Whole-Genome Sequences of Mycobacterium abscessus subsp. massiliense Isolates from Brazil

ABSTRACT The Mycobacterium abscessus complex comprises multidrug-resistant, opportunistic, and rapidly growing pathogens responsible for severe infections. Here, we report the genome composition of four Mycobacterium abscessus subsp. massiliense isolates from three sources: two from the lung of a cystic fibrosis patient, one from a mammary cyst, and one from a gutter system.

T he Mycobacterium abscessus complex (MABSC) is so far composed of three subspecies: Mycobacterium abscessus subsp. massiliense, Mycobacterium abscessus subsp. bolletii, and Mycobacterium abscessus subsp. abscessus (1). Although common in soil and water, they are frequent (opportunistic) human pathogens associated with a broad spectrum of diseases, ranging from pulmonary to superficial skin and soft tissue infections to severe disseminated infections in immunocompromised patients (2,3), such as those with cystic fibrosis, among other chronic lung diseases (4).
Infections caused by the MABSC are becoming more prevalent worldwide (5), including in Brazil, which has reported 2,128 skin and soft tissue infections since 2004, with significant outbreaks (6). The effective treatment of infections caused by the MABSC is challenged by the high resistance to antibiotics displayed by these organisms (5,7).
MAB1 was isolated from a sewer wastewater station in the city of Vitoria, Espírito Santo State, in 2009 and demonstrated drug resistance to CIP, DOX, and TOB. MAB2 and MAB4 were isolated from sputum samples from the same patient with cystic fibrosis in November 2009 and May 2010, respectively. MAB2 was resistant to CIP, CLR, DOX, TMP-SXT, and MFX; MAB4 was resistant to the same drugs except that it showed  susceptibility to CLR. The exact reason for this was not investigated but might be due to heteroresistance and isolation of a different fraction of the population on both occasions. Isolate MAB3 was from a biopsy specimen from a cyst that developed after implantation of a mammary prosthesis in 2003 and presented no drug resistance (Table 1). Genomic DNA was obtained from the Lowenstein-Jensen culture using cetyltrimethylammonium bromide (CTAB) phenol-chloroform-based extraction and sequenced using the Nextera XT library preparation kit (Illumina, San Diego, CA, USA) on the Illumina HiSeq 2500 platform with 2 Â 150-bp paired-end reads.
In summary, the genome size ranged from 4.96 to 5.23 Mb with samples harboring 4,932 to 5,469 genes, roughly representing a difference of 6% in size and 10% in gene content ( Table 1). The environmental isolate displayed the largest genome sequence.
Data availability. The genomic sequences are publicly available in NCBI under the BioProject accession number PRJNA672126.

ACKNOWLEDGMENTS
This study was approved by the Brazilian Ethics Committee and Regional Committee (213/08-CEP HUCFF UFRJ). A