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Open Access Highly Accessed Research article

Comprehensive analysis of CCCH zinc finger family in poplar (Populus trichocarpa)

Guohua Chai1, Ruibo Hu1, Dongyuan Zhang1, Guang Qi1, Ran Zuo1, Yingping Cao1, Peng Chen1, Yingzhen Kong2* and Gongke Zhou1*

Author Affiliations

1 Key Laboratory of Biofuels, Chinese Academy of Sciences, Shandong Provincial Key Laboratory of Energy Genetics, Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, 266101, PR China

2 Complex Carbohydrate Research Center, University of Georgia, 315 Riverbend Road, Athens, GA, 30602, USA

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BMC Genomics 2012, 13:253  doi:10.1186/1471-2164-13-253

Published: 18 June 2012

Additional files

Additional file 1:

A complete list of 91 CCCH gene sequences identified in the present study. Genomic DNA sequences are obtained from Phytozome (http://www.phytozome.net /poplar, release 2.1). Amino acid sequences are deduced from the corresponding coding sequences.

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Additional file 2:

The conserved motifs and related data of Populus,Arabidopsisand rice CCCH proteins. Conserved motifs were identified in Populus CCCH proteins using the two programs of MEME and SMART. The characteristics of Populus, Arabidopsis and rice CCCH motifs were summarized as well.

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Additional file 3:

Exon/intron organization of the CCCH genes in Populus. Exons and introns are represented by green boxes and black lines, respectively. The number indicates the splicing phases of the CCCH genes. 0, phase 0; 1, phase 1; 2, phase 2.

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Additional file 4:

The putative NES sequences in Populus CCCH proteins. These sequences were detected by regular expression consensus [LV]-x (2, 3)-[LIVFM]-x (2, 3)-L-x- [LIMTKD] according to the previous method [8].

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Additional file 5:

The probes and microarray data of PopulusCCCH genes. Microarray data corresponds to expression analysis showed in Figure 6 and Figure 8.

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Additional file 6:

Primer sequences of 12 selected Populus CCCH genes for RT-qPCR analysis. The sequence, length, Tm, GC% and product sizes of primers used for RT-qPCR.

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