Abstract
A significant knowledge gap exists concerning the geographical distribution of nontuberculous mycobacteria (NTM) isolation worldwide.
To provide a snapshot of NTM species distribution, global partners in the NTM-Network European Trials Group (NET) framework (www.ntm-net.org), a branch of the Tuberculosis Network European Trials Group (TB-NET), provided identification results of the total number of patients in 2008 in whom NTM were isolated from pulmonary samples. From these data, we visualised the relative distribution of the different NTM found per continent and per country.
We received species identification data for 20 182 patients, from 62 laboratories in 30 countries across six continents. 91 different NTM species were isolated. Mycobacterium avium complex (MAC) bacteria predominated in most countries, followed by M. gordonae and M. xenopi. Important differences in geographical distribution of MAC species as well as M. xenopi, M. kansasii and rapid-growing mycobacteria were observed.
This snapshot demonstrates that the species distribution among NTM isolates from pulmonary specimens in the year 2008 differed by continent and differed by country within these continents. These differences in species distribution may partly determine the frequency and manifestations of pulmonary NTM disease in each geographical location.
Abstract
Species distribution among nontuberculous mycobacteria isolates from pulmonary specimens is geographically diverse http://ow.ly/npu6r
Introduction
Disease caused by nontuberculous mycobacteria (NTM) has gained increased attention, in part because of an assumed increase in its incidence [1, 2]. With the emergence of case reports and series from diverse countries and regions, it has become clear that the distribution of NTM species that are isolated from clinical samples differs strongly by region [3]. Yet this geographic diversity has never been systemically studied. Increased understanding of this diversity is important, as it can provide important clues on the impact of geographical or climatic differences on NTM distribution and observed discrepancies in clinical relevance and treatment outcome [3, 4]. In this study we have collected pulmonary NTM isolation and identification results from laboratories in different regions in the world, collaborating within the NTM-Network European Trials Group (NET) network (www.ntm-net.org, a branch of the Tuberculosis Network European Trials Group (TB-NET)), from the same time period, to gain further insight on the geographical distribution of NTM species cultured from respiratory samples at a single time point.
Methods
Global partners in the NTM-NET framework were contacted and invited to provide data of the total number of patients from whom NTM were isolated from pulmonary samples in their hospital, regional or reference laboratory in the year 2008, as well as the species identification results and details of the identification methods used. Partners were eligible to contribute to the database if the number of patients with pulmonary NTM isolates per year exceeded 30, to ensure sufficient experience and interpretability of results; one isolate per species per patient was eligible for analysis. We have chosen pulmonary samples in an effort to minimise selection bias. Isolation of NTM from normally sterile sites such as blood or lymph nodes usually indicates definite disease and this may present a strong selection bias, as not all species are equally capable of causing such diseases.
We calculated total number of mycobacteria per continent, the relative contribution of the Mycobacterium avium complex for each continent or country and studied the differences in the relative contribution of other NTM between countries and continents by generating pie-charts. Data of the respondents were plotted on a world map. Since most NTM-NET members are located in Europe, data from European participants were assessed in greater detail, with a focus on north–south differences; we considered Denmark, Norway, Sweden, Finland, the Netherlands, Belgium, Germany, the UK, Ireland and Poland as Northern Europe; all countries to the south of these countries were considered Southern Europe.
Within this study we did not assess the clinical relevance of these isolates. Ethical approval was waived for this retrospective laboratory database study.
Results
Overview
62 centres from 30 countries across six continents participated in this study. 17 national reference laboratories provided data representative for their whole country. For other countries, data was provided by a certain number of laboratories not covering the whole country (see the online supplementary material for details). A total of 20 182 patients had NTM species cultured from pulmonary samples in these centres in 2008; 91.3% (n=18 418) of the isolates were identified to species/complex level; the remaining 1764 isolates (8.7%) were not identified beyond Mycobacterium species other than M. tuberculosis complex. A total of 91 different NTM species were encountered in this survey. The most commonly used identification assays were the GenoType CM/AS (n=28; Hain Lifescience, Nehren, Germany), AccuProbe assays (n=9; Gen-Probe, San Diego, CA, USA), hsp65 PCR-restriction enzyme analysis (PRA) (n=6), Inno-LiPA Mycobacteria v2 (n=3; Innogenetics, Ghent, Belgium), in-house methods (n=6) or combinations thereof; mostly, these were supplemented by 16S rDNA sequencing. The six most frequently isolated NTM were M. avium complex (9421 isolates; 47%), M. gordonae (2170 isolates; 11%), M. xenopi (1605 isolates; 8%), M. fortuitum complex (1322 isolates; 7%), M. abscessus (664 isolates; 3%) and M. kansasii (720 isolates; 4%) (fig. 1). These six species accounted for 80% of all mycobacteria identified.
A complete overview of all species isolated in all regions is provided in the online supplementary material.
Species isolation worldwide
figure 1 presents the distribution of the most common NTM on a world map. table 1 and figure 2 show data for M. avium complex and other common NTM per continent.
M. avium complex
The M. avium complex (MAC) species accounted for 9421 (47%) of the 20182 isolates in the study. The highest relative contribution of MAC per continent was found in Australia (71%) and the lowest in South America (31%). Per country, this figure varied from 79% in Japan to 16% in Hungary. 59 out of 62 laboratories were able to identify MAC isolates to species level; the relative frequency of M. intracellulare versus M. avium in different parts of the world is shown in table 1. The most striking difference is the relative predominance, within the participating sites, of M. avium in North- and South America. In contrast, M. intracellulare was most frequent in Australia-Queensland (57% of all mycobacteria cultured and 80% of the MAC) and South Africa (40% of all mycobacteria cultured and 77.5% of the MAC). MAC isolates that were not identifiable to (sub)species level were common in participating laboratories in Asia and Europe (21% and 15% of all MAC isolates, respectively), but relatively rare in the participating laboratories in North America (8%).
M. gordonae
M. gordonae is the second most isolated NTM worldwide in this study, mainly due to a high isolation rate found in Europe, where M. gordonae was the second most isolated NTM. On all other continents, M. gordonae ranked third (North America, South America and Africa) or fourth (Asia and Australia).
M. xenopi
After MAC and M. gordonae, M. xenopi was the third most frequently isolated species in the survey, though its isolation was limited to distinct geographical regions; mainly in Europe and Ontario (eastern Canada) (but not Alberta, western Canada). In Hungary, M. xenopi is the predominant NTM isolate comprising 49% of all the NTM in this country. In Croatia, M. xenopi was the second most frequently isolated NTM after M. gordonae. Furthermore, M. xenopi was prevalent in the English Channel region, being the second most frequent NTM isolate in Belgium and south-east England and ranked third in France after MAC and M. gordonae. Differences within countries were also observed: in Spain, M. xenopi was the predominant NTM isolate in the Barcelona area but only ranked third after MAC and M. fortuitum in the Madrid area. M. xenopi was not isolated in the participating centres from Asia, Australia and South America.
M. kansasii
Overall, M. kansasii was the sixth most frequently isolated NTM. In South America M. kansasii was the second most isolated NTM after MAC, accounting for 19.8% of all NTM isolated. In Europe, Slovakia, Poland and the UK had the highest M. kansasii isolation rates of 36%, 35% and 11%, respectively, compared to a mean isolation rate of 5% in Europe. In the Paris region of France, M. kansasii was the third most isolated NTM after MAC. In the participating laboratory in Japan, M. kansasii ranked fourth after MAC, M. gordonae and M. abscessus. In South Africa, M. kansasii ranked sixth overall. However, in a centre with a large community of miners in the Johannesburg region of South Africa, M. kansasii was the second most frequent NTM isolated.
Rapid growers
M. abscessus and M. fortuitum were the most frequently isolated rapid-growing mycobacteria (RGM) worldwide. Other RGM were only isolated sporadically.
Among the RGM, important geographical differences were observed. RGM were highly prevalent isolates in the participating centres in East Asia, where they make up 27% of all NTM isolates in comparison to isolation frequencies of 17.9%, 16% and 14% in the participating centres in North America, South America and Europe, respectively. However, important differences in frequency of RGM isolation among countries within Asia were also noted. In Tokyo (Japan), rapid growers accounted for only 6.6% of all isolates, in contrast to the participating centres in Taiwan (50%) and South Korea (28.7%). Furthermore, in Taiwan, M. fortuitum and M. abscessus were the second and third most frequently isolated NTM species, while in South Korea M. abscessus was the second most frequently isolated NTM after MAC.
Rare and geographically restricted NTM species
M. malmoense was found more often in Northern Europe (80 (2.6%) out of 3107 isolates); in comparison with Southern Europe (21 (0.6%) out of 3696 isolates). In South Africa, 43 M. malmoense isolates were found (out of 5646; 0.76%). Five M. malmoense isolates from the participating laboratories from North America were reported (five (0.1%) out of 4913 isolates). M. malmoense was not found in Queensland-Australia, Asia and South America. M. simiae was found worldwide except in Asia. A total of 97 patients were found in this study with a M. simiae isolate (0.5% of all 20182 NTM isolated). M. scrofulaceum was the second most isolated NTM in South Africa (383 isolates (6.8%) out of 5646). M. lentiflavum was found in several laboratories worldwide (generally <1% of all NTM isolated per laboratory), but was found more often in Portugal (6%) and Finland (5.8%). The majority of the 91 different NTM species in this study were infrequently isolated, e.g. M. smegmatis (n=5; 0.03%) and M. interjectum (n=36; 0.2%) (online supplementary material).
Focus on Europe
Because of a substantial number of participating countries in Europe, this continent was studied in more detail, with a focus on north–south differences. We collected data of 3107 isolates from Northern Europe and 3696 from Southern Europe. In figure 3, the pie-charts of species diversity in all participating countries in Europe are shown. MAC was isolated more frequently in Northern Europe (44% of all mycobacteria) than in Southern Europe (31%). In both Northern and Southern Europe, M. avium was the most frequent isolated subspecies of the MAC.
M. xenopi was more frequently isolated in Southern (778 (21%) out of 3697 isolates) compared to Northern Europe (190 (6%) out of 3107 isolates), partly due to substantial contribution of M. xenopi isolated in a single country (Hungary). In contrast, M. bohemicum was especially found in Northern Europe, mainly Finland, in contrast to only one isolate from Southern Europe and no isolate from any participating laboratory in other regions of the world.
Discussion
For the first time, we provide a snapshot of the worldwide distribution of NTM species isolated from pulmonary samples. This snapshot illustrates that the species distribution among NTM isolated from pulmonary specimens in the year 2008 differs by region and differs by country within these regions. For many regions or countries that participated in this study, these are the first data covering this topic. The NTM species distribution in a country or region may have profound impact on the frequencies and manifestations of pulmonary NTM disease. It is now generally accepted that NTM species differ in their ability to cause lung disease in humans [3–6] and that the clinical relevance of a particular species can differ in different parts of the world [7, 8]. The species distribution presented in this study can help in identifying factors associated with human NTM infection, such as climate differences, population density or host factors. In the past, it has been suggested that differences in NTM species distribution may also affect the efficacy of bacille Calmette–Guérin vaccination [9].
The two studies that approached this subject were published by MartÍn-Casabona et al. in 2004 [2] and by Marras and Daley in 2002 [3]; the former reported on NTM isolation over three decades, ending in 1996. The spread of molecular tools for identification in the years between 1996 and 2008 make the comparison of the two surveys difficult. The MartÍn-Casabona study only incorporated laboratories from Europe, Turkey, Iran and Brazil and sampling was not systematic as different laboratories produced data from different time periods. The review by Marras and Daley adds more historical published data and is not a survey. Still, both showed the predominance of MAC isolation worldwide, together with the characteristic geographical distribution of M. xenopi, M. kansasii and M. malmoense. The review by Marras and Daley [3] also showed that differences in species distribution may occur over time.
In this study, the members of the M. avium complex predominated in most regions, though M. xenopi predominated in Hungary and M. kansasii in Poland and Slovakia. The relative distribution of the various members of MAC again reveals geographic differences. While M. avium predominated in the participating centres in North and South America and Europe, M. intracellulare was most frequently isolated in South Africa and Australia. In Australia a significant increase in the isolation of this species has been reported before [5]. Few laboratories were able to reliably distinguish the novel MAC members, such as M. colombiense and M. chimaera [10, 11].
M. xenopi was particularly prevalent in the region covering Hungary, Croatia, Northern Italy, in Ontario-Canada and in the areas bordering the English Channel; the latter two are in line with earlier data [1, 2]. The frequently stated link to coastal areas [1, 2, 12] does not hold true in the light of the observed predominance in Hungary and its absence in coastal regions outside Europe. Nonetheless, the presence of a specific environmental niche for M. xenopi is a likely explanation. Other factors to be considered are differences in the potential to colonise or infect human airways between M. xenopi strains and host factors.
The geographical distribution of M. kansasii has been the subject of previous studies. In our study, M. kansasii was frequently isolated in South America, Eastern Europe and the metropolitan centres of Paris, London and Tokyo and the Johannesburg region of South Africa. These findings match previously published data from those regions [2, 8]. Its isolation has been related to mining activities [13–15] as well as urbanisation and may be related to working and living conditions [16]. In Northern Europe, isolation frequencies of M. kansasii have been in decline for the past three decades [17], but the underlying causes are unknown. The high isolation frequency of M. scrofulaceum in South Africa is in accordance with the literature and probably related to mining activities [15].
M. simiae was traditionally thought to be confined to the Southern USA, Cuba and Israel [7], but in this study we demonstrate that this species has a global distribution (except in Asia), making up 0.67% of all isolates in this study, with the highest isolation of 1.1% found in Northern Europe. M. malmoense was found especially in Northern Europe, which is in accordance with the literature [8], but also in South Africa. M. malmoense isolation from clinical specimens from this continent has never been reported before, although its presence in soil has been reported [18].
RGM made up 10–20% of all NTM isolates worldwide, although they proved more prevalent in East Asia where they compose up to 50% (Taiwan) of all NTM isolated from pulmonary samples. The high isolation frequency of RGM, particularly M. abscessus, was also noted in previous studies focusing on this region [19–21]. The reason for the high isolation rate of RGM in Asian countries remains unclear, although geographical or climatic factors, host and laboratory factors have been suggested [20]. An important reason to perform studies on the geographical distribution of NTM is to help identify factors associated with differences in worldwide isolation patterns of specific species. Studies focusing on species-specific environmental niches and subsequent transmission to humans are not systematically performed. Yet these could offer important clues that would be of aid to prevent (re)infection of susceptible patients.
In the current study, a multitude of molecular identification techniques was used. It is well known that these techniques can produce discrepant results [22, 23]. Yet this is likely to influence a minority of isolates and will not affect the snapshot of the geographic diversity in NTM species isolated from pulmonary samples, as presented in this study. The current study revealed the occasional presence of many rare species (online supplementary data). For many of these species no data other than reports of single cases of disease were available. Often such case reports or novel species descriptions seem to suggest a very limited geographic spread of the bacterium and, as they mostly concern cases of true disease, overestimate the clinical relevance of these rare species. We hope that the current study also provides a reference to clinicians and microbiologists faced with rare NTM species.
An important shortcoming of this study is the low number of participating laboratories, especially outside Europe. Inclusion of more data from different laboratories will probably reveal other isolation patterns.
Follow-up studies covering different time periods together with more participating laboratories may reveal additional clues on changing NTM pattern over time and geographic differences of NTM distribution on the national scale.
We have chosen pulmonary samples specifically because these best reflect the distribution of species in local environments. Nevertheless, presence and persistence within the human airways is also likely to represent a selection bias, as does the fact that we collected identification results of cultured isolates. The low isolation frequency of the majority of the 91 different NTM species may reflect an inability to persist in human airways or a scarce environmental presence.
In summary, this snapshot illustrates that the species distribution among NTM isolated from pulmonary specimens in the year 2008 differs by region and differs by country within these regions. MAC predominates in most settings, but the frequency of isolation of RGM, or slow growers like M. xenopi, M. kansasii and M. malmoense differs per setting. These differences in species distribution may determine, in part, the frequency and manifestations of pulmonary NTM disease in each region. Future studies need to address species-specific environmental niches as a cause of differences in worldwide isolation patterns.
Acknowledgments
The authors’ affiliations are as follows. W. Hoefsloot: Dept of Pulmonary Diseases, Radboud University Nijmegen Medical Centre, Nijmegen, the Netherlands; J. van Ingen: Dept of Medical Microbiology, Radboud University Nijmegen Medical Centre, Nijmegen, The Netherlands; C. Andrejak: Respiratory Diseases Dept, Amiens Teaching Hospital, Amiens, France; K. Ängeby: Dept of Clinical Microbiology, Karolinska Institute, Stockholm, Sweden; R. Bauriaud: Laboratoire Central de Microbiologie, Hôpital Purpan, Toulouse, France; P. Bemer: Service de Bacteriologie-Hygiene, CHU de Nantes, Institut de Biologie, Nantes, France; N. Beylis: National Health Laboratory Service, Braamfontein, South Africa; M.J. Boeree: Dept of Pulmonary Diseases, Radboud University Nijmegen Medical Centre, Nijmegen, the Netherlands; J. Cacho: Dept of Microbiology, University Hospital of Getafe, Getafe, Madrid, Spain; V. Chihota: The Aurum Institute for Health Research, Johannesburg, South Africa; E. Chimara: Setor de Micobactérias, Seção de Bacteriologia, Instituto Adolfo Lutz, São Paulo, Brazil; G. Churchyard: The Aurum Institute for Health Research, Johannesburg, South Africa; R. Cias: Dept of Clinical Microbiology, Hospital Clinico San Carlos, Madrid, Spain; R. Daza: Dept of Microbiology, Hospital Universitario Puerta de Hierro, Madrid, Spain; C.L. Daley: Division of Mycobacterial and Respiratory Infections, National Jewish Health, Denver, CO, USA; P.N.R. Dekhuijzen: Dept of Pulmonary Diseases, Radboud University Nijmegen Medical Centre, Nijmegen, the Netherlands; D. Domingo: Dept of Microbiology, Hospital Universitario de la Princesa, Madrid, Spain; F. Drobniewski: UK Health Protection Agency National Mycobacterium Reference Laboratory, London, UK; J. Esteban: Dept of Clinical Microbiology. IIS-Fundación Jiménez Díaz, Madrid, Spain; M. Fauville-Dufaux: National Reference Centre of Tuberculosis and Mycobacteria, Scientific Institute of Public Health, Brussels, Belgium; D.B. Folkvardsen: International Reference Laboratory of Mycobacteriology, Statens Serum Institut, Copenhagen, Denmark; N. Gibbons: St. James's Hospital and Trinity College Dublin, Dublin, Ireland; E. Gómez-Mampaso: Hospital Ramon y Cajal, Madrid, Spain; R. Gonzalez: Hospital Universitario Príncipe de Asturias, Alcalá de Henares, Madrid, Spain; H. Hoffmann: Institute of Microbiology and Laboratory Medicine, Supranational Reference Laboratory, Asklepios Fachkliniken, Gauting, Germany; P.R. Hsueh: Departments of Laboratory Medicine and Internal Medicine, National Taiwan University Hospital, Taipei, Taiwan; A. Indra: Austrian Agency for Health and Food Safety, Vienna, Austria; T. Jagielski: Dept of Applied Microbiology, Institute of Microbiology, Faculty of Biology, University of Warsaw, Warsaw, Poland; F. Jamieson: Clinical and Environmental Microbiology, Public Health Laboratories Branch, Ontario Ministry of Health and Long-Term Care, Toronto, Canada; M. Jankovic: Dept of Respiratory Diseases, University Hospital Centre, University of Zagreb Medical School, Zagreb, Croatia; E. Jong: Clinical HIV Research Unit, University of the Witwatersrand, Johannesburg, South Africa; J. Keane: St. James's Hospital Dublin, and Trinity College Dublin, Dublin, Ireland; W.J. Koh: Division of Pulmonary and Critical Care Medicine, Dept of Medicine, Samsung Medical Centre, Sungkyunkwan University School of Medicine, Seoul, Republic of Korea; B. Lange: Centre for Infectious Diseases and Travel Medicine, University Hospital Freiburg, Freiburg, Germany; S. Leao: Disciplina de Microbiologia, Dept de Microbiologia, Imunologia e Parasitologia da Escola Paulista de Medicina, Universidade Federal de São Paulo, São Paulo, Brazil; R. Macedo: Public Health Laboratory: Mycobacteriology/Tuberculosis, Public Health Dept, Administração Regional de Saúde de Lisboa e Vale do Tejo, Lisbon, Portugal; T. Mannsåker: Division of Infectious Disease Control, Norwegian Institute of Public Health, Oslo, Norway; T.K. Marras: Joint Division of Respirology, University Health Network and Mount Sinai Hospital, Dept of Medicine, University of Toronto, Toronto, Canada; J. Maugein: Laboratoire de Bactériologie, Université Victor Segalen Bordeaux, Bordeaux, France; H.J. Milburn: Dept of Respiratory Medicine, Guy’s and St Thomas’ NHS Foundation Trust, London, UK; T. Mlinkó: Koranyi National Institute for Tuberculosis and Pulmonology, Budapest, Hungary; N. Morcillo: Laboratorio de Referencia del Programa de Control de la Tuberculosis de la Provincia de Buenos Aires, Hospital Dr. Antonio Cetrángolo, Buenos Aires, Brazil; K. Morimoto: Fukujuji Hospital, Japan Anti-Tuberculosis Association, Tokyo, Japan; D. Papaventsis: National Mycobacteria Reference Laboratory, Sotiria Chest Diseases Hospital, Athens, Greece; E. Palenque: Dept of Microbiology, Hospital 12 de Octubre, Madrid, Spain; M. Paez-Peña: Hospital Severo Ochoa, Madrid, Spain; C. Piersimoni: Regional Reference Mycobacteria Laboratory, United Hospitals, Ancona, Italy; M. Polanová: The National Institute of TB, Respiratory Diseases and Chest Surgery, Vyšne Hágy, Slovakia; N. Rastogi: WHO Supranational TB Reference Laboratory, Unité de la Tuberculose et des Mycobactéries, Institut Pasteur de Guadeloupe, Abymes, Guadeloupe, France; E. Richter: National Reference Centre for Mycobacteria, Borstel, Germany; M.J. Ruiz-Serrano: Servicio de Microbiología Clínica y Enfermedades Infecciosas, Hospital Gregorio Marañón, Madrid, Spain; A. Silva: General Directorate of Health in Lisbon and Lung Diseases Centre of Venda Nova, Amadora, Portugal; M.P. da Silva: University of the Witwatersrand, Johannesburg, and National Health Laboratory Services, Braamfontein, South Africa; H. Simsek: Refik Saydam National Public Health Agency, National Tuberculosis Reference Laboratory, Ankara, Turkey; D. van Soolingen: National Institute for Public Health and the Environment, Bilthoven, the Netherlands; N. Szabó: Korányi National Institute for Tuberculosis and Respiratory Medicine, Budapest, Hungary; R. Thomson: Gallipoli Medical Research Centre, Greenslopes Private Hospital, Brisbane, Australia; T. Tórtola Fernandez: Hospital Val d’Hebron, Barcelona, Spain; E. Tortoli: Emerging Bacterial Pathogens Unit, San Raffaele Scientific Institute, Milan, Italy; S.E. Totten: Dept of Mycobacteriology, Advanced Diagnostics Laboratories, National Jewish Health, Denver, CO, USA; G. Tyrrell: Provincial Laboratory for Public Health, University of Calgary, Calgary, Canada; T. Vasankari: Epidemiologic Surveillance and Response Unit, Dept of Infectious Disease Surveillance and Control, National Institute for Health and Welfare, Helsinki, Finland; M. Villar: General Directorate of Health in Lisbon and Lung Diseases Centre of Venda Nova, Amadora, Portugal; R. Walkiewicz: Dept of Internal Medicine, Pneumology and Allergology, Medical University of Warsaw, Warsaw, Poland; K. Winthrop: Division of Infectious Diseases, Public Health and Preventive Medicine, Oregon Health & Science University, Portland, OR, USA; D. Wagner: Dept of Internal Medicine II – Infectious Diseases, University of Freiburg, Freiburg, Germany.
The following persons contributed to the data collection in Italy: Danila Costa (Bari), Marco Arosio (Bergamo), Concetta Mazza (Bologna), Eliana Frizzera (Bolzano), Marina Matteucci (Forlì-Cesena), Ester Mazzola (Milano), Giulia Santoro (Napoli), Gian Lorenzo Molinari (Novara), Patrizia Chiaradonna (Roma) and Claudio Scarparo (Udine).
The authors are responsible for the contents of the publication.
Footnotes
This article has supplementary material available from www.erj.ersjournals.com
Support statement: This study was supported by the German Federal Ministry of Education and Research (BMBF 01 EO 0803).
Conflict of interest: None declared.
- Received September 19, 2012.
- Accepted January 18, 2013.
- ©ERS 2013