Meta-analyses of microarrays of Arabidopsis asymmetric leaves1 (as1), as2 and their modifying mutants reveal a critical role for the ETT pathway in stabilization of adaxial-abaxial patterning and cell division during leaf development.
Meta-analyses of microarrays of Arabidopsis asymmetric leaves1 (as1), as2 and their modifying mutants reveal a critical role for the ETT pathway in stabilization of adaxial-abaxial patterning and cell division during leaf development.
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DOI：
10.1093/pcp/pct027
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发表时间：
2013-03
影响因子：
4.9
通讯作者：
Machida C
中科院分区：
文献类型：
--
作者：
Takahashi H;Iwakawa H;Ishibashi N;Kojima S;Matsumura Y;Prananingrum P;Iwasaki M;Takahashi A;Ikezaki M;Luo L;Kobayashi T;Machida Y;Machida C
在聚类和机器学习中，使用算法来分析来自DNA微阵列的基因表达数据是必要的。此前，我们开发了基于知识的模糊自适应共振理论(KB-FuzzyART)，这是一种适用于分析基因表达数据的聚类算法，以寻找识别基因网络的线索。叶原基在顶端分生组织周围形成，顶端分生组织由不确定干细胞组成。在叶片发育开始时，通过细胞增殖和扁平对称叶片的形成，正面-背面模式对于侧向扩张是至关重要的。许多指定这种模式的调控基因已经被识别出来。KB-FuzzyART分析以及随后的分子和遗传分析表明，不对称LEAVES1(AS1)和AS2抑制了一些远轴决定基因的表达，如生长素反应因子3(ARF3)/ETTIN(ETT)和ARF4，这些基因是导致AS1和AS2叶片近轴-远轴极性缺陷的原因。在本研究中，遗传分析表明，ARF3/ETT和ARF4受修饰基因BOBBER1(Bob1)和ELONGATA3(EL03)以及AS1-AS2调控。我们分析了含有AS2elo3和AS2Bob1的表达阵列，并通过KB-FuzzyART和分子分析提取了ARF3/ETT下游的基因。结果表明，AS1-AS2通过ARF3/ETT和ARF4功能调控KIP相关蛋白(Krp)和异戊烯基转移酶(IPT)基因的表达，表明AS1-AS2-ETT途径在控制细胞分裂周期和SAM周围细胞分裂素的生物合成以稳定叶片发育中起关键作用。
It is necessary to use algorithms to analyze gene expression data from DNA microarrays, such as in clustering and machine learning. Previously, we developed the knowledge-based fuzzy adaptive resonance theory (KB-FuzzyART), a clustering algorithm suitable for analyzing gene expression data, to find clues for identifying gene networks. Leaf primordia form around the shoot apical meristem (SAM), which consists of indeterminate stem cells. Upon initiation of leaf development, adaxial–abaxial patterning is crucial for lateral expansion, via cellular proliferation, and the formation of flat symmetric leaves. Many regulatory genes that specify such patterning have been identified. Analysis by the KB-FuzzyART and subsequent molecular and genetic analyses previously showed that ASYMMETRIC LEAVES1 (AS1) and AS2 repress the expression of some abaxial-determinant genes, such as AUXIN RESPONSE FACTOR3 (ARF3)/ETTIN (ETT) and ARF4, which are responsible for defects in leaf adaxial–abaxial polarity in as1 and as2. In the present study, genetic analysis revealed that ARF3/ETT and ARF4 were regulated by modifier genes, BOBBER1 (BOB1) and ELONGATA3 (ELO3), together with AS1–AS2. We analyzed expression arrays with as2 elo3 and as2 bob1, and extracted genes downstream of ARF3/ETT by using KB-FuzzyART and molecular analyses. The results showed that expression of Kip-related protein (KRP) (for inhibitors of cyclin-dependent protein kinases) and Isopentenyltransferase (IPT) (for biosynthesis of cytokinin) genes were controlled by AS1–AS2 through ARF3/ETT and ARF4 functions, which suggests that the AS1–AS2–ETT pathway plays a critical role in controlling the cell division cycle and the biosynthesis of cytokinin around SAM to stabilize leaf development in Arabidopsis thaliana.
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影响因子：
4.9
作者：
Betsuyaku S;Takahashi F;Kinoshita A;Miwa H;Shinozaki K;Fukuda H;Sawa S
通讯作者：
Sawa S
影响因子：
11.6
作者：
Guo, Mengjuan;Thomas, Julie;Timmermans, Marja C. P.
通讯作者：
Timmermans, Marja C. P.
影响因子：
9.2
作者：
Eshed, Y;Baum, SF;Bowman, JL
通讯作者：
Bowman, JL
影响因子：
4.6
作者：
Kelley, Dior R.;Arreola, Alexandra;Gasser, Charles S.
通讯作者：
Gasser, Charles S.
影响因子：
64.5
作者：
Eshed, Y;Baum, SF;Bowman, JL
通讯作者：
Bowman, JL