Nocardioides pelophilus sp. nov., isolated from freshwater mud

Abstract

A Gram-stain-positive, aerobic, motile, rod- or cocci-shaped bacterium with flagella bacterium (THG-T63) was isolated from freshwater mud. Growth occurred at 10-40 °C (optimum, 28-35 °C), at pH 6-8 (optimum, 7) and at 0-6 % NaCl (optimum, 2 %). Based on 16S rRNA sequence analysis, the nearest phylogenetic neighbours of strain THG-T63 were identified as Nocardioides panacisoli KCTC 19470 (97.5 %), Nocardioides caeni KCTC 19600 (96.4 %), Nocardioides humi KCTC 19265 (96.3 %), Nocardioides kongjuensis KCTC 19054 (96.1 %) and Nocardioides nitrophenolicus KCTC 457BP (96.1 %). 16S rRNA sequence similarities among strain THG-T63 and other species were lower than 96.0 %. The polar lipids were phosphatidylglycerol, phosphatidylinositol and one unidentified phospholipid. The quinone system was composed of MK-8 (H4). The major fatty acids were C16 : 0, C17 : 1ω6c, C17 : 1ω8c, C18 : 0 10-methyl, C18 : 1ω9c and iso-C16 : 0. The cell-wall peptidoglycan contained ll-2,6-diaminopimelic acid. The DNA G+C content of strain THG-T63 was 74.6 mol%. Strain THG-T63 exhibited levels of DNA-DNA relatedness of 20-44 % to the type strains of phylogenetically related Nocardioides species and could be differentiated from these species based on differences in phenotypic characteristics. On the basis of the data presented here, strain THG-T63 represents a novel species of the genus Nocardioides, for which the name Nocardioides pelophilus sp. nov. is proposed. The type strain is THG-T63(=KACC 19192=CGMCC 4.7388).

Nocardioides dongkuii sp. nov. and Nocardioides lijunqiniae sp. nov., isolated from faeces of Tibetan antelope (Pantholops hodgsonii) and leaves of dandelion (Taraxacum officinale), respectively, on the Qinghai–Tibet Plateau

“…At the time of writing, this genus encompasses 122 validly published species with correct names (www.bacterio.net/genus/nocardioides). Nocardioides strains were isolated from various habitats including soil [2, 3], mud [4], marine sediment [5], glacier [6], caves [7], fresh water [8, 9], wastewater [10], faeces of wild animal [11–13], plant leaves [14] and roots [15]. Members of Nocardioides are Gram-stain-positive, rod- or coccus-shaped, non-acid-fast and either motile or non-motile with typical features including a high DNA G+C content (64.0–74.9 mol%), MK-8(H 4 ) as the predominant respiratory quinone, iso-C 16 : 0 as the major fatty acid and ll -2,6-diaminopimelic acid as the cell-wall peptidoglycan [16].…”

Nocardioides humilatus sp. nov., isolated from farmland soil in the Republic of Korea

“…pelophilus KACC 19192 T (98.11 %; accession no. KY287247) [30], followed by Nocardioides immobilis KCTC 39931 T (97.03 %; KY684256) [31], Nocardioides silvaticus KCTC 49137 T (96.67 %; MH341589) [32], Nocardioides panacisoli GSoil 346 T (96.45 %; FJ666101) [33] and Nocardioides thalensis NCCP-696 T (96.26 %; LC193943) [34]. In the phylogenetic tree using the neighbour-joining method, strain BN130099 T formed a distinct phylogenetic lineage with N.…”

“…Based on the 16S rRNA gene sequence analysis, strain BN130099 T (1425 nucleotides; GenBank accession number MG063192) was clearly shown to be a member of the genus Nocardioides, having highest 16S rRNA gene sequence similarity to N. pelophilus KACC 19192 T (98.11 %; accession no. KY287247) [30], followed by Nocardioides immobilis KCTC 39931 T (97.03 %; KY684256) [31], Nocardioides silvaticus KCTC 49137 T (96.67 %; MH341589) [32], Nocardioides panacisoli GSoil 346 T (96.45 %; FJ666101) [33] and Nocardioides thalensis NCCP-696 T (96.26 %; LC193943) [34]. In the phylogenetic tree using the neighbour-joining method, strain BN130099 T formed a distinct phylogenetic lineage with N. pelophilus KACC 19192 T (Fig.…”

Nocardioides stalactiti sp. nov., isolated from a cave stalactite surface

“…Members of the genus Nocardioides were isolated from various habitats, such as soil, mud, seawater, freshwater, marine sediment, plant, desert and polluted environments [3–13]. Strains belong to the genus Nocardioides are described as Gram-stain-positive rod- or coccus-shaped actinobacteria, that are aerobic with high DNA G+C content [3–13]. Menaquinone-8(H 4 ) [MK-8(H 4 )] is the major respiratory quinone.…”

“…ll -Diaminopimelic acid is the diagnostic amino acid of the peptidoglycan. The fatty acid profile includes both branched- and straight-chain fatty acids and iso-C 16 : 0 is the dominant fatty acid [3–14]. During a research programme on the biodiversity of prokaryotes in karst caves, strain 1.0914 T was isolated from a cave stalactite sample collected in Guizhou Province, southwest PR China.…”