TABLE 1.

Pools that were found to be PCR and/or culture positive

Habitat	Speciesa	Organb	No. of animals/pool	PCR positive	Culture positive (ITM no.)	Identification of culture isolates	Identification method usedc
							PhI	16S rRNA	ITS-1
Wet field	C. hirta	MLN	5	Yes	No	NAd
Wet field	G. surdaster	Spleen	5	Yes	No	NA
Wet field	M. natalensis	Lung	5	No	05001105	M. intracellulare	x	x	x
Wet field	M. natalensis	MLN	5	No	05001106	Mycobacterium sp. strain IWGMT 90093	x	x
Wet field	M. natalensis	Lung	6	No	04000693	M. arupense	x	x
Wet field	M. natalensis	Lung	5	Yes	No	NA
Wet field	M. natalensis	Lung	1	Yes	No	NA
Dry field	C. hirta	Lung	1	No	04001436	Mycobacterium sp. strain JLS	x	x
Dry field	M. natalensis	Lung	5	Yes	No	NA
Dry field	M. natalensis	Spleen	6	Yes	No	NA
Dry field	M. natalensis	Liver	5	Yes	No	NA
Dry field	T. vicina	MLN	6	Yes	No	NA
Urban	C. gambianus	Spleen	4	No	04002873	M. parascrofulaceum	x	x
Urban	C. gambianus*	Liver	4	Yes	04001190	M. arupense	x	x
Urban	C. gambianus*	MLN	4	No	04002874	M. chimaera	x	x	x
Urban	C. gambianus*	Lung	4	Yes	No	NA
Urban	C. gambianus	Lung	4	Yes	No	NA
Urban	C. hirta†	Lung	1	Yes	No	NA
Urban	C. hirta†	MLN	1	Yes	No	NA
Urban	M. musculus	Spleen	4	Yes	No	NA
Urban	M. musculus	Spleen	3	Yes	No	NA

^a*, the pool of livers, the pool of mesenteric lymph nodes, and the pool of lungs originated from the same group of animals; †, the lungs and mesenteric lymph nodes originated from the same animal.

^bMLN, mesenteric lymph nodes.

^cPhI, phenotypic identification; 16S rRNA, 16S rRNA gene sequencing; ITS-1, 16S-23S rRNA gene internal transcribed spacer 1 sequencing.

^dNA, not applicable.