Evolution of the WRKY Family in Angiosperms and Functional Diversity under Environmental Stress

International Journal of Molecular Sciences, Journal Year: 2024, Volume and Issue: 25(6), P. 3551 - 3551

Published: March 21, 2024

The transcription factor is an essential for regulating the responses of plants to external stimuli. WRKY protein a superfamily plant factors involved in response various stresses (e.g., cold, heat, salt, drought, ions, pathogens, and insects). During angiosperm evolution, number function constantly change. After suffering from long-term environmental battering, different evolutionary statuses ultimately retained numbers family members. proteins generally divided into three large categories angiosperms, owing their conserved domain three-dimensional structures. mediate adaptation environments via participating biological pathways, such as ROS (reactive oxygen species) hormone signaling further enzyme systems, stomatal closure, leaf shrinkage physiological responses. This article analyzed evolution angiosperms its functions responding environments, especially Magnoliaceae plants. It helps gain deeper understanding functional diversity provides theoretical experimental references studying molecular mechanisms stress.

Language: Английский

---

Genome-Wide Identification of WRKY Transcription Factor Family in Chinese Rose and Response to Drought, Heat, and Salt Stress

Genes, Journal Year: 2024, Volume and Issue: 15(6), P. 800 - 800

Published: June 18, 2024

The WRKY gene family is a key transcription factor for plant development and the stress response. However, few studies have investigated in Chinese rose (Rosa chinensis). In this study, 68 RcWRKY genes were identified from genome classified into three primary groups five subgroups based on structural phylogenetic characteristics. analysis of conserved domains, motifs, structure revealed that within same group had exon–intron organization composition. Chromosome mapping duplication randomly dispersed across seven chromosomes. Fragment refined selection may influenced evolution rose. cis-acting elements promoter region contained numerous abiotic response elements. results qRT-PCR expression was tissue-specific, with high being observed under drought, heat, salt stress. Notably, RcWRKY49′s increased more than fivefold following stress, indicating it crucial mediating These findings shed light regulatory role growth rose, they serve as foundation future molecular breeding programs discovery.

Language: Английский

---

Comprehensive Expression Analysis of the WRKY Gene Family in Phoebe bournei under Drought and Waterlogging Stresses

International Journal of Molecular Sciences, Journal Year: 2024, Volume and Issue: 25(13), P. 7280 - 7280

Published: July 2, 2024

In response to biotic and abiotic stresses, the WRKY gene family plays a crucial role in plant growth development. This study focused on

Language: Английский

---

Ploidy levels influence cold tolerance of Cyclocarya paliurus: insight into the roles of WRKY genes

BMC Genomics, Journal Year: 2025, Volume and Issue: 26(1)

Published: Jan. 13, 2025

Cold stress in winter is one of the most severe abiotic stresses on plant growth and flourishing, selection cold tolerant genotypes an important strategy to ensure safety development. Cyclocarya paliurus, a diclinous versatile tree species originally subtropical regions, has been introduced cultivated warm temperate zone China meet increasing market demand for its leaf yield. However, information regarding tolerance remains limited. Based ploidy identification tested materials, imitation experiment was conducted investigate variation freezing injury index expression CpaWRKY family members diploid tetraploid C. paliurus seedlings. The results indicated significant difference between diploids tetraploids under imitating temperature southern zone, with showing better than tetraploids. A total 88 genes were identified from genome, RNA-Seq showed differences WRKY gene stress. Correlation analysis differentially expressed suggested that CpaWRKY14, CpaWRKY26 CpaWRKY86 play essential roles respond In contrast, major involved response CpaWRKY60, CpaWRKY63 CpaWRKY81. Moreover, CpaWRKY14 considerably higher compared this study not only enhance our comprehension role stress, but also provide foundation genetic improvement paliurus.

Language: Английский

---

Evolutionary Insight and Expression Pattern of WUSCHEL‐Related Homebox Genes of Dendrobium huoshanense

Food Science & Nutrition, Journal Year: 2025, Volume and Issue: 13(3)

Published: Feb. 23, 2025

ABSTRACT The WOX ( WUSCHEL‐related homebox ) gene family is critical for plant growth, development, and the regulation of stress responses; however, function Dendrobium huoshanense has not been extensively studied. Nine genes have identified in D. genome. These were unequally distributed on five chromosomes, with four occupying chr1. A phylogenetic tree other species was built based maximum likelihood method, suggesting that these proteins could be grouped into three classical clades. Structural variation analysis relatives revealed had more translocations inversions nobile than chrysotoxum . Intraspecific collinearity MCScanX no large‐scale WGD segmental duplications between genes. Ka/Ks ratio calculated timeline (MYA), indicate all DhWOX subject to purifying selection. Interspecies microsynteny shares pairs two closely related species, consistent their genetic relationships. Gene structure showed DhWOX1 , DhWOX2 DhWOX6 DhWOX8 contained 3′ or 5’ UTR. Conserved motif contain conserved homeodomain domains similar components. Multiple sequence alignments near C‐terminus a typical helix–turn–helix amino acid composition, while DhWOX3 uniquely contains WUS‐box motif. Protein–protein interaction DhWOX5 may co‐expressed DhWOX9. large number cis‐acting elements promoter regions associated hormone signaling, vegetation development stages, responses. Differential expression analyzed after MeJA treatment. DhWOX4 high at 2 4 h, whereas DhWOX7 dynamic fluctuations. consistently low expression, DhWOX9 highest h. detectable levels. subcellular localization results indicated expressed nucleus. findings contribute our understanding roles

Language: Английский

---

Genome-wide identification and expression profiling of WRKY gene family in grain Amaranth (Amaranthus hypochondriacus L.) under salinity and drought stresses

BMC Plant Biology, Journal Year: 2025, Volume and Issue: 25(1)

Published: Feb. 28, 2025

The WRKY gene family plays a significant role in plant growth, development, and responses to biotic abiotic stresses. However, the of has not been reported Amaranthus hypochondriacus. This study presents comprehensive genome-wide analysis grain amaranth (A. hypochondriacus L.), resilient crop known for its high nutritional value adaptability challenging environments. In this study, 55 genes (AhyWRKY1-55) were identified A. distributed unevenly across 16 scaffolds. Of these, 50 contained conserved domains classified into three main groups. Group II was further divided five subgroups (IIa-IIe) based on phylogenetic analysis, with each clade being well supported by motifs. Additionally, structure revealed variations exon-intron organization. contrast, motif showed presence that similar within group but differed between groups, suggesting their functional diversity. Cis-acting elements related growth development light, hormones, stress identified. Synteny 34 (61.8%) originated from tandem duplication, indicating duplication expansion family. Protein-protein interaction suggested AhyWRKY3, AhyWRKY27, AhyWRKY28, AhyWRKY36, AhyWRKY52 hub involved complex protein network. Using silico real-time quantitative PCR, expression tissue- condition-specific patterns AhyWRKY genes. Notably, under drought stress, AhyWRKY39, AhyWRKY40, AhyWRKY54, AhyWRKY01 increased expression, while salt AhyWRKY49, AhyWRKY8 upregulated at 30 days, these may play key response salinity stress. present provides valuable insights organization evolutionary amaranth. It also identifies putative candidate conferring tolerance. Overall, lays foundation validation genes, facilitating exploitation genetic improvement programs develop stress-resilient varieties.

Language: Английский

---

Identification of Dof transcription factors in Dendrobium huoshanense and expression pattern under abiotic stresses

Frontiers in Genetics, Journal Year: 2024, Volume and Issue: 15

Published: April 22, 2024

Introduction: DNA-binding with one finger (Dof) transcription factors (TFs) are a unique family of TFs found in higher plants that regulate plant responses to light, hormones, and abiotic stresses. The specific involvement Dof genes the response environmental stresses remains unknown D. huoshanense . Methods: A total 22 were identified from genome. Results: Chromosome location analysis showed DhDof distributed on 12 chromosomes, largest number located chromosome 8. phylogenetic tree revealed DhDofs could be categorized into 11 distinct subgroups. In addition common groups, DhDof4, DhDof5, DhDof17, AtDof1.4 ortholog clustered B3 subgroup. Group E was newly branch, among which DhDof6, DhDof7, DhDof8, DhDof9 an independent branch. conserved motifs gene structure differences motif composition DhDofs. dof domain near N-terminus highly contained C 2 -C -type zinc linked four cysteines. Microsynteny interspecies collinearity duplication events Large-scale had not occurred only pair 13. Synteny blocks more often between its relatives less Oryza sativa Arabidopsis thaliana Selection pressure indicated subject purifying selection. Expression profiles correlation analyses under hormone treatments several different expression patterns. DhDof20 DhDof21 highest levels co-expressed MeJA induction. cis -acting element each regulatory elements involved growth as well q RT-PCR demonstrated DhDof2 main ABA-responsive DhDof7 cold stress-related gene. IAA suppressed some candidates, SA inhibited most candidate genes. Discussion: Our results may provide new insights for further investigation screening core stress-resistance

Language: Английский

---

Comparative analysis of POD genes and their expression under multiple hormones in Pyrus bretschenedri

BMC Genomic Data, Journal Year: 2024, Volume and Issue: 25(1)

Published: May 6, 2024

Abstract Background Class III peroxidase (POD) enzymes play vital roles in plant development, hormone signaling, and stress responses. Despite extensive research on POD families various species, the knowledge regarding family Chinese pear ( Pyrus bretschenedri ) is notably limited. Results We systematically characterized 113 genes, designated as PbPOD1 to PbPOD113 based their chromosomal locations. Phylogenetic analysis categorized these genes into seven distinct subfamilies (I VII). The segmental duplication events were identified a prevalent mechanism driving expansion of gene family. Microsynteny analysis, involving comparisons with , Fragaria vesca Prunus avium mume persica highlighted conservation duplicated regions persistence through purifying selection during evolutionary process. expression patterns PbPOD performed across organs diverse fruit development stages using transcriptomic data. Furthermore, we stress-related cis -acting elements within promoters underscoring involvement hormonal environmental Notably, qRT-PCR analyses revealed distinctive response melatonin (MEL), salicylic acid (SA), abscisic (ABA), methyl jasmonate (MeJA), reflecting responsiveness abiotic role growth development. Conclusions In this study, investigated potential functions dynamics positioning them promising candidates for further valuable indicators enhancing quality molecular breeding strategies.

Language: Английский

---

Genetic Diversity and Phylogenetic Analysis of Zygophyllum loczyi in Northwest China’s Deserts Based on the Resequencing of the Genome

Genes, Journal Year: 2023, Volume and Issue: 14(12), P. 2152 - 2152

Published: Nov. 28, 2023

In order to study the genetics of local adaptation in all main deserts northwest China, whole genomes 169 individuals were resequenced, which covers 20 populations Zygophyllum loczyi (Zygophyllales: Zygophylaceae). We describe more than 15 million single nucleotide polymorphisms and numerous InDels. The expected heterozygosity PIC values associated with varied significantly across biogeographic regions. Variation environmental factors contributes largely population genetic structure Z. loczyi. Bayesian analysis performed STRUCTURE defined four clusters, while results principle component similar. Our shows that Qaidam Desert group appears be diverging into two branches characterized by significant geographic separation gene flow neighboring deserts. Geological data assume it is possible Taklamakan was original distribution site, could have migrated later on expanded within other desert areas. above findings provide insights processes involved biogeography, phylogeny, differentiation China.

Language: Английский

---

Data notes on the proteomics of Dendrobium huoshanense under pb treatment

BMC Genomic Data, Journal Year: 2024, Volume and Issue: 25(1)

Published: Feb. 21, 2024

Abstract Objectives Pb stress has a negative impact on plant growth by interfering with photosynthesis and releasing reactive oxygen species, causing major risks such as heavy metal ion accumulation in the soil matrix. A proteomics experiment was conducted to determine whether protein levels of Dendrobium huoshanense changed response seven fifteen days after being sprayed 200 mg/L (NO 3 ) 2 solution. The proteomic data we gathered provides model for investigations into mechanisms underlying resistance stress. Data description label-free quantitative approach employed examine variations expression D. at different times Pb(NO treatment. We submitted raw obtained from these sequencing experiments ProteomeXchange database accession number PXD047050. 63,194 mass spectra total were compared imported Proteome Discoverer software search. 12,402 spectral peptides identified confidence level exceeding 99%, which resulted identification 2,449 significantly differential proteins. These proteins can be utilized screening, functional annotation, enrichment analysis differentially expressed before treatment experiments.

Language: Английский

---