A single-plasmid-based, easily curable CRISPR/Cas9 system for rapid, iterative genome editing in Pseudomonas putida KT2440 by Qifeng Wen, JinJin Chen, Jin Li, Ida Putu Wiweka Dharmasiddhi, Maohua Yang, Jianmin Xing, Yilan Liu

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A new species of Semisulcospira O. Boettger, 1886 (Gastropoda, Cerithoidea, Semisulcospiridae) from Fujian, China with mitochondrial genome and its phylogenetic implications by Yi-Bin Xu, Yuan-Zheng Meng, Sheng Zeng, Hang-Jun Wang, Shen Zhong, De-Yuan Yang, Xi-Ping Zhou, Christopher J. Glasby

“…To address this deficit, we provide seven complete mitochondrial genomes for S. egretta sp. nov., obtained using the genome skimming sequencing method. …”
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Neobacillus driksii sp. nov. isolated from a Mars 2020 spacecraft assembly facility and genomic potential for lasso peptide production in Neobacillus by Asif Hameed, Francesca McDonagh, Pratyay Sengupta, Georgios Miliotis, Shobhan Karthick Muthamilselvi Sivabalan, Lukasz Szydlowski, Anna Simpson, Nitin Kumar Singh, Punchappady Devasya Rekha, Karthik Raman, Kasthuri Venkateswaran

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Whole-genome sequencing-based characterization of Salmonella enterica Serovar Enteritidis and Kentucky isolated from laying hens in northwest of Iran, 2022–2023 by Shirin Vakili, Mehri Haeili, Adel Feizi, Kiarash Moghaddasi, Maryam Omrani, Arash Ghodousi, Daniela Maria Cirillo

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Expression of Concern for Nazir et al., “Characterization, taxonomic classification, and genomic analysis of two newly isolated bacteriophages with potential to infect Escherichia coli”

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Progression from Sustained BK Viruria to Sustained BK Viremia with Immunosuppression Reduction Is Not Associated with Changes in the Noncoding Control Region of the BK Virus Genome by Imran A. Memon, Bijal A. Parikh, Monique Gaudreault-Keener, Rebecca Skelton, Gregory A. Storch, Daniel C. Brennan

“…Our data support, at a genomic level, the effectiveness of reduction of immunosuppression for prevention of progression from viremia to BKVAN.…”
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Outbreak of carbapenem resistant Klebsiella pneumoniae in a neurorehabilitation unit: Genomic epidemiology reveals complex transmission pattern in a tertiary care hospital by Maria Grazia Silvotti, Erika Scaltriti, Luca Bolzoni, Beatrice Zerbi, Gabriella Tocci, Andrea Zappavigna, Gianfranco Lamberti, Federico Donati, Franco Federici, Stefano Pongolini, Giuliana Lo Cascio

“…Among the ST307 isolates, we identified two genomically distinct clusters of five and two cases. …”
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Whole-genome sequencing and secondary metabolite exploration of the novel Bacillus velezensis BN with broad-spectrum antagonistic activity against fungal plant pathogens by Yanli Zheng, Tongshu Liu, Ziyu Wang, Xu Wang, Haiyan Wang, Ying Li, Wangshan Zheng, Shiyu Wei, Yan Leng, Jiajia Li, Yan Yang, Yang Liu, Zhaoyu Li, Qiang Wang, Qiang Wang, Yongqiang Tian

“…Genomic analysis revealed that 29% of the genes are directly involved in plant growth, while 70% of the genes are indirectly involved. …”
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Calcium hydroxide nanoparticles induce cell death, genomic instability, oxidative stress and apoptotic gene dysregulation on human HepG2 cells by Hanan R. H. Mohamed, Esraa H. Ibrahim, Shahd E. E. Shaheen, Nesma O. E. Hussein, Ayman Diab, Gehan Safwat

“…However, limited information exists regarding their effects on genomic DNA integrity and their potential to induce apoptosis in normal and cancerous human cell lines. …”
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Role of apoptosis genes in aggression revealed using combined analysis of ANDSystem gene networks, expression and genomic data in grey rats with aggressive behavior by A. O. Bragin, O. V. Saik, I. V. Chadaeva, P. S. Demenkov, A. L. Markel, Yu. L. Orlov, E. I.  Rogaev, I. N. Lavrik, V. A. Ivanisenko

“…The Stx1a, Mbp and Th genes have the highest index of betweenness centrality in the associative network of differentially expressed genes. Genome analysis revealed 137 polymorphic genes. Three of them (Lig4, Parp1 and Pigt) were involved in neuronal apoptosis. …”
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Analysis of the genome data of Acinetobacter baumannii UOL-KIMZ-24, exhibiting multiple drug resistance through efflux pumpsGenebANK/NCBI. by Kiran Fatima, Syed Zeeshan Haider Naqvi, Hazrat Ali, Noor Hassan, Anam Saqib, Farheen Ansari, Sidrah Saleem, Shah Jahan, Mushtaq Ahmad

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Whole genome sequence of seaweed endophyte Bacillus halotolerans strain AUPP for antagonistic activity against Fusarium incarnatum causing chilli fruit rot by Hudson Ann Suji, Karuppiah Manikandan, Appusami Sudha, Arjunan Muthukumar, Chelladurai Jeyalakshmi, Muniyandi Charumathi, Manickam Rajesh, Thankaraj Suthin Raj

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Two Years of SARS-CoV-2 Omicron Genomic Evolution in Brazil (2022–2024): Subvariant Tracking and Assessment of Regional Sequencing Efforts by Ueric José Borges de Souza, Fernando Rosado Spilki, Amilcar Tanuri, Paulo Michel Roehe, Fabrício Souza Campos

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Efficient identification of genomic insertions and surrounding regions in two transgenic maize events using third-generation single-molecule nanopore sequencing technology by Qing Liu, Qi Wang, Lihua Ning, Ziqi Chen, Chuang Zhang, Yang Liu, Buxuan Qian, Jia Guo, Yuejia Yin

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Genome-wide association study of the fatty liver index in the Taiwanese population reveals shared and population-specific genetic risk factors across ethnicities by Pei Pei Lau, Chun-Yu Wei, Min-Rou Lin, Wan-Hsuan Chou, Yu-Jui Yvonne Wan, Wei-Chiao Chang

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Whole-Genome Duplication and Purifying Selection Contributes to the Functional Redundancy of Auxin Response Factor (ARF) Genes in Foxtail Millet (Setaria italica L.) by You Chen, Bin Liu, Yujun Zhao, Wenzhe Yu, Weina Si

“…International Journal of Genomics…”
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Comprehensive genome-wide analysis of ARF transcription factors in orchardgrass (Dactylis glomerata): the positive regulatory role of DgARF7 in drought resistance by Miaoli Wang, Wen Liu, Guangyan Feng, Gang Nie, Zhongfu Yang, Feixiang Hao, Linkai Huang, Xinquan Zhang

“…BMC Genomics…”
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A case-control genome-wide association study of estimated breeding values for resistance to gastrointestinal nematodes in two local dairy sheep breeds by C. Persichilli, S. Biffani, G. Senczuk, M. Di Civita, M.K. Bitew, A. Bosco, L. Rinaldi, S. Grande, G. Cringoli, F. Pilla

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Extreme-phenotype genome-wide association study (XP-GWAS) of powdery mildew race 2 W tolerance in the USDA Citrullus germplasm collection by Sandra E. Branham, Venkata Rao Ganaparthi, W. Patrick Wechter, Younghoon Park, Todd Wehner, Angela Davis, Antonia Tetteh, Laura Massey, Sue Hammar, Rebecca Grumet, Shaker Kousik, Amnon Levi

“…We employed a bulked segregant analysis approach using historical data from the USDA Germplasm Resource Information Network for an extreme-phenotype genome-wide association study (XP-GWAS) of tolerance to P. xanthii race 2 W in Citrullus accessions (N = 1,147). …”
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Biological Characteristics and Whole Genome Analysis of vB_VpP_3, a Bacteriophage against Multi-drug Resistant Vibrio parahaemolyticus by LIU Qingqing, ZHANG Ming, YANG Wenjing, LIU Ke, LI Fan, LI Xuepeng, LI Jianrong, ZHANG Defu

Subjects: “…vibrio parahaemolyticus; bacteriophage; biocontrol; biological characteristics; genome analysis…”
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