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Combined small RNA and degradome sequencing reveals novel miRNAs and their targets in response to low nitrate availability in maize.

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TLDR
Deep sequencing of miRNAs and the degradome, and RLM-RACE and quantitative polymerase chain reaction (PCR) analyses of their targets showed that miRC10- and miRC68-mediated target cleavage may play a major role among miR169 families in the adaptation to LN by maize seedlings.
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This article is published in Annals of Botany.The article was published on 2013-08-01 and is currently open access. It has received 71 citations till now. The article focuses on the topics: Deep sequencing & Small RNA.

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Citations
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An alternative strategy for targeted gene replacement in plants using a dual-sgRNA/Cas9 design

TL;DR: Therefore, a gene deletion/replacement system in stably transformed plants that can potentially be utilized to introduce genes of interest for targeted crop improvement is established.
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Stress responsive miRNAs and isomiRs in cereals.

TL;DR: The overall knowledge about the cereal miRNA repertoire, as well as an understanding of complex miRNA mediated mechanisms of target regulation in response to stress conditions, is far from complete and ongoing efforts that add to the understanding ofcomplex miRNA machinery have implications in plant response to Stress conditions.
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Non-coding RNAs and Their Roles in Stress Response in Plants.

TL;DR: This review has summarized the current progress on the understanding of plant miRNA and lncRNA identification, characteristics, bioinformatics tools, and resources, and provided examples of mechanisms of miRNA- and lNCRNA-mediated plant stress tolerance.
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miRNA regulation of nutrient homeostasis in plants.

TL;DR: Understanding the regulation of different transporters by miRNAs will aid in elucidating the underlying molecular signal transduction mechanisms during nutritional stress, and delineate a novel platform for improving the nutritional status of cereal grains or crop biofortification programs in the future.
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Nitric oxide generated by nitrate reductase increases nitrogen uptake capacity by inducing lateral root formation and inorganic nitrogen uptake under partial nitrate nutrition in rice

TL;DR: NO generated by nitrate reductase plays a pivotal role in improving N-use efficiency by increasing lateral root initiation and inorganic N uptake, representing a strategy for rice to adapt to fluctuating nitrate supply.
References
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Journal ArticleDOI

Analysis of relative gene expression data using real-time quantitative pcr and the 2(-delta delta c(t)) method

TL;DR: The 2-Delta Delta C(T) method as mentioned in this paper was proposed to analyze the relative changes in gene expression from real-time quantitative PCR experiments, and it has been shown to be useful in the analysis of realtime, quantitative PCR data.
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MicroRNAs: Genomics, Biogenesis, Mechanism, and Function

TL;DR: Although they escaped notice until relatively recently, miRNAs comprise one of the more abundant classes of gene regulatory molecules in multicellular organisms and likely influence the output of many protein-coding genes.
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A new mathematical model for relative quantification in real-time RT-PCR.

TL;DR: This study enters into the particular topics of the relative quantification in real-time RT-PCR of a target gene transcript in comparison to a reference gene transcript and presents a new mathematical model that needs no calibration curve.
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Gene Expression Omnibus: NCBI gene expression and hybridization array data repository

TL;DR: The Gene Expression Omnibus (GEO) project was initiated in response to the growing demand for a public repository for high-throughput gene expression data and provides a flexible and open design that facilitates submission, storage and retrieval of heterogeneous data sets from high-power gene expression and genomic hybridization experiments.
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Agricultural sustainability and intensive production practices

TL;DR: A doubling in global food demand projected for the next 50 years poses huge challenges for the sustainability both of food production and of terrestrial and aquatic ecosystems and the services they provide to society.
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