The complex extracellular biology of<i>Streptomyces</i>

Chater, Keith F.; Bíró, Sándor; Lee, Kye Joon; Palmer, Tracy; Schrempf, Hildgund

doi:10.1111/j.1574-6976.2009.00206.x

Cited by 430 publications

(336 citation statements)

References 275 publications

(353 reference statements)

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“…Similarly, in S. scabiei there are only four copies of the cluster strep1003, whereas 19 copies are found in S. bingchenggensis . This observation not only suggests that it is likely that the machinery for biosynthesis of natural products is inherited from their common ancestor as an adaptive trait for surviving in adverse environment, but also suggests that these streptomycetes have evolved strain-specific modules of secondary metabolic pathways for competition, self-defense, signaling and cell-to-cell communication [36]. …”

Section: Resultsmentioning

confidence: 99%

Genome plasticity and systems evolution in Streptomyces

Zhou

et al. 2012

BMC Bioinformatics

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BackgroundStreptomycetes are filamentous soil-dwelling bacteria. They are best known as the producers of a great variety of natural products such as antibiotics, antifungals, antiparasitics, and anticancer agents and the decomposers of organic substances for carbon recycling. They are also model organisms for the studies of gene regulatory networks, morphological differentiation, and stress response. The availability of sets of genomes from closely related Streptomyces strains makes it possible to assess the mechanisms underlying genome plasticity and systems adaptation.ResultsWe present the results of a comprehensive analysis of the genomes of five Streptomyces species with distinct phenotypes. These streptomycetes have a pan-genome comprised of 17,362 orthologous families which includes 3,096 components in the core genome, 5,066 components in the dispensable genome, and 9,200 components that are uniquely present in only one species. The core genome makes up about 33%-45% of each genome repertoire. It contains important genes for Streptomyces biology including those involved in gene regulation, secretion, secondary metabolism and morphological differentiation. Abundant duplicate genes have been identified, with 4%-11% of the whole genomes composed of lineage-specific expansions (LSEs), suggesting that frequent gene duplication or lateral gene transfer events play a role in shaping the genome diversification within this genus. Two patterns of expansion, single gene expansion and chromosome block expansion are observed, representing different scales of duplication.ConclusionsOur results provide a catalog of genome components and their potential functional roles in gene regulatory networks and metabolic networks. The core genome components reveal the minimum requirement for streptomycetes to sustain a successful lifecycle in the soil environment, reflecting the effects of both genome evolution and environmental stress acting upon the expressed phenotypes. A better understanding of the LSE gene families will, on the other hand, bring a wealth of new insights into the mechanisms underlying strain-specific phenotypes, such as the production of novel antibiotics, pathogenesis, and adaptive response to environmental challenges.

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Section: Resultsmentioning

confidence: 99%

Genome plasticity and systems evolution in Streptomyces

Zhou

et al. 2012

BMC Bioinformatics

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“…Secreted proteins play important roles in the adaptation of a bacterium to changing environmental conditions, including nutrient acquisition, stress protection and development of host-microbe associations via the formation of biofilms for cellular adhesion (Wandersman 1989;Tseng et al, 2009;Chater et al, 2010;Ciprandi et al, 2013). Proteobacteria have six types of protein secretion systems -types I-VI.…”

Section: Introductionmentioning

confidence: 99%

EliA is required for inducing the stearyl alcohol-mediated expression of secretory proteins and production of polyester in Ralstonia sp. NT80

et al. 2016

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Addition of stearyl alcohol to the culture medium of Ralstonia sp. NT80 induced expression of a significant amount of secretory lipase. Comparative proteomic analysis of extracellular proteins from NT80 cells grown in the presence or absence of stearyl alcohol revealed that stearyl alcohol induced expression of several secretory proteins including lipase, haemolysin-coregulated protein and nucleoside diphosphate kinase. Expression of these secreted proteins was upregulated at the transcriptional level. Stearyl alcohol also induced the synthesis of polyhydroxyalkanoate. Secretory protein EliA was required for all these responses of NT80 cells to stearyl alcohol. Accordingly, the effects of stearyl alcohol were significantly reduced in the eliA deletion mutant cells of NT80 (DeliA). The remaining concentration of stearyl alcohol in the culture supernatant of the wild-type cells, but not that in the culture supernatant of the DeliA cells, clearly decreased during the course of growth. These observed phenotypes of the DeliA mutant were rescued by gene complementation. The results suggested that EliA is essential for these cells to respond to stearyl alcohol, and that it plays an important role in the recognition and assimilation of stearyl alcohol by NT80 cells.

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“…Members of the genus Streptomyces have been extensively explored for a multitude of secondary metabolites, bioactive compounds like antibiotics and industrially and commercially important enzymes (Anderson et al, 1956;Watve et al, 2001;Chater et al, 2010). On the basis of 16S rRNA gene sequence comparison the genus Streptomyces forms a separate phylogenetic cluster, however, to establish differences at the species level when 16S rRNA gene sequence similarities are .97 %, is challenging.…”

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confidence: 99%

Streptomyces chilikensis sp. nov., a halophilic streptomycete isolated from brackish water sediment

Ray

Suar

Pattnaik

et al. 2013

International Journal of Systematic and Evolutionary Microbiology

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A novel actinobacterial strain, designated RC 1830 T , was isolated from the sediment of estuarine coastal brackish water lagoon of Chilika Lake, in Khurdha district of Odisha, India, and characterized using a polyphasic approach. Strain RC 1830 T was halophilic and alkali-tolerant and found to hydrolyse chitin, starch, tributyrin, lecithin, Tween 80, cellulose, gelatin and casein. The diagnostic presence of LL-diaminopimelic acid, iso-C 15 : 0 , anteiso-C 15 : 0 , iso-C 16 : 0 , C 16 : 0 , iso-C 17 : 0 , anteiso-C 17 : 0 as major cellular fatty acids and MK-9(H 4 and H 6 ) as major menaquinones noticeably associated the strain to the genus Streptomyces. After comparison and analysis of the near complete 16S rRNA gene sequence with representative strains of other streptomycetes, it was evident that strain RC 1830 T belonged to the genus Streptomyces, and exhibited the highest sequence similarities of 99.53 %, 99.25 %, 99.11 %, 99.10 % and 99. 06 % to Streptomyces fragilis DSM 40044 T , Streptomyces coelicoflavus NBRC 15399 T , Streptomyces flaveolus NBRC 3715 T , Streptomyces lavenduligrisesus NBRC 13405 T and Streptomyces eurythermus ATCC 14975 T , respectively. Reconstruction of a phylogenetic tree for the genus Streptomyces revealed that strain RC 1830 T formed a distinct phyletic line and clustered with its most closely related neighbour S. fragilis DSM 40044 T . The DNA-DNA relatedness values between strain RC 1830 T and the most closely related type strain S. fragilis DSM 40044 T were determined to be 17.7±4.55 %. Additionally, morphological, biochemical and physiological tests were able to distinguish the strain from the most closely related type strain S. fragilis DSM 40044 T and other closely related neighbours, S. coelicoflavus DSM 41471 T and Streptomyces flaveolus DSM 40061 T . Based on a range of phenotypic and genotypic properties, strain RC 1830 T is suggested to represent a novel species of the genus Streptomyces for which the name Streptomyces chilikensis sp. nov. is proposed. The type strain is RC 1830 T (5JCM 18411 T 5DSM 42072 T ).

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The complex extracellular biology ofStreptomyces

Cited by 430 publications

References 275 publications

Genome plasticity and systems evolution in Streptomyces

Genome plasticity and systems evolution in Streptomyces

EliA is required for inducing the stearyl alcohol-mediated expression of secretory proteins and production of polyester in Ralstonia sp. NT80

Streptomyces chilikensis sp. nov., a halophilic streptomycete isolated from brackish water sediment

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