芥菜型油菜A9染色体物理图谱构建和结构变异分析
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摘要
以四川黄籽自交系和紫叶芥自交系多次杂交形成的F6代重组自交系(RIL)群体为材料,运用基因分析技术,构建芥菜型油菜遗传图谱。采用锚定BAC的方法,构建重叠群,最终构建了由16个重叠群共计538个BAC组成的芥菜型油菜A9染色体物理图谱,参考芥菜基因组,估计该物理图谱长度为46.26 Mb,与已发表的白菜、甘蓝型油菜和芥菜参考基因组进行比较,发现芥菜型油菜A9染色体均发生了倒位和缺失等结构变异。
Using RIL population constructed from multiple crosses of Sichuan yellow seed inbred lines and purple leaf mustard inbred lines, the genetic maps of Brassica juncea were constructed with genetic analysis techniques. With anchoring BAC, 16 contigs containing 538 BACs were obtained. With reference to Brassica juncea genome, the obtained physical map was estimated to be 46.26 Mb. In comparison with reported genomes of Brassica rapa, Brassica napus, and Brassica juncea, insertions and deletions were found in A9 chromosomes of Brassica juncea.
Using RIL population constructed from multiple crosses of Sichuan yellow seed inbred lines and purple leaf mustard inbred lines, the genetic maps of Brassica juncea were constructed with genetic analysis techniques. With anchoring BAC, 16 contigs containing 538 BACs were obtained. With reference to Brassica juncea genome, the obtained physical map was estimated to be 46.26 Mb. In comparison with reported genomes of Brassica rapa, Brassica napus, and Brassica juncea, insertions and deletions were found in A9 chromosomes of Brassica juncea.
引文
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[12]TELLELIN H,NELSON K E,PAULSEN I T,et al.Complete genome sequence of a virulent isolate of Streptococcus pneumoniae[J].Science,2001,293:498-506.
[13]LUO R B,LIU B H,XIE Y L,et al.SOAPdenovo2:an empirically improved memory-efficient short-read de novo assembler[J].Giga Science,2012,1(1):18.
[2]FENG J,LONG Y,SHI L,et al.Characterization of metabolite quantitative trait loci and metabolic networks that control glucosinolate concentration in the seeds and leaves of Brassica napus[J].New Phytologist,2012,193(1):96-108.
[3]ZHAO J Y,HUANG J X,CHEN F,et al.Molecular mapping of Arabidopsis thaliana lipid-related orthologous genes in Brassica napus[J].Theoretical and Applied Genetics,2012,124(2):407-421.
[4]WANG X,WANG H,WANG J,et al.The genome of the mesopolyploid crop species Brassica rapa[J].Nature Genetics,2014,43(10):1035-1039.
[5]CHALHOUB B,DENOEUD F,LIU S Y,et al.Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome[J].Science,2014,345:950-953.
[6]YANG J,LIU D,WANG X,et al.The genome sequence of allopolyploid Brassica juncea and analysis of differential homoeolog gene expression influencing selection[J].Nature Genetics,2016,48(10):1225-1232.
[7]ELSHIRE R J,GLAUBITZ J C,SUN Q,et al.Arobust,simple genotyping-by-sequencing(GBS)approach for high diversity species[J].PLoS One,2011,6(5):e19379.
[8]WU Z K,WANG B,CHEN X,et al.Evaluation of linkage disequilibrium pattern and association study on seed oil content in Brassica napus using dd RADsequencing[J].PLo S One,2016,11(1):e0146383.
[9]LUO M Z,WING R A.An improved method for plant BAC library construction[M]//LUO M Z,WING R A.eds.Plant Functional Genomics.New Jersey:Humana Press,2003:3-19.
[10]ALTSCHUL S.Basic local alignment search tool[J].Journal of Molecular Biology,1990,215(3):403-410.
[11]MINOCHE A E,DOHM J C,HIMMELBAUER H.Evaluation of genomic high-throughput sequencing data generated on Illumina HiSeq and genome analyzer systems[J].Genome Biology,2011,12(11):R112.
[12]TELLELIN H,NELSON K E,PAULSEN I T,et al.Complete genome sequence of a virulent isolate of Streptococcus pneumoniae[J].Science,2001,293:498-506.
[13]LUO R B,LIU B H,XIE Y L,et al.SOAPdenovo2:an empirically improved memory-efficient short-read de novo assembler[J].Giga Science,2012,1(1):18.
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