PeerJ最新文献

筛选
英文 中文
Integrating network pharmacology, molecular docking, and molecular dynamics simulations to explore potential compounds and mechanisms of Coptis chinensis in treating streptococcal infections. 结合网络药理学、分子对接和分子动力学模拟,探索黄连治疗链球菌感染的潜在化合物和作用机制。
IF 2.4 3区 生物学
PeerJ Pub Date : 2025-09-26 eCollection Date: 2025-01-01 DOI: 10.7717/peerj.19960
Wanxiang Qi, Bin Shi, Wenqiang Tang, Jiangyong Zeng, Ma Zhuo, Hongcai Ma
{"title":"Integrating network pharmacology, molecular docking, and molecular dynamics simulations to explore potential compounds and mechanisms of <i>Coptis chinensis</i> in treating streptococcal infections.","authors":"Wanxiang Qi, Bin Shi, Wenqiang Tang, Jiangyong Zeng, Ma Zhuo, Hongcai Ma","doi":"10.7717/peerj.19960","DOIUrl":"10.7717/peerj.19960","url":null,"abstract":"<p><strong>Background: </strong><i>Coptis chinensis</i>, a prominent herb in traditional Chinese medicine, is widely utilized for its therapeutic effects against Streptococcus infections, though its precise mechanisms of action remain insufficiently understood. This study aims to clarify the potential mechanisms and active compounds of <i>C. chinensis</i> in the treatment of Streptococcus.</p><p><strong>Methods: </strong>Active compounds of <i>C. chinensis</i> were identified using the Traditional Chinese Medicine Systems Pharmacology Database and Analysis Platform (TCMSP) database, and their potential targets were predicted from multiple public resources. These targets were intersected with streptococcus-related genes to identify overlapping targets, which were then used to construct a protein-protein interaction (PPI) network and screen for key hub genes. To investigate the pharmacological mechanisms, Gene Ontology and KEGG pathway enrichment analyses were performed. Molecular docking was employed to evaluate the binding affinities between active compounds and core target proteins, followed by molecular dynamics simulations and Molecular Mechanics Poisson-Boltzmann Surface Area (MM-PBSA) calculations to assess binding stability and free energy.</p><p><strong>Results: </strong>A total of 24 active compounds were identified, along with 180 overlapping targets related to streptococcal infection. PPI network analysis revealed ten key hub genes, including IL1β, IL6, and MMP9. Enrichment analysis suggested that <i>C. chinensis</i> may inhibit the TLR4/NF-κB inflammatory pathway to modulate host immunity and mediate lipid metabolism reprogramming to restrict pathogen proliferation. Several core targets were also enriched in pathways related to extracellular matrix remodeling and immune regulation, indicating potential indirect effects on host-pathogen interface interactions. Molecular docking and simulation confirmed stable binding between major active ingredients and streptococcus-associated proteins.</p><p><strong>Conclusion: </strong>This study provides mechanistic insights into the multi-component, multi-target, and multi-pathway effects of <i>C. chinensis</i> against streptococcal infections. The findings offer a theoretical basis for future experimental validation and clinical translation.</p>","PeriodicalId":19799,"journal":{"name":"PeerJ","volume":"13 ","pages":"e19960"},"PeriodicalIF":2.4,"publicationDate":"2025-09-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12478307/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145200515","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Establishment and verification of a nomogram model based on the inflammatory indicators of patients with cervical cancer for predicting the risk of their lymph node metastasis. 基于宫颈癌患者炎症指标预测其淋巴结转移风险的nomogram模型的建立与验证
IF 2.4 3区 生物学
PeerJ Pub Date : 2025-09-25 eCollection Date: 2025-01-01 DOI: 10.7717/peerj.20069
Liyun Song, Kaiyun Qin, Suning Bai, Qi Wu, Jing Zhao, Jie Qi, Junmei Zhang, Yazhuo Wang, Yuan Zhang, Ren Xu
{"title":"Establishment and verification of a nomogram model based on the inflammatory indicators of patients with cervical cancer for predicting the risk of their lymph node metastasis.","authors":"Liyun Song, Kaiyun Qin, Suning Bai, Qi Wu, Jing Zhao, Jie Qi, Junmei Zhang, Yazhuo Wang, Yuan Zhang, Ren Xu","doi":"10.7717/peerj.20069","DOIUrl":"10.7717/peerj.20069","url":null,"abstract":"<p><p>Based on inflammatory indicators, this study aimed to predict the risk of lymph node metastasis (LNM) in patients with cervical squamous cell carcinoma (CSCC) and establish a predictive nomogram model.</p><p><strong>Methods: </strong>This retrospective study analyzed the clinical data of 194 patients with stage IA2-IIA2 who underwent surgery at Hebei General Hospital (between January 2017 and August 2023). Patients were divided into two groups based on the presence of LNM or not. Clinical data of the participants were gathered and analyzed to compare the two groups. Logistic regression analysis was used to analyze the factors influencing LNM in patients with CSCC. R software was used to construct a nomogram model to predict LNM in patients with CSCC, and its accuracy was verified.</p><p><strong>Results: </strong>Squamous cell carcinoma antigen (SCC-Ag) level, D-dimer level, platelet (PLT) count, and platelet-to-lymphocyte ratio (PLR) index were significantly higher in patients with LNM than in those without LNM (<i>P</i> < 0.05). There was a significant association between lymph vascular space invasion (LVSI) in patients with CSCC and their LNM (<i>P</i> < 0.05). Logistic regression analysis showed that SCC-Ag, PLR, and LVSI in patients with CSCC were independent risk factors for LNM (<i>P</i> < 0.05). A predictive nomogram model was constructed, and the prediction probability was consistent with the actual observed value (Hosmer-Lemeshow <i>P</i> = 0.313). Analyses using the receiver operating characteristic (ROC) curve revealed that the combination of the SCC-Ag, PLR, and LVSI values of patients with CSCC significantly improved the diagnostic efficiency of their LNM (AUC = 0.792, <i>P</i> < 0.001).</p><p><strong>Conclusion: </strong>Establishing a nomogram model based on preoperative inflammatory indicators of patients with CSCC can accurately predict the risk of LNM, providing evidence for implementing a clinical diagnosis and treatment scheme.</p>","PeriodicalId":19799,"journal":{"name":"PeerJ","volume":"13 ","pages":"e20069"},"PeriodicalIF":2.4,"publicationDate":"2025-09-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12476862/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145192311","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Association of circulating branched-chain amino acids with risk of pre-diabetes: a systematic review and meta-analysis. 循环支链氨基酸与糖尿病前期风险的关联:一项系统综述和荟萃分析。
IF 2.4 3区 生物学
PeerJ Pub Date : 2025-09-25 eCollection Date: 2025-01-01 DOI: 10.7717/peerj.20054
Yu Wang, Jiang-Hong Xiao, Xi-Mei Zhang, Wen-Xiao Wang, Qiao Zhang, Yu-Ping Tang, Shi-Jun Yue
{"title":"Association of circulating branched-chain amino acids with risk of pre-diabetes: a systematic review and meta-analysis.","authors":"Yu Wang, Jiang-Hong Xiao, Xi-Mei Zhang, Wen-Xiao Wang, Qiao Zhang, Yu-Ping Tang, Shi-Jun Yue","doi":"10.7717/peerj.20054","DOIUrl":"10.7717/peerj.20054","url":null,"abstract":"<p><strong>Objective: </strong>Recent investigations have looked at the systemic concentrations of branched-chain amino acids (BCAA), which they consider prospective indicators for health conditions and the likelihood of chronic diseases. To elucidate the equivocal link between systemic BCAA concentrations and prediabetes, our study undertook a meta-analytical investigation.</p><p><strong>Materials and methods: </strong>Electronic databases were comprehensively searched in April 2024, and the study quality evaluation relied on the Newcastle-Ottawa Scale (NOS). The <i>I</i> <sup>2</sup> statistic was used for heterogeneity assessment, and data analysis relied on Review Manager 5.4 and Stata 12.0. Standard mean difference (SMD) was used as the effect size to account for varying units of measurement across the included studies. Sensitivity assessment was instituted to evaluate result tenacity, and subgroup examinations were concomitantly carried out, with funnel plots, Egger's regression analysis, and Begg's rank-correlation methodology deployed to discern publication bias. PROSPERO registration (CRD42024572760) validates this review's protocol compliance.</p><p><strong>Results: </strong>Meta-analysis was conducted on 15 studies that involved 3,849 participants. Most individuals were over 40 years old. The prediabetes (PreDM) group exhibited significantly elevated levels of valine (Val) (SMD = 0.29; 95% confidence interval (CI) [0.14-0.45]; <i>P</i> = 0.0002), leucine (Leu) (SMD = 0.34; 95% CI [0.18-0.49]; <i>P</i> < 0.0001), and isoleucine (Ile) (SMD = 0.24; 95% CI [0.15-0.32]; <i>P</i> < 0.00001) compared to controls. Affirming the soundness of the results, sensitivity analysis indicated the lack of significant publication bias.</p><p><strong>Conclusions: </strong>This meta-analysis supports the hypothesis that circulating BCAA levels increase in PreDM, suggesting that measuring BCAA levels could be investigated as a potential biomarker for the diagnosis of PreDM and a target for its treatment.</p>","PeriodicalId":19799,"journal":{"name":"PeerJ","volume":"13 ","pages":"e20054"},"PeriodicalIF":2.4,"publicationDate":"2025-09-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12476861/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145192338","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Relationship between locomotive syndrome risk test and height and weight in infancy and toddlerhood: a preliminary study. 婴幼儿运动综合征风险试验与身高、体重关系的初步研究。
IF 2.4 3区 生物学
PeerJ Pub Date : 2025-09-25 eCollection Date: 2025-01-01 DOI: 10.7717/peerj.20114
Shuntaro Tsuji, Tamaki Hirose, Yohei Sawaya, Runa Kawano, Takumi Sugiura, Riona Takimoto, Yuto Nishimura, Masafumi Itokazu
{"title":"Relationship between locomotive syndrome risk test and height and weight in infancy and toddlerhood: a preliminary study.","authors":"Shuntaro Tsuji, Tamaki Hirose, Yohei Sawaya, Runa Kawano, Takumi Sugiura, Riona Takimoto, Yuto Nishimura, Masafumi Itokazu","doi":"10.7717/peerj.20114","DOIUrl":"10.7717/peerj.20114","url":null,"abstract":"<p><strong>Introduction: </strong>The Japanese Medical Science Federation's declaration highlighted that locomotive syndrome (LS) precedes frailty, emphasizing the importance of early intervention beginning in childhood and continuing throughout life. To date, no study has examined the relationship between LS in adults and height and weight during infancy and toddlerhood. As a preliminary investigation, this study aimed to clarify how height and weight during early life stages are related to LS among young adults.</p><p><strong>Methods: </strong>In this study, 62 students enrolled at a health sciences university were administered the locomotive syndrome risk test, and their grip strength was measured. Height and weight at birth, at 1 year, and at 3 years of age were obtained from the Maternal and Child Health Handbook. All participants were born <i>via</i> normal delivery. The relationships between the LS risk test results, height, and weight were analyzed using correlation and multivariate analyses.</p><p><strong>Results: </strong>Correlation analysis revealed significant associations between height and weight in infancy and toddlerhood and the following variables: two-step length, two-step test value, 25-question geriatric locomotive function scale score, and grip strength. Multiple regression analysis showed a significant relationship between two-step length and height at birth (<i>p</i> = 0.002), and between grip strength and weight at age 3 (<i>p</i> = 0.021).</p><p><strong>Conclusions: </strong>A weak-to-moderate relationship was found between LS and height and weight in infancy and toddlerhood. These findings suggest that preventive measures for LS should not be delayed until adulthood; rather, early-life interventions beginning in infancy, toddlerhood, and childhood may be crucial.</p>","PeriodicalId":19799,"journal":{"name":"PeerJ","volume":"13 ","pages":"e20114"},"PeriodicalIF":2.4,"publicationDate":"2025-09-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12476858/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145191956","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Elevational surveys of Sulawesi herpetofauna 2: Mount Katopasa on the Eastern Peninsula of Sulawesi island, Indonesia. 苏拉威西岛爬行动物群的海拔调查2:印度尼西亚苏拉威西岛东部半岛的卡托帕萨山。
IF 2.4 3区 生物学
PeerJ Pub Date : 2025-09-25 eCollection Date: 2025-01-01 DOI: 10.7717/peerj.20024
Isaac W Krone, Benjamin R Karin, Jeffrey H Frederick, Sina S Amini, Simon G Scarpetta, Amir Hamidy, Syahfitri Anita, Awal Riyanto, Evy Arida, Wahyu Tri Laksono, Umilaela Arifin, Bryan H Bach, Collin Bos, Charlotte K Jennings, Alexander L Stubbs, Kinsington Peterson, Sucheng Shi, Jimmy A McGuire
{"title":"Elevational surveys of Sulawesi herpetofauna 2: Mount Katopasa on the Eastern Peninsula of Sulawesi island, Indonesia.","authors":"Isaac W Krone, Benjamin R Karin, Jeffrey H Frederick, Sina S Amini, Simon G Scarpetta, Amir Hamidy, Syahfitri Anita, Awal Riyanto, Evy Arida, Wahyu Tri Laksono, Umilaela Arifin, Bryan H Bach, Collin Bos, Charlotte K Jennings, Alexander L Stubbs, Kinsington Peterson, Sucheng Shi, Jimmy A McGuire","doi":"10.7717/peerj.20024","DOIUrl":"10.7717/peerj.20024","url":null,"abstract":"<p><p>The unique geologic and biogeographic history of the island of Sulawesi in Indonesia has produced one of the world's most endemic biota, much of which is still unknown to science. The biogeography of the island is influenced both by its unique shape, a confluence of four peninsulas, as well as its extremely mountainous topography, and its upland ecosystems are poorly understood by science. Here, we report the second full-mountain checklist from a series of herpetological surveys of Sulawesi's Mountains conducted by an international team of researchers. During 3 weeks of work on Gunung Katopasa, a 2,825 m asl peak on Sulawesi's Eastern Peninsula in the province of Sulawesi Tengah, we recovered 45 species of reptiles and amphibians. Among these, we believe that at least eight represent undescribed species. Our efforts to survey Gunung Katopasa highlight that greater herpetological diversity will likely be discovered upon future assessments of species richness and abundance on the Eastern Peninsula of Sulawesi.</p>","PeriodicalId":19799,"journal":{"name":"PeerJ","volume":"13 ","pages":"e20024"},"PeriodicalIF":2.4,"publicationDate":"2025-09-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12476859/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145192322","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Identification of immunological and prognostic value of SHROOM2 in pan-cancer and experimental verification of its role in promoting malignant phenotypes in breast cancer. SHROOM2在泛癌中的免疫学和预后价值的鉴定及其在乳腺癌中促进恶性表型作用的实验验证。
IF 2.4 3区 生物学
PeerJ Pub Date : 2025-09-25 eCollection Date: 2025-01-01 DOI: 10.7717/peerj.20051
Yaya Wang, Yuechao Ren, Xiaoyan Zheng, Yan Wang, Haoqi Wang, Xi Zhang, Sainan Li
{"title":"Identification of immunological and prognostic value of SHROOM2 in pan-cancer and experimental verification of its role in promoting malignant phenotypes in breast cancer.","authors":"Yaya Wang, Yuechao Ren, Xiaoyan Zheng, Yan Wang, Haoqi Wang, Xi Zhang, Sainan Li","doi":"10.7717/peerj.20051","DOIUrl":"10.7717/peerj.20051","url":null,"abstract":"<p><strong>Objective: </strong>This study aimed to investigate the relationship between Shroom Family Member 2 (SHROOM2) expression and immune features, survival outcomes, and tumor mutational burden (TMB) across various cancer types, as well as its impact on the aggressive behavior of breast cancer (BC).</p><p><strong>Methods: </strong>RNA sequencing and clinical survival data were retrieved from the TCGA-BRCA and TCGA-PANCANCER datasets within The Cancer Genome Atlas (TCGA) database. Survival analyses were performed to assess the association between SHROOM2 expression and clinical outcomes across different cancer types. Gene set enrichment analysis (GSEA) was applied to identify potential mechanisms associated with differentially expressed genes in BC. Spearman correlation and Wilcoxon tests were used to evaluate the relationships between SHROOM2 levels and immune characteristics, TMB, or drug sensitivity. Additionally, the effects of SHROOM2 on BC cells were assessed through reverse transcription-quantitative polymerase chain reaction (PCR), cell counting kit-8 (CCK-8) assay, transwell assay, and wound healing assay.</p><p><strong>Results: </strong>SHROOM2 was overexpressed in a range of cancers, and its upregulation was associated with poor clinical outcomes. It was significantly correlated with immunomodulators, immune checkpoints, and immune cell infiltration in pan-cancer. Moreover, it showed an association with TMB and drug sensitivity in BC. Increased SHROOM2 expression enhanced the proliferative, migratory, and invasive capabilities of BC cells <i>in vitro</i>.</p><p><strong>Conclusion: </strong>High SHROOM2 expression is linked to poor prognosis in BC, supporting its potential as both an immunological and predictive biomarker.</p>","PeriodicalId":19799,"journal":{"name":"PeerJ","volume":"13 ","pages":"e20051"},"PeriodicalIF":2.4,"publicationDate":"2025-09-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12476865/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145192333","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Effect of cirrhosis on prognosis in patients with acute-on-chronic liver failure: a systematic review and meta-analysis. 肝硬化对急性慢性肝衰竭患者预后的影响:一项系统回顾和荟萃分析。
IF 2.4 3区 生物学
PeerJ Pub Date : 2025-09-25 eCollection Date: 2025-01-01 DOI: 10.7717/peerj.20049
Chunyang Dong, Xiaoxiao Liu, Dongshuai Zhang, Deyou Jiang
{"title":"Effect of cirrhosis on prognosis in patients with acute-on-chronic liver failure: a systematic review and meta-analysis.","authors":"Chunyang Dong, Xiaoxiao Liu, Dongshuai Zhang, Deyou Jiang","doi":"10.7717/peerj.20049","DOIUrl":"10.7717/peerj.20049","url":null,"abstract":"<p><strong>Background: </strong>Acute-on-chronic liver failure (ACLF) is a prevalent complication among cirrhosis patients, whose high mortality is linked to cirrhosis combined with ACLF. Nevertheless, there is a paucity of systematic reviews. This study aimed to illustrate whether cirrhosis is a prognostic factor for ACLF.</p><p><strong>Methodology: </strong>PubMed, Embase, and Cochrane Library were searched for observational studies that explored the connection between cirrhosis and ACLF prognosis from database inception to January 10, 2025. Pooled relative risk (RR) and 95% confidence interval (CI) were utilized for data analyses. Publication bias was estimated using Egger's tests. The protocol was registered in the PROSPERO (CRD42025639557).</p><p><strong>Results: </strong>This meta-analysis included 17 articles and 8,488 patients of ACLF under different diagnostic criteria. The analyses indicated that cirrhosis did not correlate with 28-day mortality of ACLF patients (RR = 1.08, 95% CI [0.84-1.39], <i>p</i> = 0.550, <i>I<sup>2</sup></i> = 88.8%) but independently predicted 90-day mortality (RR = 1.33, 95% CI [1.10-1.61], <i>p</i> = 0.004, <i>I</i> <sup>2</sup> = 92.6%). Subgroup analyses of cirrhosis discovered no significant difference in 28-day and 90-day mortality between non-cirrhosis patients and those with compensated cirrhosis (<i>p</i> > 0.05). The 90-day mortality in decompensated cirrhosis patients was markedly higher than that in non-cirrhosis individuals (RR = 1.33, 95% CI [1.14-1.56], <i>p</i> < 0.001, <i>I<sup>2</sup></i> =64.2%).</p><p><strong>Conclusions: </strong>Compensated cirrhosis did not correlate with the 28-day mortality of ACLF patients, while it was an independent risk factor for 90-day mortality.</p>","PeriodicalId":19799,"journal":{"name":"PeerJ","volume":"13 ","pages":"e20049"},"PeriodicalIF":2.4,"publicationDate":"2025-09-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12476863/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145192378","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Selection of suitable wheat genotypes under thermal stress and complex genotype-environment interaction using stability analyses and selection indices. 利用稳定性分析和选择指标选择热胁迫和复杂基因型-环境互作条件下小麦的适宜基因型。
IF 2.4 3区 生物学
PeerJ Pub Date : 2025-09-25 eCollection Date: 2025-01-01 DOI: 10.7717/peerj.20061
Abdelhalim Ghazy, Walid Ben Romdhane, Majed Alotaibi, Abdullah Al-Doss, Omar Dahrog, Nasser Al-Suhaibani, Abdullah Ibrahim, Adel M Al-Saif, Khalid A Al-Gaadi, Ahmed M Zeyada, Khalid F Almutairi, Ibrahim Al-Ashkar
{"title":"Selection of suitable wheat genotypes under thermal stress and complex genotype-environment interaction using stability analyses and selection indices.","authors":"Abdelhalim Ghazy, Walid Ben Romdhane, Majed Alotaibi, Abdullah Al-Doss, Omar Dahrog, Nasser Al-Suhaibani, Abdullah Ibrahim, Adel M Al-Saif, Khalid A Al-Gaadi, Ahmed M Zeyada, Khalid F Almutairi, Ibrahim Al-Ashkar","doi":"10.7717/peerj.20061","DOIUrl":"10.7717/peerj.20061","url":null,"abstract":"<p><p>Thermal stress is a consequence of climate change that threatens food security, causes plant tissue damage, and harms crop production, particularly during the pollination and fertilization period and in grain-filling stages negatively impacting the number of grains, grain size, and quality. Genotype-environment interaction (GEN: ENV) complicates the selection of optimal wheat genotypes due to the complex genetic basis of yield under varying conditions. Diversified approaches were put forth in response to the pressing demand for simultaneous enhancements in high-yield performance combined with stability. This study investigates the selection of ideal wheat genotypes under thermal stress and complex GEN: ENV using stability analyses and selection indices to assess genotype performance and stability. Twenty wheat genotypes were evaluated across optimal conditions (OC) and thermal stress conditions (TSC) over three growing seasons with six ENVs. Results demonstrated significant GEN: ENV, revealing genetic variations in thermal tolerance. The additive main effects and multiplicative interaction (AMMI2) biplot indicated a combined variance of 99.00%, and eleven genotypes showed stable grain yield (GY) with six ENVs, three (G05, G09, and G17) were more stable. The G04, G05, G06, G09, and G18 genotypes were chosen for GY as perfect (stable and high-performance) genotypes by weighted average of absolute scores biplot (WAASB) and were also identified as the best genotypes group by WAASB-GY, with the exception of G18. Ten selection indices showed significant positive associations under GY<sub>oc</sub> and GY<sub>tsc</sub>, so they can be leveraged to detect the genotype's high yield of GY<sub>tsc</sub> indirectly. The heritability, accuracy, and r<sub>gen: env</sub> values for most indices were high, indicating a major role of the genotypic effect in their inheritance, with the exception of the stress-non-stress production index (SNPI) index. Out of the five that were examined by WAASB, G04, G05, G06, and G09 were the top-ranking genotypes by the multi-trait genotype ideotype distance index, either before or after removing variables. This suggests that they could be examined for validation stability measures. The findings of this study offer valuable insights for ENVs variety selection, facilitating the identification of improved cultivars and supporting the development of thermal stress-resilient breeding programs.</p>","PeriodicalId":19799,"journal":{"name":"PeerJ","volume":"13 ","pages":"e20061"},"PeriodicalIF":2.4,"publicationDate":"2025-09-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12476864/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145191891","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Geographic distributions and patterns of co-occurrence among black-bellied and shovel-nosed salamanders (Desmognathus spp.) in the Great Smoky Mountains National Park. 大烟山国家公园黑腹和铲鼻蝾螈的地理分布和共生模式。
IF 2.4 3区 生物学
PeerJ Pub Date : 2025-09-25 eCollection Date: 2025-01-01 DOI: 10.7717/peerj.20110
Aidan Shaw, Rebecca Chastain, Benjamin M Fitzpatrick
{"title":"Geographic distributions and patterns of co-occurrence among black-bellied and shovel-nosed salamanders (<i>Desmognathus spp</i>.) in the Great Smoky Mountains National Park.","authors":"Aidan Shaw, Rebecca Chastain, Benjamin M Fitzpatrick","doi":"10.7717/peerj.20110","DOIUrl":"10.7717/peerj.20110","url":null,"abstract":"<p><p>The southern Appalachian Mountains are a global hotspot for salamander diversity. Recent taxonomic revisions driven by a growing understanding of cryptic diversity and advancements in genomic technology have increased the number of described species in the area significantly, raising questions about biogeography and community structure. Recently described species in the <i>Desmognathus quadramaculatus-marmoratus</i> complex are morphologically cryptic but diagnosable by mitochondrial DNA. The complex includes multiple species within each of two distinct ecomorphs, the highly aquatic 'shovel-nosed' (SN) ecomorph and the semi-aquatic 'black-bellied' (BB) ecomorph. Here, we use mitochondrial DNA and Bayesian phylogenetic analysis to clarify distributions and patterns of co-occurrence of recently described species in the Great Smoky Mountains. We present new data showing more extensive co-occurrence of two cryptic species of the black-bellied ecomorph than previously recognized. Our results are also consistent with earlier work indicating shared variation between ecomorphs within one clade. In addition, we identified a divergent mitochondrial lineage of the shovel-nosed ecomorph related to <i>D. aureatus</i>, a species not previously known to inhabit the Great Smoky Mountains. These results reveal a more complex and diverse assemblage of ecomorphs than previously recognized in this hotspot of salamander diversity.</p>","PeriodicalId":19799,"journal":{"name":"PeerJ","volume":"13 ","pages":"e20110"},"PeriodicalIF":2.4,"publicationDate":"2025-09-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12476860/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145192309","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
From Abstainers to Dependent Drinkers: alcohol consumption patterns and risk factors among Portuguese university students. 从戒酒者到依赖饮酒者:葡萄牙大学生的酒精消费模式和风险因素。
IF 2.4 3区 生物学
PeerJ Pub Date : 2025-09-24 eCollection Date: 2025-01-01 DOI: 10.7717/peerj.20026
Lucas Saldanha, Alberto Crego, Natália Almeida-Antunes, Rui Rodrigues, Adriana Sampaio, Eduardo López-Caneda
{"title":"From Abstainers to Dependent Drinkers: alcohol consumption patterns and risk factors among Portuguese university students.","authors":"Lucas Saldanha, Alberto Crego, Natália Almeida-Antunes, Rui Rodrigues, Adriana Sampaio, Eduardo López-Caneda","doi":"10.7717/peerj.20026","DOIUrl":"10.7717/peerj.20026","url":null,"abstract":"<p><strong>Background: </strong>Alcohol is the most prevalent psychoactive substance consumed around the world. In Portugal, alcohol consumption is deeply embedded in social and cultural practices, contributing to high prevalence rates among university students, with binge drinking emerging as a predominant consumption pattern. Despite the associations between this drinking behaviour and numerous social, physical, and psychological problems, research on alcohol consumption in Portuguese university populations remains limited. Thus, this study aimed to provide a comprehensive description of alcohol use patterns among a large sample of Portuguese university students, focusing on adolescents and young adults.</p><p><strong>Methods: </strong>A total of 1,746 students, aged 17-24 years, participated in a cross-sectional study and were surveyed using the Alcohol Use Disorders Identification Test (AUDIT) and additional questionnaires regarding socio-demographic information, alcohol and illicit drug use, smoking habits, and alcohol cravings. Statistical analyses included descriptive statistics, group comparisons, and multinomial logistic regressions to obtain odds ratios (ORs) for group membership.</p><p><strong>Results: </strong>Alcohol consumption was reported by 83.2% of students over the past year. Based on their drinking patterns and AUDIT score, participants were distributed across five drinking groups: Abstainers (16.8%), Moderate Drinkers (35.1%), Hazardous Drinkers (25.8%), Binge Drinkers (20.8%), and Dependent Drinkers (1.5%). Nearly 47% of students revealed harmful drinking patterns, and 1.5% exhibited symptoms of alcohol dependence. A progressive increase in the severity of alcohol consumption characteristics was observed across the groups, with Dependent Drinkers reporting the highest levels of all assessed characteristics. Significant predictors of group membership included polydrug use, standard weekly consumption, earlier drinking onset, and higher levels of alcohol craving. Polydrug use, reported by 27.3% of students, was the strongest predictor for being a Hazardous Drinker (OR = 10.75), Binge Drinker (OR = 13.20), and Dependent Drinker (OR = 21.40). Binge Drinkers displayed standard weekly consumption and craving levels comparable to Dependent Drinkers, while Moderate Drinkers exhibited the least risky patterns among drinkers, including a later age of onset of drinking. Male students reported significantly greater consumption and craving levels than their female peers.</p><p><strong>Conclusions: </strong>This study highlights the prevalence of harmful drinking behaviours among Portuguese university students and identifies critical risk factors, such as polydrug use and early drinking onset. These findings underscore the need for prevention programmes focused on delaying the onset of alcohol use, reducing drug use, and promoting healthier behaviours within academic settings.</p>","PeriodicalId":19799,"journal":{"name":"PeerJ","volume":"13 ","pages":"e20026"},"PeriodicalIF":2.4,"publicationDate":"2025-09-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12476170/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145186248","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
0
×
引用
GB/T 7714-2015
复制
MLA
复制
APA
复制
导出至
BibTeX EndNote RefMan NoteFirst NoteExpress
×
提示
您的信息不完整,为了账户安全,请先补充。
现在去补充
×
提示
您因"违规操作"
具体请查看互助需知
我知道了
×
提示
确定
请完成安全验证×
相关产品
×
本文献相关产品
联系我们:info@booksci.cn Book学术提供免费学术资源搜索服务,方便国内外学者检索中英文文献。致力于提供最便捷和优质的服务体验。 Copyright © 2023 布克学术 All rights reserved.
京ICP备2023020795号-1
ghs 京公网安备 11010802042870号
Book学术文献互助
Book学术文献互助群
群 号:604180095
Book学术官方微信