Shaoyan Wu^1,2, Jie Tian^1,2, Yiyan Wang^1,2, Muhammad Arif^1,2, Shuyao Wang^1,2, Jing Wang^1,2, Zhuoyao Yang^1,2, Ruhong Xu^1,2,*, Luhua Li^1,2,*

Phyton-International Journal of Experimental Botany, Vol.94, No.12, pp. 3913-3924, 2025, DOI:10.32604/phyton.2025.072229 - 29 December 2025

Abstract Wheat grain morphology, particularly grain length (GL) and width (GW), is a key determinant of yield. To improve the suboptimal grain dimensions of the local anthocyanin-rich variety Guizi 1 (GZ1), we crossed it with Zhongyan 96-3 (ZY96-3), an elite germplasm known for faster grain filling and superior grain size. A genotyping-by-sequencing (GBS) approach was applied to an F₂ population of 110 individuals derived from GZ1 × ZY96-3, resulting in the identification of 23,134 high-quality SNPs. Most of the SNPs associated with GL and GW were clustered on chromosomes 2B, 3A, and 3B. QTL mapping for GL… More >

Qunlu Liu^1,#, Fiza Liaquat^1,2,#, Qiqi Tang¹, Jun Yang^3,4, Shuai Qiu⁵, Amber Malik², Kang Ye^3,4, Kai Gao⁵, Jun Qin^3,4,*

Phyton-International Journal of Experimental Botany, Vol.94, No.11, pp. 3539-3562, 2025, DOI:10.32604/phyton.2025.071989 - 01 December 2025

Abstract Hydrangea macrophylla is a popular ornamental shrub with a lot of economic and aesthetic value. It is known for its different flower shapes (lacecap and mophead) and the way its flowers change color depending on the pH of the soil. Even though it is important for gardening, we still don’t know much about the molecular processes that lead to flower growth. The purpose of this study was to find and study SNP-related genes and transcription factors that are connected to the growth of H. macrophylla flowers. Genome-wide SNP analysis identified 11 SNPs associated with MYB transcription factors… More >

ENRICO CALIMAN^1,2, SARA FANCELLI^1,2, FEDERICO SCOLARI³, ADRIANO PASQUI⁴, CLARA MANNESCHI⁴, DANIELE LAVACCHI¹, FRANCESCA MAZZONI⁴, FRANCESCA GENSINI⁵, VALERIA PASINI⁶, CAMILLA EVA COMIN^2,7, LUCA VOLTOLINI^2,8, SERENA PILLOZZI^1,2,*, LORENZO ANTONUZZO^1,2,4

Oncology Research, Vol.33, No.1, pp. 45-55, 2025, DOI:10.32604/or.2024.050161 - 20 December 2024

Abstract Background: Platinum chemotherapy (CT) remains the backbone of systemic therapy for patients with small-cell lung cancer (SCLC). The nucleotide excision repair (NER) pathway plays a central role in the repair of the DNA damage exerted by platinum agents. Alteration in this repair mechanism may affect patients’ survival. Materials and Methods: We conducted a retrospective analysis of data from 38 patients with extensive disease (ED)-SCLC who underwent platinum-CT at the Clinical Oncology Unit, Careggi University Hospital, Florence (Italy), from 2015 to 2020. mRNA expression analysis and single nucleotide polymorphism (SNP) characterization of three NER pathway genes—namely ERCC1, ERCC2,… More >

Dandan Wang, Xiaohong Li, Yanwen Zhang^*

Phyton-International Journal of Experimental Botany, Vol.93, No.2, pp. 355-369, 2024, DOI:10.32604/phyton.2024.047183 - 27 February 2024

Abstract Taxus cuspidata is a rare plant with important medicinal and ornamental value. Aiming at the obvious differences between wild and cultivated populations of T. cuspidata from Northeast China, a total of 61 samples, that is, 33 wild yews and 28 cultivated yews were used to analyze the differences and correlations of the kinship, genetic diversity, and genetic structure between them by specific length amplified fragment sequencing (SLAF-seq). Finally, 470725 polymorphic SLAF tags and 58622 valid SNP markers were obtained. Phylogenetic analysis showed that 61 samples were classified into 2 clusters: wild populations and cultivated populations, and some… More >

Luli Li^1,2, Nigel G. Halford³, Huihui Wang⁴, Yingjie Zong¹, Zhenzhu Guo¹, Ruiju Lu¹, Chenghong Liu¹, Zhiwei Chen^1,*

Phyton-International Journal of Experimental Botany, Vol.92, No.4, pp. 1275-1287, 2023, DOI:10.32604/phyton.2023.026946 - 06 January 2023

Abstract Barley (Hordeum vulgare L.) is an important economic crop for food, feed and industrial raw materials. In the present research, 112 barley landraces from the Shanghai region were genotyped using genotyping-by-sequencing (GBS), and the genetic diversity and population structure were analyzed. The results showed that 210,268 Single Nucleotide Polymorphisms (SNPs) were present in total, and the average poly-morphism information content (PIC) was 0.1642. Genetic diversity and population structure analyses suggested that these barley landraces were differentiated and could be divided into three sub-groups, with morphological traits of row-type and adherence of the hulls the main distinguishing More >

EKHLAQUE A. KHAN^1,2,*, HAMDINO M. I. AHMED³, MEENA MISRA¹, PALLAVI SHARMA^1,4, AMARENDRA N. MISRA^1,5, MIRZA HASANUZZAMAN^6,*

BIOCELL, Vol.46, No.12, pp. 2583-2593, 2022, DOI:10.32604/biocell.2022.021732 - 10 August 2022

Abstract

Cadmium (Cd) causes oxidative stress, which leads to the oxidation of various biomolecules by the production of reactive oxygen species (ROS) to facilitate programmed cell death (PCD). The antioxidant defense system fails to detoxify ROS when it is produced in excess. Nitric oxide (NO), a gaseous free radical and a phytohormone, regulates various physiological processes of plants. Therefore, this work was undertaken to study the effects of the application of exogenous sodium nitroprusside (SNP, a NO donor) on growth parameters, oxidative stress, accumulation of secondary metabolites, and activities of antioxidant enzymes under Cd stress. Mild (50

… More >

Fen Zhang¹, Weili Tian¹, Lu Cen¹, Litang Lv², Xiaofang Zeng¹, Yulu Chen¹, Yichen Zhao^2,*, Yan Li^1,*

Phyton-International Journal of Experimental Botany, Vol.91, No.4, pp. 791-809, 2022, DOI:10.32604/phyton.2022.018104 - 09 December 2021

Abstract Duyun Maojian tea is a famous tea in China. In this study, the specific-locus amplified fragment (SLAF) sequencing method was used to analyze the population structure and conduct a genome-wide association study (GWAS) of 2 leaf traits of 123 tea plants in Qiannan, China. A total of 462,019 SLAF tags and 11,362,041 single-nucleotide polymorphism (SNP) loci were obtained. The results of phylogenetic tree analysis, cluster analysis, and principal component analysis showed that 123 tea germplasms were clustered into three groups, and the heterozygosity rates for Groups I, II, and II were 0.206, 0.224, and 0.34,… More >

Zhigang Shang^1,2, Yongzhe Zhu³, Xinmei Guo^1,2, Meiai Zhao^1,4,*

Phyton-International Journal of Experimental Botany, Vol.90, No.6, pp. 1711-1725, 2021, DOI:10.32604/phyton.2021.015048 - 28 June 2021

Abstract The development of next generation sequencing (NGS) and high throughput genotyping are important techniques for the QTL mapping and genetic analysis of different crops. High-resolution melting (HRM) is an emerging technology used for detecting single-nucleotide polymorphisms (SNPs) in various species. However, its use is still limited in maize. The HRM analysis was integrated with SNPs to identify three types of populations (NIL population, RIL population and natural population), and the useful tags were screened. The patterns of temperature-shifted melting curves were investigated from the HRM analysis, and compared these with the kit. Among all 48 More >

HONGYUAN ZHANG, MIN ZHANG, JIE TAN, SHUPING HUANG, GUOLIN ZHOU^*, XIA CHEN^*

BIOCELL, Vol.45, No.2, pp. 371-386, 2021, DOI:10.32604/biocell.2021.013869 - 19 February 2021

Abstract Lagenaria siceraria (Molina) Standley has unique biological characteristics with high nutritional and medicinal values. It is an important pharmaceutical plant with various biologically active ingredients. Genetic improvement and deeper genomic studies require a rich resource of molecular markers. The application of next-generation sequencing technology, especially for transcriptome profiling, has greatly facilitated high throughput single nucleotide polymorphism (SNP) and simple sequence repeat (SSR) discovery. In this study, we sequenced the transcriptome of three major cultivars of L. siceraria and obtained 64.88 GB of clean data. The assembled high-quality reads were clustered into 89,347 unigenes, which were annotated by… More >

Longhua Zhou^1,2,#, Ting He^1,2,#, Guimei Guo^1,2, Jing Li^1,2, Ruiju Lu^1,2, Yingbo Li^1,2,*, Chenghong Liu^1,2,*

Phyton-International Journal of Experimental Botany, Vol.89, No.4, pp. 987-997, 2020, DOI:10.32604/phyton.2020.011728 - 09 November 2020

Abstract Barley grain is a valuable source of β-glucan, which is an important component of dietary fiber with significant human health benefits. Although the genetic basis of β-glucan biosynthesis has been widely studied, a genome-wide association study (GWAS) is still required for a scan of the candidate genes related to the complex quantitative trait based on the high-quality barley reference genome. In this study, a GWAS was conducted using a population composed of 87 barley landraces (39 hulled and 48 hulless, β-glucan from 2.07% to 6.56%) with 191,098 nucleotide polymorphisms (SNPs) markers to cover the chromosomes with the… More >