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Bacterial genetics

GAMBIT (Genomic Approximation Method for Bacterial Identification and Tracking): A methodology to rapidly leverage whole genome sequencing of bacterial isolates for clinical identification

Jared Lumpe, Lynette Gumbleton, Andrew Gorzalski, Kevin Libuit, Vici Varghese, Tyler Lloyd, Farid Tadros, Tyler Arsimendi, Eileen Wagner, Craig Stephens, Joel Sevinsky, David Hess, Mark Pandori

published 16 Feb 2023

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Insights into the genome of Methylobacterium sp. NMS14P, a novel bacterium for growth promotion of maize, chili, and sugarcane

Jiraporn Jirakkakul, Ahmad Nuruddin Khoiri, Thanawat Duangfoo, Sudarat Dulsawat, Sawannee Sutheeworapong, Kantiya Petsong, Songsak Wattanachaisaereekul, Prasobsook Paenkaew, Anuwat Tachaleat, Supapon Cheevadhanarak, Peerada Prommeenate

published 07 Feb 2023

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The inside scoop: Comparative genomics of two intranuclear bacteria, “Candidatus Berkiella cookevillensis” and “Candidatus Berkiella aquae”

Destaalem T. Kidane, Yohannes T. Mehari, Forest C. Rice, Brock A. Arivett, John H. Gunderson, Anthony L. Farone, Mary B. Farone

published 30 Dec 2022

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Classification of bacterial plasmid and chromosome derived sequences using machine learning

Xiaohui Zou, Marcus Nguyen, Jamie Overbeek, Bin Cao, James J. Davis

published 16 Dec 2022

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Parallel engineering of environmental bacteria and performance over years under jungle-simulated conditions

Yonatan Chemla, Yuval Dorfan, Adi Yannai, Dechuan Meng, Paul Cao, Sarah Glaven, D. Benjamin Gordon, Johann Elbaz, Christopher A. Voigt

published 14 Dec 2022

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Optimized conditions for Listeria, Salmonella and Escherichia whole genome sequencing using the Illumina iSeq100 platform with point-and-click bioinformatic analysis

Sonsiray Alvarez Narvaez, Zhenyu Shen, Lifang Yan, Brianna L. S. Stenger, Laura B. Goodman, Ailam Lim, Ruth H. Nissly, Meera Surendran Nair, Shuping Zhang, Susan Sanchez

published 30 Nov 2022

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Cas9-mediated endogenous plasmid loss in Borrelia burgdorferi

Constantin N. Takacs, Yuko Nakajima, James E. Haber, Christine Jacobs-Wagner

published 28 Nov 2022

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Throughput screening of Bacillus subtilis strains that abundantly secrete surfactin in vitro identifies effective probiotic candidates

Dongho Lee, Taehoon Oh, Bongseok Kang, Jong Seok Ahn, Yangrae Cho

published 23 Nov 2022

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Divergent gene expression responses in two Baltic Sea heterotrophic model bacteria to dinoflagellate dissolved organic matter

Christofer M. G. Osbeck, Daniel Lundin, Camilla Karlsson, Jonna E. Teikari, Mary Ann Moran, Jarone Pinhassi

published 17 Nov 2022

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Identification of shared bacterial strains in the vaginal microbiota of related and unrelated reproductive-age mothers and daughters using genome-resolved metagenomics

Michael T. France, Sarah E. Brown, Anne M. Rompalo, Rebecca M. Brotman, Jacques Ravel

published 26 Oct 2022

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Taxonomic revision of the genus Amphritea supported by genomic and in silico chemotaxonomic analyses, and the proposal of Aliamphritea gen. nov.

Ryota Yamano, Juanwen Yu, Chunqi Jiang, Alfabetian Harjuno Condro Haditomo, Sayaka Mino, Yuichi Sakai, Tomoo Sawabe

published 10 Aug 2022

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Genome insights from the identification of a novel Pandoraea sputorum isolate and its characteristics

Rui-Fang Gao, Ying Wang, Ying Wang, Zhi-Wen Wang, Gui-Ming Zhang

published 05 Aug 2022

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Measuring quality of DNA sequence data via degradation

Alan F. Karr, Jason Hauzel, Adam A. Porter, Marcel Schaefer

published 03 Aug 2022

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