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High-quality draft genome sequence of Flavobacterium suncheonense GH29-5T (DSM 17707T) isolated from greenhouse soil in South Korea, and emended description of Flavobacterium suncheonense GH29-5T

Year: 2016
Type: article
Abstract: Flavobacterium suncheonense is a member of the family Flavobacteriaceae in the phylum Bacteroidetes. Strain GH29-5(T) (DSM 17707(T)) was isolated from greenhouse soil in Suncheon, South Korea. F. suncheonense GH29-5(T) is part of the G enomic E ncyclopedia of B acteria and A rchaea project. The 2,880,663 bp long draft genome consists of 54 scaffolds with 2739 protein-coding genes and 82 RNA genes. The genome of strain GH29-5(T) has 117 genes encoding peptidases but a small number of genes encoding carbohydrate active enzymes (51 CAZymes). Metallo and serine peptidases were found most frequently. Among CAZymes, eight glycoside hydrolase families, nine glycosyl transferase families, two carbohydrate binding module families and four carbohydrate esterase families were identified. Suprisingly, polysaccharides utilization loci (PULs) were not found in strain GH29-5(T). Based on the coherent physiological and genomic characteristics we suggest that F. suncheonense GH29-5(T) feeds rather on proteins than saccharides and lipids.
DOI: 10.1186/s40793-016-0159-5
Authors: Nisreen Tashkandy, Sari Sabban, Mohammad Fakieh, Jan P. Meier-Kolthoff, Sixing Huang, Brian J. Tindall, Manfred Rohde, Mohammed N. Baeshen, Nabih A. Baeshen, Alla Lapidus, Alex Copeland, Manoj Pillay, T. B. K. Reddy, Marcel Huntemann, Amrita Pati, Natalia Ivanova, Victor Markowitz, Tanja Woyke, Markus Göker, Hans-Peter Klenk, Nikos C. Kyrpides, Richard L. Hahnke
Institutions: King Abdulaziz University, Leibniz Institute DSMZ – German Collection of Microorganisms and Cell Cultures, Helmholtz Centre for Infection Research, St Petersburg University, Joint Genome Institute, Lawrence Berkeley National Laboratory, Newcastle University
Language: English
Open Access status: gold
Estimated APC paid: $2,145
Funders: U.S. Department of Energy, King Abdulaziz University, Saint Petersburg State University, Bundesministerium für Ernährung und Landwirtschaft, Office of Science, Biological and Environmental Research, Lawrence Berkeley National Laboratory
Awards: G1079818582, G1143651532, G1286236842, G1337544421, G1414775356, G1581387393, G223002938, G2857863752, G3083819904, Verbundvorhaben: Optimierte Überführung der Cellulose und Hemicellulose von Getreidestroh in Zuckermonomere durch den kombinierten Einsatz der Thermodruckhydrolyse und neuartiger Enzymquellen, Teilvorhaben 3: Cellulose-abbauende Archaea, G365575497, G419881185, G42916606, G4501827968, G498139845, G6652958823, G7354628648, G7787287669, G8121617223, G969889393
OpenAlex ID: W2425700908
FWCI: 0.142
Cites: 63
Cited by: 2
Related to: 10