Schneider Katharina, Kulosa Dagmar, Soerensen Thomas Rosleff, Möhring Silke, Heine Martin, Durstewitz Gregor, Polley Andreas, Weber Eberhard, Lein Jens, Hohmann Uwe, Tahiro Emma, Weisshaar Bernd, Schulz Britta, Koch Georg, Jung Christian, Ganal Martin
Department of Plant Breeding and Yield Physiology, Max-Planck-Institute for Plant Breeding Research , Carl-von-Linné Weg 10, 50827 Cologne, Germany.
Theor Appl Genet. 2007 Sep;115(5):601-15. doi: 10.1007/s00122-007-0591-4. Epub 2007 Jul 11.
A panel of 13 sugar beet lines and one genotype each of the Beta vulgaris cultivars red beet and Swiss chard, and B. vulgaris ssp. maritima were used to identify polymorphisms in alignments of genomic DNA sequences derived from 315 EST- and 43 non-coding RFLP-derived loci. In sugar beet lines, loci of expressed genes showed an average SNP frequency of 1/72 bp, 1 in 58 bp in non-coding sequences, increasing to 1/47 bp upon the addition of the remaining genotypes. Within analysed DNA fragments, alleles at different SNP positions displayed linkage disequilibrium indicative of haplotype structures. On average 2.7 haplotypes were found in sugar beet lines, and haplotype conservation in expressed genes appeared to exceed 500 bp in length. Seven different genotyping techniques including SNP detection by MALDI-TOF mass spectrometry, pyrosequencing and fluorescence scanning of labelled nucleotides were employed to perform 712 segregation analyses for 538 markers in three F(2) populations. Functions were predicted for 492 mapped sequences. Genetic maps comprised 305 loci covering 599.8 cM in population K1, 241 loci distributed over 636.6 cM in population D2, and 166 loci over 507.1 cM in population K2, respectively. Based on 156 markers common to more than one population an integrated map was constructed with 524 loci covering 664.3 cM. For 377 loci the genome positions of the most similar sequences from A. thaliana were identified, but little evidence for previously presented ancestral genome structures was found.
利用13个甜菜品系、1个甜菜栽培品种红甜菜和1个牛皮菜基因型以及1个野生海甜菜基因型，对来自315个EST和43个非编码RFLP衍生位点的基因组DNA序列比对中的多态性进行鉴定。在甜菜品系中，表达基因位点的平均单核苷酸多态性（SNP）频率为1/72 bp，非编码序列中为1/58 bp，加入其余基因型后增加到1/47 bp。在分析的DNA片段中，不同SNP位置的等位基因显示出连锁不平衡，表明存在单倍型结构。甜菜品系中平均发现2.7种单倍型，表达基因中的单倍型保守长度似乎超过500 bp。采用包括基质辅助激光解吸电离飞行时间质谱法（MALDI-TOF）检测SNP、焦磷酸测序和标记核苷酸荧光扫描在内的7种不同基因分型技术，对3个F2群体中的538个标记进行了712次分离分析。对492个定位序列进行了功能预测。遗传图谱分别包括群体K1中的305个位点，覆盖599.8 cM；群体D2中的241个位点，分布在636.6 cM；群体K2中的166个位点，覆盖507.1 cM。基于多个群体共有的156个标记构建了一个整合图谱，包含524个位点，覆盖664.3 cM。对于377个位点，确定了拟南芥中最相似序列的基因组位置，但几乎没有发现先前提出的祖先基因组结构的证据。
