Distribution of 1-aminocyclopropane-1-carboxylate deaminase and d-cysteine desulfhydrase genes among type species of the genus Methylobacterium

Ekimova, Galina A.; Федоров, Д. Н.; Tani, Akio; Доронина, Н. В.; Trotsenko, Yu. A.

doi:10.1007/s10482-018-1061-5

Cited by 11 publications

(5 citation statements)

References 28 publications

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“…Bacterial 1-aminocyclopropane-1-carboxylic acid (ACC) deaminase (AcdS) is involved in lowering ethylene levels in plants. The importance of bacterial D-cysteine desulfhydrase (DcyD), which is structurally homologous to ACC deaminase, is unknown, but it may be involved in the production of hydrogen sulfide, which also stimulates plant growth ( Ekimova et al, 2018 ). Our analysis showed that acdS was found in clades A and C but not in clade B. dcyD was found mostly in members of clades B and B2 and in a few members of clade A but not in clade C. The chitinase gene was found in a few strains in clade A, while the pectinase gene was found in a few strains in clade B.…”

Section: Resultsmentioning

confidence: 99%

Comprehensive Comparative Genomics and Phenotyping of Methylobacterium Species

et al. 2021

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The pink-pigmented facultative methylotrophs (PPFMs), a major bacterial group found in the plant phyllosphere, comprise two genera: Methylobacterium and Methylorubrum. They have been separated into three major clades: A, B (Methylorubrum), and C. Within these genera, however, some species lack either pigmentation or methylotrophy, which raises the question of what actually defines the PPFMs. The present study employed a comprehensive comparative genomics approach to reveal the phylogenetic relationship among the PPFMs and to explain the genotypic differences that confer their different phenotypes. We newly sequenced the genomes of 29 relevant-type strains to complete a dataset for almost all validly published species in the genera. Through comparative analysis, we revealed that methylotrophy, nitrate utilization, and anoxygenic photosynthesis are hallmarks differentiating the PPFMs from the other Methylobacteriaceae. The Methylobacterium species in clade A, including the type species Methylobacterium organophilum, were phylogenetically classified into six subclades, each possessing relatively high genomic homology and shared phenotypic characteristics. One of these subclades is phylogenetically close to Methylorubrum species; this finding led us to reunite the two genera into a single genus Methylobacterium. Clade C, meanwhile, is composed of phylogenetically distinct species that share relatively higher percent G+C content and larger genome sizes, including larger numbers of secondary metabolite clusters. Most species of clade C and some of clade A have the glutathione-dependent pathway for formaldehyde oxidation in addition to the H4MPT pathway. Some species cannot utilize methanol due to their lack of MxaF-type methanol dehydrogenase (MDH), but most harbor an XoxF-type MDH that enables growth on methanol in the presence of lanthanum. The genomes of PPFMs encode between two and seven (average 3.7) genes for pyrroloquinoline quinone-dependent alcohol dehydrogenases, and their phylogeny is distinctly correlated with their genomic phylogeny. All PPFMs were capable of synthesizing auxin and did not induce any immune response in rice cells. Other phenotypes including sugar utilization, antibiotic resistance, and antifungal activity correlated with their phylogenetic relationship. This study provides the first inclusive genotypic insight into the phylogeny and phenotypes of PPFMs.

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Section: Resultsmentioning

confidence: 99%

Comprehensive Comparative Genomics and Phenotyping of Methylobacterium Species

et al. 2021

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“…With an increasing number of genome sequences available, it became evident that gene products from bacteria (Ekimova et al, 2018) and from plants with high similarity to ACC deaminases exist. However, they are inactive with ACC, but have d -cysteine desulfhydrase activity (DCS).…”

Section: Discussionmentioning

confidence: 99%

Biochemical Characterization of the Fusarium graminearum Candidate ACC-Deaminases and Virulence Testing of Knockout Mutant Strains

Svoboda

Parich²,

Güldener

et al. 2019

Front. Plant Sci.

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Fusarium graminearum is a plant pathogenic fungus which is able to infect wheat and other economically important cereal crop species. The role of ethylene in the interaction with host plants is unclear and controversial. We have analyzed the inventory of genes with a putative function in ethylene production or degradation of the ethylene precursor 1-aminocyclopropane carboxylic acid (ACC). F. graminearum, in contrast to other species, does not contain a candidate gene encoding ethylene-forming enzyme. Three genes with similarity to ACC synthases exist; heterologous expression of these did not reveal enzymatic activity. The F. graminearum genome contains in addition two ACC deaminase candidate genes. We have expressed both genes in E. coli and characterized the enzymatic properties of the affinity-purified products. One of the proteins had indeed ACC deaminase activity, with kinetic properties similar to ethylene-stress reducing enzymes of plant growth promoting bacteria. The other candidate was inactive with ACC but turned out to be a d-cysteine desulfhydrase. Since it had been reported that ethylene insensitivity in transgenic wheat increased Fusarium resistance and reduced the content of the mycotoxin deoxynivalenol (DON) in infected wheat, we generated single and double knockout mutants of both genes in the F. graminearum strain PH-1. No statistically significant effect of the gene disruptions on fungal spread or mycotoxin content was detected, indicating that the ability of the fungus to manipulate the production of the gaseous plant hormones ethylene and H2S is dispensable for full virulence.

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“…Importantly, ACC deaminase activity is not limited to the PGPB that occupy the rhizospheres of obviously stressed plants. Rather, it has been found in α, β, and γ Proteobacteria, Actinobacteria, Firmicutes, Bacteroidetes, Archaea, various fungi, and yeast [ 13 , 82 ].…”

Section: Acc Deaminasementioning

confidence: 99%

Ethylene, ACC, and the Plant Growth-Promoting Enzyme ACC Deaminase

Gamalero

Lingua

Glick

2023

Biology

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Here, a brief summary of the biosynthesis of 1-aminocyclopropane-1-carboxylate (ACC) and ethylene in plants, as well as overviews of how ACC and ethylene act as signaling molecules in plants, is presented. Next, how the bacterial enzyme ACC deaminase cleaves plant-produced ACC and thereby decreases or prevents the ethylene or ACC modulation of plant gene expression is considered. A detailed model of ACC deaminase functioning, including the role of indoleacetic acid (IAA), is presented. Given that ACC is a signaling molecule under some circumstances, this suggests that ACC, which appears to have evolved prior to ethylene, may have been a major signaling molecule in primitive plants prior to the evolution of ethylene and ethylene signaling. Due to their involvement in stimulating ethylene production, the role of D-amino acids in plants is then considered. The enzyme D-cysteine desulfhydrase, which is structurally very similar to ACC deaminase, is briefly discussed and the possibility that ACC deaminase arose as a variant of D-cysteine desulfhydrase is suggested.

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Distribution of 1-aminocyclopropane-1-carboxylate deaminase and d-cysteine desulfhydrase genes among type species of the genus Methylobacterium

Cited by 11 publications

References 28 publications

Comprehensive Comparative Genomics and Phenotyping of Methylobacterium Species

Comprehensive Comparative Genomics and Phenotyping of Methylobacterium Species

Biochemical Characterization of the Fusarium graminearum Candidate ACC-Deaminases and Virulence Testing of Knockout Mutant Strains

Ethylene, ACC, and the Plant Growth-Promoting Enzyme ACC Deaminase

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