Xiaodong Shi^1,*, Yue Qi¹, Liangzhu Lin¹, Jia Wang¹, Xiaobo Qin², Bei Niu^3,*

Phyton-International Journal of Experimental Botany, Vol.92, No.11, pp. 3149-3162, 2023, DOI:10.32604/phyton.2023.027324

Abstract Tartary buckwheat (Fagopyrum tataricum) is a dual-purpose medicinal and food crop grown for its high contents of functional compounds and abundant nutrients. Although studies have shown the differences of total flavonoid content in Tartary buckwheat at different ploidy levels, the composition of flavonoid and its regulatory mechanisms are largely unknown. In this study, the leaf metabolome and transcriptome of diploid and tetraploid accessions of Tartary buckwheat were analyzed to gain insight into the impact of polyploidization on comparative secondary metabolite composition and molecular regulatory mechanism. Based on a widely targeted metabolomics analysis, a total of 792 metabolites were identified, including… More >

NAN TANG^1,#, YAJING ZHAN^1,#, JIAYAN MAO^2,#, ANKANG YIN¹, WEI WANG^3,*, JUAN WANG^3,*

BIOCELL, Vol.47, No.9, pp. 2009-2026, 2023, DOI:10.32604/biocell.2023.029269

Abstract Non-small cell lung cancer (NSCLC) is a malignant tumor with high incidence worldwide. Triptolide (TP), extracted from Tripterygium wilfordii Hook F, exhibits potent broad-spectrum antitumor activity. Although some mechanisms through which TP inhibits NSCLC are well understood, those that involve ribosomal proteins remain yet to be understood. In this study, the transcriptome and proteome were integrated and analyzed. Our data indicated ribosomal protein L4 (RPL4) to be a core hub protein in the protein-protein interaction network. RPL4 is overexpressed in NSCLC tissues and cells. Transfection with siRPL4 or TP treatment alone arrested the cell cycle in the G1 phase, induced… More > Graphic Abstract

XUEJIN YANG^1,2,#, YUANYUAN ZHOU^1,#, XINYI PENG¹, XIAOHONG FU¹, JIANQING MA¹, JIANFENG LIU^1,*, DANDAN CAO^1,2,*

BIOCELL, Vol.47, No.9, pp. 2101-2113, 2023, DOI:10.32604/biocell.2023.029581

Abstract Background: Plant root-knot nematode (RKN) disease is a serious threat to agricultural production across the world. Meloidogyne incognita is the most prominent pathogen to the vegetables and cash crops cultivated. Arachis hypogaea can effectively inhibit M. incognita, but the underlying defense mechanism is still unclear. Methods: In our study, the chemotaxis and infestation of the second-stage juveniles (J2s) of M. incognita to A. hypogaea root tips were observed by the Pluronic F-127 system and stained with sodium hypochlorite acid fuchsin, respectively. The transcriptome data of A. hypogaea roots with non-infected or infected by J2s were analyzed. Results: The J2s could… More >

Zhaoli Chen, Ying Liu^*, Bingshan Zeng, Qingbin Jiang, Shengkun Wang, Xiangyang Li

Phyton-International Journal of Experimental Botany, Vol.92, No.10, pp. 2891-2906, 2023, DOI:10.32604/phyton.2023.030664

Abstract Michelia macclurei Dandy is a significant tree species that has extensive cultivation for forestry and horticulture purposes in southern China, owing to its economic and practical importance. Light quality influences plantlet growth and development during tissue culture. However, the growth characteristic and molecular regulation of M. macclurei under different light quality conditions are not well understood yet. In this study, we investigated the morphological, chlorophyll content, and transcriptomic responses of M. macclurei plantlets under different light-emitting diode (LED) qualities, including white, blue, and red light. The results showed that blue light significantly increased plant height (21.29%) and leaf number (18.65%),… More >

Jing Yang, Tianxiunan Pu, Ke Wan, Linqi Wang, Yuanshuai Shi, Xu Luo, Jie Tan, Dongmei Wang, Yang Liu^*

Phyton-International Journal of Experimental Botany, Vol.92, No.9, pp. 2555-2576, 2023, DOI:10.32604/phyton.2023.030301

Abstract Drought has severely affected the yield and quality of commercial crops. The BRI1 family plays an important role in plant response to drought stress, and BRL3 gene plays an important role in the study of drought in Arabidopsis thaliana. In this study, NtBRL3 was constructed as a vector and genetically transformed to obtain ‘N. Tobacco K326’ overexpression of NtBRL3. The enzyme activities of transgenic tobacco and wild-type tobacco were measured and transcriptome and metabolome analyses were performed. The results showed that the antioxidant enzymes of transgenic tobacco were more active under drought conditions, and 85 significantly differentially metabolites and 106… More >

Genhai Hu^1,*, Maoni Chao¹, Xiuren Zhou², Yuanzhi Fu²

Phyton-International Journal of Experimental Botany, Vol.92, No.9, pp. 2535-2554, 2023, DOI:10.32604/phyton.2023.030163

Abstract Gossypium hirsutum L. is an important cash crop native to the subtropics and is widely cultivated around the world. Low temperature is an important stress that seriously affects seed germination and emergence during planting. In this study, transcriptomic profiles of low-temperature- and normal-temperature-germinated seeds of Xinluzao 25, a variety with low-temperature tolerance and high germination rates, were analyzed and compared. The following results were obtained. (1) A total of 81.06 Gb of clean data were obtained after transcriptome sequencing and assembly, and 76,931 non-redundant Unigene sequences were obtained after data consolidation and concatenation; of these, 69,883 Unigene sequences were annotated.… More >

Jie Zhang¹, Yingwei Zhao², Hongying Li³, Jianwei Ni^4,*, Dongmei Wang^1,*

Phyton-International Journal of Experimental Botany, Vol.92, No.9, pp. 2591-2610, 2023, DOI:10.32604/phyton.2023.028338

Abstract Paper mulberry is a high-quality woody feed resource plant with high crude protein content. It is widely distributed in China and has excellent characteristics of salt and alkali tolerance. Paper mulberry has ecological and economic importance. Salt stress has become a critical factor with the increasing degree of soil salinity that restricts plant growth. In the saline-alkali environments, transcriptome expression is altered leading to phenotypic defects in most plants. However, the regulatory mechanism related to paper mulberry’s salt-stress (SS) response is not clearly understood. In the present study de novo transcriptomic assembly was performed, and gene expression levels were measured… More >

WUYAO LIU, CHANGBAO QU, XIAOLU WANG^*

Oncology Research, Vol.31, No.4, pp. 543-567, 2023, DOI:10.32604/or.2023.029563

Abstract The high immune infiltration and heterogeneity of the microenvironment in clear cell renal cell carcinoma (ccRCC) result in the variability of prognosis and clinical response. While PANoptosis has strong immunogenicity and is worthy of further study. In this study, data from The Cancer Genome Atlas database was used to obtain immune-related PANoptosis lncRNAs with prognostic value. Subsequently, the role of these lncRNAs in cancer immunity, progression and the therapeutic response was analyzed, and a new prediction model was constructed. Additionally, we further explored the biological value of PANoptosis-related lncRNAs using single-cell data from the Gene Expression Omnibus database. PANoptosis-associated lncRNAs… More >

JIAHENG XIE^1,#, MENGMENG OU^1,#, PAN YU^1,#, DAN WU^2,#, QIKAI TANG³, YUAN CAO⁴, JING HANG⁵, LU YIN¹, TINGHONG XIANG¹, MING WANG^1,*, JINGPING SHI^1,*

Oncology Research, Vol.31, No.3, pp. 389-403, 2023, DOI:10.32604/or.2023.029274

Abstract Purpose: To screen potential tumor antigens for melanoma vaccine development and identify different immune subtypes. Methods: Transcriptional data (HTSEQ-FPKM) and clinical information of a 472 Melanoma cohort GDC TCGA Melanoma (SKCM) were downloaded from the UCSC XENA website (). Subsequently, transcriptome data and clinical information of 210 melanoma cohort GSE65904 were downloaded from Gene Expression Omnibus (GEO), a large global public database. All the transcriptome expression data matrices were log2 transformed for subsequent analysis. GEPIA, TIMER, and IMMPORT databases are also used for analysis. Cell function experiments were performed to validate the role of the IDO1 gene in melanoma cell… More >

Shunde Su^1,2,#, Huan Chang^3,#, Xiangyang Kang^1,*, Renhua Zheng^2,*

Phyton-International Journal of Experimental Botany, Vol.92, No.6, pp. 1713-1723, 2023, DOI:10.32604/phyton.2023.027586

Abstract As the reproductive organ of the endangered species Fokienia hodginsii, the size of the cones is a constraint on the reproductive renewal of the population. In this study, the molecular basis of the influence of cone size on F. hodginsii was elucidated by comparing the phenotype, biochemistry, and transcriptome of two cultivars of F. hodginsii (‘FJ431’ and ‘FJ415’). The two cultivars differed significantly in cone size, with FJ431 having a significantly larger cone size and weight than FJ415, 1.32 and 1.90 times that of FJ415, respectively. RNA-Seq analysis of both cultivars retrieved 75,940 genes whose approximate functions were classified as… More >