The applicability of gene sequencing and MALDI-TOF to identify less common gram-negative rods (Advenella, Castellaniella, Kaistia, Pusillimonas and Sphingobacterium) from environmental isolates

dc.contributor.authorSant' Anna, Debora
dc.contributor.authorSampaio, Jorge Luiz Mello
dc.contributor.authorSommaggio, Lais Roberta Deroldo [UNESP]
dc.contributor.authorMazzeo, Dania Elisa Christofoletti [UNESP]
dc.contributor.authorMarin-Morales, Maria Aparecida [UNESP]
dc.contributor.authorMarson, Fernando Augusto Lima
dc.contributor.authorLevy, Carlos Emilio
dc.contributor.institutionUniversidade Estadual de Campinas (UNICAMP)
dc.contributor.institutionBarretos Canc Hosp
dc.contributor.institutionMicroBiol Sect
dc.contributor.institutionUniversidade de São Paulo (USP)
dc.contributor.institutionUniversidade Estadual Paulista (Unesp)
dc.contributor.institutionSao Francisco Univ
dc.date.accessioned2020-12-10T19:48:56Z
dc.date.available2020-12-10T19:48:56Z
dc.date.issued2020-02-01
dc.description.abstractOur aim was to identify less common non-fermenting gram-negative rods during the bioremediation process. Five genera were found: Advenella, Castellaniella, Kaistia, Pusillimonas and Sphingobacterium, for a total of 15 isolates. Therefore, we evaluated the applicability of four methods currently available for bacteria identification: (1) conventional biochemical methods, (2) the VITEK (R)-2 system, (3) MALDI-TOF mass spectrometry and (4) 16S rRNA gene sequencing. The biochemical methods and the VITEK (R)-2 system were reliable only for the Sphingobacterium isolate and solely at the genus level. Both MALDI-TOF mass spectrometry platforms (Bruker and VITEK (R) MS) did not achieve reliable identification results for any of these genera. 16S rRNA gene sequencing identified eight isolates to the species level but not to the subspecies level, when applicable. The remaining seven isolates were reliably identified through 16S rRNA gene sequencing to the genus level only. Our findings suggest that the detection and identification of less common genera (and species) that appeared at certain moments during the bioremediation process can be a challenge to microbiologists considering the most used techniques. In addition, more studies are required to confirm our results.en
dc.description.affiliationUniv Estadual Campinas, Fac Med Sciences, Dept Clin Pathol, MicroBiol Lab, Rua Tessalia Vieira Camargo, 126, BR-13083-88 Campinas, SP, Brazil
dc.description.affiliationBarretos Canc Hosp, Mol Oncol Res Ctr, Rua Antenor Duarte Villela, 1331, Barretos, SP, Brazil
dc.description.affiliationMicroBiol Sect, Centers Diagnost Med, . Gen Waldomiro Lima 508, BR-04344-07 Sao Paulo, Brazil
dc.description.affiliationUniv Sao Paulo, Sch Pharm, Toxicol Dept, Clin Anal, . Prof Lineu Prestes, 580, BR-05508-00 Butanta, SP, Brazil
dc.description.affiliationSao Paulo State Univ, Inst Biosciences, Dept Biol, . 24, 1515, Bela Vista, BR-13506-90 Rio Claro, SP, Brazil
dc.description.affiliationSao Paulo State Univ, Inst Chem, Dept Analyt Chem, Rua Prof Francisco Degni, 55, BR-14800-06 Araraquara, SP, Brazil
dc.description.affiliationUniv Estadual Campinas, Fac Med Sciences, Dept Pediat, Rua Tessalia Vieira Camargo, 126, BR-13083-88 Campinas, SP, Brazil
dc.description.affiliationUniv Estadual Campinas, Fac Med Sciences, Ctr Pediat Invest, Lab Pulm Physiol, Rua Tessalia Vieira Camargo, 126, BR-13083-88 Campinas, SP, Brazil
dc.description.affiliationUniv Estadual Campinas, Fac Med Sciences, Dept Med Genet, Gen Med, Rua Tessalia Vieira Camargo, 126, BR-13083-88 Campinas, SP, Brazil
dc.description.affiliationSao Francisco Univ, PostGrad Program Hlth Sci, Ave Sao Francisco Assis, 218, BR-12916-40 Braganca Paulista, SP, Brazil
dc.description.affiliationUnespSao Paulo State Univ, Inst Biosciences, Dept Biol, . 24, 1515, Bela Vista, BR-13506-90 Rio Claro, SP, Brazil
dc.description.affiliationUnespSao Paulo State Univ, Inst Chem, Dept Analyt Chem, Rua Prof Francisco Degni, 55, BR-14800-06 Araraquara, SP, Brazil
dc.format.extent233-252
dc.identifierhttp://dx.doi.org/10.1007/s10482-019-01333-0
dc.identifier.citationAntonie Van Leeuwenhoek International Journal Of General And Molecular Microbiology. Dordrecht: Springer, v. 113, n. 2, p. 233-252, 2020.
dc.identifier.doi10.1007/s10482-019-01333-0
dc.identifier.issn0003-6072
dc.identifier.urihttp://hdl.handle.net/11449/196561
dc.identifier.wosWOS:000512010300008
dc.language.isoeng
dc.publisherSpringer
dc.relation.ispartofAntonie Van Leeuwenhoek International Journal Of General And Molecular Microbiology
dc.sourceWeb of Science
dc.subject16S rRNA
dc.subjectAdvenella
dc.subjectCastellaniella
dc.subjectKaistia
dc.subjectPusillimonas
dc.subjectSphingobacterium
dc.titleThe applicability of gene sequencing and MALDI-TOF to identify less common gram-negative rods (Advenella, Castellaniella, Kaistia, Pusillimonas and Sphingobacterium) from environmental isolatesen
dc.typeArtigo
dcterms.licensehttp://www.springer.com/open+access/authors+rights?SGWID=0-176704-12-683201-0
dcterms.rightsHolderSpringer
unesp.author.orcid0000-0003-4016-8978[3]

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