Identification of CD8+ T Cell-Related Genes: Correlations with Immune Phenotypes and Outcomes of Liver Cancer by Qi Pan, Ying Cheng, Donghua Cheng

“…We obtained single nucleotide polymorphism (SNP) data to evaluate the tumor mutation burden. …”
Get full text

Genetic Associations Between Specific Sleep-Related Phenotypes and Idiopathic Sudden Sensorineural Hearing Loss: A Mendelian Randomization Analysis by Li M, He J, Liang Y, Zou F, Gou C, Lv J, Zhang X, Li D, Yu Z

“…The heterogeneity was determined using MR Egger and IVW, and pleiotropy by MR Egger.Results: There were 39/27 single nucleotide polymorphisms (SNPs) related to insomnia, 68 SNPs related to sleep duration, 31 SNPs related to daytime dozing, 13 SNPs related to sleep disorders, and 20 SNPs related to sleep apnoea. …”
Get full text

Reverse transcriptase inhibitors diminish systemic proinflammatory responses to bacterial pathogens by Karthik Hullahalli, Katherine G. Dailey, Ryan Acbay, Masataka Suzuki, George I. Balazs, Matthew K. Waldor

“…This liver necrosis is associated with the expression of endogenous retroviruses, chromosomally integrated retroviruses that encode a reverse transcriptase. Furthermore, nucleotide/nucleoside reverse transcriptase inhibitors (NRTIs) completely prevent tissue damage and subsequent bacterial growth within necrotic lesions. …”
Get full text

Pathological variants in HPV-independent vulvar tumours by Sanja A. Farkas, Alvida Qvick, Gisela Helenius, Gabriella Lillsunde-Larsson

“…Using custom filter and the Varsome Clinical software; additional single nucleotide variants (SNV) were detected where the vast majority were classified as likely benign/benign. …”
Get full text

Whole-genome sequencing identifies novel loci for keratoconus and facilitates risk stratification in a Han Chinese population by Yinghao Yao, Xingyong Li, Lan Wu, Jia Zhang, Yuanyuan Gui, Xiangyi Yu, Yang Zhou, Xuefei Li, Xinyu Liu, Shilai Xing, Gang An, Zhenlin Du, Hui Liu, Shasha Li, Xiaoguang Yu, Myopia Associated Genetics Intervention and Consortiums, Hua Chen, Jianzhong Su, Shihao Chen

“…Polygenic risk score (PRS) models were developed using top single-nucleotide polymorphisms (SNPs) identified from a multi-ethnic meta-analysis and then evaluated in the Chinese cohort. …”
Get full text

Exploring Disparities in Gill Physiological Responses to NaHCO₃-Induced Habitat Stress in Triploid and Diploid Crucian Carp (<i>Carassius auratus</i>): A Comprehensive I... by Shicheng Han, Lin Han, Fangying Yuan, Wenzhi Liu, Jing Wang, Xiaofeng Jin, Yanchun Sun

“…Metabolomic investigations suggest alterations in purine metabolism, lipid metabolism, sphingolipid metabolism, and aminoglycan and nucleotide sugar metabolism following NaHCO₃ exposure. …”
Get full text

Germline variants of the genes involved in NF-kB activation are associated with the risk of COPD and lung cancer development by Baranasic Jurica, Niazi Yasmeen, Chattopadhyay Subhayan, Rumora Lada, Ćorak Lorna, Dugac Andrea Vukić, Jakopović Marko, Samaržija Miroslav, Försti Asta, Knežević Jelena

“…Therefore, the aim of this study was to search for the potential overlapping genetic biomarkers, with a focus on single nucleotide polymorphisms (SNPs) located in the regulatory regions of immune-related genes. …”
Get full text

Elite Alleles of EPE1 Identified via Genome-wide Association Studies Increase Panicle Elongation Length in Rice by Hao Sun, Qiqi Yao, Mei Hai, Tianhu Li, Jinghan Sun, Zhengbo Liu, Yang Ang, Yingying Zhao, Yanan Zhang, Xianping Cheng, Tao Huang, Yinping Chang, Mingyu Du, Erbao Liu

“…Genome-wide association studies (GWAS) were performed on the PELs of 440 rice accessions in 2022 and 2023, considering 3.17 million single-nucleotide polymorphisms (SNPs) to detect the effects of different genes on PEL. …”
Get full text

Genomic Diversity and Potential Transmission and Persistence of Salmonella in the Cambodian Vegetable Supply Chain by Abimel Salazar, Navin Sreng, Chanthol Peng, Yehzi Fu, Erin M. Nawrocki, Taejung Chung, Jessie Vipham, Edward G. Dudley, Jasna Kovac

“…Isolates’ relatedness was assessed based on high-quality single nucleotide polymorphisms (hqSNPs) identified within each serotype using the CFSAN SNP pipeline. …”
Get full text

Study on the multidrug resistance and transmission factors of Staphylococcus aureus at the ‘animal–environment–human’ interface in the broiler feeding cycle by Fangyuan Hu, Fangyuan Hu, Yaopeng Liu, Yaopeng Liu, Lin Wang, Juan Wang, Na Liu, Yan Li, Xiaoxiao Duan, Junwei Wang, Mingzhe Lu, Junhui Liu, Zhina Qu, Keguang Han

“…ST398 (79.13%) was the dominant strain in both stages, which was prevalent in 11 types of samples from 3 sources and clustered in the same sub-branch of the single-nucleotide polymorphism (SNP) evolutionary tree. The loci difference between the strains ranged from 1 to 541, with SNPs of less than 10 between the human strains of stage 1 and the three sources in stage 2. …”
Get full text

Genome-wide association study of the antibody response to <i>Corynebacterium pseudotuberculosis</i> in sheep by J. Kyselová, L. Tichý, J. Marková, A. Gurgul, Z. Sztankóová, K. Vališ, S. Šlosárková, K. Kavanová, M. Beinhauerová, T. Szmatola, T. Szmatola

“…The study revealed two suggestive SNPs (single-nucleotide polymorphisms) on chromosomes 11 and 20, with the most significant SNP in the first exon of the <i>TRIM16</i> (tripartite-motif-containing 16) gene. …”
Get full text

Characterization of three novel Helicobacter species infecting stomachs of dogs and cats: Helicobacter gastrocanis sp. nov., Helicobacter gastrofelis sp. nov., and Helicobacter fel... by Emiko Rimbara, Sae Aoki, Masato Suzuki, Hirotaka Kobayashi, Taisuke Nakagawa, Yuko Goto-Koshino, Sachiyo Nomura, Sachiyo Nomura, Wan-Ying Du, Hidenori Matsui, Shigetarou Mori, Keigo Shibayama, Tsuyoshi Kenri, Koichi Ohno

“…However, none of their whole genomes showed more than average nucleotide identity (ANI) threshold value (95–96%) to any Helicobacter species (85.1, 86.7, and 86.6% ANI, respectively, with H. heilmannii ASB1T), including when compared to each other. …”
Get full text

Comparative transcriptomic analysis and identification of candidate genes related to Verticillium wilt resistance in Gossypium barbadense and Gossypium hirsutum by Jieyin Zhao, Xingui Hu, Yuxiang Wang, Jiaxin Lu, Wenju Gao, Xuening Su, Quanjia Chen, Yanying Qu

“…WGCNA-based binding sequence comparison revealed that MYB14 had nonsynonymous single nucleotide polymorphisms (SNPs) in 5 highly Verticillium wilt-resistant G. barbadense varieties compared to 5 highly Verticillium wilt-susceptible G. hirsutum varieties. …”
Get full text

Identification and expression analysis of the heat shock proteins Hsp70, Hsp90, and Hsp90b in Litopenaeus vannamei under low-temperature stress by Min Peng, Hui Wang, Shuiping Wen, Zheng Liang, Zheng Huang, Bin Zhang, Tianchong Chen, Qingyun Liu, Qiangyong Li, Yuan Meng, Yuliu Huang, Chunling Yang, Digang Zeng, Manyuan Li, Weilin Zhu, Yongzhen Zhao

“…DNA sequence alignment identified 12 single nucleotide polymorphisms (SNPs) in the hsp70 gene and 17 SNPs in the hsp90 gene. …”
Get full text

Characteristics of the smallest brucellaphage with strong lytic ability by Hongbaiyu Liu, Hongbaiyu Liu, Youhong Zhong, Zhihong Zhang, Kehong Xu, Kehong Xu, Chunpeng Mao, Chunpeng Mao, Qiuju Yang, Lihua Yang, Binbin Yu, Ying Long, Ying Long, Xinyu Qin, Xinyu Qin, Liyuan Shi, Sheng Chang, Yuanying Shen, Peng Wang

“…Whole-genome average nucleotide identity (ANI) analysis reveals high homology across all lytic brucellaphages, but Y17 exhibits relatively lower genome coverage compared to other lytic brucellaphages. …”
Get full text

Current data on the circulation of the Q fever pathogen in the Republic of Guinea by Ekaterina V. Naidenova, Kirill S. Zakharov, Dmitry A. Agafonov, Mikhail Yu. Kartashov, Aislu M. Senichkina, Erik S. Khalilov, Abdoul B. Ibrahim, Mamadou B. Bah, Ibrahim Nourdine, Nikolai K. Tokarevich, Sanaba Boumbaly, Yusuf Sidime, Svetlana A. Shcherbakova, Vladimir V. Kutyrev

“…For the first time, the complete nucleotide sequence of 16S rRNA of the Q fever pathogen (OQ152497–OQ152500) identified on the territory of Guinea was determined and registered in the GenBank database. …”
Get full text

Effects of Simulated Circulation Temperature Changes on the Flavor of Lentinula edodes during Storage by LIU Yani, WANG Feiyu, LI Ran, GAO Hong, FAN Xiuzhi, YIN Chaomin, CHENG Shilun, YU Wei, SHI Defang

“…In the NTL, CCL, and BCL groups, the total amounts of free umami amino acids were 90.82, 81.83, and 84.31 mg/g, respectively, and the 5’-nucleotide contents were 122.99, 107.42, and 118.27 μg/g, respectively. …”
Get full text

Genetic variation in patent foramen ovale: a case-control genome-wide association study by Bosi Dong, Yajiao Li, Fandi Ai, Jia Geng, Ting Tang, Wan Peng, Yusha Tang, Hui Wang, Zixuan Tian, Fengxiao Bu, Lei Chen

“…We conducted a genome-wide association study (GWAS) to identify common genetic variants associated with PFO.MethodsWe performed a whole genome sequencing in a discovery cohort of 3,227 unrelated Chinese participants screened for PFO via contrast transthoracic echocardiography (cTTE). Single-nucleotide polymorphisms (SNPs) associated with PFO were further validated by Sanger sequencing and subsequently were evaluated in a validation cohort. …”
Get full text

The Relationship between Homocysteine Levels, MTHFR C677T and A1298C Polymorphism, and Pregnancy Outcomes in Georgian Women with Polycystic Ovary Syndrome: A Case-Control Study by Elene Asanidze, Zurab R. Tsetskhladze, Jenaro Kristesashvili, Marina Pirtskhalava, Manana Urjumelashvili, Shorena Tchiokadze, Malkhaz Vakhania, Nino Parunashvili, Aleksandre Asanidze

“…These groups were compared based on their serumHcy and the presence of two common single nucleotide polymorphisms (SNPs) in the MTHFR gene: C677T andA1298C.Results: The mean Hcy, frequency of hyperhomocysteinemia (Hhcy) and the prevalence of C677T and A1298Cpolymorphisms in MTHFR gene in PCOS patients were significantly higher than those without PCOS (P<0.05).Group I (PCOS with RPL) showed significantly elevated Hcy (13.7 ± 2.7) compared to group II (10.3 ± 2.6),group III (11.5 ± 2.3), and group IV (7.3 ± 2.2), P<0.001. …”
Get full text

Can Ethiopia eliminate malaria? Malaria burden: insights from the pre-elimination era, current challenges and perspectives by Dagmawi Woldesenbet, Yalewayker Tegegne, Abdulhakim Mussema, Elias Tamene, Kemal Mohamed, Wagaw Abebe, Melese Mekuria, Kasahun Bogale, Habtamu Geremew, Mufta Muzemil Shifa, Mulugeta Aemero Tegegne

“…Factors contributing to this resurgence include emerging drug resistance, insecticide resistance, and genetic mutations such as single nucleotide polymorphisms. Other challenges include the spreading resistance to effective antimalarial drugs, socio-cultural barriers to malaria elimination, the challenge posed by Plasmodium vivax in elimination efforts, and the occurrence of imported cases in previously low burden areas. …”
Get full text