The genome of black cottonwood, Populus trichocarpa (Torr. & Gray)
The genome of black cottonwood, Populus trichocarpa (Torr. & Gray)
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DOI：
10.1126/science.1128691
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发表时间：
2006-09-15
期刊：
影响因子：
56.9
通讯作者：
Rokhsar, D.
中科院分区：
文献类型：
--
作者：
Tuskan, G. A.;DiFazio, S.;Rokhsar, D.
我们报道了黑杨树毛果杨的基因组草图。鸟枪序列组装与基因图谱的结合使基因组的染色体规模重建成为可能。超过45,000个假定的蛋白质编码基因被识别出来。对组装的基因组的分析揭示了一个全基因组复制事件；大约8000对来自该事件的复制基因在杨树基因组中存活下来。第二个更古老的复制事件与杨树和拟南芥谱系的分化几乎是一致的。在杨属植物中，核苷酸替代、串联基因复制和总染色体重排似乎比在拟南芥中进行得慢得多。杨树比拟南芥有更多的蛋白质编码基因，平均每个拟南芥基因有1.4到1.6个杨树同源基因。然而，这两个基因组中蛋白质结构域的相对频率是相似的。杨树中过多表达的例外包括与木质纤维素壁生物合成、分生组织发育、抗病和代谢物运输相关的基因。
We report the draft genome of the black cottonwood tree, Populus trichocarpa. Integration of shotgun sequence assembly with genetic mapping enabled chromosome-scale reconstruction of the genome. More than 45,000 putative protein-coding genes were identified. Analysis of the assembled genome revealed a whole-genome duplication event; about 8000 pairs of duplicated genes from that event survived in the Populus genome. A second, older duplication event is indistinguishably coincident with the divergence of the Populus and Arabidopsis lineages. Nucleotide substitution, tandem gene duplication, and gross chromosomal rearrangement appear to proceed substantially more slowly in Populus than in Arabidopsis. Populus has more protein-coding genes than Arabidopsis, ranging on average from 1.4 to 1.6 putative Populus homologs for each Arabidopsis gene. However, the relative frequency of protein domains in the two genomes is similar. Overrepresented exceptions in Populus include genes associated with lignocellulosic wall biosynthesis, meristem development, disease resistance, and metabolite transport.