CCCH-Type Zinc Finger Family in Maize: Genome-Wide Identification, Classification and Expression Profiling under Abscisic Acid and Drought Treatments

Université Paris-Diderot, France
PLoS ONE (Impact Factor: 3.23). 07/2012; 7(7):e40120. DOI: 10.1371/journal.pone.0040120
Source: PubMed


CCCH-type zinc finger proteins comprise a large protein family. Increasing evidence suggests that members of this family are RNA-binding proteins with regulatory functions in mRNA processing. Compared with those in animals, functions of CCCH-type zinc finger proteins involved in plant growth and development are poorly understood.
Here, we performed a genome-wide survey of CCCH-type zinc finger genes in maize (Zea mays L.) by describing the gene structure, phylogenetic relationships and chromosomal location of each family member. Promoter sequences and expression profiles of putative stress-responsive members were also investigated. A total of 68 CCCH genes (ZmC3H1-68) were identified in maize and divided into seven groups by phylogenetic analysis. These 68 genes were found to be unevenly distributed on 10 chromosomes with 15 segmental duplication events, suggesting that segmental duplication played a major role in expansion of the maize CCCH family. The Ka/Ks ratios suggested that the duplicated genes of the CCCH family mainly experienced purifying selection with limited functional divergence after duplication events. Twelve maize CCCH genes grouped with other known stress-responsive genes from Arabidopsis were found to contain putative stress-responsive cis-elements in their promoter regions. Seven of these genes chosen for further quantitative real-time PCR analysis showed differential expression patterns among five representative maize tissues and over time in response to abscisic acid and drought treatments.
The results presented in this study provide basic information on maize CCCH proteins and form the foundation for future functional studies of these proteins, especially for those members of which may play important roles in response to abiotic stresses.

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    • "The zinc finger CCCH domain-containing protein is an RNA-binding protein having regulatory functions in mRNA processing. A previous study reported that it may be regulated by biotic or abiotic stress, and play an effective role in stress tolerance in Arabidopsis and rice (Berg and Shi 1996; Li et al. 2001; Wang et al. 2008; Peng et al. 2012). Late blight resistance protein R1-A is a surveillance protein that plays a major role in resistance to disease in plants (He et al. 2001). "
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    • "ntains a CHCH motif ( known as the RR region ) that is linked to a tandem zinc - finger ( TZF ) domain , which is unique to plants ( Wang et al . , 2008 ; Pomeranz et al . , 2010b ) . Members of the RR - TZF subfamily have been identified in several higher plants , including Arabidopsis ( AtTZF1 - 11 ) ( Wang et al . , 2008 ; Chai et al . , 2012 ; Peng et al . , 2012 ; Zhang et al . , 2013 ; Liu et al . , 2014 ; Xu , 2014 ) . The functions of some of the RR - TZF Arabidopsis proteins have been defined in relation to responses to a number of stress stimuli and developmental processes . PEI1 ( AtTZF6 ) is involved in embryogenesis ( Li and Thomas , 1998 ) , and AtTZF10 and AtTZF11 ( which are also kno"
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    ABSTRACT: Arginine-rich tandem zinc-finger proteins (RR-TZF) participate in a wide range of plant developmental processes and adaptive responses to abiotic stress, such as cold, salt and drought. This study investigates the conservation of the genes AtTZF1-5 at the level of their sequences and expression across plant species. The genomic sequences of the two RR-TZF genes TdTZF1-A and TdTZF1-B were isolated in durum wheat and assigned to chromosomes 3A and 3B, respectively. Sequence comparisons revealed that they encode proteins that are highly homologous to AtTZF1, AtTZF2 and AtTZF3. The expression profiles of these RR-TZF durum wheat and Arabidopsis proteins support a common function in the regulation of seed germination and responses to abiotic stress. In particular, analysis of plants with attenuated and overexpressed AtTZF3 indicate that AtTZF3 is a negative regulator of seed germination under conditions of salt stress. Finally, comparative sequence analyses establish that the RR-TZF genes are encoded by lower plants, including the bryophyte Physcomitrella patens and the alga Chlamydomonas reinhardtii. The regulation of the Physcomitrella AtTZF1-2-3-like genes by salt stress strongly suggests that a subgroup of the RR-TZF proteins has a function that has been conserved throughout evolution.
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    • "CCCH domain-containing proteins have been implicated in multiple biological processes such as plant growth, development, and environmental responses. Previous studies have investigated and analyzed the features and functions of CCCH genes in plants such as Arabidopsis, rice, maize, Populus, and Medicago truncatula (Wang et al. 2008a; Chai et al. 2012; Peng et al. 2012; Zhang et al. 2013). In this study, we identified 62 non-redundant citrus CCCH genes by genome-wide analysis. "
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