Key messageGmDW1 encodes an ent-kaurene synthase (KS) acting at the early step of the biosynthesis pathway for gibberellins (GAs) and regulates the development of plant height in soybean.AbstractPlant height is an important component of plant architecture, and significantly affects crop breeding practices and yield. Here, we report the characterization of an EMS-induced dwarf mutant (dw) of the soybean cultivar Zhongpin 661 (ZDD23893). The dw mutant displayed reduced plant height and shortened internodes, both of which were mainly attributed to the longitudinally decreased cell length. The bioactive GA1 (gibberellin A1) and GA4 (gibberellin A4) were not detectable in the stem of dw, and the dwarf phenotype could be rescued by treatment with exogenous GA3. Genetic analysis showed that the dwarf trait of dw was controlled by a recessive nuclear gene. By combining linkage analysis and mapping-by-sequencing, we mapped the GmDW1 gene to an approximately 460-kb region on chromosome (Chr.) 8, containing 36 annotated genes in the reference Willliams 82 genome. Of these genes, we identified two nonsynonymous single nucleotide polymorphisms (SNPs) that are present in the encoding regions of Gmdw1 and Glyma.08G165100 in dw, respectively. However, only the SNP mutation (T>A) at nucleotide 1224 in Gmdw1 cosegregated with the dwarf phenotype. GmDW1 encodes an ent-kaurene synthase, and was expressed in various tissues including root, stem, and leaf. Further phenotypic analysis of the allelic variations in soybean accessions strongly indicated that GmDW1 is responsible for the dwarf phenotype in dw. Our results provide important information for improving our understanding of the genetics of soybean plant height and crop breeding.Electronic supplementary materialThe online version of this article (10.1007/s00122-017-3044-8) contains supplementary material, which is available to authorized users.
This work aims to explore the application of silver nanoparticle-based surface-enhanced Raman scattering (SERS) for nasopharyngeal carcinoma cell line CNE2's DNA analysis after X-ray radiation. The cells are separated into control group and radiated groups with different dose of 6, 10, 15 and 20 Gy. The results show that after radiation (6, 10, 15 and 20 Gy), the DNA of radiated CNE2 have changed after 72 h of cell incubation. Principal components analysis is employed for significant differences and the DNA extracted after 72 h of incubation show significant divisions from control group. Moreover, a classifier based on support vector machines shows high classification accuracy between DNA extracted after 72 h of incubation and control group. In conclusion, this study first reveals SERS characteristics of CNE2's DNA under different dose of X-ray radiation, and the final results may do favor to make known the mechanism of X-ray radiation interacting with tumor.
Structural changes and chemical modifications in DNA during interactions with X-ray radiation are still not clear within 48 h of incubation. We investigate genomic DNA from the radiated CNE2 cell line within 48 h of incubation using surface-enhanced Raman spectroscopy (SERS). Multivariate methods including principal component analysis (PCA) and random forest are proposed to explore the statistical significance before and after radiation. Our results show that intensities of several bands change after radiation, which indicates backbone damage and base-unstacking. Biological effects from DNA damage repairing process may be simultaneously stimulated and different from incubation time. Under doses of 10 Gy (with 24 and 48 h of incubation) and 20 Gy (with 48 h of incubation), the relative contents of C against T and A against G deviate obviously from the control level. Statistical results strengthen significantly the idea that modification in DNA bases is associated with the disruption of base-stacking in the DNA duplex. Our findings provide vital information for radiation-induced the DNA damage at the molecular level, which may provide insight into the effect and mechanism of anticarcinogens in tumor therapy.
Abstract. Raman microspectroscopy can provide molecular-level information about the biochemical composition and structure of cells and tissues with excellent spatial resolution. In this study, Raman spectroscopy of individual cells from nasopharyngeal carcinoma cell lines C666-1, CNE2 and nasopharyngeal normal cell line NP69 are investigated for their differences. The spectral intensity ratio at 1449 and 1657 cm −1 with a decision line of I 1449 /I 1657 = 1.10 can very easily separate the tumor and normal cell lines into two groups. Principal component analysis (PCA) and linear discriminant analysis (LDA) are also used to classify different cell lines and achieved a specificity and sensitivity of 100 and 90%, respectively. The results support the potential utility of Raman spectroscopy for nasopharyngeal diagnosis.
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