Nocardioides perillae sp. nov., isolated from surface-sterilized roots of Perilla frutescens

Abstract

A Gram-stain-positive, rod-shaped actinobacterium, designated strain I10A-01402 T , was isolated from surface-sterilized roots of a medicinal plant, Perilla frutescens, collected in a suburb of Beijing, China. Chemotaxonomically, the strain contained LL-diaminopimelic acid as the diagnostic diamino acid and MK-8(H 4 ) as the predominant menaquinone. The phospholipids were diphosphatidylglycerol, phosphatidylglycerol and phosphatidylinositol. The major fatty acids were C 17 : 1 v9c, C 18 : 1 v9c, C 17 : 0 , C 16 : 0 and iso-C 16 : 0 . The genomic DNA G+C content was 70.4 mol%. 16S rRNA gene sequence analysis indicated that strain I10A-01402 T belonged to the genus Nocardioides. Phylogenetic analyses based on 16S rRNA gene sequences showed that the isolate formed a robust cluster with Nocardioides ginsengisegetis Gsoil 485 T , N. koreensis MSL-09 T and N. alkalitolerans KSL-1 T . On the basis of the evidence from our polyphasic taxonomic study, a novel species, Nocardioides perillae sp. nov., is proposed. The type strain is I10A-01402 T (5CPCC 203382 T 5DSM 24552 T 5KCTC 29022 T ).The genus Nocardioides, first described by Prauser (1976), was assigned phylogenetically to the family Nocardioidaceae (Nesterenko et al., 1985) as the type genus. At the time of writing, including the recently described species Nocardioides ginsengisegetis (Im et al., 2010), N. alpinus (Zhang et al., 2012), N. ginsengagri and N. daejeonensis (Woo et al., 2012), 57 species with validly published names were encompassed in the genus Nocardioides. One of these species, Nocardioides fastidiosus, has been transferred to the genus Aeromicrobium as Aeromicrobium fastidiosum (Tamura & Yokota, 1994).The members of Nocardioides are characterized by irregular rod-or coccoid-shaped cells, a type I/C cell wall (LLdiaminopimelic acid and the absence of diagnostic carbohydrates) and major menaquinone MK-8(H 4 ). Isolates have been obtained from various environments such as ginseng fields (Cui et al., 2009;Yi & Chun, 2004a), tidal flat sediments (Yi & Chun, 2004b), sand (Lee et al., 2007Kim et al., 2009), soil samples (Dastager et al., 2008 and seawater (Choi et al., 2007). In this study, a novel strain, I10A-01402 T , isolated from surface-sterilized roots of a medicinal plant, Perilla frutescens (L.) Britt. var. frutescens, collected in a suburb of Beijing, China, was characterized by using a polyphasic approach.Strain I10A-01402 T was recovered on CMC agar (l 21 : 10 g CM-cellulose, 0.2 g KNO 3 , 0.05 g MgSO 4 . 7H 2 O, 0.2 g K 2 HPO 4 , 0.02 g CaCO 3 , 0.01 g FeSO 4 , 14 g agar; pH 7.5) after 3 weeks of incubation at 28 u C. The purified isolate was maintained on DSMZ 92 medium agar (l 21 : 30.0 g trypticase soy broth, 3.0 g yeast extract, 15.0 g agar) at 4 u C and as glycerol suspensions (20 %, v/v) at 280 u C. The Gram reaction was tested by the standard Gram-staining method and observed using light microscopy (Zeiss Axio Scope A1 Vario). Motility of cells was examined on DSMZ 92 medium with swarming agar (0.3 %, w/v). Cell morphology was exami...

Nocardioides daecheongensis sp. nov., isolated from soil

“…Strain KIS2-16 T contained diphosphatidylglycerol, phosphatidylglycerol and phosphatidylinositol as the major polar lipids, which have also been observed in other species of the genus Nocardioides such as Nocardioides perillae , Nocardioides iriomotensis and Nocardioides hwasunensis (Fig. S2; Du et al , 2013; Lee et al , 2008; Yamamura et al , 2011). However, this polar lipid pattern was different from those of the two close relatives of strain KIS2-16 T , N. ultimimeridianus and N. maradonensis , both of which had phosphatidylcholine and phosphatidylethanolamine as additional major polar lipids (Lee et al , 2011).…”

Nocardioides marinquilinus sp. nov., isolated from coastal seawater

“…The genus Nocardioides , first described by Prauser (1976), belongs to the family Nocardioidaceae , in the suborder Propionibacterineae (Zhi et al , 2009). At the time of writing, the genus Nocardioides comprised 62 species including 58 with validly published names in the List of Prokaryotic Names with Standing in Nomenclature (http://www.bacterio.cict.fr) and four species in press, with names which have been validly published during the processing of this manuscript, Nocardioides albertanoniae isolated from Roman catacombs (Alias-Villegas et al , 2013), Nocardioides perillae isolated from the surface-sterilized root of Perilla frutescens (Du et al , 2013) and Nocardioides szechwanensis and Nocardioides psychrotolerans isolated from Hailuogou glacier in Szechwan, China (Liu et al , 2013). Some members in the genus Nocardioides have been isolated from various environments and ten species have been discovered from various marine environments: Nocardioides aestuarii (Yi & Chun, 2004a) and Nocardioides ganghwensis (Yi & Chun, 2004b) from tidal flat sediment, Nocardioides basaltis (Kim et al , 2009), Nocardioides dokdonensis (Park et al , 2008), Nocardioides marinisabuli (Lee et al , 2007), Nocardioides furvisabuli (Lee, 2007) and Nocardioides hwasunensis (Lee et al , 2008) from beach sand, Nocardioides marinus (Choi et al , 2007) from seawater, Nocardioides salarius from seawater enriched with zooplankton (Kim et al , 2008) and Nocardioides caricicola (Song et al , 2011) from a halophyte growing on a sand dune.…”

Noncontiguous finished genome sequence and description of Nocardioides massiliensis sp. nov. GD13T

“…These Gram-positive, aerobic and cardioform actinomycetes exhibit a high G+C content and are able to develop mycelium [21] , [22] . Currently the genus Nocardioides contains 72 species, including eight described in 2013 and species from the genera Pimelobacter and Arthrobacter that were reclassified in the genus Nocardioides [23] , [24] , [25] , [26] , [27] , [28] , [29] , [30] , [31] , [32] , [33] , [34] , [35] , [36] (LPSN, http://www.bacterio.net/ ). Members of the genus Nocardioides are mostly environmental bacteria found in soil or plants.…”