Parks, Donovan H


Publications
4

Proposal of names for 329 higher rank taxa defined in the Genome Taxonomy Database under two prokaryotic codes

Citation
Chuvochina et al. (2023). FEMS Microbiology Letters
Names
Methyloligellaceae Rhodomicrobiaceae Leptospiria Alicyclobacillia Natranaerobiia Jeotgalibacillaceae Brevinematia Amphibacillaceae Chitinimonas Chitinimonadaceae Marinicellaceae Ahniellaceae Pseudohongiellaceae Methanoculleaceae Methanofollaceae Methanosphaerulaceae Methanocellia Methanosarcinia Methanonatronarchaeia Methanoliparia Halobacteriota Exiguobacteriales Exiguobacteriaceae Salinicoccaceae Staphylococcales Gemellaceae Thermicanales Thermicanaceae Neiellaceae Oceanococcaceae Wohlfahrtiimonadaceae Thermaerobacteria Thermaerobacterales Thermaerobacteraceae Sedimentibacteraceae Proteiniboraceae Monoglobaceae Monoglobales Lutisporaceae Lutisporales Lachnospirales Christensenellales Caldicoprobacterales Caldicellulosiruptoraceae Caldicellulosiruptorales Oxobacteraceae Caloramatoraceae Acetivibrionaceae Acetivibrio Acetivibrionales Clostridiisalibacter Clostridiisalibacteraceae Caldisalinibacter Dethiosulfatibacteraceae Thermincolales Thermincolia Carboxydocellales Carboxydocellaceae Tindalliaceae Thermotaleaceae Natronincolaceae Filifactoraceae Caminicellaceae Anaerovoracaceae Peptostreptococcales Acidaminobacteraceae Mahellales Mahellaceae Thermosulfidibacterota Thermosulfidibacteria Thermosulfidibacterales Thermosulfidibacteraceae Elainellaceae Elainellales Phormidesmidaceae Phormidesmidales Hydrogenothermales Desulfurobacteriia “Paceibacteria” Vampirovibrionaceae Vampirovibrionales Vampirovibrionia Binataceae Binatales Binatia Hydrothermia Hydrothermales Hydrothermaceae Azobacteroidaceae Bipolaricaulales Bipolaricaulaceae Bipolaricaulia Hepatobacteraceae Hepatoplasmataceae Johnevansiaceae Johnevansiales Kapaibacteriaceae Kapaibacteriales Magnetobacteriaceae Methylomirabilaceae Methylomirabilales Methylomirabilia Muiribacteriaceae Muiribacteriales Muiribacteriia Nucleicultricaceae Obscuribacteraceae Promineifilaceae Promineifilales Pseudothioglobaceae Puniceispirillaceae Puniceispirillales Saccharimonadaceae Saccharimonadales Tenderiaceae Tenderiales Thermobaculaceae Thermobaculales Desulforudaceae Methylomirabilota Cloacimonadia Cloacimonadales Cloacimonadaceae Kapaibacteriia “Poriferisulfidales” Leptolyngbyaceae
Abstract
Abstract The Genome Taxonomy Database (GTDB) is a taxonomic framework that defines prokaryotic taxa as monophyletic groups in concatenated protein reference trees according to systematic criteria. This has resulted in a substantial number of changes to existing classifications (https://gtdb.ecogenomic.org). In the case of union of taxa, GTDB names were applied based on the priority of publication. The division of taxa or change in rank led to the formation of new Latin names above

Proposal to reclassify the proteobacterial classes Deltaproteobacteria and Oligoflexia, and the phylum Thermodesulfobacteria into four phyla reflecting major functional capabilities

Citation
Waite et al. (2020). International Journal of Systematic and Evolutionary Microbiology 70 (11)
Names
Myxococcia Polyangiia Pseudobdellovibrionaceae Bdellovibrionota Oligoflexia “Desulfofervidales” Ca. Desulfofervidaceae Ca. Desulfofervidus “Desulfofervidia” Ca. Magnetomorum “Magnetomoraceae” “Adiutricaceae” Ca. Adiutrix Myxococcota “Adiutricales”
Abstract
The class Deltaproteobacteria comprises an ecologically and metabolically diverse group of bacteria best known for dissimilatory sulphate reduction and predatory behaviour. Although this lineage is the fourth described class of the phylum Proteobacteria , it rarely affiliates with other proteobacterial classes and is freque

A phylogenomic and ecological analysis of the globally abundant Marine Group II archaea (Ca. Poseidoniales ord. nov.)

Citation
Rinke et al. (2019). The ISME Journal 13 (3)
Names
Poseidoniia Thalassarchaeum betae Ts Thalassarchaeum Poseidoniaceae Poseidonia Poseidonia alphae Ts Thalassarchaeaceae Poseidoniales Ca. Poseidonaceae “Nanohalarchaeota” “Poseidoniota”
Abstract
Abstract Marine Group II (MGII) archaea represent the most abundant planktonic archaeal group in ocean surface waters, but our understanding of the group has been limited by a lack of cultured representatives and few sequenced genomes. Here, we conducted a comparative phylogenomic analysis of 270 recently available MGII metagenome-assembled genomes (MAGs) to investigate their evolution and ecology. Based on a rank-normalised genome phylogeny, we propose that MGII is an order-level