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Kang, I.,Kang, D.,Cho, J.C. Elsevier Publishing Services 2016 Marine genomics Vol.29 No.-
<P>The genus Croceibacter of the family Flavobacteriaceae represents a ubiquitous component of marine bacterioplankton, and is known to be involved in the interaction with phytoplankton. Here, we report the isolation and genome sequencing of a lytic siphovirus P2559Y that infects Croceibacter atlanticus HTCC2559, the type strain of the genus Croceibacter. The complete genome of P2559Y was 43,153 bp in length, with a GC content of 38.9%. Functional annotation of 51 genes predicted in the genome showed that the P2559Y genome had a modular architecture. Comparison to the genome of P2559S, another phage that infects the same host strain, revealed an interesting feature in the genetic diversity of phages infecting the genus Croceibacter. The two phage genomes had a synteny in the structure module and shared many structural genes, while little similarity was found in the DNA replication/metabolism module. (C) 2016 Elsevier B.V. All rights reserved.</P>
Yim, K.J.,Kim, B.Y.,Lee, H.W.,Song, H.S.,Nam, Y.D.,Choi, J.S.,Choi, H.J.,Seo, M.J.,Yoon, C.,Kim, K.N.,Kim, D.,Rhee, J.K.,Roh, S.W. Elsevier Publishing Services 2014 MARINE GENOMICS Vol.18 No.2
Halococcus sediminicola CBA1101<SUP>T</SUP> (=CECT 8275<SUP>T</SUP>, JCM 18965<SUP>T</SUP>) is an extremely halophilic strain isolated from a marine sediment collected from the bay of Gangjin in the Republic of Korea. We found that the draft genome of H. sediminicola CBA1101<SUP>T</SUP> contains 3,764,367bp, with 62.3% G+C content. This is the one of the few genomes to be sequenced in the genus Halococcus.
Choe, H.,Kim, S.,Oh, J.,Nasir, A.,Kim, B.K.,Kim, K.M. Elsevier Publishing Services 2015 Marine genomics Vol.24 No.3
Kangiella geojedonensis KCTC 23420<SUP>T</SUP> is an aerobic, Gram-negative, non-motile, non-spore-forming, rod-shaped bacterium that was isolated from seawater off the southern coast of Korea. We here report the complete genome of K. geojedonensis KCTC 23420<SUP>T</SUP>, which consists of 2,495,242bp (G+C content of 43.78%) with 2,257 protein-coding genes, 41 tRNAs, 2 rRNA operons. The genome is smaller than the other closely related genomes, indicating that K. geojedonensis has recently experienced reductive evolution.
Complete genome sequence of Haloarcula sp. CBA1115 isolated from non-purified solar salts
Yun, J.H.,Song, H.S.,Roh, S.W.,Jung, M.J.,Kim, P.S.,Bae, J.W. Elsevier Publishing Services 2015 Marine genomics Vol.23 No.-
Haloarcula sp. CBA1115, isolated from non-purified solar salts from South Korea, is a halophilic archaeon belonging to the family Halobacteriaceae. Here, we present the complete genome sequence of the strain Haloarcula sp. CBA1115 (4,225,046bp, with a G+C content of 61.98%), which is distributed over one chromosome and five plasmids. A comparison of the genome sequence of Haloarcula sp. CBA1115 with those of members of its closely related taxa showed that the closest neighbor is Haloarcula hispanica Y27, a popular model organism for archaeal studies. The strain was found to possess a number of genes predicted to be involved in osmo-regulatory strategies and metal regulation, suggesting that it might be useful for bioremediation in extreme environments.
Complete genome of a coastal marine bacterium Muricauda lutaonensis KCTC 22339<sup>T</sup>
Oh, J.,Choe, H.,Kim, B.K.,Kim, K.M. Elsevier Publishing Services 2015 MARINE GENOMICS Vol.23 No.-
Muricauda lutaonensis KCTC 22339<SUP>T</SUP> is a yellow-pigmented, gram-negative, rod-shaped bacterium that was isolated from a coastal hot spring of a volcanic island in the Pacific Ocean, off the eastern coast of Taiwan. We here report the complete genome of M. lutaonensis KCTC 22339<SUP>T</SUP>, which consists of 3,274,259bp with the G+C content of 44.97%. The completion of the M. lutaonensis genome sequence is expected to provide a valuable resource for understanding the secondary metabolic pathways related to bacterial pigmentation.
Cha, I.T.,Song, E.J.,Seok, Y.J.,Lee, H.,Park, I.,Lee, Y.K.,Roh, S.W.,Choi, H.J.,Nam, Y.D.,Seo, M.J. Elsevier Publishing Services 2015 MARINE GENOMICS Vol.21 No.-
A denitrifying bacterium, Paracoccus marcusii PAMC 22219, was isolated from Arctic marine sediment in Svalbard, Norway. The obtained contigs were 265 with genome size of 4.0Mb and G+C content of 66.1%. This bacterial genome revealed that it had nitrate and nitrite ammonification genes involved in the denitrification process, suggesting that P. marcusii PAMC 22219 is a denitrifying bacterium. This is the first genome that has been sequenced in the genus Paracoccus, isolated from an Arctic environment.
Kang, J.H.,Kang, H.S.,Noh, E.S.,Park, J.Y.,An, C.M. Elsevier Publishing Services 2014 MARINE GENOMICS Vol.18 No.1
Among the 14 species in the Acetes genus, Acetes japonicus and Acetes chinensis, are the only and also abundant two species around the Korean Peninsula, and are used in traditional recipes. These species are of great economic importance, but little is known about their population genetics, despite the fact that information of this kind is important for stock assessment, fisheries management and identification of origin. A total of 9 microsatellite (MS) markers for A. chinensis were developed using pyrosequencing techniques. Polymorphisms of these markers were evaluated in 96 wild individuals collected from the Yellow Sea off the coast of Korea. A total of 133 alleles were detected at nine loci, with a cross-species transferability of 56% with A. japonicus. These markers will facilitate assessment of population genetic diversity in the genus Acetes.
Kang, S.,Kim, S.,Park, H. Elsevier Publishing Services 2015 MARINE GENOMICS Vol.24 No.3
Gondogeneia antarctica is widely distributed off the western Antarctic Peninsula and is a key species in the Antarctic food web. In this study, we performed Illumina sequencing to produce a total of 4,599,079,601 (4.6Gb) nucleotides and a comprehensive transcript dataset for G. antarctica. Over 46 million total reads were assembled into 20,749 contigs, and 12,461 annotated genes were predicted by Blastx. The RNA-seq results after exposure to three pollutants showed that 658, 169 and 367 genes that were potential biomarkers of responses to pollutants for this species were specifically upregulated after exposure to PCBs (Polychlorinated biphenyls), PFOS (Perfluorooctanesulfonic acid) and PFOA (Perfluorooctanoic acid), respectively. These data represent the first transcriptome resource for the Antarctic amphipod G. antarctica and provide a useful resource for studying Antarctic marine species.
Song, H.S.,Lee, H.W.,Yim, K.J.,Nam, Y.D.,Choi, J.S.,Choi, H.J.,Seo, M.J.,Kim, K.N.,Kim, D.,Rhee, J.K.,Roh, S.W. Elsevier Publishing Services 2014 MARINE GENOMICS Vol.18 No.2
Halapricum salinum CBA1105<SUP>T</SUP> (=KCTC 4202<SUP>T</SUP>, JCM 19729<SUP>T</SUP>) is an extremely halophilic archaeon isolated from solar salt in the Republic of Korea. We present the draft genome of CBA1105<SUP>T</SUP>, which is assembled into 3 contigs containing 3,451,492bp with a G+C content of 63.7%. This is the first genome that has been sequenced in the genus Halapricum.
Lee, H.W.,Yim, K.J.,Song, H.S.,Nam, Y.D.,Choi, H.J.,Seo, M.J.,Kim, K.N.,Kim, D.,Roh, S.W.,Rhee, J.K. Elsevier Publishing Services 2014 MARINE GENOMICS Vol.18 No.2
The extremely halophilic archaeon, Halorubrum halophilum B8<SUP>T</SUP> (=JCM 18963<SUP>T</SUP>, CECT 8278<SUP>T</SUP>) was isolated from salt-fermented seafood. We report here the draft genome of H. halophilum B8<SUP>T</SUP>, containing 3,677,984bp with a G+C content of 65.1%. The genome consists of 19 genes predicted to encode esterases.