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Toward unraveling the structure of <i>Brassica rapa</i> genome
Lim, Yong Pyo,Plaha, Prikshit,Choi, Su Ryun,Uhm, Taesik,Hong, Chang Pyo,Bang, Jae Wook,Hur, Yoon Kang Blackwell Publishing Ltd 2006 Physiologia plantarum Vol.126 No.4
<P>Genomic research in any organism encompasses understanding structure of the target genome and genes, their function, and evolution. <I>Brassica rapa</I>, which is phylogenetically related to <I>Arabidopsis thaliana</I>, is an important species with respect to its uses as vegetable, oil, and fodder. The availability of suitable genetic and genomic resources is a prerequisite to undertake genomic research in <I>B. rapa</I>. We have developed reference mapping populations of Chinese cabbage (<I>B. rapa</I> ssp. <I>pekinensis</I>) comprising 78 doubled haploid lines and over 250 recombinant inbred lines. Two Bacterial Artificial Chromosome (BAC) libraries, generated by restriction enzymes <I>Hin</I>dIII (KBrH) and <I>Bam</I>HI (KBrB), comprise 56 592 and 50 688 clones, respectively. We have also constructed 22 cDNA libraries from different plant tissues consisting of 104 914 clones with an average length of 575 bp. Initial BAC-end sequence analysis of 1473 clones of the KBrH library led us to understand the structure of <I>B. rapa</I> genome with respect to extent of genic sequences and their annotation, and relative abundance of different types of repetitive DNAs. Full-length sequence analysis of BAC clones revealed extensive triplication of <I>B. rapa</I> DNA segments coupled with variable gene losses within the segments. The formulation of the ‘Multinational Brassica Genome Project’ has laid the foundation to sequence the complete genome of <I>B. rapa</I> ssp. <I>pekinensis</I> by the international Brassica research community. It has been proposed to undertake BAC-to-BAC sequencing of genetically mapped seed BACs. In recent years, development of bioinformatics tools in <I>Brassica</I> has given a boost to structural genomics research in <I>Brassica</I> species. The research undertaken with the availability of various genomic resources in the public domain has added to our understanding of the structure of <I>B. rapa</I>.</P>
Yang Zhi Hong,Jin Hua,Plaha Prikshit,Woong Bae Tae,Jiang Guo Bin,Woo Jong Gyu,Yun Han Dae,Lim Yong Pyo,Lee Hyo Yeon The Korean Society of Plant Biotechnology 2004 Plant molecular biology and biotechnology research Vol.6 No.4
We studied the effect of genotype, explant, age of explant, medium (plant growth regulators and gelling agents), and standardized an efficient regeneration protocol for inbred lines of Chinese cabbage (Brassica rapa ssp. pekinensis). Of the different concentrations of NAA and BA tested, the combination of $5\;\cal{mg/L}\;BA\;and\;0.5\;\cal{mg/L}$ NAA gave the highest frequency of shoot regeneration. The cotyledonary explants had more shoot regeneration frequency ($\ge40\%$) than the hypocotyl ex-plants. Besides, the cotyledonary explants, excised from the 4-day old seedlings, showed higher shoot regene-ration ($56.7\%$). Of the three gelling agents and their concentrations used, 16 g/L agar was found to be the best for shoot regeneration. Shoot regeneration frequency in-creased significantly by supplementing the medium with $4\;\cal{mg/L}\;of\;AgNO_3$ MS medium devoid of NAA showed higher frequency of rooting in the regenerated shoots than the ones supplemented with NAA. Our improved regeneration protocol will be especially useful for the genetic transformation of Chinese cabbage inbred lines to develop transgenic hybrids.
The Reference Genetic Linkage Map for the Multinational Brassica rapa Genome Sequencing Project
Yong Pyo Lim,Su Ryun Choi,Graham R. Teakle,Prikshit Plaha,Jeong Hee Kim,Charlotte J. Allender,Elena Beynon,Zhong Yun. Piao,Tae Ho Han,Graham J. King,Guy C. Barker,Paul Hand Hand,Derek J. Lydiate,Jacqu 한국원예학회 2006 한국원예학회 기타간행물 Vol.- No.-