Sequence Characterization of PRX Family and Expression Analysis in the Process of Fruiting Body Development in Flammulina filiformis

doi:10.16420/j.issn.0513-353x.2023-0929

Acta Horticulturae Sinica ›› 2025, Vol. 52 ›› Issue (2): 337-348.doi: 10.16420/j.issn.0513-353x.2023-0929

• Genetic & Breeding·Germplasm Resources·Molecular Biology • Previous Articles Next Articles

Sequence Characterization of PRX Family and Expression Analysis in the Process of Fruiting Body Development in Flammulina filiformis

TONG Zongjun¹, HAN Xing¹, DUAN Xinlian¹, LIU Yuanyuan², LIN Junbin¹, GAN Ying¹, CHEN Jie¹, XIE Baogui², GAN Bingcheng¹^,^*(), YAN Junjie¹^,^*()

¹ Chengdu Agricultural Science and Technology Center，Institute of Urban Agriculture，Chinese Academy of Agricultural Sciences，Chengdu 610213，China
² Mycological Research Center，College of Life Sciences，Fujian Agriculture and Forestry University，Fuzhou 350002，China

Received:2024-09-14 Revised:2024-10-11 Online:2025-02-25 Published:2025-02-23
Contact: GAN Bingcheng, YAN Junjie

Abstract

Abstract:

To understand the sequence and expression characteristics of the PRX family genes in Flammulina filiformis，bioinformatics methods were used to screen and identify the PRX gene family sequences from the whole genome of F. filiformis. Subsequently，the members of the gene family were analyzed in terms of gene structure，sequence characterization，chromosomal localization，cis-acting elements，and expression patterns. The results showed that there were six PRX genes distributed on six different chromosomes and localized in different cellular locations. The evolutionary analysis showed that the six genes could be classified into five subfamilies，namely 1CysPRX，2CysPRX，PRXQ，PRXⅡ，and PRXⅤ. The analysis of the cis-acting elements showed that the six genes contained cis-acting elements related to the growth，development，abiotic stresses. Expression pattern analysis showed that members of the gene family had different expression in different developmental periods and tissues of F. filiformis. The expression of FfPRXQ1 and FfPRXⅤ were significantly higher in the pileus of maturation stage than that in other parts，and the expression of Ff1CysPRX，FfPRXⅡ，and FfPRXⅤ were higher in the stable region than the elongation region and transitional region of the stipe. The expression of FfPRXQ2 was significantly higher in the stipe than in the pileus，and the expression at different periods of cap development，showing a first increase and then a decrease. The above results indicated that the PRX family genes were involved in the developmental regulation of the fruiting-body of F. filiformis，and there were obvious differences in the expression patterns.

Key words: Flammulina filiformis, class Ⅲ peroxidase, fruiting-body development, expression analysis

TONG Zongjun, HAN Xing, DUAN Xinlian, LIU Yuanyuan, LIN Junbin, GAN Ying, CHEN Jie, XIE Baogui, GAN Bingcheng, YAN Junjie. Sequence Characterization of PRX Family and Expression Analysis in the Process of Fruiting Body Development in Flammulina filiformis[J]. Acta Horticulturae Sinica, 2025, 52(2): 337-348.

Figures/Tables 10

Table 1 Primers used in real-time quantitative PCR

基因 Gene	正向引物（5′-3′） Forward sequence	反向引物（5′-3′） Reverse sequence
Ff1CysPRX	CTCCCCTTCACCATCCGAAC	TTCCAATTGACGGGGGTAGC
Ff2CysPRX	TCTTGGCCCCGATCTCAAAC	ACTGTGATTTGGCGAAGGGT
FfPRXQ1	GCGAGAGTTGATTTCCGCAC	CGAGCTTTGGACTATCGGCT
FfPRXQ2	AGAGGGCGACGTTTGTGATT	ACGTCAAAGTCTCCGCAACA
FfPRXⅡ	CCTACATTCCCTACGCACCC	TAGGGCGGGAGATGGTTTTG
FfPRXⅤ	TACCCGACGTCAAGTTGCTC	GCACGCCGATAATGACGAAC
FfGAPDH	CCTCTGCTCACTTGAAGGGT	GCGTTGGAGATGACTTTGAA
FfRas	TCAATGCGACGAGTAAAGAGAGG	CATAGGTCCCACATCTACATTTCG

Table 2 Characteristic analysis of amino acid sequences of six members of the PRX family of Flammulina filiformis

蛋白名称 Protein name	氨基酸长度/aa Protein length	分子量/kD Molecular weight	等电点 Theoretical pI	跨膜数量 Transmembr- anehelices number	信号肽 Signal peptide	亚细胞定位（得分） Sub-cellular localization（score）
Ff1CysPRX	239	26.79	6.39	0	无No	线粒体Mitochondrial（4.0）
Ff2CysPRX	206	22.72	5.08	1	无No	细胞质Cytoplasmic（5.6）
FfPRXⅡ	171	18.32	5.24	1	无No	细胞质Cytoplasmic（3.5）
FfPRXⅤ	193	20.63	5.69	2	无No	膜结合线粒体Membrane-bound Peroxisomal（8.8）
FfPRXQ1	225	24.45	7.61	0	无No	细胞核Nuclear（2.4）
FfPRXQ2	175	19.19	7.92	1	无No	膜结合线粒体 Membrane-bound Mitochondrial（8.0）

Fig. 1 Phylogenetic tree of PRX family genes of Flammulina filiformis and its orthologous in multiple species

Fig. 2 Conserved domain analysis of amino acid sequences of the PRX family of Flammulina filiformis Protein conserved domain numbers in the CDD database are in parentheses

Fig. 3 Chromosome location of FfPRX family genes in the Flammulina filiformis

Fig. 4 Gene structure of FfPRX family genes in the Flammulina filiformis

Fig. 5 Analysis of cis-acting elements in promoter sequence of FfPRX family genes

Fig. 6 Relative expression levels of FfPRX family genes at developmental periods of Flammulina filiformis One-way ANOVA was used for significance analysis. The different lowercase letters over the columns within the same graph denote significant differences. P < 0.05，n = 3. The same below

Fig. 7 Relative expression levels of FfPRX family genes in different stipe regions of Flammulina filiformis

Fig. 8 Relative expression levels of FfPRX family genes in different pileus of Flammulina filiformis

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Sequence Characterization of PRX Family and Expression Analysis in the Process of Fruiting Body Development in Flammulina filiformis

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