Permanent Draft Genome Sequence of Desulfurococcus amylolyticus Strain Z- 533 T , a Peptide and Starch Degrader Isolated from Thermal Springs in the Kamchatka Peninsula and Kunashir Island, Russia Dwi Susanti, a Eric F. Johnson, a Alla Lapidus, b James Han, c T. B. K. Reddy, c Supratim Mukherjee, c Manoj Pillay, d Anna A. Perevalova, e,f Natalia N. Ivanova, c Tanja Woyke, c Nikos C. Kyrpides, c,d,g Biswarup Mukhopadhyay a,e,h Department of Biochemistry, Virginia Tech, Blacksburg, Virginia, USA a ; Centre for Algorithmic Biotechnology, ITBM, St. Petersburg State University, St. Petersburg, Russia b ; U.S. Department of Energy Joint Genome Institute, Walnut Creek, California, USA c ; Biological Data Management and Technology Center, Lawrence Berkeley National Laboratory, Berkeley, California, USA d ; Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, Virginia, USA e ; Winogradsky Institute of Microbiology, Research Center of Biotechnology Russian Academy of Sciences, Moscow, Russia f ; Department of Biology, Faculty of Science, King Abdulaziz University, Jeddah, Saudi Arabia g ; Department of Biological Sciences, Virginia Tech, Blacksburg, Virginia, USA h ABSTRACT Desulfurococcus amylolyticus Z-533 T , a hyperthermophilic crenarcheon, fer- ments peptide and starch, generating acetate, isobutyrate, isovalerate, CO 2 , and hy- drogen. Unlike D. amylolyticus Z-1312, it cannot use cellulose and is inhibited by hy- drogen. The reported draft genome sequence of D. amylolyticus Z-533 T will help to understand the molecular basis for these differences. D esulfurococcus amylolyticus Z-533 T (DSM 3822 T ), an inhabitant of thermal springs in the Kamchatka Peninsula and Kunashir Island, Russia, is a hyperthermophilic, anaerobic, sulfur-reducing crenarcheon (1). It is a nonmotile regular coccus of 0.7 to 1.5 m in diameter (1). In laboratory cultures, D. amylolyticus Z-533 T uses peptides such as casein hydrolysates, peptone, and yeast extract and simple carbohydrates that include starch, pectin, and glycogen as energy substrates. Sulfur stimulates growth, and, when it is employed, H 2 S is produced. The absence of sulfur results in poor growth and H 2 production. The 16S rRNA gene sequences of D. amylolyticus Z-533 T differ by 0.1 to 0.3% from those of other D. amylolyticus strains, namely, Z-1312 and 1221n (2–4), which were formerly known as D. fermentans Z-1312 and D. kamchatkensis 1221n, respectively (5). Of these, only D. amylolyticus Z-1312 degrades cellulose (2) and is not inhibited by the presence of hydrogen (6). However, it lacks known cellulose genes and might employ novel mechanisms for cellulose degradation. Thus, a genomic analysis of three desul- furococci will give insight into the mechanisms by which D. amylolyticus Z-1312 degrades cellulose and by which other strains are inhibited by hydrogen. The permanent draft genome of D. amylolyticus strain Z-533 T (DSM 3282 T ) was generated at the DOE Joint Genome Institute (JGI) (7). The term “permanent” indicates that this genome sequence has been completed at a draft level and submitted to GenBank (8). The sequencing of a standard shotgun library on the Illumina platform generated 28,000,000 reads of 150 bp. These raw sequences were passed through DUK (9), and filtered reads were assembled with Velvet (10) and ALLPATHS-LG (11, 12). The final assembly contained one scaffold and two contigs. Structural and functional Received 6 February 2017 Accepted 16 February 2017 Published 13 April 2017 Citation Susanti D, Johnson EF, Lapidus A, Han J, Reddy TBK, Mukherjee S, Pillay M, Perevalova AA, Ivanova NN, Woyke T, Kyrpides NC, Mukhopadhyay B. 2017. Permanent draft genome sequence of Desulfurococcus amylolyticus strain Z-533 T , a peptide and starch degrader isolated from thermal springs in the Kamchatka Peninsula and Kunashir Island, Russia. Genome Announc 5:e00078-17. https:// doi.org/10.1128/genomeA.00078-17. Copyright © 2017 Susanti et al. This is an open-access article distributed under the terms of the Creative Commons Attribution 4.0 International license. Address correspondence to Dwi Susanti, dsusanti@vt.edu. PROKARYOTES crossm Volume 5 Issue 15 e00078-17 genomea.asm.org 1 on October 7, 2019 at University Libraries | Virginia Tech http://mra.asm.org/ Downloaded from