Received Date: 6 October 2016 Revised Date: 31 October 2016 Accepted Date: 9 November 2016
Please cite this article as: Bibi F, Yasir M, Alvi SA, Azhar EI, Khalaf Al-Ghamdi AA, Abuzenadah AM, Raoult D, Angelakis E, “Halomonas saudii” sp. nov., a new bacterial species isolated from marine plant Halocnemum strobilaceum, New Microbes and New Infections (2016), doi: 10.1016/j.nmni.2016.11.007.
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Running head: “Halomonas saudii” sp. nov.
1
“Halomonas saudii” sp. nov., a new bacterial species isolated from marine plant 2
Halocnemum strobilaceum 3
4
Fehmida Bibi1, Muhammad Yasir1, Sana Akhtar Alvi1, Esam I. Azhar1,2, Ahmed 5
Abdullah Khalaf Al-Ghamdi2, Adel M. Abuzenadah3,4, Didier Raoult5, Emmanouil 6
Angelakis5*
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1Special Infectious Agents Unit, King Fahd Medical Research Center, King Abdulaziz 8
University, Jeddah, Saudi Arabia 9
2Department of Medical Laboratory Technology, Faculty of Applied Medical Sciences, King 10
Abdulaziz University, Jeddah, Saudi Arabia 11
3Center of Excellence in Genomic Medicine Research (CEGMR), King Abdulaziz 12
University, Jeddah, 21589, Saudi Arabia 13
4KACST Technology Innovation Center in Personalized Medicine, King Abdulaziz 14
University, P.O. Box 80216, Jeddah, 21589, Kingdom of Saudi Arabia.
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5 Unité de Recherche sur les Maladies Infectieuses et Tropicales Emergentes: URMITE 16
CNRS-IRD 198 UMR 6236, Aix Marseille Université, Faculté de Médecine, 27 Bd Jean 17
Moulin, 13385 Marseille, France 18
* Corresponding author 19
Phone: (33) 491 38 55 17, Fax: (33) 491 83 03 90 20
Email: [email protected] 21
Text word count:
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Figures: 1 23
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Running head: “Halomonas saudii” sp. nov.
1
“Halomonas saudii” sp. nov., a new bacterial species isolated from marine plant 2
Halocnemum strobilaceum 3
4
Fehmida Bibi1, Muhammad Yasir1, Sana Akhtar Alvi1, Esam I. Azhar1,2, Ahmed 5
Abdullah Khalaf Al-Ghamdi2, Adel M. Abuzenadah3,4, Didier Raoult5, Emmanouil 6
Angelakis5*
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As a part of a wider culturomics [1] and metagenomics study [2] in Saudi Arabia we 48
isolated a new bacterium named strain Saudii DR2 from a rhizosphere of Halocnemum 49
strobilaceum in April 2015. No identification was obtained for the strain Saudii DR2 using 50
our systematic matrix-assisted laser desorption–ionization time-of-flight mass spectrometry 51
(MALDI-TOF-MS) screening on a MicroFlex spectrometer (Bruker Daltonics, Bremen, 52
Germany). The strain Saoudi DR2 was cultured in a homemade liquid medium [3] incubated 53
for 2 days in an aerobic atmosphere at 37°C. Optimal growth for this strain was obtained at 54
37°C at pH 7; strain Saudii DR2 is halotolerant and tolerates NaCl concentration up to 20%.
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Saudii DR2 is a Gram-negative bacterium, motile non-spore-forming and does not exhibit 56
catalase or oxidase activities. The growing colonies on our homemade culture medium were 57
orange, circular, entire, smooth, convex, with a diameter of 1.0–2.0 mm.
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The complete 16S rRNA gene was sequenced using fD1-rP2 primers as previously 59
described and a 3130-XL sequencer (Applied Biosciences, Saint Aubin, France) [4]. The 60
strain Saudii DR2 exhibited a 98.3% sequence similarity with Halomonas xianhensis 61
(GenBank accession number NR116016.1) which was the phylogenetically closest species 62
with standing nomenclature (Figure 1). Consequently, it putatively classifies the strain Saudii 63
DR2 as a new member of the genus Halomonas within the family Halomonadaceae in the 64
phylum Proteobacteria. H. xianhensis was first described by Zhao et al. in 2012 as an 65
aerobic, Gram-negative, short rod shaped, moderately halophilic bacterium [5]. So far, the 66
genus Halomonas includes more than 80 species with validly published names [6]. Strain 67
Saudii DR2 exhibited a 16S rRNA gene sequence divergence >1.3% with H. xianhensis, the 68
closest related species with standing in nomenclature , which classifies it as a new 69
representative of the Halomonas genus isolated from H. strobilaceum. As a result, we propose 70
the creation of ‘Halomonas saudii’ sp. nov., and the strain Saudii DR2 as the type strain.
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MALDI-TOF-MS spectrum accession number 72
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Conflict of Interest 81
None 82
Acknowledgements 83
This project was funded by the National Plan for Science, Technology and Innovation 84
(MAARIFAH)–King Abdulaziz City for Science and Technology the Kingdom of Saudi 85
Arabiaaward number (12BIO2724-03). The authors also acknowledge with thanks Science 86
and Technology Unit, King Abdulaziz University for technical support.
87 88
Figure legend 89
Figure 1. Phylogenetic tree highlighting the position of ‘Halomonas saudii’ (in red) relative 90
to other phylogenetically closest members of the Halomonas genus. Number at the node is the 91
percentage of bootstrap value obtained by repeating 500 times the analysis to generate a 92
majority consensus tree. Only values > 95% were displayed. The scale bar represents a 2%
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nucleotide sequence divergence.
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