Table 1 SNPs significantly associated with classification as MBO by Simultaneous statistical test

147,873

0

1

4100

2250

9

3

Intergenic, upstream of elongation factor G FusA2 (Rv0120c)

n/a

184,727

0

1

4100

2250

9

3

Rv0156

PntAb

Probable NAD(P) transhydrogenase (subunit alpha) PntAb [second part; integral membrane protein] (pyridine nucleotide transhydrogenase subunit alpha) (nicotinamide nucleotide transhydrogenase subunit alpha)

n/a

268,277

0

1

4100

2250

9

3

Rv0224c

Possible methyltransferase (methylase)

In vitro essential per multiple studies (Minato 2019; DeJesus 2017; Sassetti 2003; Griffin 2011)

277,862

0

1

4100

2250

9

3

Intergenic, downstream of FadE4 (Rv0231) and upstream of probable transcriptional regulatory protein (probably TetR/AcrR-family) (Rv0232)

n/a

438,069

0

1

1

2260

0

4100

Rv0359

Probable conserved integral membrane protein

n/a

1,234,657

0

1

4100

2250

9

3

Rv1108c

XseA

Probable exodeoxyribonuclease VII (large subunit) XseA (exonuclease VII large subunit)

n/a

1,390,284

0

-1

0

2260

2

4100

Rv1248c

Multifunctional alpha-ketoglutarate metabolic enzyme

In vitro essential per multiple studies (Minato 2019; Carvalho 2010; Sassetti 2003; Griffin 2011)

1,478,312

0

1

4100

2250

9

3

Rv1317c

AlkA

Probable bifunctional regulatory protein and DNA repair enzyme AlkA (regulatory protein of adaptative response) (methylphosphotriester-DNA–protein-cysteine S-methyltransferase)

n/a

1,499,291

0

1

4100

2250

9

4

Rv1330c

PncB1

Nicotinic acid phosphoribosyltransferase PncB1

n/a

1,586,961

0

1

1

2260

0

4100

Rv1410c

Aminoglycosides/tetracycline-transport integral membrane protein

Essential in murine macrophages (Rengarajan 2005) and murine spleen (Sassetti and Rubin 2003)

1,739,294

0

1

4100

2250

9

3

Rv1536

IleS

Isoleucyl-tRNA synthetase IleS

In vitro essential per multiple studies (Minato 2019; DeJesus 2017; Lamichhane 2003; Griffin 2011)

1,763,524

0

1

1

2260

0

4100

Rv1559

IlvA

Probable threonine dehydratase IlvA

In vitro essential (DeJesus 2017; Griffin 2011), non-essential in rich media (Minato 2019)

1,830,295

0

1

4100

2250

9

3

Rv1628c

Conserved protein

n/a

2,314,425

0

-1

0

2260

2

4100

Rv2056c

RpsN2

30S ribosomal protein S14 RpsN2

Disruption provides growth advantage (DeJesus 2017)

2,475,888

0

1

4100

2250

9

3

Rv2210c

IlvE

Branched-chain amino acid transaminase IlvE

In vitro essential (DeJesus 2017; Sassetti 2003; Griffin 2011), non-essential in rich media (Minato 2019)

2,528,773

0

1

4100

2250

9

3

Rv2254c

Probable integral membrane protein

n/a

2,658,676

0

1

4100

2250

9

3

Rv2379c

MbtF

Peptide synthetase MbtF (peptide synthase)

n/a

2,682,593

0

1

4100

2250

9

3

Rv2388c

HemN

Probable oxygen-independent coproporphyrinogen III oxidase HemN (coproporphyrinogenase) (coprogen oxidase)

Essential in murine spleen (Sassetti and Rubin, 2003)

2,912,516

0

1

4100

2250

9

3

Rv2585c

Possible conserved lipoprotein

n/a

2,927,291

0

1

4080

2250

9

21

Rv2598

Conserved hypothetical protein

n/a

3,140,153

0

1

4100

2250

9

4

Rv2833c

UgpB

Probable Sn-glycerol-3-phosphate-binding lipoprotein UgpB

Disruption provides growth advantage (DeJesus 2017)

3,143,890

0

-1

0

2260

2

4100

Rv2837c

Conserved protein

n/a

3,235,485

0

1

1

2260

0

4100

Rv2922c

Smc

Probable chromosome partition protein Smc

n/a

3,371,365

0

1

4100

2250

9

3

Rv3011c

GatA

Probable glutamyl-tRNA(GLN) amidotransferase (subunit A) GatA (Glu-ADT subunit A)

In vitro essential per multiple studies (Minato 2019; DeJesus 2017; Sassetti 2003; Griffin 2011)

3,534,980

0

1

4100

2250

9

3

Rv3166c

Conserved hypothetical protein

n/a

3,773,023

0

-1

0

2260

2

4100

Rv3361c

Conserved protein

n/a

3,877,256

0

1

4100

2250

9

3

Rv3456c

RplQ

50S ribosomal protein L17 RplQ

In vitro essential (Minato 2019; Griffin 2011), or mutant shows growth defect (DeJesus 2017)

3,904,490

0

1

4100

2250

9

3

Rv3484

CpsA

Possible conserved protein CpsA

Essential in murine spleen (Sassetti and Rubin, 2003)

3,922,919

0

-1

0

2260

1

4100

Rv3504

fadE26

Probable acyl-CoA dehydrogenase FadE26

n/a

4,157,578

0

1

4100

2250

9

3

Rv3712

Possible ligase

In vitro essential per multiple studies (Minato 2019; DeJesus 2017; Sassetti 2003; Griffin 2011)

4,171,113

0

1

4100

2250

9

3

Rv3725

Possible oxidoreductase

Disruption provides growth advantage (DeJesus 2017)

4,281,133

0

-1

0

2260

2

4100

Rv3816c

Possible acyltransferase

n/a