Table 2

Predicted functions of genes present in W22703 and absent in 8081

Transporter

Contig


amino acids ABC transporters

1812, 1658§, 1393, 1802*, 1162*, 1660§, 1186, 1757

PTS

1973§, 1884

major facilitator superfamily

1950§, 1885

permeases

1802, 1240, 1885§, 1996

sodium/bile acid symporter family

1785§

efflux transporter, RND family

1328

divalent cation transporter

1165

iron complex transport system substrate-binding protein*

1360

magnesium transporter

1165


Bioenergetic proteins

Contig

cytochrome-c protein

1186, 1976§

nitrate reductase

1976§


Conjugation/replication

Contig

conjugation transfer protein, TraD family§

1170

MobA/MobL-like protein§

1170

type IV prepilin§

1170§

chromosome segregation ATPase

1804


Metabolism

Contig

amidase, hydantoinase/carbamoylase family protein

1812

serine-pyruvate transaminase

1812

serin protease

2008

transferase

1022

zinc-dependent protease

1432

tagatose-6-phosphate metabolism

1973

prolyl endopeptidase

1967§

oxidoreduktase

1963§

format hydrogenlyase

1947

acetamidase/formamidase

1186

multisensor hybrid histidine kinase

1807

iron-sulfur cluster repair di-iron protein

1794

GCN5-like N-acetyltransferases

1764, 1785§

L-carnitine-dehydratase*

1314

sucrose catabolism§

1240

glycogen phosphorylase

1240

FAD-dependent pyridine-nucleotide-disulphid-oxidoreductase

1218

anaerobic dimethyl-sulfoxide-reductase

1186

nitrilase/cyanid-hydratase/apolipoprotein N-acyltransferase

1186

thiol-disulfid exchange protein

1976§

carbonic-anhydrase§

1116

purine catabolism protein

1812

NAD-dependent aldehyde-dehydrogenase

1764§


Cell wall biogenesis or surface proteins

Contig

flagella gene cluster II*

1803, 1891

outer membrane protease

1116

small integrale membrane protein§

1246

perosamine synthetase

1162

surface antigen

1162

outer membrane protein

1802, 1177

pertactin-like protein

1146

TonB-dependent heme receptor

1757

phosphatidylinositol-diacylglycerol-lyase

1423

uridine-diphosphatoacetylglucosamine epimerase

1878

pili biogenesis and assembly

1847, 1393, 1882

cell wall-associated hydrolases

1386§, 1192

integral membrane protein CcmA

1766

lipopolysaccharide synthesis

1162, 1878

extracellular ligand-binding receptor

1186

lipoprotein

1803


Defense mechanisms/toxins

Contig

T3SS*

1804, 1807

bile salt/choloylglycin hydrolase (bsh)

1088

toxin-antitoxin system

1946, 1930

zonula occludens-toxin

1920

Rtx cluster rtxH, rtxC, rtxA

1867§

autotransporter cluster

1177

insecticidal toxins (TC-PAIYe)

1579, 1975, 1854, 1855, 1856

small toxic polypeptide

1810

hemolysin; hemolysin activator protein

1785

colicin-E2/pyocin S2 immunity protein operon

1216

antibiotic acetyltransferase

1885§, 1921


Proteins for DNA/RNA regulation and processing

Contig

transcriptional regulator

1088*, 1894, 1885, 1825§, 1835§(2), 1764, 1557§, 1200§, 1171§, 1885(2) §, 1891, 1803, 1802

RpiR-like transcriptional regulator

1812

CRP/FNR family transcriptional regulator*

1088

LuxR-like transcriptional regulator

1921

negative regulator of β-lactamase expression

1384

response regulator receiver protein

1367, 1186

methyltransferase

1835, 1170

DNA topoisomerase

1958, 1225

helix destabilizing protein

1920

superfamily I DNA helicase

1825

methionyl-tRNA-formyltransferase

1162

transcription repressor

1920

filamentation induced by cAMP protein Fic

1088

sensor protein with MASE1 domain

1432

NTP-binding protein

1116, 1170, 1897, 1882, 1763, 1760, 1837


Others

Contig

plasmid stabilisation system*

1835

resolvase

1404, 1835

secreted protein

1211, 1456

prophage region

1280, 1796,1920*


*absent in all Yersinia species sequenced until 12/2010

§absent in Y. pestis and Y. pseudotuberculosis, but present in other Yersinia species

Fuchs et al. BMC Genomics 2011 12:168   doi:10.1186/1471-2164-12-168

Open Data