A virus–target host proteins recognition method based on integrated complexes data and seed extension DOI Creative Commons

Shengrong Xia,

Yingchun Xia,

Chulei Xiang

et al.

BMC Bioinformatics, Journal Year: 2022, Volume and Issue: 23(1)

Published: June 28, 2022

Target drugs play an important role in the clinical treatment of virus diseases. Virus-encoded proteins are widely used as targets for target drugs. However, they cannot cope with drug resistance caused by a mutated and ignore importance host replication. Some methods use interactions between viruses their to predict potential virus-target proteins, which less susceptible viruses. these only consider network topology ignoring influences protein complexes. Therefore, we introduce complexes that viruses, helps recognize unknown reduce cost disease treatment.Since contain it is reasonable human from perspective We propose coverage clustering-core-subsidiary complex recognition method named CCA-SE integrates known protein-protein interaction network, The proposed aims obtain proteins. list part after proving our results effectively enrichment experiments.Our consists two parts: one CCA, complexes, other SE, select seed nodes core using expansion. experimental validate achieves efficient

Language: Английский

Enhancing yield and quality: research and practice of agro-forest waste for Lentinus edodes (shiitake mushroom) cultivation DOI Creative Commons
Hongyan Xu,

G.W. Han,

Yanyan Li

et al.

Frontiers in Nutrition, Journal Year: 2025, Volume and Issue: 12

Published: March 19, 2025

Introduction Current research primarily focuses on exploring and developing innovative substrates for cultivating Lentinus edodes , aiming to address substrate shortages the continuous rise in production costs. Methods This study uses Quercus (oak) sawdust (OS) as a control evaluate potential of Korshinsk peashrub (KP), Hippophae rhamnoides (seabuckthorn) pruning (HRP), Lycium barbarum (goji) (LBP) cultivation L. by measuring parameters such mycelium growth, yield, protein, fat, fiber, amino acids, soluble sugars, organic acids. Furthermore, principal component analysis official script function were used investigate influence matrix formula ratio nutritional values shiitake mushrooms. Results showed that average duration complete stages 2 3 mycelial growth 10% KP significantly decreased compared OS group 11.0 10.7 days, respectively. The weight mushrooms produced from all agro-forest waste was lower than group, decreasing 18.96 53.88%. mushroom groups ranged 235.37 g/kg 252.27 g/kg, which statistically higher LBP treatments, 143.56 165.96 g/kg. However, protein content HRP control, with increases 4.69 12.89%, respectively, fiber also improved, increasing 3.98 12.59%. sweet-tasting acids 20% increased (by 34.86 144.92%, respectively). 30% KP-10% LBP-10% exhibited glucose (increased 118.71 72.26%, Interestingly, addition promoted synthesis acetic acid mushrooms, while this not detected OS. In summary, cultured KP, LBP, or demonstrated better overall performance. Discussion approach only reduces operational costs at least 1,680 RMB but contributes environmental sustainability diverting 2,400 kg landfills. Consequently, utilization agroforestry serves an effective strategy protection cost reduction during enhancing value This, turn, helps combat malnutrition national food security.

Language: Английский

Citations

1

Identification of mitophagy-related genes and analysis of immune infiltration in the astrocytes based on machine learning in the pathogenesis of major depressive disorder DOI
Lan Lei,

Cong-Ya Chen,

Yufei Wang

et al.

Journal of Affective Disorders, Journal Year: 2024, Volume and Issue: unknown

Published: Sept. 1, 2024

Language: Английский

Citations

4

Characterization of chemosensory genes in the subterranean pest Gryllotalpa Orientalis based on genome assembly and transcriptome comparison DOI Creative Commons

Amna Chudhary,

De‐Long Guan, Yandi Xu

et al.

BMC Genomics, Journal Year: 2025, Volume and Issue: 26(1)

Published: Jan. 14, 2025

Chemosensory perception plays a vital role in insect survival and adaptability, driving essential behaviours such as navigation, mate identification, food location. This sensory process is governed by diverse gene families, including odorant-binding proteins (OBPs), olfactory receptors (ORs), ionotropic (IRs), chemosensory (CSPs), gustatory (GRs), neuron membrane (SNMPs). The oriental mole cricket (Gryllotalpa orientalis Burmeister), an invasive pest with underground, phyllophagous lifestyle, causes substantial crop damage. study characterizes the repertoire of G. based on de novo genome assembly transcriptomic analysis. We present draft at scaffold level, spanning 2.94 Gb comprising 10,497 scaffolds. encodes 19,155 protein-coding genes, 158 genes: 30 odorant 64 ten 28 25 single protein (SNMP). Expression analysis indicated that 71 genes were actively expressed head, thorax, legs, ORs OBPs showing higher expression head legs. In contrast, GRs IRs predominantly head. provides first comprehensive identification families genome, characterized scaffold-level genome. These findings provide basis for future functional studies highlight chemoreception subterranean environment.

Language: Английский

Citations

0

A virus–target host proteins recognition method based on integrated complexes data and seed extension DOI Creative Commons

Shengrong Xia,

Yingchun Xia,

Chulei Xiang

et al.

BMC Bioinformatics, Journal Year: 2022, Volume and Issue: 23(1)

Published: June 28, 2022

Target drugs play an important role in the clinical treatment of virus diseases. Virus-encoded proteins are widely used as targets for target drugs. However, they cannot cope with drug resistance caused by a mutated and ignore importance host replication. Some methods use interactions between viruses their to predict potential virus-target proteins, which less susceptible viruses. these only consider network topology ignoring influences protein complexes. Therefore, we introduce complexes that viruses, helps recognize unknown reduce cost disease treatment.Since contain it is reasonable human from perspective We propose coverage clustering-core-subsidiary complex recognition method named CCA-SE integrates known protein-protein interaction network, The proposed aims obtain proteins. list part after proving our results effectively enrichment experiments.Our consists two parts: one CCA, complexes, other SE, select seed nodes core using expansion. experimental validate achieves efficient

Language: Английский

Citations

1