Complete genome sequence of Kordiimonas pumila N18T sheds light on biogeochemical roles of the genus Kordiimonas

Abstract

Kordiimonas pumila N18^T (=KCTC 62164^T = MCCC 1K03436^T) was isolated from coastal sediments collected in Zhoushan, P. R. China. Ensuing genome sequencing revealed that it consists of a single chromosome with a size of 4,041,658 bp and a DNA G+C content of 47.4%. The genomic annotations further identified 3724 open reading frames (ORFs), 4 rRNA genes, and 43 tRNA genes in the Kordiimonas pumila N18^T genome. The percentages of ORFs assigned to the CAZy, COG, GO, and KEGG databases were 1.0, 84.8, 19.9, and 59.3%, respectively. Comparative genomic analysis with four other Kordiimonas genomes indicated that the pan- and core-genomes of the genus Kordiimonas consists of 8985 and 1470 orthologous clusters, respectively. Functional annotations of the genus Kordiimonas core genome further revealed that they utilize monosaccharides, peptides, and esters as energy substrates because of the absence of several glycoside hydrolases, glycosyl transferases, aminopeptidases, carbohydrate esterase coding genes, and polysaccharide lyases coding genes in their genomes. Moreover, the genus Kordiimonas possesses survival advantages in ammonium-, phosphorus-, and iron- deficient environments, which are vital for inhabiting marine environments. Overall, this study reports the complete genome of the order Kordiimonadales and broadens the understanding of its ecological roles.