Phylogenetic relationships among members of the Comamonadaceae, and description of Delftia acidovorans (den Dooren de Jong 1926 and Tamaoka et al. 1987) gen. nov., comb. nov.

Wen, Anbang; Fegan, Mark; Hayward, Chris; Chakraborty, Sukumar; Sly, Lindsay I.

doi:10.1099/00207713-49-2-567

Cited by 246 publications

(170 citation statements)

References 36 publications

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“…D. acidovorans (strain DSM 14801/SPH-1) is a non-halophilic aerobic gram-negative β-Proteobacterium. D. acidovorans cells are straight to slightly curved, possess a polar tuft of flagella and are typically non-pigmented [60]. This bacterium is commonly found in soil, mud and water, and has been isolated from soils as well as oil brine, crude oil and wastewater from the petroleum industry in Japan, the Netherlands, Great Britain, the USA, Spain and Sweden.…”

Section: Extracellular Compounds For Gold Detoxification-delftia Acidmentioning

confidence: 99%

Geobiological Cycling of Gold: From Fundamental Process Understanding to Exploration Solutions

et al. 2013

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Microbial communities mediating gold cycling occur on gold grains from (sub)-tropical, (semi)-arid, temperate and subarctic environments. The majority of identified species comprising these biofilms are β-Proteobacteria. Some bacteria, e.g., Cupriavidus metallidurans, Delftia acidovorans and Salmonella typhimurium, have developed biochemical responses to deal with highly toxic gold complexes. These include gold specific sensing and efflux, co-utilization of resistance mechanisms for other metals, and excretion of gold-complex-reducing siderophores that ultimately catalyze the biomineralization of nano-particulate, spheroidal and/or bacteriomorphic gold. In turn, the toxicity of gold complexes fosters the development of specialized biofilms on gold grains, and hence the cycling of gold in surface environments. This was not reported on isoferroplatinum grains under most near-surface environments, due to the lower toxicity of mobile platinum complexes. The discovery of gold-specific microbial responses can now drive the development of geobiological exploration tools, e.g., gold bioindicators and biosensors. Bioindicators employ genetic markers from soils and groundwaters to provide information about gold mineralization processes, while biosensors will allow in-field analyses of gold concentrations in complex sampling media.

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Section: Extracellular Compounds For Gold Detoxification-delftia Acidmentioning

confidence: 99%

Geobiological Cycling of Gold: From Fundamental Process Understanding to Exploration Solutions

et al. 2013

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“…There is no generic circumscription for the new genus. In proposing this new genus, Wen et al (1999) offered no evidence or rationale for distinguishing Delftia as a genus separate from Comamonas except for suggested ' deeply rooted ' branches between Comamonas species. Because the genus is defined by sequence analysis alone as a monospecific taxon separate from other individual Comamonas species, acceptance of Delftia as a validly published genus name means that there is no rational basis for choosing between the following alternatives : (1) Delftia acidovorans and the remaining Comamonas species, (2) further renaming of all Comamonas species in novel, monospecific genera or (3) renaming all present members of Comamonas, except for the type species, in Delftia.…”

Section: International Journal Of Systematic and Evolutionary Microbimentioning

confidence: 99%

“…(i) Delftia is the validly published, monospecific name for the genus comprising Delftia acidovorans (Wen et al, 1999). By comparative analysis of 16S rDNA sequence, the genus is represented by a single sequence as an outlier of the genus Comamonas.…”

Section: International Journal Of Systematic and Evolutionary Microbimentioning

confidence: 99%

“…In the examples below, applications are given of polyphasic taxonomy in proposals published in the International Journal of Systematic Bacteriology. These are considered because of their influence as precedents for the interpretation of this methodology.(i) Delftia is the validly published, monospecific name for the genus comprising Delftia acidovorans (Wen et al, 1999). By comparative analysis of 16S rDNA sequence, the genus is represented by a single sequence as an outlier of the genus Comamonas.…”

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confidence: 99%

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Implications of alternative classifications and horizontal gene transfer for bacterial taxonomy.

Young¹

2001

International Journal of Systematic and Evolutionary Microbiology

165

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Following the publication of the Approved Lists, there has been a tendency to regard all subsequent revisions of classification as providing improved nomenclature, to be accepted without question. This takes no account of the fact that such revisions may be based on one of three alternative concepts, phenetic, phylogenetic or polyphasic classification, sometimes leading to different, valid, but incompatible nomenclature, or that some investigations are based only on subsets of relevant taxa and on limited data, leading to incomplete and sometimes confusing revisions of nomenclature. The polyphasic approach to classification has widespread support, although there appears to be a tendency to allow comparative sequence analyses of 16S rDNA to determine classification contrary to the indications of other data. In some cases, classification is based solely on 16S rDNA data. Examples are considered. Consideration is given to the criteria by which taxa are circumscribed, particularly at the level of genus and species. It is suggested that there is a need for reconciliation of the criteria by which taxa at these levels are circumscribed. Recent studies demonstrating the widespread occurrence of horizontal gene transfer suggest that there is a need for caution in monophyletic interpretations, especially when these are based on the analysis of single sequences. Keywords : phenetic, phylogenetic, polyphasic, bacterial systematics IntroductionAlthough Staley & Krieg (1984) wrote that ' bacterial classifications are devised for microbiologists, not for the entities being classified ', bacteriologists do not necessarily agree about the aims of classification. The several systems of bacterial classification that are in vogue at present are incompatible, sometimes leading to different classifications and to different schemes of bacterial nomenclature. Unless the principles underlying different classifications are understood, these different applications of names cause bewilderment. The thrust of this article is to show that no one system of classification is supreme, each offering a different perspective on evolutionary processes and serving different purposes in systematics. One problem that particularly besets discussions on bacterial taxonomy is that some terms derived elsewhere and often in the distant past are poorly defined or are used in different ways by different writers. For example, see the history of the usage of ' polyphasic ' described below. Ambiguity and lack of precision of usage are real causes of confusion. In attempting to maintain simplicity without confusion, terms are referred to Cowan (1978) and Lincoln et al. (1998) unless further explanation is felt necessary. Terms used here are not inconsistent with Tindall (1997).In 1980, the Approved Lists (Skerman et al., 1980) recorded 1792 validly published species names in 290 genera (6n2 species per genus) (Euze! by, 1997). One expectation of modern systematics has been that the increasing numbers of methods and sophisticated tools for analysis would form co...

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“…Comamonas acidovorans, is a non glucose-fermenting, gram-negative, non spore-forming rod-shaped bacterium present in soil, fresh water, activated sludge, and clinical specimens (Von Graevenitz, 1985;Tamaoka et al, 1987;Wen et al, 1999). Strains of D. acidovorans can be used to transform ferulic acid into vanillin and related flavor metabolites (Toms and Wood, 1970;Labuda et al, 1992;Rao and Ravishankar, 2000;Shetty et al, 2006).…”

Section: Acidovorans Which Was Previously Described As Pseudomonamentioning

confidence: 99%

Resistance of Enlist^™(AAD-12) Cotton to Glufosinate

Braxton¹,

Richburg²,

York³

et al. 2017

Weed Technol

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Release of InformationDow AgroSciences LLC (DAS) is submitting the information in this petition for deregulation to USDA-APHIS as part of the regulatory process. By submitting this information, DAS does not authorize its release to any third party. If USDA receives a Freedom of Information Act request pursuant to 5 U.S.C., § 552 and 7 CFR Part 1 regarding this information, DAS expects that USDA will provide DAS with a copy of the material proposed to be released and the opportunity to object to the release of any information based on appropriate legal grounds (e.g., responsiveness, confidentiality, and/or competitive concerns). DAS understands that a copy of this information may be made available to the public in a reading room and upon individual request as part of a public comment period. Except in accordance with the foregoing, DAS does not authorize the release, publication or other distribution of this information (including website posting) without prior notice and consent from DAS.© 2013 Dow AgroSciences LLC. All Rights Reserved. This document is property of Dow AgroSciences LLC and is for use by the regulatory authority to which it has been submitted, and only in support of actions requested by Dow AgroSciences. All data and information herein must not be used, reproduced or disclosed to third parties for any other purpose without the written consent of Dow AgroSciences. USDA-APHIS Petition for Nonregulated Status of DAS-8191Ø-7 CottonPage 3 of 214 Dow AgroSciences LLC CertificationThe undersigned certifies that, to the best knowledge and belief of the undersigned, this petition includes all information and views on which to base a determination and that it includes all relevant data and information known to the petitioner, unfavorable as well as favorable, associated with DAS-8191Ø-7 cotton. SummaryDow AgroSciences LLC (herein referred to as "DAS") is submitting a Petition for Determination of Nonregulated Status for DAS-8191Ø-7 cotton. DAS requests from USDA Animal and Plant Health Inspection Service (APHIS) that cotton transformation event DAS-8191Ø-7 and any cotton lines derived from crosses between DAS-8191Ø-7 cotton and conventional cotton or biotechnology-derived cotton granted nonregulated status by APHIS, no longer be considered regulated articles under 7 CFR Part 340.DAS has developed transgenic cotton plants containing aad-12 and pat, which confer tolerance to the herbicides 2,4-dichlorophenoxyacetic acid (2,4-D) and glufosinate. DAS-8191Ø-7 cotton will provide growers with greater flexibility in selection of herbicides for the improved control of economically important weeds; allow an increased application window for effective weed control; and provide an effective weed resistance management solution to the growing incidence of glyphosate resistant weeds.DAS-8191Ø-7 cotton plants have been genetically modified to express aryloxyalkanoate dioxygenase-12 (AAD-12). AAD-12 is an enzyme with an alpha ketoglutarate-dependent dioxygenase activity which results in metabolic inactivation of the herbi...

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Phylogenetic relationships among members of the Comamonadaceae, and description of Delftia acidovorans (den Dooren de Jong 1926 and Tamaoka et al. 1987) gen. nov., comb. nov.

Cited by 246 publications

References 36 publications

Geobiological Cycling of Gold: From Fundamental Process Understanding to Exploration Solutions

Geobiological Cycling of Gold: From Fundamental Process Understanding to Exploration Solutions

Implications of alternative classifications and horizontal gene transfer for bacterial taxonomy.

Resistance of Enlist^™(AAD-12) Cotton to Glufosinate

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Phylogenetic relationships among members of the Comamonadaceae, and description of Delftia acidovorans (den Dooren de Jong 1926 and Tamaoka et al. 1987) gen. nov., comb. nov.

Cited by 246 publications

References 36 publications

Geobiological Cycling of Gold: From Fundamental Process Understanding to Exploration Solutions

Geobiological Cycling of Gold: From Fundamental Process Understanding to Exploration Solutions

Implications of alternative classifications and horizontal gene transfer for bacterial taxonomy.

Resistance of Enlist™(AAD-12) Cotton to Glufosinate

Contact Info

Product

Resources

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Resistance of Enlist^™(AAD-12) Cotton to Glufosinate