1
|
O'Hara-Hanley K, Harrison A, Soby SD. Chromobacterium alticapitis sp. nov. and Chromobacterium sinusclupearum sp. nov. isolated from wild cranberry bogs in the Cape Cod National Seashore, USA. Int J Syst Evol Microbiol 2022; 72. [DOI: 10.1099/ijsem.0.005410] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022] Open
Abstract
Two non-pigmented strains in the genus
Chromobacterium
, MWU14-2602T and MWU13-2610T, were isolated from wild cranberry bogs in the Cape Cod National Seashore, USA. The isolates were characterized by genomic and phenotypic analyses, the results of which indicated that they represent two novel species. Based on total genome sequences, the closest relatives were in the
Chromobacterium amazonense
group, which includes the recently described
Chromobacterium paludis
. Whole genome sequences were compared by genome blast distance phylogeny, digital DNA–DNA hybridization and average nucleotide identity analyses with each other and with the type strains of their nearest species. MWU14-2602T and MWU13-2610T fell well below the accepted cutoff values for species relatedness, clearly indicating that they represent novel species. Although little is known about these organisms in situ, under laboratory conditions, MWU13-2610T produced a modest amount of HCN and was strongly positive for exoprotease activity, whereas MWU14-2602T did not produce HCN or exoproteases. The predominant fatty acids for both isolates were summed C16 : 1ω7cis/C16 : 1ω6cis. Both isolates produced siderophores and pyomelanin pigment on rich media, and neither was haemolytic on sheep blood agar. We propose the names Chromobacterium alticapitis sp. nov. (type strain MWU14-2602T=ATCC TSD 260T=CCOS 1979T) and Chromobacterium sinusclupearum sp. nov. (type strain MWU13-2610T=ATCC TSD-259T=CCOS 1981T) for these taxa.
Collapse
Affiliation(s)
- Kory O'Hara-Hanley
- Arizona College of Osteopathic Medicine, Midwestern University, Glendale, AZ, USA
| | - Alisha Harrison
- Biomedical Sciences Program, College of Graduate Studies, Midwestern University, Glendale, AZ, USA
| | - Scott D. Soby
- Biomedical Sciences Program, College of Graduate Studies, Midwestern University, Glendale, AZ, USA
- College of Veterinary Medicine, Midwestern University, Glendale, AZ, USA
| |
Collapse
|
2
|
Insights into the Genome Sequence of Chromobacterium amazonense Isolated from a Tropical Freshwater Lake. Int J Genomics 2018; 2018:1062716. [PMID: 29888247 PMCID: PMC5985088 DOI: 10.1155/2018/1062716] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2017] [Revised: 03/30/2018] [Accepted: 04/19/2018] [Indexed: 12/04/2022] Open
Abstract
Members of the genus Chromobacterium have been isolated from geographically diverse ecosystems and exhibit considerable metabolic flexibility, as well as biotechnological and pathogenic properties in some species. This study reports the draft assembly and detailed sequence analysis of Chromobacterium amazonense strain 56AF. The de novo-assembled genome is 4,556,707 bp in size and contains 4294 protein-coding and 95 RNA genes, including 88 tRNA, six rRNA, and one tmRNA operon. A repertoire of genes implicated in virulence, for example, hemolysin, hemolytic enterotoxins, colicin V, lytic proteins, and Nudix hydrolases, is present. The genome also contains a collection of genes of biotechnological interest, including esterases, lipase, auxins, chitinases, phytoene synthase and phytoene desaturase, polyhydroxyalkanoates, violacein, plastocyanin/azurin, and detoxifying compounds. Importantly, unlike other Chromobacterium species, the 56AF genome contains genes for pore-forming toxin alpha-hemolysin, a type IV secretion system, among others. The analysis of the C. amazonense strain 56AF genome reveals the versatility, adaptability, and biotechnological potential of this bacterium. This study provides molecular information that may pave the way for further comparative genomics and functional studies involving Chromobacterium-related isolates and improves our understanding of the global genomic diversity of Chromobacterium species.
Collapse
|
3
|
Draft Genome Sequence of Chromobacterium pseudoviolaceum LMG 3953 T, an Enigmatic Member of the Genus Chromobacterium. GENOME ANNOUNCEMENTS 2017; 5:5/12/e01632-16. [PMID: 28336604 PMCID: PMC5364229 DOI: 10.1128/genomea.01632-16] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
Abstract
Chromobacterium pseudoviolaceum LMG 3953T was separated from Chromobacterium violaceum in 2009, but little is known of its origin or environmental role. Here, the genome of LMG 3953T was sequenced to understand the evolution of the genus Chromobacterium It is not clear from this sequence that C. pseudoviolaceum is taxonomically distinct from C. violaceum.
Collapse
|
4
|
Baraúna RA, Santos AV, Graças DA, Santos DM, Ghilardi R, Pimenta AMC, Carepo MSP, Schneider MPC, Silva A. Exposure to an extremely low-frequency electromagnetic field only slightly modifies the proteome of Chromobacterium violaceumATCC 12472. Genet Mol Biol 2015; 38:227-30. [PMID: 26273227 PMCID: PMC4530650 DOI: 10.1590/s1415-4757382220140240] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/11/2014] [Accepted: 11/30/2014] [Indexed: 11/21/2022] Open
Abstract
Several studies of the physiological responses of different organisms exposed to extremely low-frequency electromagnetic fields (ELF-EMF) have been described. In this work, we report the minimal effects of in situ exposure to ELF-EMF on the global protein expression of Chromobacterium violaceum using a gel-based proteomic approach. The protein expression profile was only slightly altered, with five differentially expressed proteins detected in the exposed cultures; two of these proteins (DNA-binding stress protein, Dps, and alcohol dehydrogenase) were identified by MS/MS. The enhanced expression of Dps possibly helped to prevent physical damage to DNA. Although small, the changes in protein expression observed here were probably beneficial in helping the bacteria to adapt to the stress generated by the electromagnetic field.
Collapse
Affiliation(s)
- Rafael A Baraúna
- Laboratório de Polimorfismo de DNA, Instituto de Ciências Biológicas, Universidade Federal do Pará, Belém, PA, Brazil
| | - Agenor V Santos
- Laboratório de Polimorfismo de DNA, Instituto de Ciências Biológicas, Universidade Federal do Pará, Belém, PA, Brazil
| | - Diego A Graças
- Laboratório de Polimorfismo de DNA, Instituto de Ciências Biológicas, Universidade Federal do Pará, Belém, PA, Brazil
| | - Daniel M Santos
- Laboratório de Venenos e Toxinas, Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brazil
| | - Rubens Ghilardi
- Superintendência do Meio Ambiente, Centrais Elétricas do Norte do Brasil S/A, Brasília, DF, Brazil
| | - Adriano M C Pimenta
- Laboratório de Venenos e Toxinas, Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brazil
| | - Marta S P Carepo
- Rede de Química e Tecnologia, Centro de Química Fina e Biotecnologia, Departamento de Química, Faculdade de Ciências e Tecnologia, Universidade Nova de Lisboa, Caparica, Portugal
| | - Maria P C Schneider
- Laboratório de Polimorfismo de DNA, Instituto de Ciências Biológicas, Universidade Federal do Pará, Belém, PA, Brazil
| | - Artur Silva
- Laboratório de Polimorfismo de DNA, Instituto de Ciências Biológicas, Universidade Federal do Pará, Belém, PA, Brazil
| |
Collapse
|
5
|
Menezes CBA, Tonin MF, Corrêa DBA, Parma M, de Melo IS, Zucchi TD, Destéfano SAL, Fantinatti-Garboggini F. Chromobacterium amazonense sp. nov. isolated from water samples from the Rio Negro, Amazon, Brazil. Antonie van Leeuwenhoek 2015; 107:1057-63. [PMID: 25663027 DOI: 10.1007/s10482-015-0397-3] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/31/2014] [Accepted: 01/23/2015] [Indexed: 11/25/2022]
Abstract
The taxonomic position of a bacterium isolated from water samples from the Rio Negro, in Amazon, Brazil, was determined by using a polyphasic approach. The organism formed a distinct phyletic line in the Chromobacterium 16S rRNA gene tree and had chemotaxonomic and morphological properties consistent with its classification in this genus. It was found to be closely related to Chromobacterium vaccinii DSM 25150(T) (98.6 % 16S rRNA gene similarity) and shared 98.5 % 16S rRNA gene similarity with Chromobacterium piscinae LGM 3947(T). DNA-DNA relatedness studies showed that isolate CBMAI 310(T) belongs to distinct genomic species. The isolate was readily distinguished from the type strain of these species using a combination of phenotypic and chemotaxonomic properties. Thus, based on genotypic and phenotypic data, it is proposed that isolate CBMAI 310(T) (=DSM 26508(T)) be classified in the genus Chromobacterium as the type strain of a novel species, namely, Chromobacterium amazonense sp. nov.
Collapse
Affiliation(s)
- Claudia Beatriz Afonso Menezes
- Centro Pluridisciplinar de Pesquisas Químicas Biológicas e Agrícolas, UNICAMP, Avenida Alexandre Cazelatto, 999, Campinas, SP, CEP 13083-218, Brazil
| | | | | | | | | | | | | | | |
Collapse
|
6
|
Soby SD, Gadagkar SR, Contreras C, Caruso FL. Chromobacterium vaccinii sp. nov., isolated from native and cultivated cranberry (Vaccinium macrocarpon Ait.) bogs and irrigation ponds. Int J Syst Evol Microbiol 2012; 63:1840-1846. [PMID: 22984138 DOI: 10.1099/ijs.0.045161-0] [Citation(s) in RCA: 40] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A large number of Gram-negative, motile, mesophilic, violacein-producing bacteria were isolated from the soils and roots of Vaccinium macrocarpon Ait. and Kalmia angustifolia L. plants and from irrigation ponds associated with wild and cultivated cranberry bogs in Massachusetts, USA. Phylogenetic analyses of 16S rRNA gene sequences placed these isolates in a clade with Chromobacterium species, but the specialized environment from which they were isolated, their low genomic DNA relatedness with Chromobacterium violaceum ATCC 12472(T) and C. subtsugae PRAA4-1(T), significant differences in fatty acid composition and colony morphology indicate that the cranberry and Kalmia isolates comprise a separate species of Chromobacterium, for which the name Chromobacterium vaccinii sp. nov. is proposed. Strain MWU205(T) ( = ATCC BAA-2314(T) = DSM 25150(T)) is proposed as the type strain for the novel species. Phenotypic analysis of 26 independent isolates of C. vaccinii sp. nov. indicates that, despite close geographical and biological proximity, there is considerable metabolic diversity among individuals within the population.
Collapse
Affiliation(s)
- Scott D Soby
- Department of Biomedical Sciences, Midwestern University, 19555 N 59th Avenue, Glendale, AZ 85308, USA
| | - Sudhindra R Gadagkar
- Department of Biomedical Sciences, Midwestern University, 19555 N 59th Avenue, Glendale, AZ 85308, USA
| | - Cristina Contreras
- Department of Chemistry and Biochemistry, University of Arizona, Tucson, AZ 85721, USA
| | - Frank L Caruso
- Cranberry Station, University of Massachusetts, PO Box 569, East Wareham, MA 02538, USA
| |
Collapse
|