Phylogenomic and Molecular Demarcation of the Core Members of the Polyphyletic Pasteurellaceae Genera Actinobacillus, Haemophilus, and Pasteurella

Table 2

Conserved signature indels specific for genera within the family Pasteurellaceae.

Protein name	Gene name	GenBank identifier	Figure number	Indel size	Indel position^a
(A) CSIs specific for Actinobacillus sensu stricto
3′-nucleotidase	surE	126208128	Figure 2	1 aa ins	367–402
GTP pyrophosphokinase	relA	126207889	Sup. Figure	1 aa ins	368–412
Anaerobic glycerol-3-phosphate dehydrogenase subunit	glpA	491834528	Sup. Figure	1 aa ins	359–400
(B) CSIs specific for Haemophilus sensu stricto
Biotin-protein ligase	birA	144979005	Figure 3	6 aa del	138–178
Aspartate ammonia-lyase	aspA	145630289	Sup. Figure	1 aa ins	34–75
NAD(P) transhydrogenase subunit alpha	pntA	145631394	Sup. Figure	1 aa del	352–378
Fumarate reductase subunit C	frdC	301169552	Sup. Figure	3 aa ins	31–89
Hypothetical tRNA/rRNA methyltransferase	—	145636352	Sup. Figure	1 aa del	17–58
Gamma-glutamyl kinase	proB	145629980	Sup. Figure	1 aa ins	197–253
ACP phosphodiesterase	acpD	68250119	Sup. Figure	2 aa del	119–159
(C) CSIs specific for Pasteurella sensu stricto
Menaquinone-specific isochorismate synthase	menF	386834899	Figure 4	4 aa ins	29–86
tRNA s(4)U8 sulfurtransferase	thiI	15602400	Sup. Figure	2 aa del	412–446
FKBP-type peptidyl-prolyl cis-trans isomerase	slyD	378775595	Sup. Figure	2 aa del	151–188
Aspartate-semialdehyde dehydrogenase	asd	383311492	Sup. Figure	1 aa del	173–245
Lactate permease family transporter	lldP	492154065	Sup. Figure	2 aa ins	390–427
Cell division protein ftsA	ftsA	492155843	Sup. Figure	1 aa ins	357–387
(D) CSIs specific for Aggregatibacter
nhaC family sodium:proton antiporter	nhaC	493769836	Figure 5(a)	3 aa ins	396–437
Outer membrane protein	omp	261866907	Sup. Figure	4 aa del	25–64
Multidrug transporter murJ	murJ	365966332	Sup. Figure	1 aa del	190–220
NADH dehydrogenase	nuoE	387120244	Sup. Figure	1 aa ins	372–412
(E) CSIs specific for Mannheimia
Methyl-galactoside ABC transporter substrate-binding protein	—	472335016	Figure 5(b)	1 aa del	33–73
UDP-N-acetylmuramoylalanyl-D-glutamate–2,6-diaminopimelate ligase	murE	472333011	Sup. Figure	2 aa del	418–473
Glutathione-regulated potassium-efflux protein	kefC	472333189	Sup. Figure	1 aa ins	504–531
Glycerol-3-phosphate acyltransferase	plsB	472334521	Sup. Figure	2 aa del	214–252