Di Hu¹, Shouli Yi^1,*, Di Lin², Suping Gao³, Ting Lei³, Wenji Li⁴, Tingdan Xu¹, Songlin Jiang¹

Phyton-International Journal of Experimental Botany, Vol.93, No.4, pp. 681-697, 2024, DOI:10.32604/phyton.2024.049166

Abstract In plants, heteromorphic self-incompatibility (HetSI) is a strategy for avoiding self-pollination and promoting outcrossing, and during this process, numerous protein-protein interaction events occur between the pistil and pollen. Previous studies in Primula and Fagopyrum that focused on HetSI systems have provided interesting insights; however, the molecular mechanism underlying HetSI remains largely unknown. In this study, we profiled the proteome of Plumbago auriculata stigmas before and after self-incompatible (SI) and self-compatible (SC) pollination. Comparative analyses were conducted by 4D-DIA (Four-dimensional data independent acquisition), a promising technology that increases the sensitivity and reduces the spectral complexity of proteomic analysis by adding a… More >

Jingtao Hu¹, Wenjing Chen¹, Yanyan Duan¹, Yingjing Ru¹, Wenqing Cao¹, Pingwei Xiang², Chengzhi Huang², Li Zhang², Jingsheng Chen¹, Liping Gan^1,*

Phyton-International Journal of Experimental Botany, Vol.93, No.2, pp. 227-245, 2024, DOI:10.32604/phyton.2024.046521

Abstract Abiotic stress, including flooding, seriously affects the normal growth and development of plants. Mulberry (Morus alba), a species known for its flood resistance, is cultivated worldwide for economic purposes. The transcriptomic analysis has identified numerous differentially expressed genes (DEGs) involved in submergence tolerance in mulberry plants. However, a comprehensive analyses of metabolite types and changes under flooding stress in mulberry remain unreported. A non-targeted metabolomic analysis utilizing liquid chromatography-tandem mass spectrometry (LC-MS/MS) was conducted to further investigate the effects of flooding stress on mulberry. A total of 1,169 metabolites were identified, with 331 differentially accumulated metabolites (DAMs) exhibiting up-regulation in… More >

XIN MENG^*, YAN LIU, SHUJUN XU, LIANRONG YANG, RUI YIN

BIOCELL, Vol.48, No.1, pp. 65-78, 2024, DOI:10.32604/biocell.2023.045986

Abstract Over the past decade, the swift advancement of metabolomics can be credited to significant progress in technologies such as mass spectrometry, nuclear magnetic resonance, and multivariate statistics. Currently, metabolomics garners widespread application across diverse fields including drug research and development, early disease detection, toxicology, food and nutrition science, biology, prescription, and chinmedomics, among others. Metabolomics serves as an effective characterization technique, offering insights into physiological process alterations in vivo. These changes may result from various exogenous factors like environmental conditions, stress, medications, as well as endogenous elements including genetic and protein-based influences. The potential scientific outcomes gleaned from these insights… More > Graphic Abstract

HONGYUAN LIANG^1,#, YANQIU LI^2,#, YONGGANG QU³, LINGYUN ZHANG^4,*

Oncology Research, Vol.32, No.2, pp. 393-407, 2024, DOI:10.32604/or.2023.031134

Abstract Advanced LUAD shows limited response to treatment including immune therapy. With the development of sequencing omics, it is urgent to combine high-throughput multi-omics data to identify new immune checkpoint therapeutic response markers. Using GSE72094 (n = 386) and GSE31210 (n = 226) gene expression profile data in the GEO database, we identified genes associated with lung adenocarcinoma (LUAD) death using tools such as “edgeR” and “maftools” and visualized the characteristics of these genes using the “circlize” R package. We constructed a prognostic model based on death-related genes and optimized the model using LASSO-Cox regression methods. By calculating the cell death… More >

Khalid Rehman Hakeem^1,2,3,*, Hesham F. Alharby¹, M. Irfan Qureshi⁴

Phyton-International Journal of Experimental Botany, Vol.92, No.12, pp. 3323-3344, 2023, DOI:10.32604/phyton.2023.030212

Abstract

Abiotic stresses, including drought, have been found to affect the growth and medicinal quality of numerous herbs. The proposed study aims to study the effects of different drought regimes on the metabolic profile, growth, ecophysiology, cellular antioxidants, and antioxidant potential of Nigella sativa (Black cumin) leaf. Forty-day-old seedlings of N. sativa were exposed to three regimes of drought (control, moderate and high) for a week. UPLC-MS/MS metabolic profile of the leaf reveals the presence of more than a hundred metabolites belonging to anthocyanins, chalcones, dihydro flavonoids, flavonoids, flavanols, flavones, flavonoid carbonoside, isoflavones, etc. Drought was found to alter the contents… More >

GERWIN HELLER^1,*, THORSTEN FUEREDER¹, ALEXANDER MICHAEL GRANDITS¹, ROTRAUD WIESER^1,2,*

Oncology Research, Vol.32, No.1, pp. 1-17, 2024, DOI:10.32604/or.2023.044774

Abstract Head and neck squamous cell carcinoma (HNSCC) is one of the most frequent cancers worldwide. The main risk factors are consumption of tobacco products and alcohol, as well as infection with human papilloma virus. Approved therapeutic options comprise surgery, radiation, chemotherapy, targeted therapy through epidermal growth factor receptor inhibition, and immunotherapy, but outcome has remained unsatisfactory due to recurrence rates of ~50% and the frequent occurrence of second primaries. The availability of the human genome sequence at the beginning of the millennium heralded the omics era, in which rapid technological progress has advanced our knowledge of the molecular biology of… More >

Libo Xie¹, Xue Wang¹, Luxiang Liu^2,*, Chunmei Xu¹, Yongdun Xie², Hongchun Xiong², Xinchun Han³, Mu Guo¹

Phyton-International Journal of Experimental Botany, Vol.92, No.11, pp. 2947-2964, 2023, DOI:10.32604/phyton.2023.042919

Abstract Hot pepper (Capsicum annuum L.) is consumed as one of the oldest domesticated crops all over the world. Although mutation breeding using radiation has been performed in hot peppers, little is known about the comparative analysis of mutagenic effects at the molecular level by ion beam irradiation. To comprehend the response mechanism of hot pepper to the ion beam, we used a mutant with favorable economic characteristics induced by lithium-ion beam irradiation to investigate the biological effects. The results indicated that the lithium-ion beam had a positive effect on important agronomic traits, particularly yield unit, but had a negligible effect… More >

YANG GU^1,#,*, MINGGUANG BI^2,#, DEHUI CHEN³, NING NI⁴, JIANMING CHEN^1,*

BIOCELL, Vol.47, No.9, pp. 2069-2080, 2023, DOI:10.32604/biocell.2023.029989

Abstract Background: The underlying mechanism of sciatic nerve injury (SNI) is a common motor functional disorder, necessitates further research. Methods: A rat model of SNI was established, with the injury group subjected to compressive injury of the right sciatic nerve exposed at the midpoint of the thigh and the sham surgery group undergoing the same surgical procedure. An oxygen-glucose deprivation model was employed to simulate in vitro SNI in PC12 cells. Following data acquisition and quality control, differentially expressed proteins (DEPs) in each model were identified through differential analysis, and enrichment analysis was used to explore the potential functions and pathways… 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

FANGMEI XIE^1,#, NAITE XI^1,#, ZEPING HAN^1,#, WENFENG LUO¹, JIAN SHEN¹, JINGGENG LUO², XINGKUI TANG², TING PANG¹, YUBING LV¹, JIABING LIANG¹, LIYIN LIAO¹, HAOYU ZHANG¹, YONG JIANG¹, YUGUANG LI^3,*, JINHUA HE^1,*

Oncology Research, Vol.31, No.6, pp. 877-885, 2023, DOI:10.32604/or.2023.029494

Abstract Spatial omics technology integrates the concept of space into omics research and retains the spatial information of tissues or organs while obtaining molecular information. It is characterized by the ability to visualize changes in molecular information and yields intuitive and vivid visual results. Spatial omics technologies include spatial transcriptomics, spatial proteomics, spatial metabolomics, and other technologies, the most widely used of which are spatial transcriptomics and spatial proteomics. The tumor microenvironment refers to the surrounding microenvironment in which tumor cells exist, including the surrounding blood vessels, immune cells, fibroblasts, bone marrow-derived inflammatory cells, various signaling molecules, and extracellular matrix. A… More >