Phylogenomic and biochemical analysis reassesses temperate marine yeast Yarrowia lipolytica NCIM 3590 to be Yarrowia bubula

Abstract Yarrowia clade contains yeast species morphologically, ecologically, physiologically and genetically diverse in nature. Yarrowia lipolytica NCIM 3590 (NCIM 3590), a biotechnologically important strain, isolated from Scottish sea waters was reinvestigated for its phenotypic, biochemical, mol...

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Autores principales:	Prashant Gaikwad, Swanand Joshi, Akshay Mandlecha, Ameeta RaviKumar
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/c12159394b844f74908ff3ca1f34d928
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spelling	oai:doaj.org-article:c12159394b844f74908ff3ca1f34d9282021-12-02T13:20:23ZPhylogenomic and biochemical analysis reassesses temperate marine yeast Yarrowia lipolytica NCIM 3590 to be Yarrowia bubula10.1038/s41598-021-83914-62045-2322https://doaj.org/article/c12159394b844f74908ff3ca1f34d9282021-03-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-83914-6https://doaj.org/toc/2045-2322Abstract Yarrowia clade contains yeast species morphologically, ecologically, physiologically and genetically diverse in nature. Yarrowia lipolytica NCIM 3590 (NCIM 3590), a biotechnologically important strain, isolated from Scottish sea waters was reinvestigated for its phenotypic, biochemical, molecular and genomic properties as it exhibited characteristics unlike Y. lipolytica, namely, absence of extracellular lipolytic activity, growth at lower temperatures (less than 20 °C) and in high salt concentrations (10% NaCl). Molecular identification using ITS and D1/D2 sequences suggested NCIM 3590 to be 100% identical with reference strain Yarrowia bubula CBS 12934 rather than Y. lipolytica CBS 6124 (87% identity) while phylogenetic analysis revealed that it clustered with Y. bubula under a separate clade. Further, whole genome sequencing of NCIM 3590 was performed using Illumina NextSeq technology and the draft reported here. The overall genome relatedness values obtained by dDDH (94.1%), ANIb/ANIm (99.41/99.42%) and OrthoANI (99.47%) indicated proximity between NCIM 3590 and CBS 12934 as compared to the reference strain Y. lipolytica. No extracellular lipase activity could be detected in NCIM 3590 while LIP2 gene TBLASTN analysis suggests a low 42% identity with e value 2 e−77 and 62% coverage. Hence molecular, phylogenetic, genomics, biochemical and microbial analyses suggests it belongs to Yarrowia bubula.Prashant GaikwadSwanand JoshiAkshay MandlechaAmeeta RaviKumarNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-13 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Prashant Gaikwad Swanand Joshi Akshay Mandlecha Ameeta RaviKumar Phylogenomic and biochemical analysis reassesses temperate marine yeast Yarrowia lipolytica NCIM 3590 to be Yarrowia bubula
description	Abstract Yarrowia clade contains yeast species morphologically, ecologically, physiologically and genetically diverse in nature. Yarrowia lipolytica NCIM 3590 (NCIM 3590), a biotechnologically important strain, isolated from Scottish sea waters was reinvestigated for its phenotypic, biochemical, molecular and genomic properties as it exhibited characteristics unlike Y. lipolytica, namely, absence of extracellular lipolytic activity, growth at lower temperatures (less than 20 °C) and in high salt concentrations (10% NaCl). Molecular identification using ITS and D1/D2 sequences suggested NCIM 3590 to be 100% identical with reference strain Yarrowia bubula CBS 12934 rather than Y. lipolytica CBS 6124 (87% identity) while phylogenetic analysis revealed that it clustered with Y. bubula under a separate clade. Further, whole genome sequencing of NCIM 3590 was performed using Illumina NextSeq technology and the draft reported here. The overall genome relatedness values obtained by dDDH (94.1%), ANIb/ANIm (99.41/99.42%) and OrthoANI (99.47%) indicated proximity between NCIM 3590 and CBS 12934 as compared to the reference strain Y. lipolytica. No extracellular lipase activity could be detected in NCIM 3590 while LIP2 gene TBLASTN analysis suggests a low 42% identity with e value 2 e−77 and 62% coverage. Hence molecular, phylogenetic, genomics, biochemical and microbial analyses suggests it belongs to Yarrowia bubula.
format	article
author	Prashant Gaikwad Swanand Joshi Akshay Mandlecha Ameeta RaviKumar
author_facet	Prashant Gaikwad Swanand Joshi Akshay Mandlecha Ameeta RaviKumar
author_sort	Prashant Gaikwad
title	Phylogenomic and biochemical analysis reassesses temperate marine yeast Yarrowia lipolytica NCIM 3590 to be Yarrowia bubula
title_short	Phylogenomic and biochemical analysis reassesses temperate marine yeast Yarrowia lipolytica NCIM 3590 to be Yarrowia bubula
title_full	Phylogenomic and biochemical analysis reassesses temperate marine yeast Yarrowia lipolytica NCIM 3590 to be Yarrowia bubula
title_fullStr	Phylogenomic and biochemical analysis reassesses temperate marine yeast Yarrowia lipolytica NCIM 3590 to be Yarrowia bubula
title_full_unstemmed	Phylogenomic and biochemical analysis reassesses temperate marine yeast Yarrowia lipolytica NCIM 3590 to be Yarrowia bubula
title_sort	phylogenomic and biochemical analysis reassesses temperate marine yeast yarrowia lipolytica ncim 3590 to be yarrowia bubula
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/c12159394b844f74908ff3ca1f34d928
work_keys_str_mv	AT prashantgaikwad phylogenomicandbiochemicalanalysisreassessestemperatemarineyeastyarrowialipolyticancim3590tobeyarrowiabubula AT swanandjoshi phylogenomicandbiochemicalanalysisreassessestemperatemarineyeastyarrowialipolyticancim3590tobeyarrowiabubula AT akshaymandlecha phylogenomicandbiochemicalanalysisreassessestemperatemarineyeastyarrowialipolyticancim3590tobeyarrowiabubula AT ameetaravikumar phylogenomicandbiochemicalanalysisreassessestemperatemarineyeastyarrowialipolyticancim3590tobeyarrowiabubula
_version_	1718393236522795008

Phylogenomic and biochemical analysis reassesses temperate marine yeast Yarrowia lipolytica NCIM 3590 to be Yarrowia bubula

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