A Xenopus tropicalis oligonucleotide microarray works across species using RNA from Xenopus laevis
A Xenopus tropicalis oligonucleotide microarray works across species using RNA from Xenopus laevis
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DOI：
10.1016/j.mod.2004.09.004
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发表时间：
2005-03-01
影响因子：
2.6
通讯作者：
Papalopulu, N
中科院分区：
文献类型：
--
作者：
Chalmers, AD;Goldstone, K;Papalopulu, N
微阵列在发育生物学研究中具有巨大的潜力。作为一个模型系统，Xenopus非常适合于充分利用这种潜力。然而，非洲爪蟾经历了基因组范围内的复制，这意味着大多数基因由两个旁系同源物代表。这引起了一些问题。最重要的是，重复基因的存在意味着X。非洲爪蟾微阵列的覆盖率将小于或甚至是来自密切相关的二倍体青蛙热带爪蟾的类似大小的微阵列的覆盖率的一半。然而，到目前为止，X。laevis是实验胚胎学中最常用的两栖动物系统。因此，我们已经测试了基于微阵列的油序列是否在X前。tropicalis将使用RNA front X跨物种工作。光滑。我们根据X染色体的序列制作了一个试验性寡核苷酸微阵列。热带植物微阵列被用来鉴定在X染色体早期表达水平发生变化的基因。热带发展。然后使用来自X的RNA进行相同的测定。光滑。跨种实验与X.这在整个微阵列水平和单个基因上都是正确的，大多数基因使用来自X的RNA得到类似的结果。laevis和X.热带植物此外，X. laevis和X. tropicalis组实验的结果仅比两组X之间的重叠少12%。热带实验因此，研究人员可以使用X。laevis，并且仍然利用X提供的优点。Tropicalis微阵列(c)2004爱思唯尔爱尔兰有限公司保留所有权利。
Microarrays have great potential for the study of developmental biology. As a model system Xenopus is well suited for making the most of this potential. However, Xenopus laevis has undergone a genome wide duplication meaning that most genes are represented by two paralogues. This causes a number of problems. Most importantly the presence of duplicated genes mean that a X. laevis microarray will have less or even half the coverage of a similar sized microarray from the closely related but diploid frog Xenopus tropicalis. However, to date, X. laevis is the most commonly used amphibian system for experimental embryology. Therefore, we have tested if a microarray based oil sequences front X. tropicalis will work across species using RNA front X. laevis. We produced a pilot oligonucleotide microarray based on sequences from X. tropicalis. The microarray was used to identify genes whose expression levels changed during early X. tropicalis development. The same assay was then carried out using RNA from X. laevis. The Cross species experiments gave similar results to those using X. tropicalis RNA, This was true at the whole microarray level and for individual genes, with most genes giving similar results using RNA from X. laevis and X. tropicalis. Furthermore, the overlap in genes identified between a X. laevis and a X. tropicalis set of experiments was only 12% less than the overlap between two sets of X. tropicalis experiments. Therefore researchers can work with X. laevis and still make use of the advantages offered by X. tropicalis microarrays. (c) 2004 Elsevier Ireland Ltd. All rights reserved.