Genome-Wide Fractionation and Identification of WRKY Transcription Factors in Chinese Cabbage (Brassica rapa ssp. pekinensis) Reveals Collinearity and Their Expression Patterns Under Abiotic and Biotic Stresses

Tang, Jun; Hou, Xilin; Wang, Zhen; Huang, Zhinan

doi:10.1007/s11105-013-0672-2

Cited by 61 publications

(59 citation statements)

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“…Most SiWRKY genes were highly expressed in roots, whereas a few SiWRKY genes were expressed in developing seeds. This is consistent with observations made in other plants, including rice [18], cucumber [33], grape [42], apple [13], cassava [30], cotton [43], physic nut [41], and cabbage [44]. Our results revealed that SiWRKY genes are expressed tissuespecifically and the high expression levels observed in roots might reflect their roles in responses to abiotic and biotic stresses that first affect plants below ground.…”

Section: Diverse Expression Patterns Of Siwrky Genes In Different Tissupporting

confidence: 92%

“…Gene expression studies have shown that 20 AtWRKY genes in Arabidopsis, 41 OsWRKY genes in rice, 66 GmWRKY genes in soybean, 41 BrWRKY genes in Brassica rapa, and 74 BnWRKY genes in rapeseed are involved in responses to abiotic stresses [14,18,34,[49][50][51]. In this study, 44 SiWRKY genes were expressed differentially in response to waterlogging and drought stresses, indicating that these genes may also be involved in responses to abiotic stresses. To identify the WRKY genes that regulate tolerance to abiotic stresses in sesame, waterlogging-and drought-tolerant and sensitive cultivars were investigated.…”

Section: Identification Of Siwrky Genes Involved In Responses To Abiomentioning

confidence: 69%

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Genome-wide analysis of WRKY gene family in the sesame genome and identification of the WRKY genes involved in responses to abiotic stresses

Liu

et al. 2017

BMC Plant Biol

111

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Background: Sesame (Sesamum indicum L.) is one of the world's most important oil crops. However, it is susceptible to abiotic stresses in general, and to waterlogging and drought stresses in particular. The molecular mechanisms of abiotic stress tolerance in sesame have not yet been elucidated. The WRKY domain transcription factors play significant roles in plant growth, development, and responses to stresses. However, little is known about the number, location, structure, molecular phylogenetics, and expression of the WRKY genes in sesame.

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Section: Diverse Expression Patterns Of Siwrky Genes In Different Tissupporting

confidence: 92%

Section: Identification Of Siwrky Genes Involved In Responses To Abiomentioning

confidence: 69%

Genome-wide analysis of WRKY gene family in the sesame genome and identification of the WRKY genes involved in responses to abiotic stresses

Liu

et al. 2017

BMC Plant Biol

111

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“…Complete and accurate annotation of genes is an essential starting point for further functional study of a gene family. We identified a total of 145 gene sequences as members of the WRKY family in B. rapa plants, and Tang et al (2014) found the same result. A homology search was carried out using BLAST from NCBI, and all WRKY proteins showed a high level of sequence identity with WRKY proteins from different plant species.…”

Section: Resultssupporting

confidence: 63%

“…To study the expression patterns of the 145 BrWRKY genes in two contrasting B. rapa doubled haploid (DH) lines, Chiifu and Kenshin, systematic analyses of the microarray dataset were carried out at different temperatures (22, 4, 0, −2, and −4 °C) (unpublished). In a previous study, Tang et al (2014) classified BrWRKY genes into three large groups (i.e., I, II, III), with group II further into five subgroups (IIa-e). The microarray results are presented in a group-wise fashion showing the gene expression level of B. rapa ( Supplementary Fig.…”

Section: Microarray Expression Analysismentioning

confidence: 99%

Identification and expression analysis of WRKY family genes under biotic and abiotic stresses in Brassica rapa

et al. 2014

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WRKY proteins constitute one of the largest transcription factor families in higher plants, and they are involved in multiple biological processes such as plant development, metabolism, and responses to biotic and abiotic stresses. Genes of this family have been well documented in response to many abiotic and biotic stresses in many plant species, but not yet against Pectobacterium carotovorum subsp. carotovorum and Fusarium oxysporum f.sp. conglutinans in any of the plants. Moreover, potentiality of a specific gene may vary depending on stress conditions and genotypes. To identify stress resistance-related potential WRKY genes of Brassica rapa, we analyzed their expressions against above-mentioned pathogens and cold, salt, and drought stresses in B. rapa. Stress resistance-related functions of all Brassica rapa WRKY (BrWRKY) genes were firstly analyzed through homology study with existing biotic and abiotic stress resistance-related WRKY genes of other plant species and found a high degree of homology. We then identified all BrWRKY genes in a Br135K microarray dataset, which was created by applying low-temperature stresses to two contrasting Chinese cabbage doubled haploid (DH) lines, Chiifu and Kenshin, and selected 41 BrWRKY genes with high and differential transcript abundance levels. These selected genes were further investigated under cold, salt, and drought stresses as well as after infection with P. carotovorum subsp. carotovorum and F. oxysporum f.sp. conglutinans in B. rapa. The selected genes showed an organ-specific expression, and 22 BrWRKY genes were differentially expressed in Chiifu compared to Kenshin under cold and drought stresses. Six BrWRKY genes were more responsive in Kenshin compared to Chiffu under salt stress. In addition, eight BrWRKY genes showed differential expression after P. carotovorum subsp. carotovorum infection and five genes after F. oxysporum f.sp. conglutinans infection in B. rapa. Thus, the differentially expressed BrWRKY genes might be potential resources for molecular breeding of Brassica crops against abiotic and biotic stresses and several genes, which showed differential expressions commonly in response to several stresses, might be useful for multiple stress resistance. These findings would also be helpful in resolving the complex regulatory mechanism of WRKY genes in stress resistance and for this further functional genomics study of these potential genes in different Brassica crops is essential.

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“…Transcription factors regulate the expression of many genes and play critical roles in plant development and adaptation [52]. In synthesized Arabidopsis allotetraploids, the regulation of genome-wide non-additive gene expression may be partly controlled by TFs [48].…”

Section: Discussionmentioning

confidence: 99%

Gene Expression Differences between High-Growth Populus Allotriploids and Their Diploid Parents

Cheng

Zhu

Liao

et al. 2015

Forests

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Polyploid breeding is important in Populus genetic improvement programs because polyploid trees generally display increased height growth compared to their diploid parents. However, the genetic mechanism underlying this phenomenon remains unknown. In the present study, apical bud transcriptomes of vigorous, fast growing Populus allotriploid progeny genotypes and their diploid parents were sequenced and analyzed. We found that these allotriploids exhibited extensive transcriptomic diversity. In total, 6020 differentially expressed genes (DEGs) were found when the allotriploid progeny and their parents were compared, among which 791 overlapped between the allotriploids and both parents. Many genes associated with cell differentiation and meristem development were preferentially expressed in apical buds of the fast growing Populus allotriploids compared to their diploid parents. In addition, many auxin-, gibberellin-, and jasmonic acid-related genes were also preferentially expressed in the allotriploids compared to their OPEN ACCESSForests 2015, 6 840 parents. Our findings show that allotriploidy can have considerable effects on duplicate gene expression in Populus. In particular we identified and considered DEGs that provide important clues for improving our mechanistic understanding of positive heterosis of vigor-and growth-related traits in Populus allotriploids.

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Genome-Wide Fractionation and Identification of WRKY Transcription Factors in Chinese Cabbage (Brassica rapa ssp. pekinensis) Reveals Collinearity and Their Expression Patterns Under Abiotic and Biotic Stresses

Cited by 61 publications

References 54 publications

Genome-wide analysis of WRKY gene family in the sesame genome and identification of the WRKY genes involved in responses to abiotic stresses

Genome-wide analysis of WRKY gene family in the sesame genome and identification of the WRKY genes involved in responses to abiotic stresses

Identification and expression analysis of WRKY family genes under biotic and abiotic stresses in Brassica rapa

Gene Expression Differences between High-Growth Populus Allotriploids and Their Diploid Parents

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