Lanthanide-Dependent Regulation of Methylotrophy in <named-content content-type="genus-species">Methylobacterium aquaticum</named-content> Strain 22A

ABSTRACT Methylobacterium species are representative of methylotrophic bacteria. Their genomes usually encode two types of methanol dehydrogenases (MDHs): MxaF and XoxF. The former is a Ca2+-dependent enzyme, and the latter was recently determined to be a lanthanide-dependent enzyme that is necessar...

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Autores principales:	Sachiko Masuda, Yutaka Suzuki, Yoshiko Fujitani, Ryoji Mitsui, Tomoyuki Nakagawa, Masaki Shintani, Akio Tani
Formato:	article
Lenguaje:	EN
Publicado:	American Society for Microbiology 2018
Materias:	lanthanide methanol dehydrogenase methylotrophs xoxF Microbiology QR1-502
Acceso en línea:	https://doaj.org/article/331a51b5d8a24116b6037a497527dfed
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spelling	oai:doaj.org-article:331a51b5d8a24116b6037a497527dfed2021-11-15T15:22:02ZLanthanide-Dependent Regulation of Methylotrophy in <named-content content-type="genus-species">Methylobacterium aquaticum</named-content> Strain 22A10.1128/mSphere.00462-172379-5042https://doaj.org/article/331a51b5d8a24116b6037a497527dfed2018-02-01T00:00:00Zhttps://journals.asm.org/doi/10.1128/mSphere.00462-17https://doaj.org/toc/2379-5042ABSTRACT Methylobacterium species are representative of methylotrophic bacteria. Their genomes usually encode two types of methanol dehydrogenases (MDHs): MxaF and XoxF. The former is a Ca2+-dependent enzyme, and the latter was recently determined to be a lanthanide-dependent enzyme that is necessary for the expression of mxaF. This finding revealed the unexpected and important roles of lanthanides in bacterial methylotrophy. In this study, we performed transcriptome sequencing (RNA-seq) analysis using M. aquaticum strain 22A grown in the presence of different lanthanides. Expression of mxaF and xoxF1 genes showed a clear inverse correlation in response to La3+. We observed downregulation of formaldehyde oxidation pathways, high formaldehyde dehydrogenase activity, and low accumulation of formaldehyde in the reaction with cells grown in the presence of La3+; this might be due to the direct oxidation of methanol to formate by XoxF1. Lanthanides induced the transcription of AT-rich genes, the function of most of which was unknown, and genes possibly related to cellular survival, as well as other MDH homologues. These results revealed not only the metabolic response toward altered primary methanol oxidation, but also the possible targets to be investigated further in order to better understand methylotrophy in the presence of lanthanides. IMPORTANCE Lanthanides have been considered unimportant for biological processes. In methylotrophic bacteria, however, a methanol dehydrogenase (MDH) encoded by xoxF was recently found to be lanthanide dependent, while the classic-type mxaFI is calcium dependent. XoxF-type MDHs are more widespread in diverse bacterial genera, suggesting their importance for methylotrophy. Methylobacterium species, representative methylotrophic and predominating alphaproteobacteria in the phyllosphere, contain both types and regulate their expression depending on the availability of lanthanides. RNA-seq analysis showed that the regulation takes place not only for MDH genes but also the subsequent formaldehyde oxidation pathways and respiratory chain, which might be due to the direct oxidation of methanol to formate by XoxF. In addition, a considerable number of genes of unknown function, including AT-rich genes, were found to be upregulated in the presence of lanthanides. This study provides first insights into the specific reaction of methylotrophic bacteria to the presence of lanthanides, emphasizing the biological relevance of this trace metal.Sachiko MasudaYutaka SuzukiYoshiko FujitaniRyoji MitsuiTomoyuki NakagawaMasaki ShintaniAkio TaniAmerican Society for Microbiologyarticlelanthanidemethanol dehydrogenasemethylotrophsxoxFMicrobiologyQR1-502ENmSphere, Vol 3, Iss 1 (2018)
institution	DOAJ
collection	DOAJ
language	EN
topic	lanthanide methanol dehydrogenase methylotrophs xoxF Microbiology QR1-502
spellingShingle	lanthanide methanol dehydrogenase methylotrophs xoxF Microbiology QR1-502 Sachiko Masuda Yutaka Suzuki Yoshiko Fujitani Ryoji Mitsui Tomoyuki Nakagawa Masaki Shintani Akio Tani Lanthanide-Dependent Regulation of Methylotrophy in <named-content content-type="genus-species">Methylobacterium aquaticum</named-content> Strain 22A
description	ABSTRACT Methylobacterium species are representative of methylotrophic bacteria. Their genomes usually encode two types of methanol dehydrogenases (MDHs): MxaF and XoxF. The former is a Ca2+-dependent enzyme, and the latter was recently determined to be a lanthanide-dependent enzyme that is necessary for the expression of mxaF. This finding revealed the unexpected and important roles of lanthanides in bacterial methylotrophy. In this study, we performed transcriptome sequencing (RNA-seq) analysis using M. aquaticum strain 22A grown in the presence of different lanthanides. Expression of mxaF and xoxF1 genes showed a clear inverse correlation in response to La3+. We observed downregulation of formaldehyde oxidation pathways, high formaldehyde dehydrogenase activity, and low accumulation of formaldehyde in the reaction with cells grown in the presence of La3+; this might be due to the direct oxidation of methanol to formate by XoxF1. Lanthanides induced the transcription of AT-rich genes, the function of most of which was unknown, and genes possibly related to cellular survival, as well as other MDH homologues. These results revealed not only the metabolic response toward altered primary methanol oxidation, but also the possible targets to be investigated further in order to better understand methylotrophy in the presence of lanthanides. IMPORTANCE Lanthanides have been considered unimportant for biological processes. In methylotrophic bacteria, however, a methanol dehydrogenase (MDH) encoded by xoxF was recently found to be lanthanide dependent, while the classic-type mxaFI is calcium dependent. XoxF-type MDHs are more widespread in diverse bacterial genera, suggesting their importance for methylotrophy. Methylobacterium species, representative methylotrophic and predominating alphaproteobacteria in the phyllosphere, contain both types and regulate their expression depending on the availability of lanthanides. RNA-seq analysis showed that the regulation takes place not only for MDH genes but also the subsequent formaldehyde oxidation pathways and respiratory chain, which might be due to the direct oxidation of methanol to formate by XoxF. In addition, a considerable number of genes of unknown function, including AT-rich genes, were found to be upregulated in the presence of lanthanides. This study provides first insights into the specific reaction of methylotrophic bacteria to the presence of lanthanides, emphasizing the biological relevance of this trace metal.
format	article
author	Sachiko Masuda Yutaka Suzuki Yoshiko Fujitani Ryoji Mitsui Tomoyuki Nakagawa Masaki Shintani Akio Tani
author_facet	Sachiko Masuda Yutaka Suzuki Yoshiko Fujitani Ryoji Mitsui Tomoyuki Nakagawa Masaki Shintani Akio Tani
author_sort	Sachiko Masuda
title	Lanthanide-Dependent Regulation of Methylotrophy in <named-content content-type="genus-species">Methylobacterium aquaticum</named-content> Strain 22A
title_short	Lanthanide-Dependent Regulation of Methylotrophy in <named-content content-type="genus-species">Methylobacterium aquaticum</named-content> Strain 22A
title_full	Lanthanide-Dependent Regulation of Methylotrophy in <named-content content-type="genus-species">Methylobacterium aquaticum</named-content> Strain 22A
title_fullStr	Lanthanide-Dependent Regulation of Methylotrophy in <named-content content-type="genus-species">Methylobacterium aquaticum</named-content> Strain 22A
title_full_unstemmed	Lanthanide-Dependent Regulation of Methylotrophy in <named-content content-type="genus-species">Methylobacterium aquaticum</named-content> Strain 22A
title_sort	lanthanide-dependent regulation of methylotrophy in <named-content content-type="genus-species">methylobacterium aquaticum</named-content> strain 22a
publisher	American Society for Microbiology
publishDate	2018
url	https://doaj.org/article/331a51b5d8a24116b6037a497527dfed
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Lanthanide-Dependent Regulation of Methylotrophy in <named-content content-type="genus-species">Methylobacterium aquaticum</named-content> Strain 22A

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