Multiple reference genomes and transcriptomes for Arabidopsis thaliana.
Multiple reference genomes and transcriptomes for Arabidopsis thaliana.
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DOI：
10.1038/nature10414
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发表时间：
2011-08-28
期刊：
影响因子：
64.8
通讯作者：
Mott R
中科院分区：
文献类型：
--
作者：
Gan X;Stegle O;Behr J;Steffen JG;Drewe P;Hildebrand KL;Lyngsoe R;Schultheiss SJ;Osborne EJ;Sreedharan VT;Kahles A;Bohnert R;Jean G;Derwent P;Kersey P;Belfield EJ;Harberd NP;Kemen E;Toomajian C;Kover PX;Clark RM;Rätsch G;Mott R
拟南芥种质之间的遗传差异是植物广泛的表型变异的基础，到目前为止，这些差异主要是在注释的参考种质Col-0的背景下解释的。本文报道了18个天然A. thaliana加入，和他们的转录组。当根据参考注释进行评估时，预计三分之一的蛋白质编码基因在至少一次登录中会被破坏。然而，每个基因组的重新注释揭示了替代基因模型通常恢复编码潜力。近一半的表达基因在幼苗中的基因表达不同，并且通常与5千碱基内的顺式变体有关，内含子保留选择性剪接事件也是如此。序列和表达变异在响应生物环境的基因中最为明显。我们的数据进一步推动了A.拟南芥，尤其是MAGIC遗传参考群体源自这些材料。
Genetic differences between Arabidopsis thaliana accessions underlie the plant’s extensive phenotypic variation, and until now these have been interpreted largely in the context of the annotated reference accession Col-0. Here we report the sequencing, assembly and annotation of the genomes of 18 natural A. thaliana accessions, and their transcriptomes. When assessed on the basis of the reference annotation, one-third of protein-coding genes are predicted to be disrupted in at least one accession. However, re-annotation of each genome revealed that alternative gene models often restore coding potential. Gene expression in seedlings differed for nearly half of expressed genes and was frequently associated with cis variants within 5 kilobases, as were intron retention alternative splicing events. Sequence and expression variation is most pronounced in genes that respond to the biotic environment. Our data further promote evolutionary and functional studies in A. thaliana, especially the MAGIC genetic reference population descended from these accessions.