Draft genome sequence data of the facultative, thermophilic, xylanolytic bacterium Paenibacillus sp. strain DA-C8

Thermophilic, facultatively anaerobic, xylanolytic bacterial strain DA-C8 (=JCM34211 =DSM111723), newly isolated from compost, shows strong beechwood xylan degradation ability. Whole-genome sequencing of strain DA-C8 on the Ion GeneStudio S5 system yielded 69 contigs with a total size of 3,110,565 bp, 2,877 protein-coding sequences, and a G+C content of 52.3 mol%. Genome annotation revealed that strain DA-C8 possesses debranching enzymes, such as β-L-arabinofuranosidase and polygalacturonase, that are important for efficient degradation of xylan. As inferred from 16S rRNA sequences and average nucleotide identity values, the closest relatives of strain DA-C8 are Paenibacillus cisolokensis and P. chitinolyticus. The genomic data have been deposited at the National Center for Biotechnology Information (NCBI) under accession number BMAQ00000000.


a b s t r a c t
Thermophilic, facultatively anaerobic, xylanolytic bacterial strain DA-C8 ( = JCM34211 = DSM111723), newly isolated from compost, shows strong beechwood xylan degradation ability. Whole-genome sequencing of strain DA-C8 on the Ion GeneStudio S5 system yielded 69 contigs with a total size of 3,110,565 bp, 2,877 protein-coding sequences, and a G + C content of 52.3 mol%. Genome annotation revealed that strain DA-C8 possesses debranching enzymes, such as β-Larabinofuranosidase and polygalacturonase, that are important for efficient degradation of xylan. As inferred from 16S rRNA sequences and average nucleotide identity values, the closest relatives of strain DA-C8 are Paenibacillus cisolokensis and P. chitinolyticus . The genomic data have been deposited at the National Center for Biotechnology Information (NCBI) under accession number BMAQ0 0 0 0 0 0 0 0.

Value of the Data
• The genome data from newly isolated strain DA-C8 contribute to understanding of mechanisms of efficient degradation of lignocellulosic biomass, including xylan, by xylanolytic bacteria. • Comparison of the genome data of strain DA-C8 with data of other xylanolytic bacteria can yield information useful for enhancing the efficiency of xylanolytic enzymes. • The genome data of strain DA-C8 can aid taxonomic delineation of new independent genera and Paenibacillus .

Data Description
Efficient hydrolysis of lignocellulosic biomass not only requires the participation of β-1,4-glycosidic chain-cleaving enzymes, such as endo-β-1,4-glucanase, cellobiohydrolases, and β-glucosidase, but also the cooperation of numerous hemicellulosic enzymes (e.g., xylanolytic enzymes) and side chain-cleaving enzymes (e.g., α-L-arabinofuranosidase) [1] . Cellulolytic and xylanolytic enzymes, in particular, have various potential industrial applications in a wide variety of areas, such as food engineering and the production of supplements, animal feed, bio-ethanol, and pulp [2][3][4] . The laundry and dish detergent industry is one of the primary consumers of industrial enzymes [2,3,5] . Among xylanolytic enzymes, Paenibacillus strains produce a variety of enzymes, including amylases, cellulases, xylanases, other hemicellulases, and lipases, with potential applications to the industrial manufacturing of detergents, food, paper, and biofuels [5] . Enzymes of Paenibacillus strains are highly active under industrially-relevant conditions, and Paenibacillus strains can be produced at a lower cost than available alternatives by high density culture [5] .
The screening, identification, and characterization of the functional properties of strongly xylanolytic bacteria are of crucial importance for the construction of applicable bioprocesses. To obtain a bacterium exhibiting efficient xylan-degradation ability under anaerobic and thermophilic conditions, we newly isolated strain DA-C8, assigned to the genus Paenibacillus , as a pure culture from compost. This strain was deposited at the RIKEN BioResource Research Center as JCM 34211 and at the German Collection of Microorganisms and Cell Cultures GmbH (DSMZ) as DSM111723. Strain DA-C8 possesses strong xylan-degradation ability under thermophilic anaerobic conditions. We compared the xylan-degradation abilities of DA-C8 and P. curdlanolyticus B-6, which is highly xylanolytic because of the production of an extracellular multienzyme complex [6] , using beechwood xylan (1% w/v). When we incubated DA-C8 and B-6 for 6 days at 55 °C under anaerobic conditions in previously reported BMN basal medium [7] or at 37 °C under aerobic conditions in Berg s mineral salt medium [6] , respectively, complete degradation of beechwood xylan was achieved earlier with strain DA-C8. Strain DA-C8 can thus degrade beechwood xylan more efficiently than can xylanolytic P. curdlanolyticus B-6.
The genome annotation confirmed the presence of the following predicted essential enzymes having xylan and lignocellulosic biomass degradation abilities in strain DA-C8: endo-1,4β-xylanase ( 1.131). Of particular interest, the detected debranching enzymes, such as β-L-arabinofuranosidase and polygalacturonase, are not present in the genome sequence of P. curdlanolyticus B-6 [8] . The contigs and annotated data of strain DA-C8 can be accessed at Mendeley Data [9] .

Bacterial strain isolation and deposition into collections
Strain DA-C8 was isolated from compost as described previously. Modified BMN medium [7] , which consisted of 2.9 g/L K 2 HPO 4 , 4.2 g/L urea, 2.0 g/L yeast extract, 1.0 g/L Na 2 CO 3 , 0.01 g/L CaCl 2 ·2H 2 O, 0.5 g/L cysteine-HCl, and 0.0 0 05 g/L resazurin in water and 200 μL aqueous mineral solution (25.0 g/L MgCl 2 ·6H 2 O, 37.5 g/L CaCl 2 ·2H 2 O, and 0.312 g/L FeSO 4 ·7H 2 O) supplemented with 1% (w/v) beechwood xylan as the sole carbon source, was used as the basal medium. All chemicals used for the basal medium were purchased from Fujifilm Wako Pure Chemicals, Osaka, Japan. The basal medium was aerated with high-purity nitrogen gas before autoclaving. Strain DA-C8 ( = JCM34211 = DSM111723) was deposited in the open culture collection of the RIKEN Bioresource Research Center (JCM) and the Leibniz Institute German Collection of Microorganisms and Cell Cultures (DSMZ). The culture of DA-C8 was centrifuged, and the pellet was used for DNA extraction. P. curdlanolyticus B-6 was cultivated on Berg's mineral salt medium at 37 °C under aerobic shaking conditions [6] .

Genomic DNA purification and sequencing
After cultivation of cells for 4 days under anaerobic conditions at 55 °C with xylose as the carbon source, genomic DNA was extracted by the phenol/chloroform method [8] and purified. DNA fragmentation and library preparation were carried out using an Ion Xpress Plus Fragment Library kit (catalog no. #4471269, Thermo Fisher Scientific, Waltham, MA, USA) according to the manufacturer's instructions. Before library preparation, fragments approximately 200 to 300 bp in size were selected by electrophoresis on Invitrogen E-Gel SizeSelect II agarose gels (catalog no. #G661012, Thermo Fisher Scientific). Genomic DNA sequences of strain DA-C8 were obtained using the Ion GeneStudio S5 system and then processed [8] .

Phylogenetic analysis
Sequences obtained by BLAST searching against the GenBank database were manually aligned with the 16S rRNA sequence of strain DA-C8 using CLUSTAL_W [10] . A phylogenetic tree was generated by the neighbor-joining method based on the Tamura-3 parameter model [11] in MEGA X v10.1 [12] .

Genomic ANIs
Calculation of pairwise ANI values of whole-genome sequences of strain DA-C8 and nine Paenibacillus strains was conducted in GENETYX NGS v4.1.1. The matrix generated from the calculated ANI values was converted into a genetic dendrogram using algorithms described previously [8] .

Ethics Statement
This research and analysis did not involve the use of human subjects or animal experiments.

Declaration of Competing Interest
The authors declare that they have no known competing financial interests or personal relationships which have or could be perceived to have influenced the work reported in this article.