Elusive Recurrent Bacterial Contamination in a Diatom Culture: A Case Study

In preparation for whole-genome sequencing, the axenic culture for two strains of a freshwater diatom <i>Fragilaria radians</i> were produced. Although their axenicity was controlled for the cultures’ entire lifetime, the published genomic assembly was later found to contain a large amou...

Descripción completa

Guardado en:

Detalles Bibliográficos
Autores principales:	Alexey A. Morozov, Yuri P. Galachyants, Artyom M. Marchenkov, Darya P. Petrova, Yulia R. Zakharova
Formato:	article
Lenguaje:	EN
Publicado:	MDPI AG 2021
Materias:	diatoms axenic cultures contamination 16S rRNA amplicon sequencing <i>Sphingomonas</i> <i>Fragilaria</i> Technology T Engineering (General). Civil engineering (General) TA1-2040 Biology (General) QH301-705.5 Physics QC1-999 Chemistry QD1-999
Acceso en línea:	https://doaj.org/article/45cde7f6384244b8a6a3a29c0cb3599a
Etiquetas:	Agregar Etiqueta Sin Etiquetas, Sea el primero en etiquetar este registro!

id	oai:doaj.org-article:45cde7f6384244b8a6a3a29c0cb3599a
record_format	dspace
spelling	oai:doaj.org-article:45cde7f6384244b8a6a3a29c0cb3599a2021-11-11T15:11:40ZElusive Recurrent Bacterial Contamination in a Diatom Culture: A Case Study10.3390/app1121101312076-3417https://doaj.org/article/45cde7f6384244b8a6a3a29c0cb3599a2021-10-01T00:00:00Zhttps://www.mdpi.com/2076-3417/11/21/10131https://doaj.org/toc/2076-3417In preparation for whole-genome sequencing, the axenic culture for two strains of a freshwater diatom <i>Fragilaria radians</i> were produced. Although their axenicity was controlled for the cultures’ entire lifetime, the published genomic assembly was later found to contain a large amount of bacterial sequences. Using various in silico analyses of whole genome read libraries and 16S rRNA sequencing of culture samples, we reconstruct the history of the contamination and document the failures of various axenicity control methods. This knowledge is used to discuss how these failures could have been avoided, and to provide guidelines for future works on axenic diatom cultures.Alexey A. MorozovYuri P. GalachyantsArtyom M. MarchenkovDarya P. PetrovaYulia R. ZakharovaMDPI AGarticlediatomsaxenic culturescontamination16S rRNA amplicon sequencing<i>Sphingomonas</i><i>Fragilaria</i>TechnologyTEngineering (General). Civil engineering (General)TA1-2040Biology (General)QH301-705.5PhysicsQC1-999ChemistryQD1-999ENApplied Sciences, Vol 11, Iss 10131, p 10131 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	diatoms axenic cultures contamination 16S rRNA amplicon sequencing <i>Sphingomonas</i> <i>Fragilaria</i> Technology T Engineering (General). Civil engineering (General) TA1-2040 Biology (General) QH301-705.5 Physics QC1-999 Chemistry QD1-999
spellingShingle	diatoms axenic cultures contamination 16S rRNA amplicon sequencing <i>Sphingomonas</i> <i>Fragilaria</i> Technology T Engineering (General). Civil engineering (General) TA1-2040 Biology (General) QH301-705.5 Physics QC1-999 Chemistry QD1-999 Alexey A. Morozov Yuri P. Galachyants Artyom M. Marchenkov Darya P. Petrova Yulia R. Zakharova Elusive Recurrent Bacterial Contamination in a Diatom Culture: A Case Study
description	In preparation for whole-genome sequencing, the axenic culture for two strains of a freshwater diatom <i>Fragilaria radians</i> were produced. Although their axenicity was controlled for the cultures’ entire lifetime, the published genomic assembly was later found to contain a large amount of bacterial sequences. Using various in silico analyses of whole genome read libraries and 16S rRNA sequencing of culture samples, we reconstruct the history of the contamination and document the failures of various axenicity control methods. This knowledge is used to discuss how these failures could have been avoided, and to provide guidelines for future works on axenic diatom cultures.
format	article
author	Alexey A. Morozov Yuri P. Galachyants Artyom M. Marchenkov Darya P. Petrova Yulia R. Zakharova
author_facet	Alexey A. Morozov Yuri P. Galachyants Artyom M. Marchenkov Darya P. Petrova Yulia R. Zakharova
author_sort	Alexey A. Morozov
title	Elusive Recurrent Bacterial Contamination in a Diatom Culture: A Case Study
title_short	Elusive Recurrent Bacterial Contamination in a Diatom Culture: A Case Study
title_full	Elusive Recurrent Bacterial Contamination in a Diatom Culture: A Case Study
title_fullStr	Elusive Recurrent Bacterial Contamination in a Diatom Culture: A Case Study
title_full_unstemmed	Elusive Recurrent Bacterial Contamination in a Diatom Culture: A Case Study
title_sort	elusive recurrent bacterial contamination in a diatom culture: a case study
publisher	MDPI AG
publishDate	2021
url	https://doaj.org/article/45cde7f6384244b8a6a3a29c0cb3599a
work_keys_str_mv	AT alexeyamorozov elusiverecurrentbacterialcontaminationinadiatomcultureacasestudy AT yuripgalachyants elusiverecurrentbacterialcontaminationinadiatomcultureacasestudy AT artyommmarchenkov elusiverecurrentbacterialcontaminationinadiatomcultureacasestudy AT daryappetrova elusiverecurrentbacterialcontaminationinadiatomcultureacasestudy AT yuliarzakharova elusiverecurrentbacterialcontaminationinadiatomcultureacasestudy
_version_	1718436745884729344

Elusive Recurrent Bacterial Contamination in a Diatom Culture: A Case Study

Ejemplares similares