Plant Science


    Contigs Scaffolding with Hi-C for Plant Genomes
    Authors:  Hong An, Qing Xiao, Zhibo Jia, J. Chris Pires and Bin Yi, date: 08/05/2022, view: 162, Q&A: 0

    Hi-C is a chromosome conformation capture method originally developed to detect genome-wide chromatin interactions. Nowadays, it is widely applied in scaffolding de novo assembled contigs into chromosome-scale genome sequences. Multiple open-source

    Quality Control and Preprocessing of Sequencing Reads
    Authors:  Zhiqiang Hao, Xiaojuan Liang and Guanglin Li, date: 07/05/2022, view: 255, Q&A: 0

    Quality control and preprocessing of sequences are essential before analyzing high-throughput sequence data. After raw read data is generated from high-through sequencing platforms, quality control and preprocessing of sequencing reads should

    Identification of Expression QTL by QTLtools in a Rice Recombinant Inbred Line Population
    Authors:  Feng Xiong, Hu Zhao and Weibo Xie, date: 06/20/2022, view: 256, Q&A: 0

    Expression QTL (eQTL) analysis assesses the association between the expression levels of target genes and genotypes of genetic markers to identify loci that regulate the expression of target genes. eQTL results can be used to construct genetic

    A Novel Method to Construct Binary CRISPR Vectors for Plant Transformation by Single Round of PCR Amplification
    Authors:  Kang Li, Yuhui Wang and Chuanying Fang, date: 04/05/2021, view: 3765, Q&A: 0

    CRISPR/Cas9 is an established and flexible tool for genome editing. However, most methods used to generate expression clones for the CRISPR/Cas9 are time-consuming. Hence, we have developed a one-step protocol to introduce sgRNA expression

    Dual sgRNA-based Targeted Deletion of Large Genomic Regions and Isolation of Heritable Cas9-free Mutants in Arabidopsis
    Authors:  Yu Jin and Sebastian Marquardt, date: 10/20/2020, view: 4230, Q&A: 0
    CRISPR/Cas9 system directed by a gene-specific single guide RNA (sgRNA) is an effective tool for genome editing such as deletions of few bases in coding genes. However, targeted deletion of larger regions generate loss-of-function alleles ...
    Methylation-sensitive Amplified Polymorphism as a Tool to Analyze Wild Potato Hybrids
    Authors:  Nicolás Cara, Carlos F. Marfil, María V. Bertoldi and Ricardo W. Masuelli, date: 07/05/2020, view: 3112, Q&A: 0
    Methylation-Sensitive Amplification Polymorphism (MSAP) is a versatile marker for analyzing DNA methylation patterns in non-model species. The implementation of this technique does not require a reference genome and makes it possible to determine ...
    Chiasma Counting in Maize Male Meiocytes
    Authors:  Gaganpreet K. Sidhu and Wojciech P. Pawlowski, date: 05/05/2020, view: 2338, Q&A: 0
    This protocol combines a classical chromosome spreading technique with 3-dimensional image reconstruction for visualization of bivalent configurations during meiosis to aid chiasma counting.
    Genome-wide Estimation of Evolutionary Distance and Phylogenetic Analysis of Homologous Genes
    Authors:  Meixia Zhao, Biao Zhang, Jianxin Ma and Damon Lisch, date: 12/05/2018, view: 6087, Q&A: 0
    Homologous genes, including paralogs and orthologs, are genes that share sequence homologies within or between different species. Homologous genes originate from a common origin through speciation, genetic duplication or horizontal gene transfer. ...
    Screening and Genetic Analysis of Ethylene-Response Mutants in Etiolated Rice Seedlings
    Authors:  Cui-Cui Yin, Biao Ma, He Zhao, Shou-Yi Chen and Jin-Song Zhang, date: 09/05/2018, view: 4271, Q&A: 0
    Ethylene, the simplest gaseous plant phytohormone, is involved in the control of rice growth and development processes, but the mechanism of ethylene regulating these pathways remains unclear in rice. Recent studies have found that ...

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