Redundant essentiality of AsmA-like proteins in Pseudomonas aeruginosa by Davide Sposato, Jessica Mercolino, Luisa Torrini, Paola Sperandeo, Massimiliano Lucidi, Riccardo Alegiani, Ilaria Varone, Giorgia Molesini, Livia Leoni, Giordano Rampioni, Paolo Visca, Francesco Imperi

“…Deletion of asmA-like genes in many different combinations, coupled with conditional mutagenesis, revealed that four AsmA-like proteins are redundantly essential for growth and OM integrity in P. aeruginosa, including a novel AsmA-like protein (PA4735) that is not present in E. coli. …”
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Identification and Characterization of an Affimer Affinity Reagent for the Detection of the cAMP Sensor, EPAC1 by Hanna K. Buist, Urszula Luchowska-Stańska, Boy van Basten, Jessica Valli, Brian O. Smith, George S. Baillie, Colin Rickman, Bryon Ricketts, Alex Davidson, Ryan Hannam, Joanne Sunderland, Stephen J. Yarwood

“…Dot blots and indirect ELISA assays were next used to identify Affimer 780A as the top EPAC1 binder. Mutagenesis studies further revealed a potential interaction site for 780A within the EPAC1 cyclic nucleotide binding domain (CNBD). …”
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HIV-1 subtype C Nef-mediated SERINC5 down-regulation significantly contributes to overall Nef activity by Delon Naicker, Nelson Sonela, Steven W. Jin, Takalani Mulaudzi, Doty Ojwach, Tarylee Reddy, Mark A. Brockman, Zabrina L. Brumme, Thumbi Ndung’u, Jaclyn K. Mann

“…Using a codon-by-codon analysis, several amino acids were significantly associated with increased (10I, 11V, 38D, 51T, 65D, 101V, 188H and, 191H) or decreased (10K, 38E, 65E, 135F, 173T, 176T and, 191R) SERINC5 down-regulation activity. Site-directed mutagenesis experiments of selected mutants confirmed a substantial reduction in SERINC5 down-regulation activity associated with the mutation 173T, while mutations 10K, 135F, and 176T were associated with more modest reductions in activity that were not statistically significant. …”
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Unmarked Gene Editing in Clavibacter michiganensis Using CRISPR/Cas9 and 5-Fluorocytosine Counterselection by Xing Chen, Qing Tan, Qingyang Lyu, Chengxuan Yu, Na Jiang, Jianqiang Li, Laixin Luo

“…Initial experiments indicated that CRISPR/Cas9-mediated transformation could be utilized for both site-directed mutagenesis, in which an A to G point mutation was introduced at the 128th nucleotide of the C. michiganensis rpsL gene to generate a streptomycin-resistant mutant, and complete gene knockout, in which the deletion of the C. michiganensis celA or katA genes resulted in transformants that lacked cellulase and catalase activity, respectively. …”
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Semi-Rational Design of <i>Proteus mirabilis</i> <span style="font-variant: small-caps">l</span>-Amino Acid Deaminase for Expanding Its Substrate Specificity in α-Keto Acid Synthes... by Anwen Fan, Ziyao Wang, Haojie Qu, Yao Nie, Yan Xu

“…Site-directed saturation mutagenesis identified E417 as the key site for substrate specificity expansion. …”
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Analysis of somatic mutations and key driving factors of cervical cancer progression by Niyazi Mayinuer, Han Lili, Husaiyin Sulaiya, Aishanjiang Ayimila, Guo Min, Muhaimati Gulibanu, Rozi Hankez, Sun Haiyan, Lu Jing, Ma Chunhua, Rouzi Nuermangul, Liu Xiaowan, Zhu Kaichun

“…Conclusively, HPV insertion/integration, APOBEC mutagenesis, and HLA polymorphisms are high-risk factors for cervical cancer and may be causes of genome instability and somatic mutations. …”
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An electrostatic selection mechanism controls sequential kinase signaling downstream of the T cell receptor by Neel H Shah, Qi Wang, Qingrong Yan, Deepti Karandur, Theresa A Kadlecek, Ian R Fallahee, William P Russ, Rama Ranganathan, Arthur Weiss, John Kuriyan

“…Using a platform that combines exhaustive point-mutagenesis of peptide substrates, bacterial surface-display, cell sorting, and deep sequencing, we have defined the specificities of the first two kinases in this pathway, Lck and ZAP-70, for the T cell receptor ζ chain and the scaffold proteins LAT and SLP-76. …”
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Network pharmacology, computational biology integrated surface plasmon resonance technology reveals the mechanism of ellagic acid against rotavirus by Jiangang Zheng, Abdul Haseeb, Ziyang Wang, Hejie Wang

“…The Desmond program was used for molecular dynamics simulation. Saturation mutagenesis analysis was performed using Schrodinger's Maestro 13.5 software. …”
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The Arabidopsis T‐DNA mutant SALK_008491 carries a 14‐kb deletion on chromosome 3 that provides rare insights into the plant response to dynamic light stress by Laura S. Lopez, Carsten Völkner, Philip M. Day, Chance M. Lewis, Chase L. Lewis, Dominik Schneider, Viviana Correa Galvis, Jeffrey A. Cruz, Ute Armbruster, David M. Kramer, Hans‐Henning Kunz

“…Nevertheless, as shown through this research, such unpredictable genetic events following T‐DNA mutagenesis can provide unintuitive insights that allow for understanding complex phenomena such as the plant acclimation to dynamic high light stress.…”
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From Farm to Flight: CoverCress as a Low Carbon Intensity Cash Cover Crop for Sustainable Aviation Fuel Production. A Review of Progress Towards Commercialization by Winthrop B. Phippen, Rob Rhykerd, John C. Sedbrook, John C. Sedbrook, Cristine Handel, Steve Csonka

“…Through a combination of breeding and genomics-enabled mutagenesis approaches, considerable progress has been made in genetically improving yield and other agronomic traits. …”
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Nrf2/ARE Signaling Directly Regulates SOX9 to Potentially Alter Age-Dependent Cartilage Degeneration by Yusuke Kubo, Rainer Beckmann, Athanassios Fragoulis, Claudius Conrads, Prathyusha Pavanram, Sven Nebelung, Michael Wolf, Christoph Jan Wruck, Holger Jahr, Thomas Pufe

“…Putative ARE sites (ARE₁, ARE₂) were identified in the <i>SOX9</i> promoter region. ARE₂ mutagenesis significantly reduced <i>SOX9</i> promoter activity, but ARE₁ excision did not. …”
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Responses of elite sorghum (Sorghum bicolor [L.] Moench) lines developed via gamma-radiation for grain yield, component traits and drought tolerance by Maliata Athon Wanga, Hussein Shimelis, Jacob Mashilo, Lydia N. Horn, Fatma Sarsu

“…Induced plant mutagenesis is a powerful technique to create genetic variation for agronomic traits and drought tolerance selection programs. …”
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Conserved RNA-binding specificity of polycomb repressive complex 2 is achieved by dispersed amino acid patches in EZH2 by Yicheng Long, Ben Bolanos, Lihu Gong, Wei Liu, Karen J Goodrich, Xin Yang, Siming Chen, Anne R Gooding, Karen A Maegley, Ketan S Gajiwala, Alexei Brooun, Thomas R Cech, Xin Liu

“…Here, we use comprehensive mutagenesis and hydrogen deuterium exchange mass spectrometry (HDX-MS) to identify critical residues for RNA interaction in PRC2 core complexes from Homo sapiens and Chaetomium thermophilum, for which crystal structures are known. …”
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Venom Down Under: Dynamic Evolution of Australian Elapid Snake Toxins by Timothy N. W. Jackson, Kartik Sunagar, Eivind A. B. Undheim, Ivan Koludarov, Angelo H. C. Chan, Kate Sanders, Syed A. Ali, Iwan Hendrikx, Nathan Dunstan, Bryan G. Fry

“…Despite these differences, the different α-neurotoxin types were shown to accumulate mutations in similar regions of the protein, largely in the loops and structurally unimportant regions, highlighting the significant role of focal mutagenesis. We theorize that this phenomenon not only affects toxin potency or specificity, but also generates necessary variation for preventing/delaying prey animals from acquiring venom-resistance. …”
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Increased On-Target Rate and Risk of Concatemerization after CRISPR-Enhanced Targeting in ES Cells by Valérie Erbs, Romain Lorentz, Benjamin Eisenman, Laurence Schaeffer, Laurence Luppi, Loic Lindner, Yann Hérault, Guillaume Pavlovic, Marie Wattenhofer-Donzé, Marie-Christine Birling

“…The French mouse clinic (Institut Clinique de la Souris; ICS) has produced more than 2000 targeting vectors for ‘à la carte’ mutagenesis in C57BL/6N mice. Although most of the vectors were used successfully for homologous recombination in murine embryonic stem cells (ESCs), a few have failed to target a specific locus after several attempts. …”
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Transcriptomic Response of the Diazotrophic Bacteria <i>Gluconacetobacter diazotrophicus</i> Strain PAL5 to Iron Limitation and Characterization of the <i>fur</i> Regulatory Networ... by Cleiton de Paula Soares, Michelle Zibetti Trada-Sfeir, Leonardo Araújo Terra, Jéssica de Paula Ferreira, Carlos Magno Dos-Santos, Izamara Gesiele Bezerra de Oliveira, Jean Luiz Simões Araújo, Carlos Henrique Salvino Gadelha Meneses, Emanuel Maltempi de Souza, José Ivo Baldani, Marcia Soares Vidal

“…RNA-seq, targeted gene mutagenesis and computational motif discovery tools were used to define the <i>G. diazotrophicus</i><i>fur</i> regulon. …”
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Investigations into the antibacterial effects and potential mechanism of gambogic acid and neogambogic acid by Mingzhu Li, Mingzhu Li, Yuan Chen, Lijuan Wang, Chujie Lu, Chujie Lu, Peiying Chen, Yuanling Jin, Jiacong Li, Fei Gao, Zhuo Shang, Wei Lin, Wei Lin, Wei Lin, Wei Lin

“…Using microscale thermophoresis, molecular docking, and enzymatic assays, we further confirmed that GA and NGA occupy the substrate binding pocket of EfaUPPS with micro-molar binding affinity, preventing the natural substrates farnesyl diphosphate (FPP) from entering. Mutagenesis analysis revealed that L91 and L146 are two key residues in the binding between GA/NGA and UPPS. …”
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Homology modeling and docking studies of a Δ9-fatty acid desaturase from a Cold-tolerant Pseudomonas sp. AMS8 by Lawal Garba, Mohamad Ariff Mohamad Yussoff, Khairul Bariyyah Abd Halim, Siti Nor Hasmah Ishak, Mohd Shukuri Mohamad Ali, Siti Nurbaya Oslan, Raja Noor Zaliha Raja Abd. Rahman

“…As the three-dimensional structures of the bacterial membrane fatty acid desaturases are not available, relevant information about the enzymes are derived from their amino acid sequences, site-directed mutagenesis and domain swapping in similar membrane-bound desaturases. …”
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Broadly neutralizing human antibodies against dengue virus identified by single B cell transcriptomics by Natasha D Durham, Aditi Agrawal, Eric Waltari, Derek Croote, Fabio Zanini, Mallorie Fouch, Edgar Davidson, Olivia Smith, Esteban Carabajal, John E Pak, Benjamin J Doranz, Makeda Robinson, Ana M Sanz, Ludwig L Albornoz, Fernando Rosso, Shirit Einav, Stephen R Quake, Krista M McCutcheon, Leslie Goo

“…Among these, we identified J9 and J8, two somatically related bNAbs that potently neutralized DENV1-4. Mutagenesis studies showed that the major recognition determinants of these bNAbs are in E protein domain I, distinct from the only known class of human bNAbs against DENV with a well-defined epitope. …”
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Assessment of ATP8B1 Deficiency in Pediatric Patients With Cholestasis Using Peripheral Blood Monocyte-Derived Macrophages by Hisamitsu Hayashi, Sotaro Naoi, Takao Togawa, Yu Hirose, Hiroki Kondou, Yasuhiro Hasegawa, Daiki Abukawa, Mika Sasaki, Koji Muroya, Satoshi Watanabe, Satoshi Nakano, Kei Minowa, Ayano Inui, Akinari Fukuda, Mureo Kasahara, Hironori Nagasaka, Kazuhiko Bessho, Mitsuyoshi Suzuki, Hiroyuki Kusuhara

“…This method identified three PFIC1 patients in a group of PFIC patients undiagnosed by genome sequencing, an identical diagnostic outcome to that achieved by analysis of liver specimens and in vitro mutagenesis studies. In conclusion, ATP8B1 deficiency caused incomplete polarization of HMDM into M2c. …”
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