Open Access Research article

atpE gene as a new useful specific molecular target to quantify Mycobacterium in environmental samples

Nicolas Radomski12*, Adélaïde Roguet1, Françoise S Lucas1, Frédéric J Veyrier3, Emmanuelle Cambau4, Héberte Accrombessi5, Régis Moilleron1, Marcel A Behr2 and Laurent Moulin5

Author Affiliations

1 Laboratoire Eau Environnement Systèmes Urbains (Leesu) UMR MA 102-AgroParisTech, Université Paris-Est, 6-8 avenue Blaise Pascal Cité, Descartes, FR 77455, Champs sur Marne, France

2 Research Institute of the McGill University Health Centre, 1650 Cedar Avenue, Montreal H3G 1A4, QC, Canada

3 Département Infection et Epidémiologie, Infections Bactériennes Invasives, Institut Pasteur, 28 Rue du Dr. Roux, Paris, F 75015, France

4 Laboratoire associé du Centre national de référence des mycobactéries et de la résistance aux antituberculeux, AP-HP, Groupe Hospitalier Saint Louis-Lariboisière, Université Paris Diderot EA3964, FR 75475, Paris, France

5 Eau de Paris, Direction Recherche et Développement Qualité de l'Eau (DRDQE), 33 avenue Jean Jaurès, FR 94200, Ivry-sur-Seine, France

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BMC Microbiology 2013, 13:277  doi:10.1186/1471-2180-13-277

Published: 3 December 2013

Additional files

Additional file 1:

Similarities (%) between Mycobacterium tuberculosis H37Rv (AL123456.2) proteins and proteins of targeted mycobacterial genomes and proteins of non-targeted genomes. Targeted mycobacterial genomes include M. tuberculosis H37Ra (CP000611.1), M. tuberculosis CDC 1551 (AE000516.2), M. tuberculosis KZN 1435 (CP001658.1), M. bovis AF2122/97 (BX248333.1), M. ulcerans Agy99 (CP000325.1), M. marinum M (CP000854.1), M. avium 104 (CP000479.1), M. paratuberculosis K10 (AE016958.1), M. smegmatis MC2 155 (CP000480.1), M. abscessus ATCC 19977 (CU458896.1), M. gilvum PYG-GCK (CP000656.1), M. vanbaalenii PYR-1 (CP000511.1), Mycobacterium sp. JLS (CP000580.1), Mycobacterium sp. KMS (CP000518.1), Mycobacterium sp. MCS (CP000384.1), and non-targeted genomes include Corynebacterium aurimucosum ATCC 700975 (CP001601.1), C. diphteriae NCTC 13129 (BX248353.1), C. efficiens YS-314 (BA000035.2), C. glutamicum ATCC 13032 (BX927147.1), C. jeikeium K411 (NC_007164), C. kroppenstedtii DSM 44385 (CP001620.1), C. urealyticum DSM 7109 (AM942444.1), Nocardia farcinica IFM 10152 (AP006618.1), Nocardioides sp. JS614 (CP000509.1), Rhodococcus erythropolis PR4 (AP008957.1), R. jostii RHA1 (CP000431.1) and R. opacus B4 (AP011115.1).

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Additional file 2:

Protein sequence alignment of conserved proteins in mycobacterial genomes. Sequences are from genomes of M. abscessus ATCC 19977 (CU458896.1), M. avium 104 (CP000479.1), M. avium subsp. paratuberculosis K10 (AE016958.1), M. bovis subsp. bovis AF2122/97 (BX248333.1), M. bovis BCG Pasteur 1173P2 (AM408590.1), M. bovis BCG Tokyo 172 (AP010918.1), M. gilvum PYR-GCK (CP000656.1), M. intracellulare ATCC 13950 (ABIN00000000), M. kansasii ATCC 12478 (ACBV00000000), M. leprae Br4923 (FM211192.1), M. leprae TN (AL450380.1), M. marinum M (CP000854.1), M. parascrofulaceum BAA-614 (ADNV00000000), M. smegmatis MC2 155 (CP000480.1), Mycobacterium sp. JLS (CP000580.1), Mycobacterium sp. KMS (CP000518.1), Mycobacterium sp. MCS (CP000384.1), M. tuberculosis CDC1551 (AE000516.2), M. tuberculosis H37Ra (CP000611.1), M. tuberculosis H37Rv (AL123456.2), M. tuberculosis KZN 1435 (CP001658.1), M. ulcerans Agy99 (CP000325.1) and M. vanbaalenii PYR-1 (CP000511.1).

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Additional file 3:

DNA sequence alignment of conserved proteins in mycobacterial genomes. Sequences are from genomes of M. abscessus ATCC 19977 (CU458896.1), M. avium 104 (CP000479.1), M. avium subsp. paratuberculosis K10 (AE016958.1), M. bovis subsp. bovis AF2122/97 (BX248333.1), M. bovis BCG Pasteur 1173P2 (AM408590.1), M. bovis BCG Tokyo 172 (AP010918.1), M. gilvum PYR-GCK (CP000656.1), M. intracellulare ATCC 13950 (ABIN00000000), M. kansasii ATCC 12478 (ACBV00000000), M. leprae Br4923 (FM211192.1), M. leprae TN (AL450380.1), M. marinum M (CP000854.1), M. parascrofulaceum BAA-614 (ADNV00000000), M. smegmatis MC2 155 (CP000480.1), Mycobacterium sp. JLS (CP000580.1), Mycobacterium sp. KMS (CP000518.1), Mycobacterium sp. MCS (CP000384.1), M. tuberculosis CDC1551 (AE000516.2), M. tuberculosis H37Ra (CP000611.1), M. tuberculosis H37Rv (AL123456.2), M. tuberculosis KZN 1435 (CP001658.1), M. ulcerans Agy99 (CP000325.1) and M. vanbaalenii PYR-1 (CP000511.1).

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Open Data