Kutzneria buriramensis sp. nov., isolated from soil, and emended description of the genus 
               
                  Kutzneria

Suriyachadkun, Chanwit; Ngaemthao, Wipaporn; Chunhametha, Suwanee; Tamura, Tomohiko; Sanglier, Jean‐Jacques

doi:10.1099/ijs.0.036533-0

Cited by 19 publications

(11 citation statements)

References 32 publications

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“…The description is as before (Suriyachadkun et al, 2013 ) with the following modification. The G+C content of the type-strain genome is 70.4%, its approximate size 11.97 Mbp, its GenBank deposit SAMN05421845 .…”

Section: Discussionmentioning

confidence: 99%

Genome-Based Taxonomic Classification of the Phylum Actinobacteria

et al. 2018

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The application of phylogenetic taxonomic procedures led to improvements in the classification of bacteria assigned to the phylum Actinobacteria but even so there remains a need to further clarify relationships within a taxon that encompasses organisms of agricultural, biotechnological, clinical, and ecological importance. Classification of the morphologically diverse bacteria belonging to this large phylum based on a limited number of features has proved to be difficult, not least when taxonomic decisions rested heavily on interpretation of poorly resolved 16S rRNA gene trees. Here, draft genome sequences of a large collection of actinobacterial type strains were used to infer phylogenetic trees from genome-scale data using principles drawn from phylogenetic systematics. The majority of taxa were found to be monophyletic but several orders, families, and genera, as well as many species and a few subspecies were shown to be in need of revision leading to proposals for the recognition of 2 orders, 10 families, and 17 genera, as well as the transfer of over 100 species to other genera. In addition, emended descriptions are given for many species mainly involving the addition of data on genome size and DNA G+C content, the former can be considered to be a valuable taxonomic marker in actinobacterial systematics. Many of the incongruities detected when the results of the present study were compared with existing classifications had been recognized from 16S rRNA gene trees though whole-genome phylogenies proved to be much better resolved. The few significant incongruities found between 16S/23S rRNA and whole genome trees underline the pitfalls inherent in phylogenies based upon single gene sequences. Similarly good congruence was found between the discontinuous distribution of phenotypic properties and taxa delineated in the phylogenetic trees though diverse non-monophyletic taxa appeared to be based on the use of plesiomorphic character states as diagnostic features.

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Section: Discussionmentioning

confidence: 99%

Genome-Based Taxonomic Classification of the Phylum Actinobacteria

et al. 2018

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“…The genus Kutzneria was proposed by Stackebrandt et al (1994) and classified in the family Pseudonocardiaceae . So far, this genus has consisted of four species: Kutzneria viridogrisea (type species), Kutzneria albida , Kutzneria kofuensis (Stackebrandt et al , 1994) and Kutzneria buriramensis (Suriyachadkun et al , 2013). Cells are Gram-stain-positive, non-acid-fast and aerobic.…”

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confidence: 99%

Kutzneria chonburiensis sp. nov., isolated from soil

Chanama

Thongkrachang

Suriyachadkun

et al. 2015

International Journal of Systematic and Evolutionary Microbiology

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A novel actinomycete strain, SMC 256 T , which developed small, globose sporangia at the ends of long sporangiophores on aerial mycelium, was isolated from soil collected in a mountain forest of Thailand. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain SMC 256 T belonged to the genus Kutzneria, and the closest phylogenetically related species were Kutzneria buriramensis BCC 29373 T (98.9 % 16S rRNA gene sequence similarity), Kutzneria kofuensis ATCC 27102 T (98.2 %), Kutzneria albida ATCC 25243 T (97.9 %) and Kutzneria viridogrisea ATCC 25242 T (97.4 %). The DNA-DNA relatedness values that distinguished strain SMC 256 T from previously described members of the genus Kutzneria were significantly below 70 %. The G+C content of the genomic DNA was 71.8 mol%. The cell-wall peptidoglycan contained meso-diaminopimelic acid. The whole-cell sugars consisted of rhamnose, ribose, mannose, glucose and galactose. The predominant menaquinone was MK-9(H 4 ). Mycolic acids were not detected. The diagnostic phospholipids were hydroxyphosphatidylethanolamine, phosphatidylmethylethanolamine, phosphatidylglycerol, diphosphatidylglycerol, phosphatidylinositol, phosphatidylinositol mannosides, unidentified phosphoglycolipids, unidentified phospholipids and an unidentified lipid. The predominant cellular fatty acids were iso-C 16 : 0 , C 17 : 1 and C 17 : 0 10-methyl. Following the evidence of phenotypic, chemotaxonomic and genotypic studies, it is proposed that strain SMC 256 T represents a novel species in the genus Kutzneria, namely Kutzneria chonburiensis sp. nov. The type strain is SMC 256 T (5BCC 72675 T 5NBRC 110610 T ).The genus Kutzneria was proposed by Stackebrandt et al. (1994) and classified in the family Pseudonocardiaceae. So far, this genus has consisted of four species: Kutzneria viridogrisea (type species), Kutzneria albida, Kutzneria kofuensis (Stackebrandt et al., 1994) and Kutzneria buriramensis (Suriyachadkun et al., 2013). Cells are Gram-stainpositive, non-acid-fast and aerobic. Large, globose sporangia (diameter, 10-48 mm) develop and contain rod-or ovalshaped, non-motile spores at the ends of long sporangiophores (length, .50 mm) on aerial mycelium. Substrate mycelium fragments into rod-shaped elements. Vegetative mycelium is white to pale yellow. Optimal growth is observed between 25 and 30 8C. The cell walls of the four established members of the genus Kutzneria contain Nacetylated muramic acid, meso-diaminopimelic acid and no common characteristic sugars. Mycolic acids are not detected. MK-9(H 4 ) is the major isoprenoid quinone. The phospholipid pattern is of type II and usually includes phosphatidylethanolamine, phosphatidylinositol, hydroxyphosphatidylethanolamine and diphosphatidylglycerol. The predominant cellular fatty acids are iso-C 16 : 0 , iso-C 16 : 0 2-OH, C 16 : 0 10-methyl, anteiso-C 17 : 0 , anteiso-C 17 : 0 2-OH and C 17 : 0 10-methyl. The G+C content of the genomic DNA is in the range of 70.3 to 72 mol%.During an investigation of actinomycete diversity in Thaila...

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“…Amycolaptosis vancoresmycina, Kutzneria buriramensis, A. xylanica and A. saalfeldensis belong to family Pseudonocardiaceae. This family of actinomycetes has type IV cell wall composition with meso-diaminopimelic acid, arabinose and galactose in its cell wall; MK-9(H 4 ) as the major menaquinone and absence of mycolic acid [40][41][42][43]. Lechevalieria xinjiangensis and Lentzea waywayandensis belonging to family Actinosynnemataceae also encodes for MxyR homolog.…”

Section: Discussionmentioning

confidence: 99%

“…Family actinosynnemataceae has type III cell wall composition with meso-diaminopimelic acid, galactose and mannose or rhamnose [44,45]. Soil bacteria A. saalfeldensis and A. xylanica use L-arabinose, D-fructose, D-glucose and D-xylose as the sole carbon source [40][41][42][43]. MxyR homologs in soil bacteria validate the hypothesis that the regulator of M. tuberculosis, which regulates xylan degradation pathway is a retention from ancestral soil mycobacteria as the host (human) lacks the substrate xylan in its life-time.…”

Section: Discussionmentioning

confidence: 99%

MxyR of Mycobacterium tuberculosis Responds to Xylan; an Unusual Ligand for a MarR Family Transcriptional Regulator

Mauran

Perera

2021

Mol Biol

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Among the repertoire of MarR family transcriptional regulators in Mycobacterium tuberculosis, gene rv3095 (mxyR) encodes Mycobacterial Xylan Regulator, MxyR. Gene mxyR is divergently oriented from a hydrolase (rv3094c), oxidoreductase (rv3093c) and an ABC transporter (rv3092c) and convergently oriented with xylanase (rv3096). Xylanase is commonly used by plant pathogenic microbes where they degrade xylan, the major component of hemicellulose. We have purified the transcriptional regulatory protein encoded by rv3095 and its molecular interactions were studied in detail using electrophoretic mobility shift assay. MxyR interacts with its upstream intergenic region mxyO with high specificity and at a dissociation constant of 5.01 ± 0.017 nM. Notably, this binding is attenuated by specific carbohydrate ligands such as xylan, L-Arabinose and D-Galactose with an IC 50 values of 22.7 ± 1.02 ng/μL, 360.8 ± 24.25 ng/μL and 2320.0 ± 96.97 μg/μL, respectively. Consequently, it is evident that this association changes the conformation of the DNA binding helix α4 making the transcriptional regulator incompatible with binding to its cognate DNA, allowing xylanase and other genes to be transcribed. This study establishes the natural ligands of MxyR of M. tuberculosis providing insight on metabolic regulation of the carbohydrate, xylan.

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Kutzneria buriramensis sp. nov., isolated from soil, and emended description of the genus Kutzneria

Cited by 19 publications

References 32 publications

Genome-Based Taxonomic Classification of the Phylum Actinobacteria

Genome-Based Taxonomic Classification of the Phylum Actinobacteria

Kutzneria chonburiensis sp. nov., isolated from soil

MxyR of Mycobacterium tuberculosis Responds to Xylan; an Unusual Ligand for a MarR Family Transcriptional Regulator

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