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 >

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 >

Mingchuan Yang¹, Jia Zheng², Wenhui Yu¹, Yanghua Li², Yali Wang¹, Zilu Zhang¹, Zhenhui Kang^1,*

Phyton-International Journal of Experimental Botany, Vol.93, No.7, pp. 1503-1521, 2024, DOI:10.32604/phyton.2024.051718 - 30 July 2024

Abstract Sorghum is not only an important bio-energy crop but also a vital raw material for brewing. Exogenous copper affects the growth and metabolism of crops in specific ways. This study identified 8475 differentially expressed genes (DEGs) by high-throughput transcriptome sequencing in the sorghum cultivar ‘Jinnuoliang 2’ after 24 h of treatment with 10 mM CuSO. Using GO analysis, 476 genes were functionally annotated, which were mainly related to catabolism and biosynthetic processes. Additionally, 90 pathways were annotated by employing the KEGG analysis. Among them, glutathione metabolism and peroxisome were induced, while photosynthesis, photosynthesis-antenna protein, and… 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 >

Cong Hou¹, Kang Ning¹, Xiuye Wei¹, Yufei Cheng¹, Huatao Yu¹, Haibin Yu², Xia Liu^1,*, Linlin Dong^1,*

Phyton-International Journal of Experimental Botany, Vol.92, No.7, pp. 2087-2103, 2023, DOI:10.32604/phyton.2023.029041 - 29 May 2023

Abstract Abscisic acid (ABA) is involved in regulating diverse biological processes, but its signal transduction genes and roles in hemp seed germination are not well known. Here, the ABA signaling pathway members, PYL, PP2C and SnRK2 gene families, were identified from the hemp reference genome, including 7 CsPYL (pyrab-actin resistance1-like, ABA receptor), 8 CsPP2CA (group A protein phosphatase 2c), and 7 CsSnRK2 (sucrose nonfermenting1-related protein kinase 2). The content of ABA in hemp seeds in germination stage is lower than that in non-germination stage. Exogenous ABA (1 or 10 μM) treatment had a significant regulatory effect on the selected PYL,… 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 >

XIN LI¹, JIANMIN PAN¹, FAISAL ISLAM², JUANJUAN LI¹, ZHUONI HOU¹, ZONGQI YANG¹, LING XU^1,*

BIOCELL, Vol.46, No.8, pp. 1947-1958, 2022, DOI:10.32604/biocell.2022.019806 - 22 April 2022

Abstract NAC (NAM, ATAF, CUC) is a class of transcription factors involved in plant growth regulation, abiotic stress responses, morphogenesis and metabolism. Salvia miltiorrhiza is an important Chinese medicinal herb, but the characterization of NAC genes in this species is limited. In this study, based on the Salvia miltiorrhiza genomic databases, 82 NAC transcription factors were identified, which were divided into 14 groups. Meanwhile, phylogenetic analysis, gene structure, chromosomal localization and potential role of SmNACs in abiotic stress conditions were also studied. The results revealed that some SmNACs had different structures than others, which advised that these genes may have multiple/distinct More >

JIANMIN PAN¹, XIN LI¹, JUANJUAN LI¹, HUI LIU², ZHUONI HOU¹, ZONGQI YANG¹, LING XU^1,*

BIOCELL, Vol.46, No.7, pp. 1751-1762, 2022, DOI:10.32604/biocell.2022.019455 - 17 March 2022

Abstract Plant U-box (PUB) E3 ubiquitin ligases play important roles in hormone signaling pathways and in response to different abiotic stresses, but little is known about U-box genes in Danshen (root of Salvia miltiorrhiza Bunge). Here, we identified and characterized 70 SmPUB genes based on its genome sequence. Phylogenetic analysis of U-box genes from S. miltiorrhiza and Arabidopsis suggested that they can be clustered into seven subgroups (I–VII). Typical U-box domains were found in all identified SmPUB genes through the analysis of conserved motifs. Moreover, qRT-PCR was applied to analyze the relative expression levels of U-box genes in S. miltiorrhiza roots and More >

SITI NABILAH^1,2; TRI HANDOYO^2,3; KYUNG-MIN KIM⁴; MOHAMMAD UBAIDILLAH^2,*

BIOCELL, Vol.46, No.7, pp. 1633-1641, 2022, DOI:10.32604/biocell.2022.019111 - 17 March 2022

Abstract Somatic embryogenesis is an asexual reproduction process that occurs in many plant species, including rice. This process contains several totipotency markers such as Somatic Embryogenesis Receptor-like Kinase (SERK), Leafy Cotyledon1 (LEC1) and WUSCHEL-Related Homeobox4 (WOX4) and also a helpful model for embryo development and clones and transformations. Here, we report the gene expression during somatic embryo development correlates with regeneration frequency in 14 Javanica rice (pigmented and non-pigmented) using modifified N6 media supplemented with Kinetin (2.0 mg/L) and NAA (1.0 mg/L). Although there have been advances in understanding the genetic basis of somatic embryogenesis in… More >

QUANWEI LU^1,2,#, YUZHEN SHI^2,#, RUILI CHEN^1,2, XIANGHUI XIAO^2,3, PENGTAO LI^1,2, JUWU GONG^2,3, RENHAI PENG¹, YOULU YUAN^2,*

BIOCELL, Vol.46, No.5, pp. 1347-1356, 2022, DOI:10.32604/biocell.2022.018254 - 06 January 2022

Abstract Aluminum-activated malate transporters (ALMT) are widely involved in plant growth and metabolic processes, including adaptation to acid soils, guard cell regulation, anion homeostasis, and seed development. Although ALMT genes have been identified in Arabidopsis, wheat, barley, and Lotus japonicus, little is known about its presence in Gossypium hirsutum L. In this study, ALMT gene recognition in diploid and tetraploid cotton were done using bioinformatics analysis that examined correlation between homology and evolution. Differentially regulated ALMT genetic profile in G. hirsutum was examined, using RNA sequencing and qRT-PCR, during six fiber developmental time-points, namely 5 d, 7 d, 10 d, 15 d,… More >