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. 2023 Jan 23:11:e14690.
doi: 10.7717/peerj.14690. eCollection 2023.

Genome-wide identification and expression reveal the involvement of the FCS-like zinc finger (FLZ) gene family in Gossypium hirsutum at low temperature

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Genome-wide identification and expression reveal the involvement of the FCS-like zinc finger (FLZ) gene family in Gossypium hirsutum at low temperature

JunDuo Wang et al. PeerJ. .

Abstract

FCS-like zinc finger (FLZ) is a plant-specific gene family that plays an important regulatory role in plant growth and development and its response to stress. However, studies on the characteristics and functions of cotton FLZ family genes are still lacking. This study systematically identified members of the cotton FLZ gene family based on cotton genome data. The cotton FLZ family genes were systematically analyzed by bioinformatics, and their expression patterns in different tissues and under low-temperature stress were analyzed by transcriptome and qRT-PCR. The G. hirsutum genome contains 56 FLZ genes distributed on 20 chromosomes, and most of them are located in the nucleus. According to the number and evolution analysis of FLZ family genes, FLZ family genes can be divided into five subgroups in cotton. The G. hirsutum FLZ gene has a wide range of tissue expression types, among which the expression is generally higher in roots, stems, leaves, receptacles and calyx. Through promoter analysis, it was found that it contained the most cis-acting elements related to methyl jasmonate (MeJA) and abscisic acid (ABA). Combined with the promoter and qRT-PCR results, it was speculated that GhFLZ11, GhFLZ25, GhFLZ44 and GhFLZ55 were involved in the response of cotton to low-temperature stress. Taken together, our findings suggest an important role for the FLZ gene family in the cotton response to cold stress. This study provides an important theoretical basis for further research on the function of the FLZ gene family and the molecular mechanism of the cotton response to low temperature.

Keywords: Cotton; Evolutionary analysis; Expression analysis; FLZ gene family; Low-temperature stress.

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Conflict of interest statement

Junduo Wang, Yajun Liang, Juyun Zheng, Zhaolong Gong, Xueyuan Li are employees of the Cash Crops Research Institute of Xinjiang Academy of Agricultural Science, China. Zhiqiang Li, Guohui Zhou and Yuhui Xu are employed by Adsen Biotechnology Co., Ltd., China. The authors declare that they have no competing interests.

Figures

Figure 1
Figure 1. Chromosomal localization of the G. hirsutum FLZ gene.
Figure 2
Figure 2. Phylogenetic tree of the cotton FLZ gene family.
(A) Phylogenetic tree of Arabidopsis thaliana, rice and G. hirsutum. (B) Phylogenetic tree of G. arboreum, G. raimondii, G. barbadense and G. hirsutum.
Figure 3
Figure 3. Chromosome collinearity analysis of cotton FLZ gene.
(A) FLZ collinearity in G. hirsutum, rice and Arabidopsis. The purple line represents the collinearity of each Arabidopsis in G. hirsutum, and the blue line represents the collinearity between G. hirsutum and rice. (B) FLZ collinearity analysis in G. arboreum, G. raimondii, G. hirsutum and G. barbadense. Purple lines represent the collinearity of G. hirsutum and G. arboreum A subgenomic FLZ genes. Green lines represent the collinearity of G. hirsutum and G. barbadense FLZ genes. The orange line represents the collinearity of G. hirsutum and G. raimondii D subgenomic FLZ genes.
Figure 4
Figure 4. Evolutionary tree, gene structure and conserved motif analysis of the G. hirsutum FLZ gene family.
Figure 5
Figure 5. Quantitative analysis of cis-acting elements in the promoter region of G. hirsutum FLZ family genes.
Figure 6
Figure 6. Expression analysis of G. hirsutum FLZ gene.
(A) Tissue-specific expression analysis of FLZ genes from G. hirsutum based on transcriptome data. (B) Expression analysis of the FLZ genes from G. hirsutum under cold stress based on transcriptome data.
Figure 7
Figure 7. Expression analysis of the FLZ gene in 86-1 and Lumian 2 under low temperature.
Error bars represent the average of three replicates ± SD. The difference from the control group is statistically significant, *P < 0.05; **P < 0.01.
Figure 8
Figure 8. Expression analysis of GhFLZ11, GhFLZ25, GhFLZ44 and GhFLZ55 in 86-1 and Lumian2 under low temperature conditions.
Error bars represent the average of three replicates ± SD. The difference from the control group is statistically significant, ∗∗P < 0.01.

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This work was supported by the Major Science and Technology Project of Xinjiang Uygur Autonomous Region (2021A02001-4). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.

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