Comprehensive Genomic Survey, Evolution, and Expression Analysis of GIF Gene Family during the Development and Metal Ion Stress Responses in Soybean

Alam, Intikhab; Wu, Xueting; Ge, Liangfa

doi:10.3390/plants11040570

Cited by 4 publications

(2 citation statements)

References 62 publications

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“…Heavy metal contamination has become a critical environmental problem. The accumulation of heavy metals in plants not only hampers plant yield and productivity, but threatens human health throughout the food chain ( Alam et al, 2022 ). Cd is one of the most toxic heavy metal contaminants due to its long biological half-life and non-biodegradability ( Cirmi et al, 2021 ; Altaf et al, 2022 ).…”

Section: Discussionmentioning

confidence: 99%

Genome-wide identification of myeloblastosis gene family and its response to cadmium stress in Ipomoea aquatica

et al. 2022

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The myeloblastosis (MYB) proteins perform key functions in mediating cadmium (Cd) tolerance of plants. Ipomoea aquatica has strong adaptability to Cd Stress, while the roles of the I. aquatica MYB gene family with respect to Cd stress are still unclear. Here, we identified a total of 183 MYB genes in the I. aquatica genome (laMYB), which were classified into 66 1R-type IaMYB, 112 2R-type IaMYB, four 3R-type IaMYB, and one 4R-type IaMYB based on the number of the MYB repeat in each gene. The analysis of phylogenetic tree indicated that most of IaMYB genes are associated with the diverse biological processes including defense, development and metabolism. Analysis of sequence features showed that the IaMYB genes within identical subfamily have the similar patterns of the motif distributions and gene structures. Analysis of gene duplication events revealed that the dispersed duplication (DSD) and whole-genome duplication (WGD) modes play vital roles in the expansion of the IaMYB gene family. Expression profiling manifests that approximately 20% of IaMYB genes had significant role in the roots of I. aquatica under Cd stress. Promoter profiling implied that the differentially expressed genes might be induced by environmental factors or inherent hormones and thereby execute their function in Cd response. Remarkably, the 2R-type IaMYB157 with abundant light-responsive element G-box and ABA-responsive element ABRE in its promoter region exhibited very strong response to Cd stress. Taken together, our findings provide an important candidate IaMYB gene for further deciphering the molecular regulatory mechanism in plant with respect to Cd stress.

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Section: Discussionmentioning

confidence: 99%

Genome-wide identification of myeloblastosis gene family and its response to cadmium stress in Ipomoea aquatica

et al. 2022

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“…GIF2 and GIF3 genes in A. thaliana can promote cell proliferation and affect leaf size [ 24 ]. Additionally, GIF genes play important roles in internode growth [ 23 ], lateral root development [ 25 ], and response to heavy metal stress [ 26 ].…”

Section: Introductionmentioning

confidence: 99%

Genome-wide molecular evolution analysis of the GRF and GIF gene families in Plantae (Archaeplastida)

Chen,

Zhang,

Wang

et al. 2024

BMC Genomics

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Background Plant growth-regulating factors (GRFs) and GRF-interacting factors (GIFs) interact with each other and collectively have important regulatory roles in plant growth, development, and stress responses. Therefore, it is of great significance to explore the systematic evolution of GRF and GIF gene families. However, our knowledge and understanding of the role of GRF and GIF genes during plant evolution has been fragmentary. Results In this study, a large number of genomic and transcriptomic datasets of algae, mosses, ferns, gymnosperms and angiosperms were used to systematically analyze the evolution of GRF and GIF genes during the evolution of plants. The results showed that GRF gene first appeared in the charophyte Klebsormidium nitens, whereas the GIF genes originated relatively early, and these two gene families were mainly expanded by segmental duplication events after plant terrestrialization. During the process of evolution, the protein sequences and functions of GRF and GIF family genes are relatively conservative. As cooperative partner, GRF and GIF genes contain the similar types of cis-acting elements in their promoter regions, which enables them to have similar transcriptional response patterns, and both show higher levels of expression in reproductive organs and tissues and organs with strong capacity for cell division. Based on protein–protein interaction analysis and verification, we found that the GRF–GIF protein partnership began to be established in pteridophytes and is highly conserved across different terrestrial plants. Conclusions These results provide a foundation for further exploration of the molecular evolution and biological functions of GRF and GIF genes.

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Comprehensive in silico characterization of soybean (Glycine max L.) isoflavone reductase genes and their expressions in response to spermidine and ultrasonication

Rizwan,

He,

Nawaz

et al. 2024

Plant Stress

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Comprehensive Genomic Survey, Evolution, and Expression Analysis of GIF Gene Family during the Development and Metal Ion Stress Responses in Soybean

Cited by 4 publications

References 62 publications

Genome-wide identification of myeloblastosis gene family and its response to cadmium stress in Ipomoea aquatica

Genome-wide identification of myeloblastosis gene family and its response to cadmium stress in Ipomoea aquatica

Genome-wide molecular evolution analysis of the GRF and GIF gene families in Plantae (Archaeplastida)

Comprehensive in silico characterization of soybean (Glycine max L.) isoflavone reductase genes and their expressions in response to spermidine and ultrasonication

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