Zhenbing Qiao^1,2, Mengyun Chen^1,2, Wenjun Ma^1,2, Juan Zhao^1,2, Jiaju Zhu^1,2, Kaikai Zhu^1,2, Pengpeng Tan^1,2, Fangren Peng^1,2,*

Phyton-International Journal of Experimental Botany, Vol.93, No.9, pp. 2349-2365, 2024, DOI:10.32604/phyton.2024.056655 - 30 September 2024

Abstract Ammonium nitrogen (NH₄⁺-N) is one of the main forms of nitrogen absorbed and utilized by plants, and mastering the regulatory mechanism of plant ammonium assimilation is a key way to improve the efficiency of plant nitrogen utilization. Glutamine synthetase (GS) and glutamate synthase (GOGAT), two key enzymes for ammonium assimilation, have rarely been studied in pecan. In this study, GS and GOGAT family members of pecan were identified and analyzed using bioinformatics methods. The results indicated that 6 GS and 4 GOGAT genes were identified. The cis-acting elements can be broadly categorized into light-responsive, hormone-responsive, and stress-responsive elements.… More >

Dongxue Su¹, Jiarui Zheng¹, Yuwei Yi¹, Shuyuan Zhang¹, Luxin Feng¹, Danzeng Quzhen², De Qiong³, Weiwei Zhang¹, Qijian Wang¹, Feng Xu^1,*

Phyton-International Journal of Experimental Botany, Vol.93, No.9, pp. 2317-2337, 2024, DOI:10.32604/phyton.2024.055350 - 30 September 2024

Abstract The multifaceted roles of MYB transcriptional regulators are pivotal in orchestrating the complex processes of secondary metabolism, stress tolerance mechanisms, and life cycle progression and development. This study extensively examined the JrMYB genes using whole genome and transcriptomic data, focusing on identifying putative MYB genes associated with fatty acid metabolism. 126 MYB genes were identified within the walnut genome, characterized by hydrophilic proteins spanning lengths ranging from 78 to 1890 base pairs. Analysis of cis-acting elements within the promoter regions of MYB genes revealed many elements linked to cell development, environmental stress, and phytohormones. Transcriptomic data was utilized… More > Graphic Abstract

Mingyuan Luo¹, Shiyu Tian¹, Xinzhuan Yao², Yue Wan⁴, Zhouzhuoer Chen¹, Zifan Yang⁴, Huagen Hao⁴, Fei Liu³, Hu Tang^1,2,*, Litang Lu^1,2,*

Phyton-International Journal of Experimental Botany, Vol.93, No.8, pp. 2019-2036, 2024, DOI:10.32604/phyton.2024.052938 - 30 August 2024

Abstract The ATP-binding cassette (ABC) transporter is a gene superfamily in plants. ATP-binding cassette subfamily C (ABCC) protein is a multidrug resistance-associated (MRP) transporter. They play various roles in plant growth, development, and secondary metabolite transport. However, there are few studies on ABCC transporters in tea plants. In this study, genome-wide association study (GWAS) analysis of epigallocatechin gallate (EGCG) content in 108 strains of Kingbird revealed that CsABCCs may be involved in EGCG transport. We identified 25 CsABCC genes at the genomic level of the tea plant, their phylogenetic tree, gene structure, targeted miRNA and other bioinformatics… More >

Xianwen Ji^#, Ziying Jiang^#, Jichao Wang, Lili Dong, Xinyi Deng^*

Phyton-International Journal of Experimental Botany, Vol.93, No.8, pp. 1839-1850, 2024, DOI:10.32604/phyton.2024.052809 - 30 August 2024

Abstract Genes in the glycogen synthase kinase 3 (GSK3) family are essential in regulating plant response to stressful conditions. This study employed bioinformatics to uncover the GSK3 gene family from the sunflower genome database. The expressions of GSK3 genes in different tissues and stress treatments, such as salt, drought, and cold, were assessed using transcriptome sequencing and quantitative real-time PCR (qRT-PCR). The study results revealed that the 12 GSK3 genes of sunflower, belonging to four classes (Classes I–IV), contained the GSK3 kinase domain and 11–13 exons. The majority of GSK3 genes were highly expressed in the leaf axil and… More >

Shoukai Lin^1,3,4,*, Yifan Xiong², Shichang Xu^1,2, Manegdebwaoaga Arthur Fabrice Kabore², Fan Lin⁵, Fuxiang Qiu^1,2,*

Phyton-International Journal of Experimental Botany, Vol.93, No.7, pp. 1485-1502, 2024, DOI:10.32604/phyton.2024.050990 - 30 July 2024

Abstract The SWEET (sugar will eventually be exported transporter) family proteins are a recently identified class of sugar transporters that are essential for various physiological processes. Although the functions of the SWEET proteins have been identified in a number of species, to date, there have been no reports of the functions of the SWEET genes in woodland strawberries (Fragaria vesca). In this study, we identified 15 genes that were highly homologous to the A. thaliana AtSWEET genes and designated them as FvSWEET1–FvSWEET15. We then conducted a structural and evolutionary analysis of these 15 FvSWEET genes. The phylogenetic analysis enabled us… More >

Zhengfeng Lai, Dongmei Lian, Shaoping Zhang, Yudong Ju, Bizhen Lin, Yunfa Yao, Songhai Wu, Jianji Hong, Zhou Li^*

Phyton-International Journal of Experimental Botany, Vol.93, No.6, pp. 1143-1158, 2024, DOI:10.32604/phyton.2024.051207 - 27 June 2024

Abstract The cytokinin oxidase/dehydrogenase (CKX) enzyme is essential for controlling the fluctuating levels of endogenous cytokinin (CK) and has a significant impact on different aspects of plant growth and development. Nonetheless, there is limited knowledge about CKX genes in tomato (Solanum lycopersicum L.). Here we performed genome-wide identification and analysis of nine SlCKX family members in tomatoes using bioinformatics tools. The results revealed that nine SlCKX genes were unevenly distributed on five chromosomes (Chr.1, Chr.4, Chr.8, Chr.10, and Chr.12). The amino acid length, isoelectric points, and molecular weight of the nine SlCKX proteins ranged from 453 to 553, 5.77… More >

Honghui Sun^1,2,#, Ruichao Liu^1,2,#, Yueting Qi¹, Hongsheng Gao¹, Xueting Wang¹, Ning Jiang^1,2, Xiaotong Guo^1,2, Hongxia Zhang¹, Chunyan Yu^1,2,*

Phyton-International Journal of Experimental Botany, Vol.93, No.3, pp. 533-549, 2024, DOI:10.32604/phyton.2024.049417 - 28 March 2024

Abstract Grapes, one of the oldest tree species globally, are rich in vitamins. However, environmental conditions such as low temperature and soil salinization significantly affect grape yield and quality. The glutamate receptor (GLR) family, comprising highly conserved ligand-gated ion channels, regulates plant growth and development in response to stress. In this study, 11 members of the VvGLR gene family in grapes were identified using whole-genome sequence analysis. Bioinformatic methods were employed to analyze the basic physical and chemical properties, phylogenetic trees, conserved domains, motifs, expression patterns, and evolutionary relationships. Phylogenetic and collinear analyses revealed that the VvGLRs… More >

Peiling Wang^1,#, Xiaohong Xu^2,#, Yong Li², Hecui Zhang¹, Xuejie Zhang³, Siru Zhou¹, Yimei Liu¹, Yunyan Feng¹, Tonghong Zuo¹, Liquan Zhu^1,*

Phyton-International Journal of Experimental Botany, Vol.92, No.5, pp. 1469-1492, 2023, DOI:10.32604/phyton.2023.027133 - 09 March 2023

Abstract Phytocyanin (PC) is a class of plant-specific blue copper proteins involved in electron transport, plant growth, development, and stress resistance. However, PC proteins have not been systematically evaluated in tobacco plants. We determined the whole-genome sequences of the PC family in the tobacco cultivar ‘K326.’ The transcriptome data were used to analyze the expression of the NtPC family at different development stages and tissue-specific genes. Real-time fluorescence quantitative analysis was used to analyze the expression of the NtPC gene family under low temperature and methyl jasmonate stress. The tobacco NtPC family contained 110 members and was divided… More >

Mortaza Hajyzadeh^*

Phyton-International Journal of Experimental Botany, Vol.92, No.5, pp. 1649-1664, 2023, DOI:10.32604/phyton.2023.028028 - 09 March 2023

Abstract Abiotic stresses at different growth stages in the life of plants negatively affect yield productivity. Therefore, plants, including Amaranthus hypochondriacus, develop adaptive strategies to face the stresses and expand functional diversification. In plants, the mitochondrial transcription termination factors (mTERF) are essential functions in regulation, and organelles (mitochondria and chloroplasts) control gene expression (OGE) under several stress conditions. Based on the in-silico-wide genome and transcriptome analysis, twenty-four mTERF genes were detected in the main targeted mitochondria organelles clustered into three different main groups. The chromosomal location and gene duplication analysis indicated one segmental and one tandem duplication in… More >

Yanhua Li^1,#, Hualei Huang^1,#, Youming Shi¹, Shuqin Huang¹, Tao Liu¹, Changming Xiao¹, Xiaoqing Tian², Ping Zhao¹, Xiaoyan Dai³, Taocui Huang^1,*, Yan Zhou^1,*

Phyton-International Journal of Experimental Botany, Vol.92, No.3, pp. 815-835, 2023, DOI:10.32604/phyton.2023.023928 - 29 November 2022

Abstract Gibberellin 2-oxidases (GA2ox) are important enzymes that maintain the balance of bioactive GAs in plants. GA2ox genes have been identified and characterized in many plants, but these genes were not investigated in Brassica napus. Here, we identified 31 GA2ox genes in B. napus and 15 of these BnaGA2ox genes were distributed in the A and C subgenomes. Subcellular localization predictions suggested that all BnaGA2ox proteins were localized in the cytoplasm, and gene structure analysis showed that the BnaGA2ox genes contained 2–4 exons. Phylogenetic analysis indicated that BnGA2ox family proteins in monocotyledons and dicotyledons can be divided into four groups, including two… More >