A Gram-stain-negative, aerobic, ovoid-rod-shaped bacterium, designated strain SM1903T, was isolated from surface seawater of the Mariana Trench. The strain grew at 15–37 °C (optimum, 35 °C) and with 1–15 % (optimum, 4 %) NaCl. It hydrolysed aesculin but did not reduce nitrate to nitrite and hydrolyse Tween 80. Phylogenetic analysis based on the 16S rRNA gene sequences revealed that strain SM1903T formed a separate lineage within the family Rhodobacteraceae, sharing the highest 16S rRNA gene sequence similarity with type strains of Pseudooceanicola antarcticus (95.7 %) and Roseisalinus antarcticus (95.7 %). In phylogenetic trees based on single-copy OCs and whole proteins sequences, strain SM1903T fell within a sub-cluster encompassed by Oceanicola granulosus, Roseisalinus antarcticus and Histidinibacterium lentulum and formed a branch adjacent to Oceanicola granulosus. The major cellular fatty acids were summed feature 8 (C18 : 1 ω7c and/or C18 : 1 ω6c), C16 : 0 and 11-methyl-C18 : 1 ω7c. The polar lipids mainly comprised phosphatidylglycerol, phosphatidylcholine, one unidentified lipid, one unidentified aminolipid, and one unidentified glycolipid. The solo respiratory quinone was ubiquinone-10. The genomic DNA G+C content of strain SM1903T was 66.0 mol%. Based on the results of phenotypic, chemotaxonomic, and phylogenetic characterization for strain SM1903T, it is considered to represent a novel species of a novel genus in the family Rhodobacteraceae, for which the name Pelagovum pacificum gen. nov., sp. nov. is proposed. The type strain is SM1903T (=MCCC 1K03608T=KCTC 72046T).
GarrityGM,
BellJA,
LilburnT.
Rhodobacteraceae fam. nov. In
BrennerDJ,
KriegNR,
StaleyJT,
GarrityGM.
(editors) Bergey’s Manual of Systematic Bacteriology, 2nd ed, vol. 2 (The Proteobacteria), part C (The Alpha-, Beta-, Delta-, and Epsilonproteobacteria) New York: Springer; 2005 p 161
OrenA,
GarrityGM.
List of new names and new combinations previously effectively, but not validly, published. Int J Syst Evol Microbiol2016; 66:2463–2466 [View Article][PubMed]
PujalteM,
LucenaT,
RuviraM,
ArahalD,
MaciánM et al. The family Rhodobacteraceae
. In
RosenbergE,
DeLongEF.
(editors) The Prokaryotes-Alphaproteobacteria and Betaproteobacteriavol.8, 4th ed. Berlin: Springer; 2014 p 439
ParteAC.
LPSN - List of Prokaryotic names with Standing in Nomenclature (bacterio.net), 20 years on. Int J Syst Evol Microbiol2018; 68:1825–1829 [View Article][PubMed]
Martínez-ChecaF,
QuesadaE,
Martínez-CánovasMJ,
LlamasI,
BejarV.
Palleronia marisminoris gen. nov., sp. nov., a moderately halophilic, exopolysaccharide-producing bacterium belonging to the 'Alphaproteobacteria', isolated from a saline soil. Int J Syst Evol Microbiol2005; 55:2525–2530 [View Article][PubMed]
GludRN,
WenzhöferF,
MiddelboeM,
OguriK,
TurnewitschR et al. High rates of microbial carbon turnover in sediments in the deepest oceanic Trench on earth. Nat Geosci2013; 6:284–288 [View Article]
ZhouS,
RenQ,
LiY,
LiuJ,
WangX,
ZhangXH et al.Abyssibacter profundi gen. nov., sp. nov., a marine bacterium isolated from seawater of the Mariana Trench. Int J Syst Evol Microbiol2018; 68:3424–3429 [View Article][PubMed]
WangK,
ShenY,
YangY,
GanX,
LiuG et al. Morphology and genome of a snailfish from the Mariana Trench provide insights into deep-sea adaptation. Nat Ecol Evol2019; 3:823–833 [View Article][PubMed]
LiuJ,
ZhengY,
LinH,
WangX,
LiM et al. Proliferation of hydrocarbon-degrading microbes at the bottom of the Mariana Trench. Microbiome2019; 7:47 [View Article][PubMed]
EilersH,
PernthalerJ,
GlöcknerFO,
AmannR.
Culturability and in situ abundance of pelagic bacteria from the North sea. Appl Environ Microbiol2000; 66:3044–3051 [View Article][PubMed]
ChoJC,
GiovannoniSJ.
Oceanicola granulosus gen. nov., sp. nov. and Oceanicola batsensis sp. nov., poly-β-hydroxybutyrate-producing marine bacteria in the order 'Rhodobacterales'. Int J Syst Evol Microbiol2004; 54:1129–1136 [View Article][PubMed]
YoonSH,
HaSM,
KwonS,
LimJ,
KimY et al. Introducing EzBioCloud: a taxonomically United database of 16S rRNA gene sequences and whole-genome assemblies. Int J Syst Evol Microbiol2017; 67:1613–1617 [View Article][PubMed]
KimuraM.
A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol1980; 16:111–120 [View Article]
JackmanSD,
VandervalkBP,
MohamadiH,
ChuJ,
YeoS et al. ABySS 2.0: resource-efficient assembly of large genomes using a Bloom filter. Genome Res2017; 27:768–777 [View Article][PubMed]
ZuoG,
HaoB.
CVTree3 web server for whole-genome-based and alignment-free prokaryotic phylogeny and taxonomy. Genom Proteom Bioinformatics2015; 13:321–331 [View Article][PubMed]
LeeI,
Ouk KimY,
ParkSC,
ChunJ.
OrthoANI: an improved algorithm and software for calculating average nucleotide identity. Int J Syst Evol Microbiol2016; 66:1100–1103 [View Article][PubMed]
RichterM,
Rosselló-MóraR.
Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci USA2009; 106:19126–19131 [View Article][PubMed]
CollinsMD,
JonesD.
Lipids in the classification and identification of coryneform bacteria containing peptidoglycans based on 2, 4-diaminobutyric acid. J Appl Bacteriol1980; 48:459–470 [View Article]
MurrayRGE,
DoetschRN,
RobinowCF.
Determinative and cytological light microscopy. In
GerhardtP,
MurrayRGE,
WoodWA,
KriegNR.
(editors) Methods for General and Molecular Bacteriology Washington, DC: American Society for Microbiology; 1994 pp 21–41
SmibertRM,
KriegNR.
Phenotypic characterization. In
GerhardtP,
MurrayRGE,
WoodWA,
KriegNR.
(editors) Methods for General and Molecular Bacteriology Washington, DC: American Society for Microbiology; 1994 pp 607–654
SuyamaT,
ShigematsuT,
TakaichiS,
NodasakaY,
FujikawaS et al.Roseateles depolymerans gen. nov., sp. nov., a new bacteriochlorophyll a-containing obligate aerobe belonging to the β-subclass of the Proteobacteria
. Int J Syst Evol Microbiol1999; 49:449–457 [View Article]
GuJ,
GuoB,
WangYN,
YuSL,
InamoriR et al.Oceanicola nanhaiensis sp. nov., isolated from sediments of the South China Sea. Int J Syst Evol Microbiol2007; 57:157–160 [View Article][PubMed]
ZhengQ,
ChenC,
WangYN,
JiaoN.
Oceanicola nitratireducens sp. nov., a marine alphaproteobacterium isolated from the South China Sea. Int J Syst Evol Microbiol2010; 60:1655–1659 [View Article][PubMed]
HuangMM,
GuoLL,
WuYH,
LaiQL,
ShaoZZ et al.Pseudooceanicola lipolyticus sp. nov., a marine alphaproteobacterium, reclassification of Oceanicola flagellatus as Pseudooceanicola flagellatus comb. nov. and emended description of the genus Pseudooceanicola
. Int J Syst Evol Microbiol2018; 68:409–415 [View Article][PubMed]
ParkS,
LeeM,
YoonJ.
Oceanicola litoreus sp. nov., an alphaproteobacterium isolated from the seashore sediment. Antonie van Leeuwenhoek2013; 103:859–866 [View Article][PubMed]