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Microbacterium profundi sp. nov., isolated from deep-sea sediment of polymetallic nodule environments

¹ College of Life Sciences, Zhejiang University, Hangzhou 310058, PR China
² Laboratory of Marine Ecosystem and Biogeochemistry, State Oceanic Administration, Hangzhou 310012, PR China
³ Second Institute of Oceanography, State Oceanic Administration, Hangzhou 310012, PR China
⁴ Institute of Life Sciences and the Moshe Shilo Minerva Center for Marine Biogeochemistry, The Hebrew University of Jerusalem, Jerusalem 91904, Israel

Correspondence
Xue-Wei Xu
xuxw{at}sio.org.cn

A Gram-positive, aerobic, neutrophilic and rod-shaped bacterium, strain Shh49^T, was isolated from a deep-sea sediment sample collected from the East Pacific polymetallic nodule region. The strain was able to grow within a temperature range of 4–35 °C and tolerated up to 7.5 % (w/v) NaCl. Strain Shh49^T was characterized chemotaxonomically by having MK-12 and MK-13 as predominant isoprenoid quinones, anteiso-C_{15 : 0}, iso-C_{15 : 0}, iso-C_{16 : 0} and anteiso-C_{17 : 0} as major fatty acids and ornithine as cell-wall diamino acid. The genomic DNA G+C content was 66.8 mol%. On the basis of 16S rRNA gene sequence similarities, the closest phylogenetic neighbours were the type strains of Microbacterium phyllosphaerae (98.3 %) and Microbacterium keratanolyticum (98.0 %), but strain Shh49^T could be clearly distinguished from its phylogenetic relatives with reference to a broad range of physiological and biochemical markers. DNA–DNA relatedness of strain Shh49^T with M. phyllosphaerae DSM 13468^T and M. keratanolyticum DSM 8606^T was 56 and 31 %, respectively. On the basis of phenotypic and genotypic data presented in this study, strain Shh49^T represents a novel species of the genus Microbacterium, for which the name Microbacterium profundi sp. nov. is proposed. The type strain is Shh49^T (=CGMCC 1.6777^T =JCM 14840^T).

An extended 16S rRNA gene sequence-based tree, a phenotypic comparison with related type strains and a comparison of fatty acid profiles are available as supplementary material with the online version of this paper.