High-throughput nanopore sequencing of Treponema pallidum tandem repeat genes arp and tp0470 reveals clade-specific patterns and recapitulates global whole genome phylogeny

High-throughput nanopore sequencing of Treponema pallidum tandem repeat genes arp and tp0470 reveals clade-specific patterns and recapitulates global whole genome phylogeny

Sequencing of most Treponema pallidum genomes excludes repeat regions in tp0470 and the tp0433 gene, encoding the acidic repeat protein (arp). As a first step to understanding the evolution and function of these genes and the proteins they encode, we developed a protocol to nanopore sequence tp0470...

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Bibliographic Details
Main Authors: Nicole A. P. Lieberman, Thaddeus D. Armstrong, Benjamin Chung, Daniel Pfalmer, Christopher M. Hennelly, Austin Haynes, Emily Romeis, Qian-Qiu Wang, Rui-Li Zhang, Cai-Xia Kou, Giulia Ciccarese, Ivano Dal Conte, Marco Cusini, Francesco Drago, Shu-ichi Nakayama, Kenichi Lee, Makoto Ohnishi, Kelika A. Konda, Silver K. Vargas, Maria Eguiluz, Carlos F. Caceres, Jeffrey D. Klausner, Oriol Mitja, Anne Rompalo, Fiona Mulcahy, Edward W. Hook, Irving F. Hoffman, Mitch M. Matoga, Heping Zheng, Bin Yang, Eduardo Lopez-Medina, Lady G. Ramirez, Justin D. Radolf, Kelly L. Hawley, Juan C. Salazar, Sheila A. Lukehart, Arlene C. Seña, Jonathan B. Parr, Lorenzo Giacani, Alexander L. Greninger
Format: Article
Language:English
Published: Frontiers Media S.A. 2022-09-01
Series:Frontiers in Microbiology
Subjects:
Treponema pallidum
syphilis
nanopore
genomics
AlphaFold
trRosetta
Online Access:https://www.frontiersin.org/articles/10.3389/fmicb.2022.1007056/full

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