Complete Genome Sequence Analysis of the First Imported Mpox Virus Clade Ib Variant in China by Yin Song, Yong Yan, Jingyu Xu, Shencong Lv, Ganglin Ren, Yamei Zhou, Wanchen Song, Rui Ge, Peihua Xu, Guoying Zhu, Zhongwen Chen

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Recovery of nearly 3,000 archaeal genomes from 152 terrestrial geothermal spring metagenomes by Yan-Ling Qi, Hao-Tian Zhang, Meng Li, Wen-Jun Li, Zheng-Shuang Hua

“…The most abundant phyla of archaeal genomes were Thermoproteota, Thermoplasmatota, and Micrarchaeota. …”
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Genomic analysis of antimicrobial resistant Escherichia coli isolated from manure and manured agricultural grasslands by C. Tyrrell, C. M. Burgess, F. P. Brennan, D. Münzenmaier, D. Drissner, R. J. Leigh, F. Walsh

“…The E. coli isolates were phenotypically antimicrobial resistant, predominantly multidrug resistant. Whole genome sequencing identified 31 antimicrobial resistance genes, and mutations in the gyrA, parC, and parE genes, conferring fluoroquinolone resistance. …”
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Complete mitochondrial genome sequence analysis revealed double matrilineal components in Indian Ghoongroo pigs by Pranab Jyoti Das, Satish Kumar, Manasee Choudhury, Seema Rani Pegu, K. Meera, Rajib Deb, Sunil Kumar, Santanu Banik, Vivek Kumar Gupta

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Molecular Crosstalking among Noncoding RNAs: A New Network Layer of Genome Regulation in Cancer by Marco Ragusa, Cristina Barbagallo, Duilia Brex, Angela Caponnetto, Matilde Cirnigliaro, Rosalia Battaglia, Davide Barbagallo, Cinzia Di Pietro, Michele Purrello

“…International Journal of Genomics…”
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Genomic Variability among Field Isolates and Laboratory-Adapted Strains of Leptospira borgpetersenii Serovar Hardjo by Alejandro Llanes, Carlos Mario Restrepo, Pablo Riesgo-Ferreiro, Sreekumari Rajeev

“…In order to better understand genetic variability among L. borgpetersenii serovar Hardjo isolates, we sequenced and compared the genomes of two laboratory-adapted strains and three abattoir-derived field isolates of L. borgpetersenii serovar Hardjo. …”
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Genome scans of facial features in East Africans and cross-population comparisons reveal novel associations. by Chenxing Liu, Myoung Keun Lee, Sahin Naqvi, Hanne Hoskens, Dongjing Liu, Julie D White, Karlijne Indencleef, Harold Matthews, Ryan J Eller, Jiarui Li, Jaaved Mohammed, Tomek Swigut, Stephen Richmond, Mange Manyama, Benedikt Hallgrímsson, Richard A Spritz, Eleanor Feingold, Mary L Marazita, Joanna Wysocka, Susan Walsh, Mark D Shriver, Peter Claes, Seth M Weinberg, John R Shaffer

“…Facial morphology is highly variable, both within and among human populations, and a sizable portion of this variation is attributable to genetics. Previous genome scans have revealed more than 100 genetic loci associated with different aspects of normal-range facial variation. …”
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Genome-wide identification of oat TCP gene family and expression patterns under abiotic stress by Jiaming Nie, Jiaming Nie, Hongbin Zhao, Hongbin Zhao, Hongbin Zhao, Xiaodong Guo, Xiaodong Guo, Tao Zhang, Tao Zhang, Bing Han, Bing Han, Bing Han, Huiyan Liu, Huiyan Liu

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Multimodal cell-free DNA whole-genome TAPS is sensitive and reveals specific cancer signals by Dimitrios V. Vavoulis, Anthony Cutts, Nishita Thota, Jordan Brown, Robert Sugar, Antonio Rueda, Arman Ardalan, Kieran Howard, Flavia Matos Santo, Thippesh Sannasiddappa, Bronwen Miller, Stephen Ash, Yibin Liu, Chun-Xiao Song, Brian D. Nicholson, Helene Dreau, Carolyn Tregidgo, Anna Schuh

“…Here, we develop a methodology for ctDNA detection using deep (80x) whole-genome TET-Assisted Pyridine Borane Sequencing (TAPS), a less destructive approach than bisulphite sequencing, which permits the simultaneous analysis of genomic and methylomic data. …”
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Robust genome editing activity and the applications of enhanced miniature CRISPR-Cas12f1 by Soo-Ji Park, Sungjin Ju, Won Jun Jung, Tae Yeong Jeong, Da Eun Yoon, Jang Hyeon Lee, Jiyun Yang, Hojin Lee, Jungmin Choi, Hyeon Soo Kim, Kyoungmi Kim

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Gestational diabetes mellitus causes genome hyper-methylation of oocyte via increased EZH2 by Hong-Yan Guo, Shou-Bin Tang, Li-Jun Li, Jing Lin, Ting-Ting Zhang, Shuo Chao, Xiao-Wen Jin, Kui-Peng Xu, Xiao-Feng Su, Shen Yin, Ming-Hui Zhao, Gui-An Huang, Li-Jia Yang, Wei Shen, Lei Zhang, Cui-Lian Zhang, Qing-Yuan Sun, Zhao-Jia Ge

“…Ezh2 regulates DNA methylation via DNMT1, and Ezh2 knockdown reduces the genomic methylation level of GDF1 oocytes. These results suggest that GDM may induce oocyte genomic hyper-methylation of offspring via enhancing the Ezh2 expression recruiting more DNMT1 into nucleus.…”
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Yerba mate (Ilex paraguariensis) genome provides new insights into convergent evolution of caffeine biosynthesis by Federico A Vignale, Andrea Hernandez Garcia, Carlos P Modenutti, Ezequiel J Sosa, Lucas A Defelipe, Renato Oliveira, Gisele L Nunes, Raúl M Acevedo, German F Burguener, Sebastian M Rossi, Pedro D Zapata, Dardo A Marti, Pedro Sansberro, Guilherme Oliveira, Emily M Catania, Madeline N Smith, Nicole M Dubs, Satish Nair, Todd J Barkman, Adrian G Turjanski

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Analysis of fetal fraction in non-invasive prenatal testing with low-depth whole genome sequencing by Xiaolei Xie, Weiguo Yin, Fuguang Li, Suxia Xuan, Yu Ouyang

“…This study aims to analyze the minimum FF thresholds for detecting T21 in PCR-free NIPT using a low-depth whole genome sequencing method. Methods: A total of 71 non-pregnant women and 4827 pregnant women were enrolled for a study investigating the impact of FF on NIPT testing. …”
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Screening and Whole-Genome Sequencing Analysis of Fructofuranose-Metabolizing Lactiplantibacillus plantarum 19M03 by SUN Daqing, QI He, DI Ziqing, GE Xianglin, HONG Qingping, DU Xinrui, YAO Yuxi, LI Hongfei

Subjects: “…fructan metabolism; whole-genome sequencing; metabolic mechanism…”
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Discovery and characterization of complete genomes of 38 head-tailed proviruses in four predominant phyla of archaea by Tianqi Xu, Yimin Ni, Hailing Li, Shuang Wu, Shuling Yan, Lanming Chen, Yongxin Yu, Yongjie Wang

“…The present study revealed the complete genomes of 38 archaeal head-tailed proviruses through comprehensive data mining. …”
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Chromosome-level genome assembly of a destructive leaf-mining moth Eriocrania semipurpurella alpina by Gui-fang Wang, Jin-wu He, Cheng Sun, Xue-yan Li, Pei-feng Qi, Dan-dan Feng, Cai-qing Yang, Ai-bing Zhang

“…In this study, utilizing Illumina sequencing, PacBio HiFi sequencing, and Hi-C technology, we constructed a chromosome-level genome assembly of E. semipurpurella alpina, representing the first high-quality genome in the Eriocraniidae family. …”
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Genomic identification, evolutionary analysis, and transcript profiling of protein phosphatase 2C in Solanum lycopersicum by Miah Mohammad Sakib, Md. Sifatul Islam, Asifur Rob Bhuya, Md. Rihan Kabir Shuvo, Mohammad Abdullah-Al-Shoeb, Muhammad Abul Kalam Azad, Ajit Ghosh

“…This study focuses on the comprehensive genomic identification, evolutionary analysis, and transcript profiling of the PP2C gene family within Solanum lycopersicum, an economically significant crop with substantial agricultural and nutritional importance. …”
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Multi-INTACT: integrative analysis of the genome, transcriptome, and proteome identifies causal mechanisms of complex traits by Jeffrey Okamoto, Xianyong Yin, Brady Ryan, Joshua Chiou, Francesca Luca, Roger Pique-Regi, Hae Kyung Im, Jean Morrison, Charles Burant, Eric B. Fauman, Markku Laakso, Michael Boehnke, Xiaoquan Wen

“…Genome Biology…”
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IS IT POSSIBLE TO PREDICT TUMOR PROGRESSION THROUGH GENOMIC CHARACTERIZATION OF MONOCLONAL GAMMOPATHY AND SMOLDERING MULTIPLE MYELOMA? by Ugo Testa, Giuseppe Leone, Elvira Pelosi, Germana Castelli, Valerio De Stefano

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Decoding mutational signatures in breast cancer: Insights from a multi-cohort study by Margaux Betz, Andréa Witz, Julie Dardare, Cassandra Michel, Vincent Massard, Romain Boidot, Pauline Gilson, Jean-Louis Merlin, Alexandre Harlé

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