scholarly journals Genome-wide identification of HSF family in peach and functional analysis of PpHSF5 involvement in root and aerial organ development

PeerJ ◽  
2021 ◽  
Vol 9 ◽  
pp. e10961
Author(s):  
Bin Tan ◽  
Liu Yan ◽  
Huannan Li ◽  
Xiaodong Lian ◽  
Jun Cheng ◽  
...  
Keyword(s):  
Arabidopsis Thaliana ◽  
Plant Growth ◽  
Gene Family ◽  
Growth And Development ◽  
Multiple Alignment ◽  
Heat Shock Factors ◽  
Plant Growth And Development ◽  
Peach Genome ◽  
Significant Difference ◽  
Length Changes

Background Heat shock factors (HSFs) play important roles during normal plant growth and development and when plants respond to diverse stressors. Although most studies have focused on the involvement of HSFs in the response to abiotic stresses, especially in model plants, there is little research on their participation in plant growth and development or on the HSF (PpHSF) gene family in peach (Prunus persica). Methods DBD (PF00447), the HSF characteristic domain, was used to search the peach genome and identify PpHSFs. Phylogenetic, multiple alignment and motif analyses were conducted using MEGA 6.0, ClustalW and MEME, respectively. The function of PpHSF5 was confirmed by overexpression of PpHSF5 into Arabidopsis. Results Eighteen PpHSF genes were identified within the peach genome. The PpHSF genes were nonuniformly distributed on the peach chromosomes. Seventeen of the PpHSFs (94.4%) contained one or two introns, except PpHSF18, which contained three introns. The in silico-translated PpHSFs were classified into three classes (PpHSFA, PpHSFB and PpHSFC) based on multiple alignment, motif analysis and phylogenetic comparison with HSFs from Arabidopsis thaliana and Oryza sativa. Dispersed gene duplication (DSD at 67%) mainly contributed to HSF gene family expansion in peach. Promoter analysis showed that the most common cis-elements were the MYB (abiotic stress response), ABRE (ABA-responsive) and MYC (dehydration-responsive) elements. Transcript profiling of 18 PpHSFs showed that the expression trend of PpHSF5 was consistent with shoot length changes in the cultivar ‘Zhongyoutao 14’. Further analysis of the PpHSF5 was conducted in 5-year-old peach trees, Nicotiana benthamiana and Arabidopsis thaliana, respectively. Tissue-specific expression analysis showed that PpHSF5 was expressed predominantly in young vegetative organs (leaf and apex). Subcellular localization revealed that PpHSF5 was located in the nucleus in N. benthamiana cells. Two transgenic Arabidopsis lines were obtained that overexpressed PpHSF5. The root length and the number of lateral roots in the transgenic seedlings were significantly less than in WT seedlings and after cultivation for three weeks. The transgenic rosettes were smaller than those of the WT at 2–3 weeks. The two transgenic lines exhibited a dwarf phenotype three weeks after transplanting, although there was no significant difference in the number of internodes. Moreover, the PpHSF5-OE lines exhibited enhanced thermotolerance. These results indicated that PpHSF5 might be act as a suppresser of growth and development of root and aerial organs.

Arabidopsis thaliana TBP-associated factor 5 is essential for plant growth and development

2011 ◽  
Vol 30 (1) ◽  
pp. 355-366 ◽  
Author(s):  
Niki Mougiou ◽  
Stylianos Poulios ◽  
Athanasios Kaldis ◽  
Konstantinos E. Vlachonasios
Keyword(s):  
Arabidopsis Thaliana ◽  
Plant Growth ◽  
Growth And Development ◽  
Plant Growth And Development ◽  
Associated Factor

scholarly journals Genome-Wide Identification and Comparative Analysis of ARF Family Genes in Three Apiaceae Species

2021 ◽  
Vol 11 ◽  
Author(s):  
Qiaoying Pei ◽  
Nan Li ◽  
Qihang Yang ◽  
Tong Wu ◽  
Shuyan Feng ◽  
...  
Keyword(s):  
Plant Growth ◽  
Gene Family ◽  
Growth And Development ◽  
Expression Patterns ◽  
Gene Families ◽  
Plant Growth And Development ◽  
Response Factors ◽  
Auxin Response Factors ◽  
Functional Analyses ◽  
Significant Positive Selection

The family Apiaceae includes many important vegetables and medicinal plants. Auxin response factors (ARFs) play critical roles in regulating plant growth and development. Here, we performed a comprehensive analysis of the ARF gene family in three Apiaceae species, celery, coriander, and carrot, and compared the results with the ARF gene family of lettuce, Arabidopsis, and grape. We identified 156 ARF genes in all six species and 89 genes in the three Apiaceae species, including 28, 34, and 27 in celery, coriander, and carrot, respectively. The paralogous gene number in coriander was far greater than that in carrot and celery. Our analysis revealed that ARF genes of the three Apiaceae species in 34 branches of the phylogenetic tree underwent significant positive selection. Additionally, our findings indicated that whole-genome duplication played an important role in ARF gene family expansion. Coriander contained a greater number of ARF genes than celery and carrot because of more gene duplications and less gene losses. We also analyzed the expression of ARF genes in three tissues by RNA-seq and verified the results by quantitative real-time PCR. Furthermore, we found that several paralogous genes exhibited divergent expression patterns. Overall, this study provides a valuable resource for exploring how ARF family genes regulate plant growth and development in other plants. Since this is the first report of the ARF gene family in Apiaceae, our results will serve as a guide for comparative and functional analyses of ARF and other gene families in Apiaceae.

scholarly journals Genome-wide identification and expression analysis of the 14-3-3 gene family in soybean (Glycine max)

PeerJ ◽  
2019 ◽  
Vol 7 ◽  
pp. e7950 ◽  
Author(s):  
Yongbin Wang ◽  
Lei Ling ◽  
Zhenfeng Jiang ◽  
Weiwei Tan ◽  
Zhaojun Liu ◽  
...  
Keyword(s):  
Plant Growth ◽  
Gene Family ◽  
Stress Responses ◽  
Growth And Development ◽  
Genomic Data ◽  
Evolutionary Analysis ◽  
Rna Seq ◽  
Plant Growth And Development ◽  
Genome Wide ◽  
Gene Structures

In eukaryotes, proteins encoded by the 14-3-3 genes are ubiquitously involved in the plant growth and development. The 14-3-3 gene family has been identified in several plants. In the present study, we identified 22 GmGF14 genes in the soybean genomic data. On the basis of the evolutionary analysis, they were clustered into ε and non-ε groups. The GmGF14s of two groups were highly conserved in motifs and gene structures. RNA-seq analysis suggested that GmGF14 genes were the major regulator of soybean morphogenesis. Moreover, the expression level of most GmGF14s changed obviously in multiple stress responses (drought, salt and cold), suggesting that they have the abilities of responding to multiple stresses. Taken together, this study shows that soybean 14-3-3s participate in plant growth and can response to various environmental stresses. These results provide important information for further understanding of the functions of 14-3-3 genes in soybean.

scholarly journals Insights Into the Molecular Evolution of AT-Hook Motif Nuclear Localization Genes in Brassica napus

2021 ◽  
Vol 12 ◽  
Author(s):  
Wei-Meng Zhang ◽  
Da Fang ◽  
Xiu-Zhu Cheng ◽  
Jun Cao ◽  
Xiao-Li Tan
Keyword(s):  
Brassica Napus ◽  
Plant Growth ◽  
Gene Family ◽  
Nuclear Localization ◽  
Growth And Development ◽  
Gene Organization ◽  
Type I ◽  
Type Ii ◽  
Plant Growth And Development ◽  
Type Iii

AT-hook motif nuclear localization (AHL) proteins belong to a family of transcription factors, and play important roles in plant growth and development and response to various stresses through protein-DNA and protein-protein interactions. To better understand the Brassica napus AHL gene family, AHL genes in B. napus and related species were analyzed. Using Arabidopsis as a reference, 122 AHL gene family members were first identified in B. napus. According to the phylogenetic tree and gene organization, the BnaAHLs were classified into two clades (Clade-A and Clade-B) and three types (Type-I, Type-II, and Type-III). Gene organization and motif distribution analysis suggested that the AHL gene family is relatively conserved during evolution. These BnaAHLs are unevenly distributed on 38 chromosomes and expanded by whole-genome duplication (WGD) or segmental duplication. And large-scale loss events have also occurred in evolution. All types of BnaAHLs are subject to purification or neutral selection, while some positive selection sites are also identified in Type-II and Type-III groups. At the same time, the purification effect of Type-I members are stronger than that of the others. In addition, RNA-seq data and cis-acting element analysis also suggested that the BnaAHLs play important roles in B. napus growth and development, as well as in response to some abiotic and biotic stresses. Protein-protein interaction analysis identified some important BnaAHL-binding proteins, which also play key roles in plant growth and development. This study is helpful to fully understand the origin and evolution of the AHL gene in B. napus, and lays the foundation for their functional studies.

scholarly journals Response of phytohormone mediated plant homeodomain (PHD) family to abiotic stress in upland cotton (Gossypium hirsutum spp.)

2020 ◽  
Author(s):  
Huanhuan Wu ◽  
Lei Zheng ◽  
Ghulam Qanmber ◽  
Mengzhen Guo ◽  
Zhi Wang ◽  
...  
Keyword(s):  
Plant Growth ◽  
Gene Family ◽  
Gene Structure ◽  
Growth And Development ◽  
Expression Patterns ◽  
Plant Tolerance ◽  
Plant Growth And Development ◽  
Functional Studies ◽  
Cotton Species ◽  
Plant Homeodomain

Abstract Background: The sequencing and annotations of cotton genomes provide powerful theoretical support to unravel more physiological and functional information. Plant homeodomain (PHD) protein family has been reported to be involved in regulating various biological processes in plants. However, their functional studies have not yet been carried out in cotton. Results: In this study, 108, 55, and 52 PHD genes were identified in G. hirsutum, G. raimondii, and G. arboreum, respectively. A total of 297 PHD genes from three cotton species, Arabidopsis, and rice were divided into five groups. We performed chromosomal location, phylogenetic relationship, gene structure, and conserved domain analysis for GhPHD genes. GhPHD genes were unevenly distributed on each chromosome, however, more GhPHD genes were distributed on At_05, Dt_05, and At_07 chromosomes. GhPHD proteins depicted conserved domains, and GhPHD genes exhibiting similar gene structure were clustered together. Further, whole genome duplication analysis indicated that purification selection greatly contributed to the functional maintenance of GhPHD gene family. Expression pattern analysis based on RNA-seq data showed that most GhPHD genes showed clear tissue-specific spatiotemporal expression patterns elucidating the multiple functions of GhPHDs in plant growth and development. Moreover, analysis of cis-acting elements revealed that GhPHDs may respond to a variety of abiotic and phytohormonal stresses. In this regard, some GhPHD genes showed good response against abiotic and phytohormonal stresses. Additionally, co-expression network analysis indicated that GhPHDs are essential for plant growth and development, while GhPHD genes response against abiotic and phytohormonal stresses may help to improve plant tolerance in adverse environmental conditions. Conclusion: This study will provide useful information to facilitate further research related to the vital roles of GhPHD gene family in plant growth and development.

scholarly journals Response of phytohormone mediated plant homeodomain (PHD) family to abiotic stress in upland cotton (Gossypium hirsutum spp.)

2020 ◽  
Author(s):  
Huanhuan Wu ◽  
Lei Zheng ◽  
Ghulam Qanmber ◽  
Mengzhen Guo ◽  
Zhi Wang ◽  
...  
Keyword(s):  
Plant Growth ◽  
Gene Family ◽  
Gene Structure ◽  
Growth And Development ◽  
Expression Patterns ◽  
Plant Tolerance ◽  
Plant Growth And Development ◽  
Functional Studies ◽  
Cotton Species ◽  
Plant Homeodomain

Abstract Background: The sequencing and annotations of cotton genomes provide powerful theoretical support to unravel more physiological and functional information. Plant homeodomain (PHD) protein family has been reported to be involved in regulating various biological processes in plants. However, their functional studies have not yet been carried out in cotton.Results: In this study, 108, 55, and 52 PHD genes were identified in G. hirsutum, G. raimondii, and G. arboreum, respectively. A total of 297 PHD genes from three cotton species, Arabidopsis, and rice were divided into five groups. We performed chromosomal location, phylogenetic relationship, gene structure, and conserved domain analysis for GhPHD genes. GhPHD genes were unevenly distributed on each chromosome. However, more GhPHD genes were distributed on At_05, Dt_05, and At_07 chromosomes. GhPHD proteins depicted conserved domains, and GhPHD genes exhibiting similar gene structure were clustered together. Further, whole genome duplication (WGD) analysis indicated that purification selection greatly contributed to the functional maintenance of GhPHD gene family. Expression pattern analysis based on RNA-seq data showed that most GhPHD genes showed clear tissue-specific spatiotemporal expression patterns elucidating the multiple functions of GhPHDs in plant growth and development. Moreover, analysis of cis-acting elements revealed that GhPHDs may respond to a variety of abiotic and phytohormonal stresses. In this regard, some GhPHD genes showed good response against abiotic and phytohormonal stresses. Additionally, co-expression network analysis indicated that GhPHDs are essential for plant growth and development, while GhPHD genes response against abiotic and phytohormonal stresses may help to improve plant tolerance in adverse environmental conditions.Conclusion: This study will provide useful information to facilitate further research related to the vital roles of GhPHD gene family in plant growth and development.

scholarly journals Effects of AtSPS on the Growth and Development of Arabidopsis thaliana under Abiotic Stress

2021 ◽  
pp. 39-44
Author(s):  
Bao-Zhen Zhao ◽  
Yang Yu ◽  
Zhi Yang ◽  
Qi Ding ◽  
Na Cui
Keyword(s):  
Arabidopsis Thaliana ◽  
Abiotic Stress ◽  
Plant Growth ◽  
Stress Resistance ◽  
Growth And Development ◽  
Soluble Sugar ◽  
Test Material ◽  
Insertion Mutant ◽  
Plant Growth And Development ◽  
Dna Insertion

Aims: SPS (Sucrose phosphate synthase) participates in plant growth and yield formation, and plays an important role in plant stress resistance. This study used T-DNA insertion mutant of AtSPS in Arabidopsis as test material. The growth indexes and soluble sugar contents of Arabidopsis thaliana under salt stress, osmotic stress and low temperature stress were determined, which laid the foundation for further understanding the mechanism of SPS in plant growth and development and abiotic stress resistance. Study Design: In order to analyze the mechanism of SPS in plant growth and development and abiotic stress resistance, this study used T-DNA insertion mutant of AtSPS in Arabidopsis as test material. The growth indexes and soluble sugar contents of Arabidopsis thaliana under salt stress, osmotic stress and low temperature stress were determined. Place and Duration of Study: College of Biological Science and Technology, between December 2020 and May 2021. Methodology: The contents of soluble sugar in tomato fruits were measured with HPLC (High performance liquid chromatography). The growth indexes were determined. Results: The results showed that AtSPS played positive regulation roles in seed germination and seedling growth of Arabidopsis thaliana. However, under abiotic stress conditions, AtSPS mutant increased the contents of soluble sugar, suggesting that Arabidopsis thaliana seedlings might improve resistance through osmotic regulating substances. Conclusion: AtSPS played positive regulation roles in seed germination and seedling growth of Arabidopsis. Meanwhile, AtSPS mutant increased the contents of soluble sugar to increase resistance of Arabidopsis under abiotic stresses, and the growth and development were blocked, suggesting that SPS was negative regulatory element to resist abiotic stress.

Sign in / Sign up

Export Citation Format

Share Document