Amycolatopsis magusensis sp. nov., isolated from soil

Abstract

A novel actinomycete, designated strain KT2025 T , was isolated from arid soil collected from Magusa, northern Cyprus. The taxonomic position of the novel strain was established by using a polyphasic approach. The organism had chemical and morphological features consistent with its classification in the genus Amycolatopsis. Phylogenetic analyses based on 16S rRNA gene sequences supported the classification of the isolate in the genus Amycolatopsis and showed that the organism formed a cluster with Amycolatopsis nigrescens CSC17- Ta genus Amycolatopsis such as meso-diaminopimelic acid as the diagnostic diamino acid in the cell-wall peptidoglycan, and arabinose and galactose as diagnostic sugars. The predominant menaquinone was MK-9(H 4 ). The polar lipids detected were phosphatidylethanolamine, phosphatidylglycerol, phosphatidylinositol and hydroxy-phosphatidylethanolamine. The major fatty acids were iso-C 16 : 0 , iso-C 15 : 0 and iso-C 14 : 0 . The G+C content of the genomic DNA was 70.8 mol%. Phenotypic data clearly distinguished the isolate from its closest relatives. The combined genotypic and phenotypic data and low levels of DNA-DNA relatedness with its closest relatives indicated that strain KT2025 T represents a novel species of the genus Amycolatopsis, for which the name Amycolatopsis magusensis sp. nov. is proposed. The type strain is KT2025 T (5DSM 45510 T 5KCTC 29056 T ).

Amycolatopsis anabasis sp. nov., a novel endophytic actinobacterium isolated from roots of Anabasis elatior

“…1) method revealed that strain EGI 650086 T was placed in a distinct subclade from the closest related strain A. nigrescens JCM 14717 T . These phylogenetic tree patterns are similar to several previous reports as described by Tatar et al [6], Duangmal et al [12], Zucchi et al [52], Zhang et al [53], Camas et al [54] and Jamjan et al [55]. The phylogenomic tree based on the concatenated alignment of 22 marker genes, which provided further evidence showed that strain EGI 650086 T belonged to the genus Amycolatopsis, and EGI 650086 T formed a distinct branch within the cluster encompassing the members of the genus Amycolatopsis (Fig.…”

A systematic study of the whole genome sequence of Amycolatopsis methanolica strain 239 T provides an insight into its physiological and taxonomic properties which correlate with its position in the genus

“…The genus Amycolatopsis contains alkaliphilic, endophytic, halophilic, mesophilic, pathogenic and thermophilic strains [11] , [13] , [14] , [15] . Over the years, a gradually increasing number of Amycolatopsis species were assigned to several multi- and single-membered subclades based on gyrB , recN and 16S rRNA gene sequence analyses [11] , [16] , [17] though most species belong to two major subclades represented by the earliest described species, namely A. methanolica (AMS) and Amycolatopsis orientalis (AOS).…”

Amycolatopsis rhabdoformis sp. nov., an actinomycete isolated from a tropical forest soil

“…The genus Amycolatopsis Lechevalier et al (1986) is a member of the family Pseudonocardiaceae (Labeda & Goodfellow, 2012a), which is classified in the order Pseudonocardiales (Labeda & Goodfellow, 2012b). At the time of writing the genus encompasses 64 species with validly published names (Euzéby, 2013) most of which have been proposed based on data from polyphasic taxonomic studies, as exemplified by the descriptions of Amycolatopsis cihanbeyliensis (Tatar et al ., 2013), Amycolatopsis granulosa (Zucchi et al ., 2012a), Amycolatopsis magusensis (Camas et al ., 2013), Amycolatopsis salitolerans (Guan et al ., 2012), Amycolatopsis samaneae (Duangmal et al ., 2011) and Amycolatopsis umgeniensis (Everest et al , 2013). Species of the genus Amycolatopsis have been assigned to several multi- and single-membered subclades in the Amycolatopsis 16S rRNA gene tree, notably to the Amycolatopsis methanolica and Amycolatopsis orientalis lineages, which contain thermophilic and mesophilic strains, respectively (Tan & Goodfellow, 2012; Zucchi et al ., 2012b).…”

“…Species of the genus Amycolatopsis have been assigned to several multi- and single-membered subclades in the Amycolatopsis 16S rRNA gene tree, notably to the Amycolatopsis methanolica and Amycolatopsis orientalis lineages, which contain thermophilic and mesophilic strains, respectively (Tan & Goodfellow, 2012; Zucchi et al ., 2012b). A broad range of phenotypic markers can be used to distinguish between closely related species of the genus Amycolatopsis (Zucchi et al ., 2012a, c; Camas et al ., 2013; Everest et al ., 2013). The genus includes numerous antibiotic-producing strains, most notably those that synthesize medically important ansamycins (e.g.…”

“… Amycolatopsis strains are widely distributed in the environment, especially in geographically diverse soils (Saintpierre-Bonaccio et al , 2005; Tan et al , 2006; Nie et al , 2012; Zucchi et al , 2012b, c; Camas et al , 2013; Everest et al , 2013); others have been isolated from plants (Duangmal et al , 2011; Miao et al , 2011), marine sediment (Bian et al , 2009), a salt lake (Tang et al , 2010) and clinical material (Labeda et al , 2003; Huang et al , 2004). The present study was designed to establish the status of an Amycolatopsis -like strain isolated from a tropical rainforest soil by using a polyphasic taxonomic approach.…”