Expression profiling of BSD domain-containing genes in apricot during different developmental stages

Year 2024, , 81 - 84, 02.08.2024

Ali Kıyak

https://doi.org/10.29136/mediterranean.1498904

Abstract

Plant transcription factors are evolutionarily conserved proteins that play an important role in the transcriptional regulation of gene expression by binding to their specific DNA sequences. BSD (mammalian BTF2-like transcription factors, synapse-associated proteins, and DOS2-like proteins) transcription factors are conserved in various species, from protozoa to humans, and are characterized by a typical BSD domain. However, little information is available about their possible roles in plant growth and development, and to date, members of this transcription factor family have not been systematically identified and analyzed in apricot. In this study, two BSD domain-encoding genes were identified in the apricot genome. Expression profile analysis by RT-qPCR revealed that both genes participate in different developmental stages of three different organs in apricot. PaBSD1 was expressed higher than PaBSD2 only in the stamen. Moreover, PaBSD2 was higher expressed than PaBSD1 in four different fruit stages, young leaf, leaf bud, sepal and petal. This study reveals the critical roles of BSD transcription factors in apricot development, with PaBSD1 showing higher expression in stamen and PaBSD2 in various fruit stages and leaf tissues. These findings provide a foundation for future functional studies and apricot breeding programs.

Keywords

Prunus armeniaca, Transcription factor, Expression pattern, RT-qPCR

References

• Ba LJ, Shan W, Xiao YY, Chen JY, Lu, WJ, Kuang, JF (2014) A ripening-induced transcription factor MaBSD1 interacts with promoters of MaEXP1/2 from banana fruit. Plant Cell Reports 33: 1913-1920.
• Bustin SA (2000) Absolute quantification of mRNA using real-time reverse transcription polymerase chain reaction assays. Journal of molecular endocrinology 25(2): 169-193.
• Doerks T, Huber S, Buchner E, Bork P (2002) BSD: A novel domain in transcription factors and synapse-associated proteins. Trends in biochemical sciences 27(4): 168-170.
• Fan Y, Niu X, Huang L, Gros, R, Lu H, Hawkins M, Xiao F (2020) A novel BSD domain-containing transcription factor controls vegetative growth, leaf senescence, and fruit quality in tomato. Journal of Experimental Botany 71(22): 6945-6957.
• Jain M, Nijhawan A, Arora R, Agarwal P, Ray S, Sharma P, Khurana JP (2007) F-box proteins in rice Genome-wide analysis, classification, temporal and spatial gene expression during panicle and seed development, and regulation by light and abiotic stress. Plant physiology 143(4): 1467-1483.
• Jung S, Lee T, Cheng CH, Buble K, Zheng P, Yu J, Main D (2019) 15 years of GDR: New data and functionality in the Genome Database for Rosaceae. Nucleic acids research 47(1): 1137-1145.
• Kostina KF (1960) The use of varietal resources of apricots for breeding. Trud. nikit. bot. Sad. (Trans. Nikita bot. Gdn.) 40: 45-63.
• Letunic I, Khedkar S, Bork P (2021) SMART: Recent updates, new developments and status in 2020. Nucleic acids research 49(1): 458-460.
• Li F, Goto DB, Zaratiegui M, Tang X, Martienssen R, Cande WZ (2005) Two novel proteins, dos1 and dos2, interact with rik1 to regulate heterochromatic RNA interference and histone modification. Current Biology 15(16): 1448-1457.
• Liu F, Li H, Wu J, Wang B, Tian N, Liu J, Cheng C (2021) Genome-wide identification and expression pattern analysis of lipoxygenase gene family in banana. Scientific reports 11(1): 9948.
• Livak KJ, Schmittgen TD (2001) Analysis of relative gene expression data using real-time quantitative PCR and the 2− ΔΔCT method. Methods 25(4): 402-408.
• Niu J, Zhu B, Cai J, Li P, Wang L, Dai H, Lin S (2014) Selection of reference genes for gene expression studies in Siberian Apricot (Prunus sibirica L) Germplasm using quantitative real-time PCR. PloS One 9(8): 103900.
• Olmsted CE (1941) Manual of Cultivated Trees and Shrubs Hardy in North America Exclusive of the Subtropical and Warmer Temperate Regions. Alfred Rehder. Botanical Gazette 102: 3.
• Park J, Kim MJ, Jung SJ, Suh MC (2009) Identification of a novel transcription factor, AtBSD1, containing a BSD domain in Arabidopsis thaliana. Journal of Plant Biology 52: 141-146.
• Raji R, Jannatizadeh A, Fattahi R, Esfahlani MA (2014) Investigation of variability of apricot (Prunus armeniaca L) using morphological traits and microsatellite markers. Scientia Horticulturae 176: 225-231.
• Reichmuth C, Becker S, Benz M, Debel K, Reisch D, Heimbeck G, Buchner E (1995) The sap47 gene of Drosophila melanogaster codes for a novel conserved neuronal protein associated with synaptic terminals. Molecular Brain Research 32(1): 45-54.
• Sato C, Orozco López M (2012) The tomato genome sequence provides insights into fleshy fruit evolution. Nature 485(7400): 635.
• Shivani Awasthi P, Sharma V, Kaur N, Kaur N, Pandey P, Tiwari S (2017) Genome-wide analysis of transcription factors during somatic embryogenesis in banana (Musa spp) cv Grand Naine. PLoS One 12(8): 0182242.
• Tong Z, Gao Z, Wang F, Zhou J, Zhang Z (2009) Selection of reliable reference genes for gene expression studies in peach using real-time PCR. BMC Molecular Biology 10: 1-13.
• Verde I, Abbott AG, Scalabrin S, Jung S, Shu S, Rokhsar DS (2013) The high-quality draft genome of peach (Prunus persica) identifies unique patterns of genetic diversity, domestication and genome evolution. Nature Genetics 45(5): 487-494.
• Wang Z, Buratowski S, Svejstrup JQ, Feaver WJ, Wu X, Kornberg RD, Friedberg EC (1995) The yeast TFB1 and SSL1 genes, which encode subunits of transcription factor IIH, are required for nucleotide excision repair and RNA polymerase II transcription. Molecular and Cellular Biology 15(4): 2288-2293.
• Winter D, Vinegar B, Nahal H, Ammar R, Wilson GV, Provart NJ (2007) An “Electronic Fluorescent Pictograph” browser for exploring and analyzing large-scale biological data sets. PloS One 2(8): 718.