cancer risk...
December 2016: Current Genomics
https://www.readbyqxmd.com/read/28217008/toxicogenomics-to-evaluate-endocrine-disrupting-effects-of-environmental-chemicals-using-the-zebrafish-model
#3
Karina Caballero-Gallardo, Jesus Olivero-Verbel, Jennifer L Freeman
The extent of our knowledge on the number of chemical compounds related to anthropogenic activities that can cause damage to the environment and to organisms is increasing. Endocrine disrupting chemicals (EDCs) are one group of potentially hazardous substances that include natural and synthetic chemicals and have the ability to mimic endogenous hormones, interfering with their biosynthesis, metabolism, and normal functions. Adverse effects associated with EDC exposure have been documented in aquatic biota and there is widespread interest in the characterization and understanding of their modes of action...
December 2016: Current Genomics
https://www.readbyqxmd.com/read/28217007/computational-tools-for-genomic-studies-in-plants
#4
Manuel Martinez
In recent years, the genomic sequence of numerous plant species including the main crop species has been determined. Computational tools have been developed to deal with the issue of which plant has been sequenced and where is the sequence hosted. In this mini-review, the databases for genome projects, the databases created to host species/clade projects and the databases developed to perform plant comparative genomics are revised. Because of their importance in modern research, an in-depth analysis of the plant comparative genomics databases has been performed...
December 2016: Current Genomics
https://www.readbyqxmd.com/read/28217006/mutagenesis-and-tilling-to-dissect-gene-function-in-plants
#5
Zerihun Tadele
Mutagenesis can be random or targeted and occur by nature or artificially by humans. However, the bulk of mutagenesis employed in plants are random and caused by physical agents such as x-ray and gamma-ray or chemicals such as ethyl-methane sulfonate (EMS). Researchers are interested in first identifying these mutations and/or polymorphisms in the genome followed by investigating their effects in the plant function as well as their application in crop improvement. The high-throughput technique called TILLING (Targeting Induced Local Lesion IN Genomes) has been already established and become popular for identifying candidate mutant individuals harboring mutations in the gene of interest...
December 2016: Current Genomics
https://www.readbyqxmd.com/read/28217005/chromatin-based-epigenetic-regulation-of-plant-abiotic-stress-response
#6
Garima Pandey, Namisha Sharma, Pranav Pankaj Sahu, Manoj Prasad
Plants are continuously exposed to various abiotic and biotic factors limiting their growth and reproduction. In response, they need various sophisticated ways to adapt to adverse environmental conditions without compromising their proper development, reproductive success and eventually survival. This requires an intricate network to regulate gene expression at transcriptional and post-transcriptional levels, including epigenetic switches. Changes in chromatin modifications such as DNA and histone methylation have been observed in plants upon exposure to several abiotic stresses...
December 2016: Current Genomics
https://www.readbyqxmd.com/read/28217004/rna-silencing-in-plants-mechanisms-technologies-and-applications-in-horticultural-crops
#7
Qigao Guo, Qing Liu, Neil A Smith, Guolu Liang, Ming-Bo Wang
Understanding the fundamental nature of a molecular process or a biological pathway is often a catalyst for the development of new technologies in biology. Indeed, studies from late 1990s to early 2000s have uncovered multiple overlapping but functionally distinct RNA silencing pathways in plants, including the posttranscriptional microRNA and small interfering RNA pathways and the transcriptional RNA-directed DNA methylation pathway. These findings have in turn been exploited for developing artificial RNA silencing technologies such as hairpin RNA, artificial microRNA, intrinsic direct repeat, 3' UTR inverted repeat, artificial trans-acting siRNA, and virus-induced gene silencing technologies...
December 2016: Current Genomics
https://www.readbyqxmd.com/read/28217003/reverse-genetics-and-high-throughput-sequencing-methodologies-for-plant-functional-genomics
#8
Anis Ben-Amar, Samia Daldoul, Götz M Reustle, Gabriele Krczal, Ahmed Mliki
In the post-genomic era, increasingly sophisticated genetic tools are being developed with the long-term goal of understanding how the coordinated activity of genes gives rise to a complex organism. With the advent of the next generation sequencing associated with effective computational approaches, wide variety of plant species have been fully sequenced giving a wealth of data sequence information on structure and organization of plant genomes. Since thousands of gene sequences are already known, recently developed functional genomics approaches provide powerful tools to analyze plant gene functions through various gene manipulation technologies...
December 2016: Current Genomics
https://www.readbyqxmd.com/read/27499686/applications-of-dna-technologies-in-agriculture
#9
Jinggui Fang, Xudong Zhu, Chen Wang, Lingfei Shangguan
With the development of molecular biology, some DNA-based technologies have showed great potentiality in promoting the efficiency of crop breeding program, protecting germplasm resources, improving the quality and outputs of agricultural products, and protecting the eco-environment etc., making their roles in modern agriculture more and more important. To better understand the application of DNA technologies in agriculture, and achieve the goals to promote their utilities in modern agriculture, this paper describes, in some different way, the applications of molecular markers, transgenic engineering and gene's information in agriculture...
August 2016: Current Genomics
https://www.readbyqxmd.com/read/27499685/bioinformatics-approach-in-plant-genomic-research
#10
Quang Ong, Phuc Nguyen, Nguyen Phuong Thao, Ly Le
The advance in genomics technology leads to the dramatic change in plant biology research. Plant biologists now easily access to enormous genomic data to deeply study plant high-density genetic variation at molecular level. Therefore, fully understanding and well manipulating bioinformatics tools to manage and analyze these data are essential in current plant genome research. Many plant genome databases have been established and continued expanding recently. Meanwhile, analytical methods based on bioinformatics are also well developed in many aspects of plant genomic research including comparative genomic analysis, phylogenomics and evolutionary analysis, and genome-wide association study...
August 2016: Current Genomics
https://www.readbyqxmd.com/read/27499684/exploring-genetic-diversity-in-plants-using-high-throughput-sequencing-techniques
#11
Yoshihiko Onda, Keiichi Mochida
Food security has emerged as an urgent concern because of the rising world population. To meet the food demands of the near future, it is required to improve the productivity of various crops, not just of staple food crops. The genetic diversity among plant populations in a given species allows the plants to adapt to various environmental conditions. Such diversity could therefore yield valuable traits that could overcome the food-security challenges. To explore genetic diversity comprehensively and to rapidly identify useful genes and/or allele, advanced high-throughput sequencing techniques, also called next-generation sequencing (NGS) technologies, have been developed...
August 2016: Current Genomics
https://www.readbyqxmd.com/read/27499683/genomics-approaches-for-improving-salinity-stress-tolerance-in-crop-plants
#12
Ramsong Chantre Nongpiur, Sneh Lata Singla-Pareek, Ashwani Pareek
Salinity is one of the major factors which reduces crop production worldwide. Plant responses to salinity are highly complex and involve a plethora of genes. Due to its multigenicity, it has been difficult to attain a complete understanding of how plants respond to salinity. Genomics has progressed tremendously over the past decade and has played a crucial role towards providing necessary knowledge for crop improvement. Through genomics, we have been able to identify and characterize the genes involved in salinity stress response, map out signaling pathways and ultimately utilize this information for improving the salinity tolerance of existing crops...
August 2016: Current Genomics
https://www.readbyqxmd.com/read/27499682/genome-assisted-breeding-for-drought-resistance
#13
Awais Khan, Valpuri Sovero, Dorcus Gemenet
Drought stress caused by unpredictable precipitation poses a major threat to food production worldwide, and its impact is only expected to increase with the further onset of climate change. Understanding the effect of drought stress on crops and plants' response is critical for developing improved varieties with stable high yield to fill a growing food gap from an increasing population depending on decreasing land and water resources. When a plant encounters drought stress, it may use multiple response types, depending on environmental conditions, drought stress intensity and duration, and the physiological stage of the plant...
August 2016: Current Genomics
https://www.readbyqxmd.com/read/27499681/role-of-cyclic-nucleotide-gated-channels-in-stress-management-in-plants
#14
Saroj K Jha, Manisha Sharma, Girdhar K Pandey
Tolerance of plants to a number of biotic and abiotic stresses such as pathogen and herbivore attack, drought, salinity, cold and nutritional limitations is ensued by complex multimodule signaling pathways. The outcome of this complex signaling pathways results in adaptive responses by restoring the cellular homeostasis and thus promoting survival. Functions of many plant cation transporter and channel protein families such as glutamate receptor homologs (GLRs), cyclic nucleotide-gated ion channel (CNGC) have been implicated in providing biotic and abiotic stress tolerance...
August 2016: Current Genomics
https://www.readbyqxmd.com/read/27499680/recent-advances-in-understanding-the-molecular-mechanisms-regulating-the-root-system-response-to-phosphate-deficiency-in-arabidopsis
#15
Nadia Bouain, Patrick Doumas, Hatem Rouached
Phosphorus (P) is an essential macronutrient for plant growth and development. Inorganic phosphate (Pi) is the major form of P taken up from the soil by plant roots. It is well established that under Pi deficiency condition, plant roots undergo striking morphological changes; mainly a reduction in primary root length while increase in lateral root length as well as root hair length and density. This typical phenotypic change reflects complex interactions with other nutrients such as iron, and involves the activity of a large spectrum of plant hormones...
August 2016: Current Genomics
https://www.readbyqxmd.com/read/27499679/crosstalk-of-signaling-mechanisms-involved-in-host-defense-and-symbiosis-against-microorganisms-in-rice
#16
Akira Akamatsu, Ko Shimamoto, Yoji Kawano
Rice is one of the most important food crops, feeding about half population in the world. Rice pathogens cause enormous damage to rice production worldwide. In plant immunity research, considerable progress has recently been made in our understanding of the molecular mechanisms underlying microbe-associated molecular pattern (MAMP)-triggered immunity. Using genome sequencing and molecular techniques, a number of new MAMPs and their receptors have been identified in the past two decades. Notably, the mechanisms for chitin perception via the lysine motif (LysM) domain-containing receptor OsCERK1, as well as the mechanisms for bacterial MAMP (e...
August 2016: Current Genomics
https://www.readbyqxmd.com/read/27499678/enhancement-of-plant-productivity-in-the-post-genomics-era
#17
Nguyen Phuong Thao, Lam-Son Phan Tran
Obtaining high plant yield is not always achievable in agricultural activity as it is determined by various factors, including cultivar quality, nutrient and water supplies, degree of infection by pathogens, natural calamities and soil conditions, which affect plant growth and development. More noticeably, sustainable plant productivity to provide sufficient food for the increasing human population has become a thorny issue to scientists in the era of unpredictable global climatic changes, appearance of more tremendous or multiple stresses, and land restriction for cultivation...
August 2016: Current Genomics
https://www.readbyqxmd.com/read/27252593/a-comprehensive-review-on-the-genetic-regulation-of-cisplatin-induced-nephrotoxicity
#18
Zeneida Herrera-Pérez, Norbert Gretz, Harsh Dweep
Cisplatin (CDDP) is a well-known antineoplastic drug which has been extensively utilized over the last decades in the treatment of numerous kinds of tumors. However, CDDP induces a wide range of toxicities in a dose-dependent manner, among which nephrotoxicity is of particular importance. Still, the mechanism of CDDP-induced renal damage is not completely understood; moreover, the knowledge about the role of microRNAs (miRNAs) in the nephrotoxic response is still unknown. miRNAs are known to interact with the representative members of a diverse range of regulatory pathways (including postnatal development, proliferation, inflammation and fibrosis) and pathological conditions, including kidney diseases: polycystic kidney diseases (PKDs), diabetic nephropathy (DN), kidney cancer, and drug-induced kidney injury...
June 2016: Current Genomics
https://www.readbyqxmd.com/read/27252592/nutrigenomics-and-its-impact-on-life-style-associated-metabolic-diseases
#19
Shalika Rana, Shiv Kumar, Nikita Rathore, Yogendra Padwad, Shashi Bhushana
Post-human genome revelation observes the emergence of 'Nutigenomics' as one of the exciting scientific advancement influencing mankind around the world. Food or more precisely 'nutrition' has the major impact in defining the cause-response interaction between nutrient (diet) and human health. In addition to substantial understanding of nutrition-human-health interaction, bases of 'nutrigenomic' development foster on advent in transcriptomics, genomics, proteomics and metabolomics as well as insight into food as health supplement...
June 2016: Current Genomics
https://www.readbyqxmd.com/read/27252591/soybean-seed-development-fatty-acid-and-phytohormone-metabolism-and-their-interactions
#20
Quoc Thien Nguyen, Anna Kisiala, Peter Andreas, R J Neil Emery, Suresh Narine
Vegetable oil utilization is determined by its fatty acid composition. In soybean and other grain crops, during the seed development oil accumulation is important trait for value in food or industrial applications. Seed development is relatively short and sensitive to unfavorable abiotic conditions. These stresses can lead to a numerous undesirable qualitative as well as quantitative changes in fatty acid production. Fatty acid manipulation which targets a higher content of a specific single fatty acid for food or industrial application has gained more attention...
June 2016: Current Genomics
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