scholarly journals The WRKY Transcription Factor Genes inLotus japonicus

2014 ◽  
Vol 2014 ◽  
pp. 1-15 ◽  
Author(s):  
Hui Song ◽  
Pengfei Wang ◽  
Zhibiao Nan ◽  
Xingjun Wang
Keyword(s):  
Transcription Factor ◽  
Stress Responses ◽  
Gene Clusters ◽  
Wrky Transcription Factor ◽  
Whole Genome Sequence ◽  
Gene Copy ◽  
Group I ◽  
A Genome ◽  
Transcription Factor Genes ◽  
Group Ii

WRKY transcription factor genes play critical roles in plant growth and development, as well as stress responses. WRKY genes have been examined in various higher plants, but they have not been characterized inLotus japonicus. The recent release of theL. japonicuswhole genome sequence provides an opportunity for a genome wide analysis of WRKY genes in this species. In this study, we identified 61 WRKY genes in theL. japonicusgenome. Based on the WRKY protein structure,L. japonicusWRKY (LjWRKY) genes can be classified into three groups (I–III). Investigations of gene copy number and gene clusters indicate that only one gene duplication event occurred on chromosome 4 and no clustered genes were detected on chromosomes 3 or 6. Researchers previously believed that group II and III WRKY domains were derived from the C-terminal WRKY domain of group I. Our results suggest that some WRKY genes in group II originated from the N-terminal domain of group I WRKY genes. Additional evidence to support this hypothesis was obtained byMedicago truncatulaWRKY (MtWRKY) protein motif analysis. We found that LjWRKY and MtWRKY group III genes are under purifying selection, suggesting that WRKY genes will become increasingly structured and functionally conserved.

scholarly journals Genome-wide identification and expression analysis of the WRKY transcription factor family in flax (Linum usitatissimum L.)

BMC Genomics ◽  
2021 ◽  
Vol 22 (1) ◽  
Author(s):  
Hongmei Yuan ◽  
Wendong Guo ◽  
Lijuan Zhao ◽  
Ying Yu ◽  
Si Chen ◽  
...  
Keyword(s):  
Transcription Factor ◽  
Plant Growth ◽  
Stress Responses ◽  
Linum Usitatissimum ◽  
Developmental Stages ◽  
Lignin Content ◽  
Expression Patterns ◽  
Wrky Transcription Factor ◽  
Group I ◽  
Genome Wide

Abstract Background Members of the WRKY protein family, one of the largest transcription factor families in plants, are involved in plant growth and development, signal transduction, senescence, and stress resistance. However, little information is available about WRKY transcription factors in flax (Linum usitatissimum L.). Results In this study, comprehensive genome-wide characterization of the flax WRKY gene family was conducted that led to prediction of 102 LuWRKY genes. Based on bioinformatics-based predictions of structural and phylogenetic features of encoded LuWRKY proteins, 95 LuWRKYs were classified into three main groups (Group I, II, and III); Group II LuWRKYs were further assigned to five subgroups (IIa-e), while seven unique LuWRKYs (LuWRKYs 96–102) could not be assigned to any group. Most LuWRKY proteins within a given subgroup shared similar motif compositions, while a high degree of motif composition variability was apparent between subgroups. Using RNA-seq data, expression patterns of the 102 predicted LuWRKY genes were also investigated. Expression profiling data demonstrated that most genes associated with cellulose, hemicellulose, or lignin content were predominantly expressed in stems, roots, and less in leaves. However, most genes associated with stress responses were predominantly expressed in leaves and exhibited distinctly higher expression levels in developmental stages 1 and 8 than during other stages. Conclusions Ultimately, the present study provides a comprehensive analysis of predicted flax WRKY family genes to guide future investigations to reveal functions of LuWRKY proteins during plant growth, development, and stress responses.

Identification of coffee WRKY transcription factor genes and expression profiling in resistance responses to pathogens

2010 ◽  
Vol 6 (5) ◽  
pp. 767-781 ◽  
Author(s):  
Daniel Ramiro ◽  
Aida Jalloul ◽  
Anne-Sophie Petitot ◽  
Maria Fátima Grossi De Sá ◽  
Mirian P. Maluf ◽  
...  
Keyword(s):  
Transcription Factor ◽  
Expression Profiling ◽  
Wrky Transcription Factor ◽  
Transcription Factor Genes

scholarly journals Whole-genome sequence of bioactive streptomycete derived from mangrove forest in Malaysia, Streptomyces sp. MUSC 14

2021 ◽  
Vol 4 (1) ◽  
Author(s):  
Hooi-Leng Ser ◽  
Loh Teng-Hern Tan ◽  
Wen-Si Tan ◽  
Wai-Fong Yin ◽  
Kok-Gan Chan
Keyword(s):  
East Coast ◽  
Genetic Manipulation ◽  
Genome Mining ◽  
Gene Clusters ◽  
Peninsular Malaysia ◽  
Whole Genome Sequence ◽  
Biosynthetic Gene ◽  
Biosynthetic Gene Clusters ◽  
Streptomyces Sp ◽  
A Genome

The contribution of streptomycetes to human health is undeniably important and significant, given that these filamentous microbes can produce interesting compounds that can be used to cure deadly infections and even cancer. Isolated from the east coast of Peninsular Malaysia, Streptomyces sp. MUSC 14 has shown significant antioxidant capacity. The current study explores the genomic potential of MUSC 14 via a genome mining approach. The genome size of MUSC 14 is 10,274,825 bp with G + C content of 71.3 %. AntiSMASH analysis revealed a total of nine biosynthetic gene clusters (with more than 80 % similarities to known gene clusters). This information serves as an important foundation for subsequent studies, particularly the purification and isolation of bioactive compounds by genetic manipulation techniques.

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