Actinomadura sediminis sp. nov., a marine actinomycete isolated from mangrove sediment

Int J Syst Evol Microbiol. 2012 May;62(Pt 5):1110-1116. doi: 10.1099/ijs.0.032979-0. Epub 2011 Jun 24.

Abstract

In this study, the taxonomic position of an actinobacterium, strain YIM M 10931(T), which was isolated from a mangrove sediment sample collected in Dugong Creek, Little Andaman, India, was determined by a polyphasic approach. This gram-positive, aerobic strain produced branched substrate mycelium and aerial hyphae, which differentiated into short, hooked or spiral spore chains. The organism contained meso-diaminopimelic acid as the diagnostic diamino acid in the cell-wall peptidoglycan. The whole cell sugars consisted of mannose, ribose, glucose, galactose and madurose. The cellular fatty acid profile mainly consisted of iso-C(16 : 0), 10-methyl C(18 : 0) and C(16 : 0). The quinone system was predominantly composed of MK-9(H(8)) (45.5 %) and MK-9(H(6)) (39 %). The phospholipids detected were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol mannoside, phosphatidylinositol and two unknown phospholipids. The organism showed a combination of morphological and chemotaxonomic properties typical of members of the genus Actinomadura. Moreover, phylogenetic analysis based on a 16S rRNA gene sequence generated from the strain identified its closest relatives as Actinomadura cremea DSM 43676(T) (98.4 % sequence similarity), Actinomadura rifamycini DSM 43936(T) (97.4 %) and Actinomadura apis IM17-1(T) (96.9 %). It was obvious from the resulting phylogenetic trees that strain YIM M 10931(T) belongs to a distinct subclade within the evolutionary radiation of the genus Actinomadura. DNA-DNA hybridizations of strain YIM M 10931(T) with A. cremea DSM 43676(T) and A. rifamycini DSM 43936(T) were performed and further confirmed that the isolate represents a separate genomic species. Based on the phenotypic and genotypic characteristics presented, it is proposed that strain YIM M 10931(T) represents a novel species within the genus Actinomadura, for which the name Actinomadura sediminis sp. nov. is proposed; the type strain is YIM M 10931(T) ( = CCTCC AA 2010009(T) = DSM 45500(T)).

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Actinomycetales / classification*
  • Actinomycetales / genetics
  • Actinomycetales / isolation & purification*
  • Actinomycetales / physiology
  • Aerobiosis
  • Bacterial Typing Techniques
  • Carbohydrates / analysis
  • Cluster Analysis
  • Cytosol / chemistry
  • DNA, Bacterial / chemistry
  • DNA, Bacterial / genetics
  • DNA, Ribosomal / chemistry
  • DNA, Ribosomal / genetics
  • Diaminopimelic Acid / analysis
  • Environmental Microbiology*
  • Fatty Acids / analysis
  • India
  • Molecular Sequence Data
  • Nucleic Acid Hybridization
  • Peptidoglycan / chemistry
  • Phospholipids / analysis
  • Phylogeny
  • Quinones / analysis
  • RNA, Ribosomal, 16S / genetics
  • Sequence Analysis, DNA
  • Spores, Bacterial / cytology

Substances

  • Carbohydrates
  • DNA, Bacterial
  • DNA, Ribosomal
  • Fatty Acids
  • Peptidoglycan
  • Phospholipids
  • Quinones
  • RNA, Ribosomal, 16S
  • Diaminopimelic Acid

Associated data

  • GENBANK/JF272484