Draft Genome Sequence of Kazachstania bovina Yeast Isolated from Human Infection.
Kazachstania
Whole genome sequence
Yeast
Journal
Mycopathologia
ISSN: 1573-0832
Titre abrégé: Mycopathologia
Pays: Netherlands
ID NLM: 7505689
Informations de publication
Date de publication:
Aug 2022
Aug 2022
Historique:
received:
14
03
2022
accepted:
18
05
2022
pubmed:
14
7
2022
medline:
29
7
2022
entrez:
13
7
2022
Statut:
ppublish
Résumé
Kazachstania bovina is a yeast species from the K. telluris complex that has been recently involved in bloodstream infections. While yeast genomes from this complex have already been sequenced, K. bovina genome has not been published yet. Here is the first draft genome of K. bovina (CBS 16326).
Identifiants
pubmed: 35829847
doi: 10.1007/s11046-022-00639-4
pii: 10.1007/s11046-022-00639-4
doi:
Substances chimiques
DNA, Fungal
0
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
413-415Informations de copyright
© 2022. The Author(s), under exclusive licence to Springer Nature B.V.
Références
Kurtzman CP, Robnett CJ, Ward JM, Brayton C, Gorelick P, Walsh TJ. Multigene phylogenetic analysis of pathogenic candida species in the Kazachstania (Arxiozyma) telluris complex and description of their ascosporic states as Kazachstania bovina sp. nov., K. heterogenica sp. nov., K. pintolopesii sp. nov., and K. slooffiae sp. nov. J Clin Microbiol. 2005;43:101–11. https://doi.org/10.1128/JCM.43.1.101-111.2005
Brunet K, Minoza A, Rammaert B, Portet-Sulla V, Hubert F, Lorenzo J-C, et al. Invasive Candida bovina Infection, France. Emerg Infect Dis. 2020;26:626–7. https://doi.org/10.3201/eid2603.191371 .
doi: 10.3201/eid2603.191371
pubmed: 32091374
pmcid: 7045846
Mercier V, Desnos-Ollivier M, Lamy A, Mahul M, Sasso M. Kazachstania slooffiae: an unexpected journey to a human pleural sample. J Mycol Med. 2021;31:101109. https://doi.org/10.1016/j.mycmed.2020.101109 .
doi: 10.1016/j.mycmed.2020.101109
pubmed: 33422936
Kaeuffer C, Baldacini M, Ruge T, Ruch Y, Zhu Y-J, De Cian M, et al. Fungal infections caused by Kazachstania spp., Strasbourg, France, 2007–2020. Emerg Infect Dis. 2022;28:29–34. https://doi.org/10.3201/eid2801.211543 .
doi: 10.3201/eid2801.211543
pubmed: 34932452
Schoch CL, Seifert KA, Huhndorf S, Robert V, Spouge JL, Levesque CA, et al. Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for Fungi. Proc Natl Acad Sci USA. 2012;109:6241–6. https://doi.org/10.1073/pnas.1117018109 .
doi: 10.1073/pnas.1117018109
pubmed: 22454494
pmcid: 3341068
Morio F, O’Brien CE, Butler G. Draft genome sequence of the yeast Kazachstania telluris CBS 16338 Isolated from Forest Soil in Ireland. Mycopathologia. 2020;185:587–90. https://doi.org/10.1007/s11046-020-00449-6 .
doi: 10.1007/s11046-020-00449-6
pubmed: 32356255
Davies CP, Arfken AM, Foster Frey J, Summers KL. Draft genome sequence of Kazachstania slooffiae, isolated from Postweaning Piglet Feces. Microbiol Resour Announc. 2021;10:e0019821. https://doi.org/10.1128/MRA.00198-21
Akrong G, Chauzy A, Aranzana-Climent V, Lacroix M, Deroche L, Prouvensier L, et al. A new PKPD model to characterize the inoculum effect of Acinetobacter baumannii on polymyxin B in vitro. Antimicrob Agents Chemother. 2021;AAC0178921. https://doi.org/10.1128/AAC.01789-21
Wick RR. Filtlong [Internet]. GitHub. 2017 [cited 2022 Feb 7]. Available from: https://github.com/rrwick/Filtlong/
Kolmogorov M, Yuan J, Lin Y, Pevzner PA. Assembly of long, error-prone reads using repeat graphs. Nat Biotechnol. 2019;37:540–6. https://doi.org/10.1038/s41587-019-0072-8 .
doi: 10.1038/s41587-019-0072-8
pubmed: 30936562
Medaka [Internet]. Oxford Nanopore Technologies; 2022 [cited 2022 May 11]. https://github.com/nanoporetech/medaka
Palmer J, Stajich J. Funannotate [Internet]. 2019 [cited 2022 Feb 7]. https://github.com/nextgenusfs/funannotate
Goffeau A, Barrell BG, Bussey H, Davis RW, Dujon B, Feldmann H, et al. Life with 6000 genes. Science. 1996;274(546):563–7. https://doi.org/10.1126/science.274.5287.546 .
doi: 10.1126/science.274.5287.546
Keller O, Kollmar M, Stanke M, Waack S. A novel hybrid gene prediction method employing protein multiple sequence alignments. Bioinformatics. 2011;27:757–63. https://doi.org/10.1093/bioinformatics/btr010 .
doi: 10.1093/bioinformatics/btr010
pubmed: 21216780
Korf I. Gene finding in novel genomes. BMC Bioinf. 2004;5:59. https://doi.org/10.1186/1471-2105-5-59 .
doi: 10.1186/1471-2105-5-59
Delcher AL, Bratke KA, Powers EC, Salzberg SL. Identifying bacterial genes and endosymbiont DNA with Glimmer. Bioinformatics. 2007;23:673–9. https://doi.org/10.1093/bioinformatics/btm009
Blin K, Shaw S, Kloosterman AM, Charlop-Powers Z, van Wezel GP, Medema MH, et al. antiSMASH 6.0: improving cluster detection and comparison capabilities. Nucleic Acids Res. 2021;49:W29–35. https://doi.org/10.1093/nar/gkab335
Manni M, Berkeley MR, Seppey M, Simão FA, Zdobnov EM. BUSCO update: novel and streamlined workflows along with broader and deeper phylogenetic coverage for scoring of eukaryotic, prokaryotic, and viral genomes. Mol Biol Evol. 2021;38:4647–54. https://doi.org/10.1093/molbev/msab199
Mac Aogáin M, Chaturvedi V, Chotirmall SH. MycopathologiaGENOMES: the new “home” for the publication of fungal genomes. Mycopathologia. 2019;184:551–4. https://doi.org/10.1007/s11046-019-00366-3