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Genomic and phenomic analysis of a marine bacterium, Photobacterium marinum J15.
Microbiological Research ( IF 6.1 ) Pub Date : 2020-01-09 , DOI: 10.1016/j.micres.2020.126410
Noordiyanah Nadhirah Roslan 1 , Mohamad Syazwan Ngalimat 1 , Adam Thean Chor Leow 2 , Siti Nurbaya Oslan 3 , Syarul Nataqain Baharum 4 , Suriana Sabri 5
Affiliation  

Photobacterium species are widely distributed in the marine environment. The overall metabolism of this genus remains largely unknown. In order to improve our knowledge on this bacterium, the relationship between the genome and phenome of the Photobacterium isolate was analyzed. The cream colored, Gram-negative, rod-shaped and motile bacterial strain, J15, was isolated from marine water of Tanjung Pelepas, Johor, Malaysia. The 5,684,538 bp genome of strain J15 comprised 3 contigs (2 chromosomes and 1 plasmid) with G + C content of 46.39 % and contained 4924 protein-coding genes including 180 tRNAs and 40 rRNAs. The phenotypic microarray (PM) as analyzed using BIOLOG showed the utilization of; i) 93 of the 190 carbon sources tested, where 61 compounds were used efficiently; ii) 41 of the 95 nitrogen sources tested, where 22 compounds were used efficiently; and iii) 3 of the 94 phosphorous and sulphur sources tested. Furthermore, high tolerance to osmotic stress, basic pH and toxic compounds as well as resistance to antibiotics of strain J15 were determined by BIOLOG PM. The ANI and kSNP analyses revealed that strain J15 to be the same species with Photobacterium marinum AK15 with ANI value of 96.93 % and bootstrapping value of 100 in kSNP. Based on the ANI and kSNP analyses, strain J15 was identified as P. marinum J15.



中文翻译:

海洋细菌海洋细菌J15的基因组和表型分析。

光细菌物种广泛分布在海洋环境中。该属的整体代谢仍然很大程度上未知。为了提高我们的知识对这种细菌的基因组和phenome之间的关系发光杆菌分离物进行了分析。奶油色,革兰氏阴性,杆状和能运动的细菌菌株J15是从马来西亚柔佛州的丹戎贝拉帕斯的海水中分离出来的。菌株J15的5,684,538 bp基因组包含3个重叠群(2个染色体和1个质粒),G + C含量为46.39%,并包含4924个蛋白质编码基因,包括180个tRNA和40个rRNA。使用BIOLOG分析的表型微阵列(PM)显示出其利用率。i)在测试的190个碳源中,有93个有效使用了61种化合物;ii)测试的95种氮源中有41种有效利用了22种化合物;iii)测试的94种磷和硫源中的3种。此外,通过BIOLOG PM确定了对渗透胁迫,碱性pH和有毒化合物的高耐受性以及菌株J15对抗生素的抗性。kSNP中,ANI值为96.93%,自举值为100的海藻光细菌AK15。根据ANI和kSNP分析,菌株J15被鉴定为海事假单胞菌J15。

更新日期:2020-01-09
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