2015比较基因组学应用教程.ppt

RG* refers to Reference Genome aNumber of orthologous genes bNumber of collinear blocks cPercentage of genome coverage dNumber of paralogous genes eNumber of duplicated blocks fAsterisks for the wheat and barley genomes highlight the highly saturated gene-based genetic maps used in the analysis Ancestral grass karyotype (AGK) reconstruction Model for grass chromosome evolution and shuffling 591 pre-miRNAs 582 pre-miRNAs 368 pre-miRNAs 136 5p expression 28 3p expression 29 libraries (RPM normalized) 204 dynamic expression mapping 8 96 90 Tissue-specific Abiotic stress-specific 214 not expressed (Read counts 2) 9 identical precursors 194 switch switch RNA GSM647195 GSM816744 GSM722128 GSM647193 GSM647192 GSM647194 GSM816743 GSM816740 GSM816699 GSM278572 GSM693280 GSM816741 GSM571078 GSM816735 GSM816716 GSM693279 GSM278571 GSM816738 GSM571077 GSM816696 GSM816698 GSM816697 GSM816694 GSM816720 GSM816687 GSM943193 GSM816718 GSM816732 GSM816690 GSM816692 GSM816742 GSM816706 GSM816710 GSM816712 GSM816726 GSM816728 GSM816724 GSM816722 GSM816704 GSM816708 GSM816714 GSM686040 GSM686039 1 0.8 0.6 0.4 0.2 0 60 50 40 30 20 10 70 osa-miR444c (5p/3p) Dynamic arm expression of osa-miR444c in different libraries Shoot Seedling Panicle Root Control Drought Salt Cold Heat ColdSalt HeatDrought HeatSalt Control Drought Salt Cold Heat ColdSalt HeatDrought HeatSalt Control -P -S -N -K -Ksalt Control -P -S -N -K -Ksalt Drought Heatmap of arm swtiching of Osa-miRNAs in different tissues and abiotic stresses Different tissues Different abiotic stresses Tissue-specific and overlap of pre-miRNA harboring arm switching under abiotic stresses 34.6% 98/283 37.7% 121/321 22.4% 38/170 24.4% 49/201 Clean reads (×106) Unique reads (×105) Length (nt) A 灰飞虱小RNA高通量测序（混合样品） miRNA reads Conserved miRNA with precursor in L. striatellus M 50 bp 100 bp Stem-loop RT-PCR和测序验证 miRNA家族在不同动物中的保守性 miRNA靶标基因的GO分析 表 RNA-seq检测到与肺癌相关的基因变化类型 谢谢！ * * * * Phylogenetic Analysis of Alpha Prolamin Genes in Foxtail Millet,