Utilizing sc-linker to integrate single-cell RNA sequencing and human genetics to identify cell types and driver genes associated with non-small cell lung cancer by Yangfan Zhou, Liang Zhao, Meimei Cai, Doudou Luo, Yizhen Pang, Jianhao Chen, Qicong Luo, Qin Lin

“…Methods In this study, we utilized the sc-linker framework developed by Jagadeesh, which is an integrated framework that combines single-cell RNA sequencing (scRNA-seq), epigenomic single nucleotide polymorphism (SNP)-to-gene mapping, and GWAS summary statistics to infer potential cell types and diseases affected by genetic variations. …”
Get full text

The features of Tat protein of human immunodeficiency virus type 1 (Retroviridae: <i>Lentivirus: Lentivirus humimdef1</i>) non-A6 variants, characteristic for the Russian Federatio... by Anna I. Kuznetsova, Anastasiia A. Antonova, Aleksey V. Lebedev, Ekaterina N. Ozhmegova, Anastasia V. Shlykova, Ilya A. Lapovok, Oxana V. Galzitskaya

“…Materials and methods. The whole-genome nucleotide sequences of HIV-1 CRF63_02A6, CRF03_A6B, as well as subtype B and CRF02_AG circulating in Russia were used. …”
Get full text

Genotyping-by-sequencing derived SNP markers reveal genetic diversity and population structure of Dactylis glomerata germplasm by Muhammad Tanveer Altaf, Pablo Federico Cavagnaro, Kağan Kökten, Amjad Ali, Andres Morales, Andres Morales, Muhammed Tatar, Mehmet Bedir, Muhammad Azhar Nadeem, Muhammad Aasim, Nafiz Çeliktaş, Sheikh Mansoor, Faheem Shehzad Baloch, Faheem Shehzad Baloch

“…This study investigates the genetic diversity (GD) and population structure of 91 accessions of D. glomerata from Turkey and Iran using genotyping-by-sequencing based single nucleotide polymorphism (SNP) markers. A total of 2913 high-quality SNP markers revealed substantial genetic variability across provinces. …”
Get full text

Prevalence and antimicrobial resistance of three clones (ST1223, ST2198, ST2250) of Staphylococcus argenteus clinical isolates in northern Japan by Meiji Soe Aung, Noriko Urushibara, Mitsuyo Kawaguchiya, Nobuhide Ohashi, Mina Hirose, Kenji Kudo, Masahiko Ito, Nobumichi Kobayashi

“…Antimicrobial susceptibility was determined using broth microdilution test and resistance genes were detected by multiplex/uniplex PCR. Nucleotide sequences of haemolysin genes (hla, hlb, hld, and hlg) were determined and analysed in some isolates. …”
Get full text

Ganciclovir Resistance-Linked Mutations in the HCMV <i>UL97</i> Gene: Sanger Sequencing Analysis in Samples from Transplant Recipients at a Tertiary Hospital in Southern Brazil by Anna Caroline Avila da Rocha, Grazielle Motta Rodrigues, Alessandra Helena da Silva Hellwig, Dariane Castro Pereira, Fabiana Caroline Zempulski Volpato, Afonso Luís Barth, Fernanda de-Paris

“…Among 16 sequenced samples, 8 exhibited nucleotide substitutions resulting in amino acid changes. …”
Get full text

ALDH2 Overexpression Alleviates High Glucose-Induced Cardiotoxicity by Inhibiting NLRP3 Inflammasome Activation by Ruiping Cao, Dian Fang, Jiahui Wang, Ying Yu, Hongwei Ye, Pinfang Kang, Zhenghong Li, Hongju Wang, Qin Gao

“…Although the underlying mechanisms of diabetes-induced myocardial injury have not been fully illuminated, the inflammation reaction has been reported intently linked with diabetes. The nucleotide binding oligomerization domain-like receptor protein 3 (NLRP3) inflammasome, the key component of pyroptosis, is involved in inflammation reaction, which may be one of the important mechanisms in diabetes-induced myocardial injury. …”
Get full text

The Demoiselle crane (Anthropoides virgo) population genetic structure in Russia by E. A. Mudrik, Е. I. Ilyashenko, О. А. Goroshko, T. A. Kashentseva, М. V. Korepov, I. A. Sikorskiy, G. S. Dzhamirzoev, V. Yu. Ilyashenko, D. V. Politov

“…Despite the haplotype diversity was high, the nucleotide diversity of the species was low (0.0033 ± 0.0003). …”
Get full text

VdPAT1 encoding a pantothenate transporter protein is required for fungal growth, mycelial penetration and pathogenicity of Verticillium dahliae by Stephen Mwangi Kamau, Yongtai Li, Tiange Sun, Feng Liu, Qian-Hao Zhu, Xinyu Zhang, Jie Sun, Yanjun Li

“…Comparative transcriptome analysis of wild-type and mutant strain cultivated on sterilized carboxymethyl cellophane membranes found that the amino sugar and nucleotide sugar metabolism pathway, which was related to chitin synthesis and degradation as well as UDP-glucose synthesis, was the most significantly down-regulated pathway in VdPAT1 deletion mutant. …”
Get full text

Long-Term Follow-Up, Association between CARD15/NOD2 Polymorphisms, and Clinical Disease Behavior in Crohn’s Disease Surgical Patients by Francesco Giudici, Tiziana Cavalli, Cristina Luceri, Edda Russo, Daniela Zambonin, Stefano Scaringi, Ferdinando Ficari, Marilena Fazi, Amedeo Amedei, Francesco Tonelli, Cecilia Malentacchi

“…Methods. 191 surgical CD patients were prospectively characterized both for the main single nucleotide polymorphisms of CARD15/NOD2 and for many other environmental risk factors connected with the severe disease form. …”
Get full text

Pseudodominant Nanophthalmos in a Roma Family Caused by a Novel PRSS56 Variant by Lubica Dudakova, Pavlina Skalicka, Olga Ulmanová, Martin Hlozanek, Viktor Stranecky, Frantisek Malinka, Andrea L. Vincent, Petra Liskova

“…Analysis of single nucleotide polymorphisms in linkage disequilibrium with the c.1509G>C in PRSS56 suggested a shared chromosomal segment. …”
Get full text

Polymorphisms in the Glucagon-Like Peptide 1 Receptor (GLP-1R) Gene Are Associated with the Risk of Coronary Artery Disease in Chinese Han Patients with Type 2 Diabetes Mellitus: A... by Xiaowei Ma, Ran Lu, Nan Gu, Xiaowei Wei, Ge Bai, Jianwei Zhang, Ruifen Deng, Nan Feng, Jianping Li, Xiaohui Guo

“…Eleven haplotype-tagging single nucleotide polymorphisms (SNPs), distributed across 22 kb of the 39 kb GLP-1R gene, were selected and genotyped in diabetic patients from a Chinese Han population. …”
Get full text

Noninvasive prenatal diagnosis (NIPD) of non-syndromic hearing loss (NSHL) for singleton and twin pregnancies in the first trimester by Huanyun Li, Shaojun Li, Zhenhua Zhao, Lingrong Kong, Xinyu Fu, Jingqi Zhu, Jun Feng, Weiqin Tang, Di Wu, Xiangdong Kong

“…Parental haplotypes were constructed by target sequencing of blood samples from the parents and the proband. Then single nucleotide polymorphisms (SNP) within target regions were classified into four and six categories in singleton and twin pregnancy, respectively. …”
Get full text

Decoding oral cancer: insights from miRNA expression profiles and their regulatory targets by Xin Wang, Xin Wang, Shuang Zhang, Shuang Zhang, Shuyi Wang, Tao Cao, Tao Cao, Hong Fan, Hong Fan

“…Functional annotation and pathway enrichment analyses highlighted significant involvement of DEmiRs and their target genes in cell cycle-related processes, including enrichment in the nucleus, transcription factor activity, regulation of nucleosides, nucleotide and nucleic acids, cell growth and/or maintenance, mitotic cell cycle, mitotic M-M/G1 phases an DNA replication. …”
Get full text

Novel molecular biomarkers of cancer therapy‐induced cardiotoxicity in adult population: a scoping review by Irene Cartas‐Espinel, Marcelino Telechea‐Fernández, Carlos Manterola Delgado, Andrés Ávila Barrera, Nicolás Saavedra Cuevas, Angela L. Riffo‐Campos

“…Fourteen studies reported 44 new protein biomarkers, 18 studies reported 57 new single nucleotide polymorphism biomarkers, and 11 studies reported 171 new gene expression profiles associated with cardiotoxicity. …”
Get full text

GWAS Identifies SNP Markers and Candidate Genes for Off-Flavours and Protein Content in Faba Bean (<i>Vicia faba</i> L.) by Antonio Lippolis, Boudewijn Hollebrands, Valentina Acierno, Catrienus de Jong, Laurice Pouvreau, João Paulo, Salvador A. Gezan, Luisa M. Trindade

“…GWAS identified a total of 148 single nucleotide polymorphisms (SNPs) loci in 2021 and 167 in 2022. …”
Get full text

Impact of commercial gut health interventions on caecal metagenome and broiler performance by Gladys Maria Pangga, Banaz Star-Shirko, Androniki Psifidi, Dong Xia, Nicolae Corcionivoschi, Carmel Kelly, Callie Hughes, Ursula Lavery, Anne Richmond, Umer Zeeshan Ijaz, Ozan Gundogdu

“…GHI supplementation generally affected the abundance of microbial enzymes relating to carbohydrate and protein digestion and metabolic pathways relating to energy, nucleotide synthesis, short-chain fatty acid synthesis, and drug-transport systems. …”
Get full text

Association between the ABCC11 gene polymorphism-determined earwax properties and external auditory canal microbiota in healthy adults by Yasunobu Amari, Masahiro Hosonuma, Takuya Mizukami, Junya Isobe, Yuki Azetsu, Eiji Funayama, Yuki Maruyama, Toshiaki Tsurui, Kohei Tajima, Aya Sasaki, Yoshitaka Yamazaki, Ryota Nakano, Yutaka Sano, Atsushi Ishida, Tatsuya Nakanishi, Seiji Mochizuki, Yuri Yoshizawa, Sumito Kumagai, Sakiko Yasuhara, Kakei Ryu, Tatsunori Oguchi, Atsuo Kuramasu, Kiyoshi Yoshimura, Takehiko Sambe, Sei Kobayashi, Naoki Uchida

“…We hypothesized that a single-nucleotide polymorphism in the ATP-binding cassette sub-family C member 11 (ABCC11) gene, which determines earwax properties, regulates the ear canal microbiota. …”
Get full text

GWAS identifies a polyembryony locus in mango: development of KASP and PACE markers for marker-assisted breeding by Gul Shad Ali, Shamseldeen Eltaher, Shamseldeen Eltaher, Jin Li, Barbie Freeman, Sukhwinder Singh

“…In this report, genome-wide association studies were conducted on a diversity panel consisting of 42 polyembryonic and 42 monoembryonic M. indica cultivars using high-density single nucleotide polymorphism (SNP) markers. These studies revealed that the polyembryony locus is in a 360-kb region on linkage group 17 of the ‘Alphonso’ reference genome. …”
Get full text

Genomic characterization of Achromobacter genogroup 20 and identification of a potential species-specific marker by Mariana Papalia, Rocio Stucchi, Valeria Alexander, Liliana Clara, Mariángeles Visus, Gabriel Gutkind, Marcela Radice

“…All Achromobacter spp. genomes were obtained from NCBI, and the presence of blaOXA was investigated. Average nucleotide identity (ANI) and tetranucleotide analysis (TETRA) were calculated. …”
Get full text

Molecular Characterization of the Tumor Suppressor Candidate 5 Gene: Regulation by PPARγ and Identification of TUSC5 Coding Variants in Lean and Obese Humans by Trina A. Knotts, Hyun Woo Lee, Jae Bum Kim, Pieter J. Oort, Ruth McPherson, Robert Dent, Keisuke Tachibana, Takefumi Doi, Songtao Yu, Janardan K. Reddy, Kenji Uno, Hideki Katagiri, Magdalena Pasarica, Steven R. Smith, Dorothy D. Sears, Michel Grino, Sean H. Adams

“…We tested the hypothesis that the TUSC5 gene is a bona fide PPARγ target and evaluated whether its WAT expression or single-nucleotide polymorphisms (SNPs) in the TUSC5 coding region are associated with human obesity. …”
Get full text