A re-assessment of Taxomyces andreanae, the alleged taxol-producing fungus, using comparative genomics by Tian Cheng, Miroslav Kolařík, Luis Quijada, Marc Stadler

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RETRACTED ARTICLE: Whole-genome assembly of Akkermansia muciniphila sequenced directly from human stool by Aurélia Caputo, Grégory Dubourg, Olivier Croce, Sushim Gupta, Catherine Robert, Laurent Papazian, Jean-Marc Rolain, Didier Raoult

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Protocol for reconstructing ancestral genomes from present-day samples by applying local ancestry inference by Xiaoxi Zhang, Baonan Wang, Jia Wen, Yang Gao, Yuwen Pan, Shuhua Xu

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Coevolution of aah: A dps-Like Gene with the Host Bacterium Revealed by Comparative Genomic Analysis by Liyan Ping, Matthias Platzer, Gaiping Wen, Nicolas Delaroque

“…A conserved genomic synteny was identified in some taxonomically related Actinobacteria, suggesting that the ancestor genes had incorporated into the genome before the divergence of Micrococcineae from other families. …”
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Unlocking prognostic potential: A genomic signature of caloric restriction in patients with epithelial ovarian cancer. by Ori Tal, Tamar Zahavi, Liat Anabel Sinberger, Mali Salmon-Divon

“…Based on the gene expression of these proteins, we calculated a Non-Fasting Genomic Signature score for each ovarian cancer sample sourced from the Cancer Genome Atlas (TCGA) database. …”
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Identification of TUBB3 as an immunotherapy target in lung cancer by genome wide in vivo CRISPR screening by Dan Zhao, Ravindra Deshpande, Kerui Wu, Abhishek Tyagi, Sambad Sharma, Shih-Ying Wu, Fei Xing, Stacey O'Neill, Jimmy Ruiz, Feng Lyu, Kounosuke Watabe

“…To identify genes underlying anti-PD-1 immunotherapy resistance using a systematic approach, we performed an in vivo genome wide CRISPR screening in lung cancer cells. …”
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Detection and Whole-Genome Characteristics of <i>Bordetella trematum</i> Isolated from Captive Snakes by Magdalena Zając, Inga Bona, Magdalena Skarżyńska, Renata Kwit, Anna Lalak, Ewelina Skrzypiec, Emilia Mikos-Wojewoda, Paulina Pasim, Dominika Wojdat, Weronika Koza, Dariusz Wasyl

“…AMR was assessed using the microbroth dilution method, while whole-genome sequencing was performed on the Illumina NextSeq platform. …”
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HUMAN GENES CONTROLLING FEEDING BEHAVIOR OR BODY MASS AND THEIR FUNCTIONAL AND GENOMIC CHARACTERISTICS: A REVIEW by E. V. Ignatieva, D. A. Afonnikov, E. I. Rogaev, N. A. Kolchanov

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Identification of Taihang-chicken-specific genetic markers using genome-wide SNPs and machine learning by Fu Wei, Zhang Ran, Ding Hong, Wang Wenjun, Liu Huage, Zang Sumin, Zhou Rongyan

“…In this study, a total of 137 individuals from Taihang and other 4 breeds were selected to construct a genome-wide SNP map. The population genetic structure analysis revealed clear differentiation among the five breeds. …”
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Nanopore sequencing reveals that DNA replication compartmentalisation dictates genome stability and instability in Trypanosoma brucei by Marija Krasiļņikova, Catarina A. Marques, Emma M. Briggs, Craig Lapsley, Graham Hamilton, Dario Beraldi, Kathryn Crouch, Richard McCulloch

“…Abstract The Trypanosoma brucei genome is structurally complex. Eleven megabase-sized chromosomes each comprise a transcribed core flanked by silent subtelomeres, housing thousands of Variant Surface Glycoprotein (VSG) genes. …”
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Genomic patterns of strain-specific genetic structure, linkage, and selection across fall armyworm populations by Ashley E. Tessnow, Rodney N. Nagoshi, Robert L. Meagher, Todd M. Gilligan, Ben M. Sadd, Yves Carrière, Holly N. Davis, Shelby J. Fleischer, Kelly Richers, John C. Palumbo, Patrick Porter, Jose Carlos Verle Rodrigues, Gregory A. Sword

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Genomic selection strategies to overcome genotype by environment interactions in biosecurity-based aquaculture breeding programs by Ziyi Kang, Jie Kong, Qi Li, Juan Sui, Ping Dai, Kun Luo, Xianhong Meng, Baolong Chen, Jiawang Cao, Jian Tan, Qiang Fu, Qun Xing, Sheng Luan

“…However, these programs may exhibit a reduced genetic gain in the presence of a genotype by environment interactions (G × E) when employing biosecurity-based breeding schemes (BS), compared to non-biosecurity-based breeding schemes (NBS). Fortunately, genomic selection shows promise in improving genetic gain by taking within-family variance into account. …”
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High genomic connectivity within Anatoma at hydrothermal vents along the Central and Southeast Indian Ridge by Katharina Kniesz, Leon Hoffman, Pedro Martínez Arbizu, Terue C. Kihara

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A genomic strategy for precision medicine in rare diseases: integrating customized algorithms into clinical practice by Cristina Méndez-Vidal, Nereida Bravo-Gil, Javier Pérez-Florido, Irene Marcos-Luque, Raquel M. Fernández, José Luis Fernández-Rueda, María González-del Pozo, Marta Martín-Sánchez, Elena Fernández-Suárez, Marcela Mena, Rosario Carmona, Joaquín Dopazo, Salud Borrego, Guillermo Antiñolo

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A GDPR-compliant solution for analysis of large-scale genomics datasets on HPC cloud infrastructure by Silvia Gioiosa, Beatrice Chiavarini, Mattia D’Antonio, Giuseppe Trotta, Balasubramanian Chandramouli, Juan Mata Naranjo, Giuseppa Muscianisi, Mirko Cestari, Elisa Rossi

“…This solution has been successfully applied to the Network for Italian Genomes use-case, demonstrating scalability to other hospitals and universities involved in research projects dealing with sensitive genomic data.…”
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Comparative Study of <i>Phytolacca</i> Species Through Morphological, Chloroplast Genome, and Phylogenetic Analysis by Sumin Jeong, Yeseul Kim, Heewon Ji, Jun-Ho Song, Inkyu Park

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Design and implementation of an asynchronous online course-based undergraduate research experience (CURE) in computational genomics. by Seema B Plaisier, Danielle O Alarid, Joelle A Denning, Sara E Brownell, Kenneth H Buetow, Katelyn M Cooper, Melissa A Wilson

“…As genomics technologies advance, there is a growing demand for computational biologists trained for genomics analysis but instructors face significant hurdles in providing formal training in computer programming, statistics, and genomics to biology students. …”
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A note on the distance distribution paradigm for Mosaab-metric to process segmented genomes of influenza virus by Mosaab Daoud

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The GWAS-MAP|ovis platform for aggregation and analysis of genome-wide association study results in sheep by A. V. Kirichenko, A. S. Zlobin, T. I. Shashkova, N. A. Volkova, B. S. Iolchiev, V. A. Bagirov, P. M. Borodin, L. С. Karssen, Y. A. Tsepilov, Y. S. Aulchenko

Subjects: “…genome-wide association study…”
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First Molecular Identification and Whole Genome Sequencing of Listeria monocytogenes Isolated From an African Lion by Ping Xu, Xinyong Qi, Xiaoxu Wang, Feng Xu, Hongjin Zhao, Liping Shen, Yujie Zhang, Shixin Huang, Jian Wang

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