Molecular identification and studies on genetic diversity and structure-related GC heterogeneity of Spatholobus Suberectus based on ITS2 DOI Creative Commons
Ziyi Zhao, Jiawen Wu,

Chuan-gui Xu

et al.

Scientific Reports, Journal Year: 2024, Volume and Issue: 14(1)

Published: Oct. 9, 2024

To determine the role of internal transcribed spacer 2 (ITS2) in identification Spatholobus suberectus and explore genetic diversity S. suberectus. A total 292 ITS2s from 17 other plant species were analysed. was clustered separately phylogenetic tree. The distance between greater than that within Synonymous substitution rate (Ks) analysis revealed ITS2 diverged most recently (Ks = 0.0022). These findings suggested is suitable for divided into 8 haplotypes 4 evolutionary branches on basis secondary structure, indicating there variation Evolutionary GC content paired regions (pGC) unpaired (upGC), pGC showed a decreasing trend, whereas upGC remained unchanged. Single-base mutation main cause base pair substitution. In both initial state equilibrium state, higher AU. increase partly attributed to GC-biased gene conversion (gBGC). High reflected high recombination rates ITS2, which diversity. We characterized sequence structural characteristics detail, providing reference its products, as well protection utilization wild resources.

Language: Английский

Deciphering the role of tryptophan metabolism-associated genes ECHS1 and ALDH2 in gastric cancer: implications for tumor immunity and personalized therapy DOI Creative Commons
Lexin Wang,

Xue Zhou,

Haisheng Yan

et al.

Frontiers in Immunology, Journal Year: 2024, Volume and Issue: 15

Published: Sept. 12, 2024

Tryptophan Metabolism-associated Genes (TMGs), such as ECHS1 and ALDH2, are crucial in cancer progression through immunosuppressive mechanisms, particularly Gastric Cancer (GC). This study explores their effects on the Tumor Microenvironment (TME). Additionally, it examines potential novel immunotherapy targets.

Language: Английский

Citations

2
Significance of genetic code module structure in gene expression and GC content enhancement in RNA sequences DOI
Devangi Sojitra, Minakshi Biswas Hathiwala, Gautam S. Hathiwala

et al.

Biosystems, Journal Year: 2024, Volume and Issue: 237, P. 105135 - 105135

Published: Feb. 4, 2024

Language: Английский

Citations

1
DNA barcoding combined with high-resolution melting analysis to discriminate rhubarb species and its traditional Chinese patent medicines DOI Creative Commons

Luyi Shen,

Min Zhang, Yanmei Qiu

et al.

Frontiers in Pharmacology, Journal Year: 2024, Volume and Issue: 15

Published: June 14, 2024

Introduction: Rhubarb is a frequently used and beneficial traditional Chinese medicine. Wild resources of these plants are constantly being depleted, meaning that rhubarb products have been subjected to an unparalleled level adulteration. Consequentially, reliable technology urgently required verify the authenticity raw materials commercial botanical drugs. Methods: In this study, barcode-DNA high-resolution melting (Bar-HRM) method was applied characterize 63 samples (five Polygonaceae species: Rheum tanguticum , Rh. palmatum officinale Rumex japonicus Ru. sp.) distinguish contents 24 patent medicine (TCPM) samples. Three markers, namely ITS2, rbcL psbA-trnH were tested assess candidate DNA barcodes for their effectiveness in distinguishing from its adulterants. A segment ITS2 selected as most suitable mini-barcode identify drug TCPMs. Then, rhubarbs TCPM HRM analysis based on barcode. Results: Among barcoding loci, displayed abundant sites variation effective identifying species origins. region successfully distinguished five eight batches Of 18 samples, 66.7 % (12 samples) identified containing or . However, 33.3 shown consist Conclusions: These results demonstrated combined with specific, powerful approach TCPMs, which crucial guaranteeing security medicinal traded internationally.

Language: Английский

Citations

1
Morpho-molecular analysis and extended distribution of endemic Jasminum species (Oleaceae) DOI Creative Commons
Keya Modak, Bikram Saha, Monoranjan Chowdhury

et al.

Research Square (Research Square), Journal Year: 2024, Volume and Issue: unknown

Published: April 10, 2024

Abstract Jasmine is widely associated with aromatic applications, pharmaceuticals, phytochemicals and cosmetic industries. Application proper identification of wild plants are becoming increasingly common globally. A detailed morphological description, domatia characters, foliar epidermal characteristics (crystal, cell wall pattern, trichome), venation types three wild, strong Jasmines their extended distribution given here also provided taxonomic key for differentiating them from related species. The morpho-taxonomic details some additional features molecular characterization were performed identification. phylogeny studied species closest taxa based on the Internal Transcribed Spacer (ITS) consensus sequence nuclear-ribosomal DNA highlights specific nucleotide variations. Jasminum azoricum L. J . malabaricum Wight documented to have beyond Western Ghats (India), while adenophyllum Wall. ex C.B.Clarke reported outside Assam Peninsula Malaysia. Critically endangered resemblance flexile Vahl, but can be distinguished by total number flowers (8–19) per inflorescence; absence leaf articulation; particular secondary type; calyx teeth length; petals, sepals. fruits , a native Ghat, consumed local tribals Burdwan (India).

Language: Английский

Citations

0
Quantum-classical hybrid approach for codon optimization and its practical applications DOI Open Access
You Kyoung Chung, Dongkeun Lee, Jun Ho Lee

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: June 11, 2024

Abstract Codon optimization is crucial for gene expression in heterologous hosts with varying genetic codes and codon usage, potentially resulting enhanced protein stability. Traditionally, the problem has been solved using classical numerical techniques; however, recent advancements, quantum algorithms deployed on computers have adopted this purpose. This study proposes a sequence search protocol tailored to host preferences. Specifically, formulated as constrained quadratic binary quantum-classical hybrid approach, integrating annealing Lagrange multiplier method. The proposed methodology then applied two real-world scenarios: optimizing of severe respiratory syndrome coronavirus 2 spike human insulin Escherichia coli (E. coli) hosts. Finally, evaluations several biological metrics demonstrate effectiveness our protocol, offering insights into usage patterns governing translational efficiency adaptation code preferences organisms.

Language: Английский

Citations

0
Molecular identification and studies on genetic diversity and structure-related GC heterogeneity of Spatholobus Suberectus based on ITS2 DOI Creative Commons
Ziyi Zhao, Jiawen Wu,

Chuan-gui Xu

et al.

Scientific Reports, Journal Year: 2024, Volume and Issue: 14(1)

Published: Oct. 9, 2024

To determine the role of internal transcribed spacer 2 (ITS2) in identification Spatholobus suberectus and explore genetic diversity S. suberectus. A total 292 ITS2s from 17 other plant species were analysed. was clustered separately phylogenetic tree. The distance between greater than that within Synonymous substitution rate (Ks) analysis revealed ITS2 diverged most recently (Ks = 0.0022). These findings suggested is suitable for divided into 8 haplotypes 4 evolutionary branches on basis secondary structure, indicating there variation Evolutionary GC content paired regions (pGC) unpaired (upGC), pGC showed a decreasing trend, whereas upGC remained unchanged. Single-base mutation main cause base pair substitution. In both initial state equilibrium state, higher AU. increase partly attributed to GC-biased gene conversion (gBGC). High reflected high recombination rates ITS2, which diversity. We characterized sequence structural characteristics detail, providing reference its products, as well protection utilization wild resources.

Language: Английский

Citations

0