Brian J Tindall's research while affiliated with Leibniz Institut DSMZ - Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH and other places

Publications (342)

Article
In the course of screening the surface soils of ancient copper mines and smelters (East Harz, Germany) an aerobic, non-motile and halotolerant actinobacterium forming small rods or cocci was isolated. The strain designated F300 T developed creamy to yellow colonies on tryptone soy agar and grew optimally at 28 °C, pH 7–8 and with 0.5–2 % (m/v) NaCl...
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A Gram-positive, coccoid, motile, aerobic bacterium, designated strain B12T was isolated from a Jet Propulsion Laboratory spacecraft assembly cleanroom, Pasadena, CA, United States. Strain B12T was resistant to chloramphenicol (100 μg/mL), and is a relatively slow grower (3–5 days optimal). Strain B12T was found to grow optimally at 28 to 32°C, pH...
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Two strains of sulfate-reducing bacteria (J.5.4.2-L4.2.8T and J.3.6.1-H7) were isolated from a pyrite-forming enrichment culture and were compared phylogenetically and physiologically to the closest related type strain Desulfovibrio sulfodismutans DSM 3696T. The isolated strains were vibrio-shaped, motile rods that stained Gram-negative. Growth occ...
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The formation and use of the scientific names of prokaryotes is governed by the International Code of Nomenclature of Prokaryotes. Originally deriving from the 1935 revision of the International Code of Botanical Nomenclature, it retains the treatment of scientific names as Latin words. Above the rank of genus the rank is generally denoted by a sin...
Article
A novel acidophilic member of the phylum Actinobacteria was isolated from an acidic, metal-contaminated stream draining from an abandoned underground coal mine (Trongol mine), situated close to Curanilahue, Biobío Region, Chile. The isolate (USS-CCA1T) was demonstrated to be a heterotroph that catalysed under aerobic conditions the oxidation of fer...
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The class Alphaproteobacteria is comprised of a diverse assemblage of Gram-negative bacteria that includes organisms of varying morphologies, physiologies and habitat preferences many of which are of clinical and ecological importance. Alphaproteobacteria classification has proved to be difficult, not least when taxonomic decisions rested heavily o...
Article
During the course of growing cell material for the extraction of genomic DNA for the Genomic Encyclopedia of Bacteria and Archaea, strain OC 1/4, the designated type strain of Thermocrinis ruber was cultivated at the Institute for Microbiology and Archaea Center of the University of Regensburg, Regensburg, Germany. Partial sequencing of the 16S rRN...
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Fermentation of gases provides a promising opportunity for the production of biochemicals from renewable resources, which has resulted in a growing interest in acetogenic bacteria. Thermophilic organisms provide potential advantages for the fermentation of, e.g., syngas into for example volatile compounds, and the thermophiles Moorella thermoacetic...
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The names Legionella bozemanae Brenner et al. 1980, Fluoribacter bozemanae Garrity et al. 1980, Legionella pittsburghensis Pasculle et al. 1980, Legionella micdadei Hébert et al. 1980 and Tatlockia micdadei (Hébert et al. 1980) Garrity et al. 1980, all appeared in the same issue of the International Journal of Systematic Bacteriology. Fluoribacter...
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Two strains of anaerobic, coccoid, saccharolytic, Gram-stain-negative bacteria were isolated from samples of anoxic hypersaline sediments of evaporation ponds in Tavira (Portugal) and Mallorca (Spain). Both isolates were moderately halophilic, neutrophilic and had a temperature optimum at 37 °C. The highest 16S rRNA gene sequence identity values we...
Article
Studies on Pseudomonas nautica Baumann et al. 1972 (Approved Lists 1980) and Marinobacter hydrocarbonoclasticus Gauthier et al. 1992 have shown that they should be treated as heterotypic synonyms. As a consequence, they have been treated as belonging to a single species, Marinobacter hydrocarbonoclasticus Gauthier et al. 1992. This interpretation o...
Article
Clinical and environmental-associated strains (n=17), genotypically related to Corynebacterium spp., yet distinct from any species of the genus Corynebacterium with validly published names, have been isolated during the last 20 years and tentatively identified as Corynebacterium sanguinis, although the combination, "Corynebacterium sanguinis" was n...
Article
A recent publication has documented the fact that when the nomenclatural types of the genera Hungateiclostridium Zhang et al. 2018 [Hungateiclostridium thermocellum (Viljoen et al. 1926) Zhang et al. 2018], Acetivibrio Patel et al. 1980 (Acetivibrio cellulolyticus Patel et al. 1980) and Herbivorax Koeck et al. 2016 (Herbivorax saccincola Koeck et a...
Article
One of the goals of the International Code of Nomenclature of Prokaryotes is not only to make nomenclature transparent and predictable, but to also make sure that the biological material on which it is based is available to either verify previous work or to allow further work to be undertaken. The key elements in ensuring the latter two aspects are...
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Although there is documented evidence in the literature that Marinobacterium georgiense González et al. 1997 and Pseudomonas iners Iizuka and Komagata 1964 (Approved Lists 1980) should be treated as heterotypic synonyms, the nomenclatural consequences have not been implemented. Based on the rules of the International Code of Nomenclature of Prokary...
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Although considerable progress has been made in recent years regarding the classification of bacteria assigned to the phylum Bacteroidetes, there remains a need to further clarify taxonomic relationships within a diverse assemblage that includes organisms of clinical, piscicultural, and ecological importance. Bacteroidetes classification has proved...
Article
The list that notifies names published in volume 68, part 1 of the International Journal of Systematic and Evolutionary Microbiology provides the information that a number of names of species in the genus Clavibacter that had previously been treated as names at the rank of subspecies were illegitimate because they contravene Rule 34a and Rule 50a o...
Article
Rule 24b of the International Code of Nomenclature of Prokaryotes regulates the priority of names that are considered to be heterotypic synonyms. However, the rule is imperfect because it caters only for names that compete for priority that were only included on the Approved Lists of Bacterial Names or for names that were only validly published in...
Article
The International Code of Nomenclature of Prokaryotes specifically forbids the use of strains deposited solely for patent purposes from serving as nomenclatural types. Despite this ruling there are a number of names at the rank of species where strains deposited solely for patent purposes have been designated as the nomenclatural type. In some case...
Article
The name CorynebacterialesGoodfellow and Jones 2015 has been validly published by inclusion in Validation List 164, with the nomenclatural type defined as CorynebacteriumLehmann and Neumann 1896 (Approved Lists 1980). The name MycobacterialesJanke 1924 (Approved Lists 1980) appeared on the Approved Lists of Bacterial Names and is validly published,...
Article
In a recent publication dealing with the classification of species assigned to the genus Propionibacterium, evidence was presented supporting that it would be appropriate to sub-divide the genus into four genera, Propionibacterium Orla-Jensen 1909 (Approved Lists 1980) emend. Scholz and Kilian 2016, Acidipropionibacterium Scholz and Kilian 2016, Cu...
Article
The International Code of Nomenclature of Prokaryotes provides rules that govern the way names are to be selected based on priority of valid publication when two or more alternatives (synonyms) are available. However, these rules are not always followed. In the case of the name CaryophanaceaePeshkoff 1939 (Approved Lists 1980), when its nomenclatur...
Article
The term effective publication and the adjectival form effectively published occur at numerous points in the International Code of Nomenclature of Prokaryotes. As defined in Rule 25a the term refers to a form of publication rather than to names or descriptions. Although names are also defined as being effectively published, which is also defined as...
Article
The wording of Rule 40d was discussed at the XIIth International (IUMS) Congress of Bacteriology and Applied Microbiology, Istanbul in 2008 and some changes were made to clarify how the authorship of names covered by this rule were to be cited. However, a key topic that was raised and discussed was the issue of wording that either automatically cre...
Article
Rule 29 of the International Code of Nomenclature of Prokaryotes caters for the situation where a new genus containing a single species may have a combined description. However, Rule 29 does not clearly state how this is to be implemented with regard to Rules 16 and 27.
Article
There are various ways in which the names of prokaryotes can be duplicated in the literature. An examination of the various ways that this may happen under the International Code of Nomenclature of Prokaryotes indicates that a concept is missing, namely the one that refers to the same name based on the same nomenclatural type published in the Inter...
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A novel Gram-positive, non-motile, non-spore-forming and aerobic bacterium, designated strain VA37-3T, was isolated from a marine sediment sample collected at 19.2 m water depth from Valparaíso bay, Chile. Strain VA37-3T exhibits 97.6 % 16S rRNA gene sequence similarity to Corynebacterium marinum D7015T, 96.4 % to Corynebacterium humireducens MFC-5...
Article
Two recently published minutes of sub-committees of the International Committee on the Systematics of Prokaryotes contain statements that are potentially misleading with regards the workings of the International Code of Nomenclature of Prokaryotes. These issues need clarification.
Article
The nomenclatural type of Methylothermus thermalisTsubota et al. 2005 is based on MYHT=IPOD FERM P-19714=VKM B-2345. IPOD FERM P-19714 is a collection accession number issued solely for patent purposes and under Rule 30(4) cannot serve as the nomenclatural type of the species. Since the deposit of the type strain in at least two publicly accessible...
Article
The name Desulfofundulus australicusWantanabe et al. 2018 has appeared in the International Journal of Systematic and Evolutionary Microbiology and is based on the name Desulfotomaculum australicum Love et al. 1993. Consequently, both names are based on the nomenclatural type, strain AB33. At the time of valid publication of the name Desulfotomacul...
Article
The term 'standing in nomenclature' is used in several instances in the International Code of Nomenclature of Prokaryotes, but the term is not defined. An analysis of the way the term has been used in the past and the context in which it is currently used indicates that it may be more appropriate to substitute the term with more suitable wording th...
Article
The International Code of Nomenclature of Prokaryotes currently caters for the names of ranks from class to subspecies. The form of names and their typification is dealt with under Rules 7-22. The nature of names at different ranks has a direct influence on the structure of the Code. However, with minor changes it is possible to simplify the struct...
Article
To date, far less than 1% of the estimated global species of Bacteria and Archaea have been described and their names validly published. Aside from these quantitative limitations, our understanding of phenotypic and functional diversity of prokaryotes is also highly biased as not a single species has been described for 85 of the 118 phyla that are...
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Taxonomy is a scientific discipline that has provided the universal naming and classification system of biodiversity for centuries and continues effectively to accommodate new knowledge. A recent publication by Garnett and Christidis [1] expressed concerns regarding the difficulty that taxonomic changes represent for conservation efforts and propos...
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The genus Marinobacterium belongs to the family Alteromonadaceae within the class Gammaproteobacteria and was reported in 1997. Currently the genus Marinobacterium contains 16 species. Marinobacterium rhizophilum CL-YJ9T was isolated from sediment associated with the roots of a plant growing in a tidal flat of Youngjong Island, Korea. The genome of...
Poster
Some Bacteria and Archaea taxa are known to thrive in carbohydrate-rich habitats as decomposers of particulate organic matter. In contrast, few polysaccharides have been tested and few taxa have been systematically investigated for polysaccharide degradation. With the aim of obtaining deeper insights into the evolution of carbohydrate metabolism in...
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Flavobacterium suncheonense is a member of the family Flavobacteriaceae in the phylum Bacteroidetes. Strain GH29-5T (DSM 17707T) was isolated from greenhouse soil in Suncheon, South Korea. F. suncheonense GH29-5T is part of the GenomicEncyclopedia ofBacteria andArchaea project. The 2,880,663 bp long draft genome consists of 54 scaffolds with 2739 p...
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Many genomes are incorrectly identified at GenBank. We developed a plan to find and correct misidentified genomes using genomic comparison statistics together with a scaffold of reliably identified genomes from type. A workshop was organized with broad representation from the bacterial taxonomic community to review the proposal, the GenBank Microbi...
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Strains of the genus Gramella (family Flavobacteriacae, phylum Bacteroidetes) were isolated from marine habitats such as tidal flat sediments, coastal surface seawater and sea urchins. Flavobacteriaceae have been shown to be involved in the decomposition of plant and algal polysaccharides. However, the potential to decompose polysaccharides may dif...
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The strain KT0803T was isolated from coastal eutrophic surface waters of Helgoland Roads near the island of Helgoland, North Sea, Germany. The taxonomic position of the strain, previously known as 'Gramella forsetii' KT0803, was investigated by a polyphasic approach. The strain was Gram-stain negative, chemo-organotrophic, heterotrophic, strictly a...
Article
In a recent publication data has been presented that Bacillus axarquiensis Ruiz-García et al. 2005, Bacillus malacitensis Ruiz-García et al. 2005 and Brevibacterium halotolerans Delaporte and Sasson 1967 (Approved Lists 1980) should be treated as heterotypic synonyms. The nomenclatural consequences that under these circumstances the correct name to...
Article
The retroactive changes to Rule 18a proposed at the International (IUMS) Congress of Bacteriology and Applied Microbiology meetings of the Judicial Commission in Jerusalem, 1996 have led to several changes in wording that seek to limit the retroactive effects. However, there remains an ambiguity in the wording that changes may easily correct. Chang...
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Enterobacter aerogenes Hormaeche and Edwards 1960 (Approved Lists 1980) and Klebsiella mobilis Bascomb et al. 1971 (Approved Lists 1980) were placed on the Approved Lists of Bacterial Names and were based on the same nomenclatural type, ATCC 13048. Consequently they are to be treated as homotypic synonyms. However, the names of homotypic synonyms a...
Article
As currently formulated Rule 51b (4) of the International Code of Nomenclature of Prokaryotes does not fully reflect the wording of Principle 2. It is therefore important that the wording of Rule 51b (4) is updated to reflect the intent of Principle 2.
Article
Rule 47a of the International Code of Nomenclature of Prokaryotes contains wording that is misleading. The examples given also give the wrong impression with regards the role of genus names in determining the priority of names at a higher taxonomic rank.
Article
Edwardsiella tarda Ewing and McWhorter 1965 (Approved Lists 1980) and Edwardsiella anguillimortifera (Hoshina 1962) Sakazaki and Tamura 1975 (Approved Lists 1980) are known to be synonyms that share the same nomenclatural type. Edwardsiella tarda Ewing and McWhorter 1965 (Approved Lists 1980) is the nomenclatural type of the genus Edwardsiella Ewin...
Article
The wording of Rule 20d and 20e of the 1975, 1990 and 2016 revisions of the International Code of Nomenclature of Bacteria/Prokaryotes deals with problems that may arise when the nomenclatural type of a genus was not designated or when there are problems determining what the nomenclatural type should be. However, Rule 16 states that a nomenclatural...
Article
The International Code of Nomenclature of Prokaryotes defines validly published names, legitimate names and illegitimate names, but does not clearly define the inter-relationship between them. Clarification is required.
Article
A recent Request for an Opinion has raised the issue of the inter-relationship between Methanocorpusculum parvum Zellner et al. 1988, the type species of the genus Methanocorpusculum Zellner et al. 1988 as defined at the time of valid publication of the genus name and the recognition of Methanocorpusculum aggregans (Ollivier et al. 1985) Xun et al....
Article
In a recent publication that attempts to deal with the growing problem of taxa being added to the genus Clostridium that are outside of Clostridium (16S rRNA) group I a solution is proposed that seeks to limit the genus Clostridium Prazmowski 1880 (Approved Lists 1980) to a small number of species "related" to the type species, Clostridium butyricu...
Article
Changes have been made to Rule 8 of the International Code of Nomenclature of Prokaryotes that caters for the names and nomenclatural types of classes and subclasses. The changes are retroactive because they are not specifically restricted in time. Consequently that influences names of classes and subclasses and their nomenclatural types that have...
Article
Proposals to make changes to the wording of Rule 27 of the International Code of Nomenclature of Prokaryotes have been made that include the requirement to make reference to the basonym of a new combination. While this is a step in the right direction it does not solve problems where new combinations are associated with multiple heterotypic synonym...
Article
At the plenary session of the Judicial Commission at the 1999 IUMS-BAM International Congress in Sydney changes were made to Rule 61 of the International Code of Nomenclature of Bacteria to prevent extensive grammatical or orthographic corrections to names and epithets that had been included on the Approved Lists, the Validation Lists and the Notif...
Article
A number of recent Requests for an Opinion have cited Rule 18c of the International Code of Nomenclature of Bacteria as the Rule governing setting a time limit on the search for a neotype strain. This Rule only governs what happens when a neotype is proposed and not what happens when the original type appears to have been lost and a neotype is not...
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The recently isolated strain L21-Fru-AB(T) represents moderately halophilic, obligately anaerobic and saccharolytic bacteria that thrive in the suboxic transition zones of hypersaline microbial mats. Phylogenetic analyses based on 16S rRNA genes, RpoB proteins and gene content indicated that strain L21-Fru-AB(T) represents a novel species and genus...
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This volume contains the edition of the International Code of Nomenclature of Prokaryotes that was presented in draft form and available for comment at the Plenary Session of the Fourteenth International Congress of Bacteriology and Applied Microbiology (BAM), Montréal, 2014, together with updated lists of conserved and rejected bacterial names and...
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Gracilimonas tropica Choi et al. 2009 is a member of order Sphingobacteriales, class Sphingobacteriia. Three species of the genus Gracilimonas have been isolated from marine seawater or a salt mine and showed extremely halotolerant and mesophilic features, although close relatives are extremely halophilic or thermophilic. The type strain of the typ...
Chapter
Na.tro.no.coc' cus. arbitrarily derived from the Arabic n. natrun soda, salt; Gr. n. kokkos a berry, small rod; M.L. masc. n. Natronococcus soda berry. Euryarchaeota / Halobacteria / Halobacteriales / Halobacteriaceae / Natronococcus Cocci in liquid culture and on plates usually 1.0 ? 2.0 ?m. Cells occur in irregular clusters, although they may als...
Chapter
To.lu.mo' nas. L. n. toluolum toluol (German for toluene); Gr. n. monas unit; M.L. fem. n. Tolumonas toluene-producing unit. Proteobacteria / Gammaproteobacteria / Aeromonadales / Aeromonadaceae / Incertae Sedis Tolumonas Cells are nonmotile, Gram-negative rods (2.5–3.2 × 0.9–1.2 µm) that occur singly or in pairs. Growth occurs under aerobic and an...
Chapter
Na.tro.no.bac.te' ri.um. arbitrarily derived from the Arabic n. natrun soda, salt; Gr. n. bakterion a small rod; M.L. neut. n. Natronobacterium soda rod. Euryarchaeota / Halobacteria / Halobacteriales / Halobacteriaceae / Natronobacterium Rods in liquid culture in the exponential phase of growth, usually 0.5?1.0 ? 2?15 ?m. Cells become shorter in o...
Chapter
Pfen.nig' ia. M.L. ia ending; M.L. fem. n. Pfennigia named after Norbert Pfennig, in recognition of his contribution to the biology and taxonomy of anoxygenic phototrophic bacteria. Proteobacteria / Gammaproteobacteria / Chromatiales / Chromatiaceae / Pfennigia Oval to spherical cells, 1.9?3.8 ? 2.0?4.5 ?m. May form large aggregates (up to 40 cells...
Chapter
Cohn.el'la. N.L. fem. dim. n. Cohnella named after Ferdinand Cohn, a German microbiologist who first described the bacterial genus Bacillus in 1872. Firmicutes / “Bacilli” / Bacillales / “Paenibacillaceae” / Cohnella Spore-forming rods. Nonmotile. Gram-positive. Aerobic. Oxidase-positive. Good growth after 24 h on complex media such as trypticase s...
Article
The species Archangium gephyra, Angiococcus disciformis, Cystobacter minus and Cystobacter violaceus are currently classified in three different genera of the order Myxococcales. The 16S rRNA gene sequences of the respective type strains show a similarity higher than 98.4 % and form a tight phylogenetic group. A dendrogram calculating the similarit...
Article
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Flavobacterium rivuli Ali et al. 2009 emend. Dong et al. 2013 is one of about 100 species in the genus Flavobacterium (family Flavobacteriacae, phylum Bacteroidetes) with a validly published name, and has been isolated from the spring of a hard water rivulet in Northern Germany. Including all type strains of the genus Myroides and Flavobacterium in...
Article
The valid publication of names and combinations in a single journal formed part of the innovations in the 1975 revision of the International Code of Nomenclature of Bacteria. A number of assumptions are often made with regards the way names or combinations are evaluated as being validly published. A re-examination of the process of valid publicatio...
Article
A heterotrophic, Gram negative, aerobic bacterium, designated strain SB1T, was isolated from surface water of the southern North Sea. Comparison of 16S rRNA gene sequences revealed that strain SB1T is affiliated to the genus Octadecabacter within the marine Roseobacter clade (family Rhodobacteraceae) with Octadecabacter antarcticus as the closest d...
Conference Paper
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Members of the genus Natrialba in the family Halobacteriaceae (halophilic Archaea), have been isolated from habitats with NaCl concentrations ranging from 15% NaCl to saturation (~32%). These highly saline habitats may differ in their pH, with either pH > 8 (alkaline) or pH ~ 7 (neutral). We investigated the phenotypic and genomic features of the c...
Article
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Pontibacter roseus is a member of genus Pontibacter family Cytophagaceae, class Cytophagia. While the type species of the genus Pontibacter actiniarum was isolated in 2005 from a marine environment, subsequent species of the same genus have been found in different types of habitats ranging from seawater, sediment, desert soil, rhizosphere, contamin...
Article
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Species of the genus Halomonas are halophilic and their flexible adaption to changes of salinity and temperature brings considerable potential biotechnology applications, such as degradation of organic pollutants and enzyme production. The type strain Halomonas lutea YIM 91125(T) was isolated from a hypersaline lake in China. The genome of strain Y...
Article
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Planctomyces brasiliensis Schlesner 1990 belongs to the order Planctomycetales, which differs from other bacterial taxa by several distinctive features such as internal cell compartmentalization, multiplication by forming buds directly from the spherical, ovoid or pear-shaped mother cell and a cell wall consisting of a proteinaceous layer rather th...
Conference Paper
Members of the family Halobacteriaceae, (halophilic Archaea), are found in habitats with NaCl concentrations ranging from 15% NaCl to saturation (~32%). These habitats may be divided into two distinct categories, the alkaline (pH >8) and neutral lakes/salterns (pH ~7.0). We investigated the genomic features of the six currently described type strai...
Article
The Judicial Commission affirms that, according to information presented to it, the TYPE STRAIN: of Leifsonia rubra Reddy et al. 2003 designated in the original publication as strain CMS 76r and deposited as MTCC 4210, DSM 15304, CIP 107783 and JCM 12471 does not have properties corresponding with those of the strains held in those collections unde...
Article
The attention of the Judicial Commission was drawn to issues relating to the use of names at the rank of class, subclass and order and the nomenclatural type of names at the rank of class and subclass that were not covered by Opinion 79. The Judicial Commission ruled that names at the rank of class and order proposed by Cavalier-Smith (Int. J. Syst...
Article
The Judicial Commission affirms that the COMBINATION: Micromonospora aurantiaca Sveshnikova et al. 1969 (Approved Lists 1980) may not serve as the CORRECT NAME: of the taxon because Rule 12b states that no SPECIFIC: or SUBSPECIFIC EPITHETS: within the same genus may be the same if based on different types and the SPECIFIC EPITHET: aurantiaca in Mic...
Article
The Judicial Commission affirms that the COMBINATION: Lactobacillus rogosae Holdeman and Moore 1974 represented by the type strain ATCC 27753 listed on the Approved Lists of Bacterial Names does not appear to be currently represented by an extant TYPE STRAIN: . Further work is needed to determine whether a derivative of the original TYPE: can be fo...
Article
The Judicial Commission affirms that the request that the current use of the genus name Mycoplasma be maintained and Mycoplasma coccoides be considered A LEGITIMATE NAME: is denied.
Article
The Judicial Commission affirms that, according to the Rules of the International Code of Nomenclature of Bacteria (including changes made to the wording), the COMBINATION: Agrobacterium radiobacter (Beijerinck and van Delden 1902) Conn 1942 has PRIORITY: over the COMBINATION: Agrobacterium tumefaciens (Smith and Townsend 1907) Conn 1942 when the t...
Article
The Judicial Commission affirms that, according to information presented to it, the COMBINATION: Enterobacter agglomerans is to be cited as Enterobacter agglomerans (Beijerinck 1888) Ewing and Fife 1972 and the COMBINATION: Pantoea agglomerans is to be cited as Pantoea agglomerans (Beijerinck 1888) Gavini et al. 1989.
Article
The Judicial Commission affirms that the genus name Methanothrix Huser et al. 1983 and the species combination Methanothrix soehngenii Huser et al. 1983 do not contravene Rule 31a and are not to be considered as rejected names. The genus name Methanosaeta Patel and Sprott 1990 applies to the same taxon as Methanothrix Huser et al. 1983 and is there...