Brucella microti: the genome sequence of an emerging pathogen

Audic, Stéphane; Lescot, Magali; Claverie, Jean-Michel; Scholz, Holger C

doi:10.1186/1471-2164-10-352

Table 2 Differentiating genes in the genomes of B. suis 1330 and B. microti.

From: Brucella microti: the genome sequence of an emerging pathogen

B. microti ID	status in B. microti	B. suis 1330 ID	status in B. suis 1330	status in B. ovis ATCC 25840	status in B. suis ATCC 23445	status in B. abortus S19	status in B. melitensis biovar Abortus 2308	status in B. abortus biovar 1 str. 9–941	status in B. melitensis 16M	status in B. canis ATCC 23365	status in O. anthropi ATCC 49188	Annotation/comment
Genes impaired in all other Brucella
BMI_I149	+	BR0146	fs	fs	fs	fs	fs	fs	fs	fs	+	BMI_I149 ortholog is pseudogene BR0146, malate dehydrogenase (oxaloacetate-decarboxylating) (NADP(+)), phosphate acetyltransferase
BMI_I1566	+	BR1552	fs	fs	fs	fs	fs	fs	fs	fs	+	BMI_I1566 ortholog is pseudogene BR1552, aspartyl/asparaginyl beta-hydroxylase
BMI_I1599	+	BR1586	* (2)	*, fs	* (1)	* (2)	*(2)	*(2)	* (1)	*(2)	+	BMI_I1599 ortholog is pseudogene BR1586, extracellular solute-binding protein family 5, DppA
BMI_II978	+	BRA0985	*	*	*	*	*	*	*	*	+	BMI_II978 ortholog is pseudogene BRA0985, transcriptional regulator, MarR family
Gene shorter in other Brucella
BMI_I2199	+	BR2178	smaller	smaller	smaller	smaller	smaller	smaller	smaller	smaller	+	BMI_I2199 orthologs in other brucella are smaller, hydrolase
Genes impaired in almost all other Brucella
BMI_I135	+	BR0132	fs	+	fs	fs	fs	fs	fs	fs	+	BMI_I135 ortholog is pseudogene BR0132, ATP- dependent helicase HrpB
BMI_I947	+	BR0949	*	*	*	+	*	*	*	*	+ (diff)	BMI_I947 ortholog is pseudogene BR0949, membrane protein involved in aromatic hydrocarbon degradation
BMI_I1332	+	BR1320	*	fs	+	*	*	*	*	*	+	BMI_I1332 ortholog is pseudogene BR1320, sarcosine dehydrogenase
BMI_II122	+	BRA0122	* (small insert)	+ (small insert)	* (small insert)	Mult. fs (small insert)	Mult. fs (small insert)	fs (small insert)	fs (small insert)	* (small insert)	+ (small insert)	BMI_II122 ortholog is pseudogene BRA0122, flagellar motor switch protein FliG
Glutamate metabolism
BMI_II334	+	BRA0338	*	+ (diff at the beg.)	+	*(2)	*(2)	*(2)	*	*	NF	BMI_II334 ortholog is pseudogene BRA0338, glutamate decarboxylase beta
BMI_II335	+	BRA0339	fs	fs	fs	+	+	+	+	fs	NF	BMI_II335 ortholog is pseudogene BRA0339, glutamate/gamma-aminobutyrate antiporter
BMI_II1124	fs	BRA1118	+	+	+	+	+	+	+	+	+	pseudogene BMI_II1124 ortholog is BRA1118, N- acetylglucosamine kinase
BMI_II715	+	BRA0722	+	fs	+	+	+	+	+	+	+	BMI_II715 ortholog is pseudogene BRA0722, proline dehydrogenase/delta-1-pyrroline-5-carboxylate dehydrogenase
Membrane proteins
BMI_I75	+	BR0072	Mult. diffs	Mult. diffs	Mult. diffs	Mult. diffs	Mult. diffs	Mult. diffs	Mult. diffs	Mult. diffs	NF	B. microti gene is larger, outer membrane protein, quite variable among brucella
BMI_I1045	+	BR1042	fs	fs	fs	+	+	+	+	fs	+	BMI_I1045 ortholog is pseudogene BR1042, mechanosensitive ion channel family protein
BMI_I1334	+	BR1322	fs	fs	+	+	+	+	+	fs	diff	BMI_I1334 ortholog is pseudogene BR1322, MscS mechanosensitive ion channel
BMI_II170	+	BRA0172/BRA0173	Mult. diffs	Mult. diffs	Mult. diffs	Mult. diffs	Mult. diffs	Mult. diffs	Mult. diffs	Mult. diffs	Mult. diffs	BMI_II170 outer membrane autotransporter, similar to mes:Meso_3532
BMI_II422	+	BRA0425	*	+	*	NF	NF	NF	+	*	+	BMI_II422 ortholog is pseudogene BRA0425, hypothetical protein
BMI_II547	+	BRA0553	premature *	fs	+	NF	NF	NF	+	premature *	NF	BMI_II547 hemagglutinin ortholog is BRA0553, which is shorter than its B. microti counterpart.
BMI_I1862	+	BR1846	fs	Diff.	fs	fs	fs	fs	fs	Diff. in the middle	NF	B. microti gene BMI_I1862 is longer than BR1846, hypothetical protein

For each gene, we indicate its status in the other Brucella and O. anthropi. This table only includes the genes that are discussed in the text. A more extensive version of this table is given as Additional file 7.
Abbreviations include: * for internal stop, a number indicates multiple stops, fs for frameshift, + for an intact sequence, Mult. Diffs for multiple difference, Mult. Fs for multiple frameshifts, NF for not found.

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