Open access
7 May 2020

Draft Genome Sequence of Blautia luti DSM 14534T, Isolated from Human Stool


Here, we report the draft sequence of Blautia luti strain DSM 14534T, originally isolated from human feces. This draft contains 74 contigs, comprising 3,718,760 bp with a G+C content of 42.87%. The annotated draft contains 3,338 coding sequences (CDSs) and 110 RNA genes.


Blautia, a genus of anaerobic, nonsporulating, coccobacillus-shaped bacteria from the Firmicutes phylum, is a group of Gram-positive bacteria inhabiting the gastrointestinal tract in different animals, including humans (1). Members of this genus are common inhabitants of the healthy human intestinal microbiota (2) and are one of the most abundant groups in adults (3, 4). One member of this genus, Blautia luti (formerly known as Ruminococcus luti), was originally isolated from human feces and characterized as an anaerobic carbohydrate fermenter (5).
The type strain of B. luti (DSM 14534) was sequenced from lyophilized pure DNA, directly purchased from the DSMZ repository (catalog number 14534; Germany), using an Illumina MiSeq platform in two independent runs. For each run, a Nextera DNA Flex library prep kit was used to prepare the MiSeq library, and MiSeq paired-end reads were generated using a MiSeq reagent kit v3 (600 cycles; Illumina). Reads from both runs were filtered and trimmed by using Trimmomatic (6), with a minimum quality value (QV) score of <30, a minimum nucleotide length of <100, and removal of Illumina adapters, resulting in 2,200,391 reads (coverage, 173.37×). The filtered reads from both runs were used simultaneously to generate a unique assembly (7) using the SPAdes software v3.13.0 (8) with default parameters, including the additional “-careful” parameter. This resulted in an assembly of 74 contigs, comprising 3,718,760 bp with a G+C content of 42.87%. The N50 contig size was 205,916 bp, and the longest contig size was 614,844 bp.
The B. luti genome completeness and contamination were evaluated using CheckM v1.1.2 (9) with default parameters, showing that the completeness was 99.37% and the contamination was 2.53%. The taxonomic features of the B. luti genome confirmed its placement in the Blautia genus by use of the “classify_wf” command of GTDB-tk software v0.3.3 with default parameters (10). Subsequently, the assembled genome was annotated with Prokka v1.13 (11) using the “–rfam,” “–gram pos,” and “–genus, –species, –strain” parameters, which resulted in 3,338 coding sequences (CDSs) and 110 RNA genes. Of the CDSs, 1,089 (32.62%) have a cluster of orthologous groups (COG) assigned, and 1,661 (49.76%) correspond to hypothetical proteins. SignalP 5.0b (12) predicted a signal peptide for 326 CDSs (9.77%). Of the RNA genes, 58 were tRNAs, 7 were rRNAs, and 1 was a transfer-messenger RNA (tmRNA) gene. In a dbCAN2 HMM database search with default parameters and the v8 database (13), a total of 91 B. luti CDSs (2.7% of the total) were predicted to be glycoside hydrolases (GHs) or glycoside transferases (GTs). This number is within the range of the number of GHs observed in most gut-associated microbes (14).

Data availability.

The assembled genome sequence of B. luti strain DSM 14534T was deposited in GenBank under accession number WMBC00000000. Illumina MiSeq raw reads for the two runs for this sequencing project (BioProject number PRJNA590133) can be accessed under accession numbers SRR10482250 and SRR11245637.


This work was developed as part of R.L.O.’s doctoral research, supported by uBiome, Inc., and by a CONICYT National Doctoral Studies Grant (Chile, 2014 to 2017, grant number 21140549). J.P.C. is supported by Universidad Mayor, Chile. J.A.U. is supported by the Millennium Science Initiative of the Ministry of Economy, Development and Tourism, Government of Chile. J.P.-D. acknowledges the support of INACH RT-25-16.


Liu C, Finegold SM, Song Y, Lawson PA. 2008. Reclassification of Clostridium coccoides, Ruminococcus hansenii, Ruminococcus hydrogenotrophicus, Ruminococcus luti, Ruminococcus productus and Ruminococcus schinkii as Blautia coccoides gen. nov., comb. nov., Blautia hansenii comb. nov., Blautia hydrogenotrophica comb. nov., Blautia luti comb. nov., Blautia producta comb. nov., Blautia schinkii comb. nov. and description of Blautia wexlerae sp. nov., isolated from human faeces. Int J Syst Evol Microbiol 58:1896–1902.
Hong P-Y, Croix JA, Greenberg E, Gaskins HR, Mackie RI. 2011. Pyrosequencing-based analysis of the mucosal microbiota in healthy individuals reveals ubiquitous bacterial groups and micro-heterogeneity. PLoS One 6:e25042.
Arumugam M, Raes J, Pelletier E, Le Paslier D, Yamada T, Mende DR, Fernandes GR, Tap J, Bruls T, Batto J-M, Bertalan M, Borruel N, Casellas F, Fernandez L, Gautier L, Hansen T, Hattori M, Hayashi T, Kleerebezem M, Kurokawa K, Leclerc M, Levenez F, Manichanh C, Nielsen HB, Nielsen T, Pons N, Poulain J, Qin J, Sicheritz-Ponten T, Tims S, Torrents D, Ugarte E, Zoetendal EG, Wang J, Guarner F, Pedersen O, de Vos WM, Brunak S, Doré J, Antolín M, Artiguenave F, Blottiere HM, Almeida M, Brechot C, Cara C, Chervaux C, Cultrone A, Delorme C, Denariaz G, Dervyn R, Foerstner KU, Friss C, van de Guchte M, Guedon E, Haimet F, Huber W, van Hylckama-Vlieg J, Jamet A, Juste C, Kaci G, Knol J, Lakhdari O, Layec S, Le Roux K, Maguin E, Mérieux A, Melo Minardi R, M'rini C, Muller J, Oozeer R, Parkhill J, Renault P, Rescigno M, Sanchez N, Sunagawa S, Torrejon A, Turner K, Vandemeulebrouck G, Varela E, Winogradsky Y, Zeller G, Weissenbach J, Ehrlich SD, Bork P. 2011. Enterotypes of the human gut microbiome. Nature 473:174–180.
Nakayama J. 2010. Pyrosequence-based 16S rRNA profiling of gastro-intestinal microbiota. Biosci Microflora 29:83–96.
Simmering R, Taras D, Schwiertz A, Le Blay G, Gruhl B, Lawson PA, Collins MD, Blaut M. 2002. Ruminococcus luti sp. nov., isolated from a human faecal sample. Syst Appl Microbiol 25:189–193.
Bolger AM, Lohse M, Usadel B. 2014. Trimmomatic: a flexible trimmer for Illumina sequence data. Bioinformatics 30:2114–2120.
Nurk S, Bankevich A, Antipov D, Gurevich A, Korobeynikov A, Lapidus A, Prjibelsky A, Pyshkin A, Sirotkin A, Sirotkin Y, Stepanauskas R, McLean J, Lasken R, Clingenpeel SR, Woyke T, Tesler G, Alekseyev MA, Pevzner PA. 2013. Assembling genomes and mini-metagenomes from highly chimeric reads, p 158–170. In Deng M, Jiang R, Sun F, Zhang X (ed), Research in computational molecular biology. RECOMB 2013. Lecture notes in computer science, vol 7821. Springer, Berlin, Germany.
Bankevich A, Nurk S, Antipov D, Gurevich AA, Dvorkin M, Kulikov AS, Lesin VM, Nikolenko SI, Pham S, Prjibelski AD, Pyshkin AV, Sirotkin AV, Vyahhi N, Tesler G, Alekseyev MA, Pevzner PA. 2012. SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. J Comput Biol 19:455–477.
Parks DH, Imelfort M, Skennerton CT, Hugenholtz P, Tyson GW. 2015. CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes. Genome Res 25:1043–1055.
Chaumeil P-A, Mussig AJ, Hugenholtz P, Parks DH. 2020. GTDB-Tk: a toolkit to classify genomes with the Genome Taxonomy Database. Bioinformatics 36:1925–1927.
Seemann T. 2014. Prokka: rapid prokaryotic genome annotation. Bioinformatics 30:2068–2069.
Almagro Armenteros JJ, Tsirigos KD, Sønderby CK, Petersen TN, Winther O, Brunak S, von Heijne G, Nielsen H. 2019. SignalP 5.0 improves signal peptide predictions using deep neural networks. Nat Biotechnol 37:420–423.
Zhang H, Yohe T, Huang L, Entwistle S, Wu P, Yang Z, Busk PK, Xu Y, Yin Y. 2018. dbCAN2: a meta server for automated carbohydrate-active enzyme annotation. Nucleic Acids Res 46:W95–W101.
El Kaoutari A, Armougom F, Gordon JI, Raoult D, Henrissat B. 2013. The abundance and variety of carbohydrate-active enzymes in the human gut microbiota. Nat Rev Microbiol 11:497–504.

Information & Contributors


Published In

cover image Microbiology Resource Announcements
Microbiology Resource Announcements
Volume 9Number 197 May 2020
eLocator: 10.1128/mra.00088-20
Editor: David Rasko, University of Maryland School of Medicine


Received: 3 February 2020
Accepted: 5 April 2020
Published online: 7 May 2020



Rodrigo L. Ortiz
Faculty of Life Sciences, Universidad Andres Bello, Santiago, Chile
Felipe Melis-Arcos
Programa Institucional de Fomento a la Investigación, Desarrollo e Innovación (PIDi), Universidad Tecnológica Metropolitana, Santiago, Chile
Paulo C. Covarrubias
Independent Researcher, Santiago, Chile
Juan A. Ugalde
Millennium Initiative for Collaborative Research on Bacterial Resistance (MICROB-R), Santiago, Chile
Zachary S. Apte
Independent Researcher, San Francisco, California, USA
José Pérez-Donoso
BioNanotechnology and Microbiology Lab, Center for Bioinformatics and Integrative Biology, Faculty of Life Sciences, Universidad Andres Bello, Santiago, Chile
Juan P. Cárdenas
Center for Genomics and Bioinformatics, Faculty of Sciences, Universidad Mayor, Huechuraba, Chile
Escuela de Biotecnología, Faculty of Sciences, Universidad Mayor, Campus Huechuraba, Huechuraba, Chile
Daniel E. Almonacid
Center for Bioinformatics and Integrative Biology, Faculty of Life Sciences, Universidad Andres Bello, Santiago, Chile


David Rasko
University of Maryland School of Medicine


Address correspondence to Juan P. Cárdenas, [email protected], or Daniel E. Almonacid, [email protected].

Metrics & Citations


Note: There is a 3- to 4-day delay in article usage, so article usage will not appear immediately after publication.

Citation counts come from the Crossref Cited by service.


If you have the appropriate software installed, you can download article citation data to the citation manager of your choice. For an editable text file, please select Medlars format which will download as a .txt file. Simply select your manager software from the list below and click Download.

View Options

Figures and Media






Share the article link

Share with email

Email a colleague

Share on social media

American Society for Microbiology ("ASM") is committed to maintaining your confidence and trust with respect to the information we collect from you on websites owned and operated by ASM ("ASM Web Sites") and other sources. This Privacy Policy sets forth the information we collect about you, how we use this information and the choices you have about how we use such information.
FIND OUT MORE about the privacy policy