Genome sequences of three Bartonella schoenbuchensis strains from Czechia

. 2024 Aug 13 ; 13 (8) : e0039724. [epub] 20240702

Status PubMed-not-MEDLINE Jazyk angličtina Země Spojené státy americké Médium print-electronic

Typ dokumentu časopisecké články

Perzistentní odkaz   https://www.medvik.cz/link/pmid38953338

Grantová podpora
project C2 LOEWE Center "DRUID", state of Hesse, Germany
1369-354 Robert Koch Institute, Germany
284423 Charles University Grant Agency, Prague, Czechia
NU23-05-00511 Ministry of health, Czechia
PE501084966-2023 PROCIENCIA, Peru

Bartonella schoenbuchensis causes bacteremia in ruminants and is transmitted by deer keds. Here, we report the complete genome sequences of three B. schoenbuchensis strains (L2, L19, and L24) recently isolated from deer keds (Lipoptena fortisetosa) in Czechia.

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Dehio C, Lanz C, Pohl R, Behrens P, Bermond D, Piémont Y, Pelz K, Sander A. 2001. Bartonella schoenbuchii sp. nov., isolated from the blood of wild roe deer. Int J Syst Evol Microbiol 51:1557–1565. doi:10.1099/00207713-51-4-1557 PubMed DOI

Dehio C, Sauder U, Hiestand R. 2004. Isolation of Bartonella schoenbuchensis from Lipoptena cervi, a blood-sucking arthropod causing deer ked dermatitis. J Clin Microbiol 42:5320–5323. doi:10.1128/JCM.42.11.5320-5323.2004 PubMed DOI PMC

Guy L, Nystedt B, Toft C, Zaremba-Niedzwiedzka K, Berglund EC, Granberg F, Näslund K, Eriksson A-S, Andersson SGE. 2013. A gene transfer agent and a dynamic repertoire of secretion systems hold the keys to the explosive radiation of the emerging pathogen Bartonella. PLoS Genet 9:e1003393. doi:10.1371/journal.pgen.1003393 PubMed DOI PMC

Halos L, Jamal T, Maillard R, Girard B, Guillot J, Chomel B, Vayssier-Taussat M, Boulouis H-J. 2004. Role of Hippoboscidae flies as potential vectors of Bartonella spp. infecting wild and domestic ruminants. Appl Environ Microbiol 70:6302–6305. doi:10.1128/AEM.70.10.6302-6305.2004 PubMed DOI PMC

Vayssier-Taussat M, Moutailler S, Féménia F, Raymond P, Croce O, La Scola B, Fournier P-E, Raoult D. 2016. Identification of novel zoonotic activity of Bartonella spp., France. Emerg Infect Dis 22:457–462. doi:10.3201/eid2203.150269 PubMed DOI PMC

Riess T, Dietrich F, Schmidt KV, Kaiser PO, Schwarz H, Schäfer A, Kempf VAJ. 2008. Analysis of a novel insect cell culture medium-based growth medium for Bartonella species. Appl Environ Microbiol 74:5224–5227. doi:10.1128/AEM.00621-08 PubMed DOI PMC

Andrews S, Lindenbaum P, Howard B, Ewels P. 2010. FastQC: a quality control tool for high throughput sequence data. Available from: http://www.bioinformatics.babraham.ac.uk/projects/fastqc

Kolmogorov M, Yuan J, Lin Y, Pevzner PA. 2019. Assembly of long, error-prone reads using repeat graphs. Nat Biotechnol 37:540–546. doi:10.1038/s41587-019-0072-8 PubMed DOI

Wick RR, Holt KE. 2022. Polypolish: short-read polishing of long-read bacterial genome assemblies. PLoS Comput Biol 18:e1009802. doi:10.1371/journal.pcbi.1009802 PubMed DOI PMC

Gurevich A, Saveliev V, Vyahhi N, Tesler G. 2013. QUAST: quality assessment tool for genome assemblies. Bioinformatics 29:1072–1075. doi:10.1093/bioinformatics/btt086 PubMed DOI PMC

Schwengers O, Jelonek L, Dieckmann MA, Beyvers S, Blom J, Goesmann A. 2021. Bakta: rapid and standardized annotation of bacterial genomes via alignment-free sequence identification. Microb Genom 7:000685. doi:10.1099/mgen.0.000685 PubMed DOI PMC

Jain C, Rodriguez-R LM, Phillippy AM, Konstantinidis KT, Aluru S. 2018. High throughput ANI analysis of 90K prokaryotic genomes reveals clear species boundaries. Nat Commun 9:5114. doi:10.1038/s41467-018-07641-9 PubMed DOI PMC

Seemann T. 2016. Abricate: mass screening of contigs for antimicrobial and virulence genes. GitHub. https://github.com/tseemann/abricate.

Chen L, Zheng D, Liu B, Yang J, Jin Q. 2016. VFDB 2016: hierarchical and refined dataset for big data analysis—10 years on. Nucleic Acids Res 44:D694–D697. doi:10.1093/nar/gkv1239 PubMed DOI PMC

Li H. 2018. Minimap2: pairwise alignment for nucleotide sequences. Bioinformatics 34:3094–3100. doi:10.1093/bioinformatics/bty191 PubMed DOI PMC

Danecek P, Bonfield JK, Liddle J, Marshall J, Ohan V, Pollard MO, Whitwham A, Keane T, McCarthy SA, Davies RM, Li H. 2021. Twelve years of SAMtools and BCFtools. Gigascience 10:giab008. doi:10.1093/gigascience/giab008 PubMed DOI PMC

Nanoporetech . 2016. GitHub - nanoporetech/medaka: sequence correction provided by ONT research. GitHub. Available from: https://github.com/nanoporetech/medaka?tab=License-1-ov-file#readme

blastx: search protein databases using a translated nucleotide query. https://blast.ncbi.nlm.nih.gov/Blast.cgi?PROGRAM=blastx&PAGE_TYPE=BlastSearch&LINK_LOC=blasthome.

Carattoli A, Zankari E, García-Fernández A, Voldby Larsen M, Lund O, Villa L, Møller Aarestrup F, Hasman H. 2014. In silico detection and typing of plasmids using PlasmidFinder and plasmid multilocus sequence typing. Antimicrob Agents Chemother 58:3895–3903. doi:10.1128/AAC.02412-14 PubMed DOI PMC

Riess T, Andersson SGE, Lupas A, Schaller M, Schäfer A, Kyme P, Martin J, Wälzlein J-H, Ehehalt U, Lindroos H, Schirle M, Nordheim A, Autenrieth IB, Kempf VAJ. 2004. Bartonella adhesin A mediates a proangiogenic host cell response. J Exp Med 200:1267–1278. doi:10.1084/jem.20040500 PubMed DOI PMC

Schmid MC, Schulein R, Dehio M, Denecker G, Carena I, Dehio C. 2004. The VirB type IV secretion system of Bartonella henselae mediates invasion, proinflammatory activation and antiapoptotic protection of endothelial cells. Mol Microbiol 52:81–92. doi:10.1111/j.1365-2958.2003.03964.x PubMed DOI

Tsukamoto K, Shinzawa N, Kawai A, Suzuki M, Kidoya H, Takakura N, Yamaguchi H, Kameyama T, Inagaki H, Kurahashi H, Horiguchi Y, Doi Y. 2020. The Bartonella autotransporter BafA activates the host VEGF pathway to drive angiogenesis. Nat Commun 11:3571. doi:10.1038/s41467-020-17391-2 PubMed DOI PMC

Scherer DC, DeBuron-Connors I, Minnick MF. 1993. Characterization of Bartonella bacilliformis flagella and effect of antiflagellin antibodies on invasion of human erythrocytes. Infect Immun 61:4962–4971. doi:10.1128/iai.61.12.4962-4971.1993 PubMed DOI PMC

Coleman SA, Minnick MF. 2001. Establishing a direct role for the Bartonella bacilliformis invasion-associated locus B (IalB) protein in human erythrocyte parasitism. Infect Immun 69:4373–4381. doi:10.1128/IAI.69.7.4373-4381.2001 PubMed DOI PMC

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