title: Amycolatopsis umgeniensis sp. nov., isolated from soil from the banks of the Umgeni River in South Africa.
abstract: A novel member of the genus Amycolatopsis was isolated from soil collected from the banks of the Umgeni River, KwaZulu Natal province, South Africa. The strain, designated UM16(T), grouped with the type strains of Amycolatopsis alba, Amycolatopsis coloradensis and Amycolatopsis thailandensis by 16S rRNA gene based phylogeny. Genetic distance values, based on the gyrB and recN genes, between strain UM16(T) and its closest relatives were all above the threshold values of 0.02 and 0.04, respectively, that have been proposed to distinguish Amycolatopsis type strains. DNA-DNA hybridisation experiments confirmed that strain UM16(T) represents a unique genomic species, sharing 18.4 ± 5.1, 16.2 ± 1.8 and 45.8 ± 8.9 % DNA relatedness to the type strains of A. alba, A. coloradensis and A. thailandensis, respectively. The physiological, phylogenetic and DNA-relatedness data support the description of strain UM16(T) as the type strain of a novel species, for which the name Amycolatopsis umgeniensis sp. nov. is proposed (= DSM 45272(T) = NRRL B-24724(T)).
authors.affiliation: Department of Molecular and Cell Biology, University of Cape Town, Private Bag X3, Rondebosch, Cape Town, 7701, South Africa.
authors.forename: Gareth J
authors.initials: GJ
authors.lastname: Everest
authors.forename: Marilize
authors.initials: M
authors.lastname: le Roes-Hill
authors.forename: Clifford
authors.initials: C
authors.lastname: Omorogie
authors.forename: Shuk-Kwan
authors.initials: SK
authors.lastname: Cheung
authors.forename: Andrew E
authors.initials: AE
authors.lastname: Cook
authors.forename: Candice M
authors.initials: CM
authors.lastname: Goodwin
authors.forename: Paul R
authors.initials: PR
authors.lastname: Meyers
mesh_terms: D000192:Actinomycetales / Q000145:classification* / Q000235:genetics / Q000302:isolation & purification* / Q000502:physiology; D001426:Bacterial Proteins / Q000235:genetics; D015373:Bacterial Typing Techniques; D016000:Cluster Analysis; D027081:DNA Gyrase / Q000235:genetics; D004262:DNA Restriction Enzymes / Q000235:genetics; D004269:DNA, Bacterial / Q000737:chemistry / Q000235:genetics; D004275:DNA, Ribosomal / Q000737:chemistry / Q000235:genetics; D008969:Molecular Sequence Data; D009693:Nucleic Acid Hybridization; D010802:Phylogeny; D012336:RNA, Ribosomal, 16S / Q000235:genetics; D017422:Sequence Analysis, DNA; D012988:Soil Microbiology; D013019:South Africa
chemical_list: D001426:Bacterial Proteins; D004269:DNA, Bacterial; D004275:DNA, Ribosomal; D012336:RNA, Ribosomal, 16S; D004262:DNA Restriction Enzymes; C047879:RecN protein, Bacteria; D027081:DNA Gyrase