Identification and expression analysis of WRKY gene family under drought stress in peanut (Arachis hypogaea L.)

Zhao, Nannan; He, Meijing; Li, Li; Cui, Shunli; Hou, Mingyu; Wang, Liang; Mu, Guangqing; Liu, Lifeng; Yang, Xinlei

doi:10.1371/journal.pone.0231396

Cited by 50 publications

(32 citation statements)

References 76 publications

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“…Most WRKY transcription factors obtained in Dunaliella bardawil can bind to the W-box and response to n abiotic stress [72]. In peanut, 73 differentially expressed AhWRKY genes affected by drought stress were obtained through expression pattern analysis of the WRKY gene family [73]. SbWRKY30 enhanced the drought tolerance of sorghum by regulating the drought stress response gene SbRD19 [74].…”

Section: Analysis Of Differential Gene Expressionmentioning

confidence: 99%

De novo transcriptome sequencing and analysis of salt-, alkali-, and drought-responsive genes in Sophora alopecuroides

et al. 2020

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Background: Salinity, alkalinity, and drought stress are the main abiotic stress factors affecting plant growth and development. Sophora alopecuroides L., a perennial leguminous herb in the genus Sophora, is a highly salt-tolerant sand-fixing pioneer species distributed mostly in Western Asia and northwestern China. Few studies have assessed responses to abiotic stress in S. alopecuroides. The transcriptome of the genes that confer stress-tolerance in this species has not previously been sequenced. Our objective was to sequence and analyze this transcriptome. Results: Twelve cDNA libraries were constructed in triplicate from mRNA obtained from Sophora alopecuroides for the control and salt, alkali, and drought treatments. Using de novo assembly, 902,812 assembled unigenes were generated, with an average length of 294 bp. Based on similarity searches, 545,615 (60.43%) had at least one significant match in the Nr, Nt, Pfam, KOG/COG, Swiss-Prot, and GO databases. In addition, 1673 differentially expressed genes (DEGs) were obtained from the salt treatment, 8142 from the alkali treatment, and 17,479 from the drought treatment. A total of 11,936 transcription factor genes from 82 transcription factor families were functionally annotated under salt, alkali, and drought stress, these include MYB, bZIP, NAC and WRKY family members. DEGs were involved in the hormone signal transduction pathway, biosynthesis of secondary metabolites and antioxidant enzymes; this suggests that these pathways or processes may be involved in tolerance towards salt, alkali, and drought stress in S. alopecuroides. Conclusion: Our study first reported transcriptome reference sequence data in Sophora alopecuroides, a non-model plant without a reference genome. We determined digital expression profile and discovered a broad survey of unigenes associated with salt, alkali, and drought stress which provide genomic resources available for Sophora alopecuroides.

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Section: Analysis Of Differential Gene Expressionmentioning

confidence: 99%

De novo transcriptome sequencing and analysis of salt-, alkali-, and drought-responsive genes in Sophora alopecuroides

et al. 2020

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“…However, irregular perennial precipitation and incomplete irrigation facilities in sugarcane regions have made drought one of the main factors restricting sugarcane yield increase; thus, breeding drought-resistant sugarcane varieties has become an urgent task ( Santos et al, 2019 ). Drought resistance itself is a complex trait controlled by many genes ( Budak et al, 2015 ), and their identification will be of great significance for the development and subsequent cultivation of drought-resistant sugarcane varieties ( Zhao et al, 2020c ). Members of the dehydration-responsive element binding ( DREB ) subfamily of genes play key roles in plant stress responses to low temperatures, drought, and high salinity ( Zhou Y. et al, 2019 ).…”

Section: Introductionmentioning

confidence: 99%

Genetically Modified Sugarcane Intercropping Soybean Impact on Rhizosphere Bacterial Communities and Co-occurrence Patterns

et al. 2021

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Strategies involving genes in the dehydration-responsive element binding (DREB) family, which participates in drought stress regulation, and intercropping with legumes are becoming prominent options in promoting sustainable sugarcane cultivation. An increasing number of studies focusing on root interactions in intercropping systems, particularly involving transgenic crops, are being conducted to better understand and thus, harness beneficial soil microbes to enhance plant growth. We designed experiments to investigate the characteristics of two intercropping patterns, soybean with wild-type (WT) sugarcane and soybean with genetically modified (GM) Ea-DREB2B-overexpressing sugarcane, to assess the response of the rhizosphere microbiota to the different cropping patterns. Bacterial diversity in the rhizosphere microbial community differed between the two intercropping pattens. In addition, the biomass of GM sugarcane that intercropped with soybean was significantly improved compared with WT sugarcane, and the aboveground biomass and root biomass of GM soybean intercropping sugarcane increased by 49.15 and 46.03% compared with monoculture. Furthermore, a beneficial rhizosphere environment for the growth of Actinobacteria was established in the systems intercropped with GM sugarcane. Improving the production mode of crops by genetic modification is a key strategy to improving crop yields and provides new opportunities to further investigate the effects of intercropping on plant roots and soil microbiota. Thus, this study provides a basis for selecting suitable sugarcane–soybean intercropping patterns and a theoretical foundation for a sustainable sugarcane production.

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“…The A. hypogaea cv. Tifrunner genome has been used for quantitative trait locus analyses and RNA-seq assemblies [ 5 – 8 ]. In 2016, RNA-seq datasets from 22 different tissues of A. hypogaea cv.…”

Section: Introductionmentioning

confidence: 99%

Proteome evaluation of homolog abundance patterns in Arachis hypogaea cv. Tifrunner

Duan

Zhang

et al. 2022

Plant Methods

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Background Cultivated peanut (Arachis hypogaea, AABB genome), an allotetraploid from a cross between A. duranensis (AA genome) and A. ipaensis (BB genome), is an important oil and protein crop with released genome and RNA-seq sequence datasets. These datasets provide the molecular foundation for studying gene expression and evolutionary patterns. However, there are no reports on the proteomic data of A. hypogaea cv. Tifrunner, which limits understanding of its gene function and protein level evolution. Results This study sequenced the A. hypogaea cv. Tifrunner leaf and root proteome using the tandem mass tag technology. A total of 4803 abundant proteins were identified. The 364 differentially abundant proteins were estimated by comparing protein abundances between leaf and root proteomes. The differentially abundant proteins enriched the photosystem process. The number of biased abundant homeologs between the two sub-genomes A (87 homeologs in leaf and root) and B (69 and 68 homeologs in leaf and root, respectively) was not significantly different. However, homeologous proteins with biased abundances in different sub-genomes enriched different biological processes. In the leaf, homeologs biased to sub-genome A enriched biosynthetic and metabolic process, while homeologs biased to sub-genome B enriched iron ion homeostasis process. In the root, homeologs with biased abundance in sub-genome A enriched inorganic biosynthesis and metabolism process, while homeologs with biased abundance in sub-genome B enriched organic biosynthesis and metabolism process. Purifying selection mainly acted on paralogs and homeologs. The selective pressure values were negatively correlated with paralogous protein abundance. About 77.42% (24/31) homeologous and 80% (48/60) paralogous protein pairs had asymmetric abundance, and several protein pairs had conserved abundances in the leaf and root tissues. Conclusions This study sequenced the proteome of A. hypogaea cv. Tifrunner using the leaf and root tissues. Differentially abundant proteins were identified, and revealed functions. Paralog abundance divergence and homeolog bias abundance was elucidated. These results indicate that divergent abundance caused retention of homologs in A. hypogaea cv. Tifrunner.

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Identification and expression analysis of WRKY gene family under drought stress in peanut (Arachis hypogaea L.)

Cited by 50 publications

References 76 publications

De novo transcriptome sequencing and analysis of salt-, alkali-, and drought-responsive genes in Sophora alopecuroides

De novo transcriptome sequencing and analysis of salt-, alkali-, and drought-responsive genes in Sophora alopecuroides

Genetically Modified Sugarcane Intercropping Soybean Impact on Rhizosphere Bacterial Communities and Co-occurrence Patterns

Proteome evaluation of homolog abundance patterns in Arachis hypogaea cv. Tifrunner

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