AUTHOR=Wang Ning , Lin Chenyi , Yang Zhongmin , Zhao Dan 

TITLE=Transcriptome and genome-wide analysis of the potential role of SKP1 gene family in the development of floral organs of two related species of Allium fistulosum

JOURNAL=Frontiers in Plant Science

VOLUME=15

YEAR=2024

URL=https://www.frontiersin.org/journals/plant-science/articles/10.3389/fpls.2024.1470780

DOI=10.3389/fpls.2024.1470780

ISSN=1664-462X

ABSTRACT=<p><italic>Allium fistulosum</italic> is an important plant germplasm resource, rich in nutrients and possessing unique medicinal value. However, due to its small floral organs, low seed setting rate of a single flower, high cost of artificial emasculation, and artificial pollination, the use of male sterile lines to prepare <italic>Allium</italic> hybrids has become a common choice. In this study, <italic>A. fistulosum</italic> var. <italic>viviparum</italic> Makino and <italic>A. galanthum</italic> were used as materials to study the regulation mechanism of anther development, aiming to provide a reference for male sterility. Through transcriptome differential gene screening and genome-wide bioinformatics analysis, 34 <italic>SKP1</italic> (S-phase kinase-associated protein 1) genes (<italic>AfSKP1-1</italic> to <italic>AfSKP1-34</italic>) were identified in the whole genome of <italic>A. fistulosum.</italic> The <italic>AfSKP1</italic> genes are unevenly distributed on eight chromosomes. Furthermore, two pairs of collinear relationships are evident among family members, and fragment replication events between <italic>AfSKP1</italic> genes have been identified. The phylogenetic tree analysis demonstrated that the <italic>AfSKP1, AtSKP1, OsSKP1</italic>, and <italic>SlSKP1</italic> genes were clustered into six groups, exhibiting a gene structure analogous to that observed in members of an evolutionary classification. A combination of gene structure and phylogenetic analysis revealed the presence of cis-acting elements associated with growth, hormone regulation, and stress response within the <italic>AfSKP1</italic> genes. Furthermore, expression analysis demonstrated that the <italic>AfSKP1</italic> genes exhibited differential expression patterns across various tissues of <italic>A. fistulosum</italic>. The tissue-specific expression of the <italic>AfSKP1</italic> gene was verified by Real-Time PCR. A comparison of the two materials revealed significant differences in the expression of the <italic>AfSKP1-8</italic> gene in floral buds, the <italic>AfSKP1-11</italic> gene in inflorescence meristems, and the <italic>AfSKP1-14</italic> gene in inflorescence meristems, scapes, and floral buds. The results indicated that the three genes may be involved in anther development, thereby providing a theoretical basis for further study of floral organ development and pollen development in <italic>AfSKP1</italic> family members.</p>