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. 2016 Jun 3;11(6):e0156649. doi: 10.1371/journal.pone.0156649

Table 2. Potential S. glomerata immune and immune related ORFs determined by GO and/or InterProScan annotation.

# of ORFs Details
Pattern recognition receptors (PRRs)
peptidoglycan recognition proteins (PGRPs) 23
gram-negative bacteria binding proteins (GNBPs) 3
Collectins 53
Ficolins 30
c-type lectins 110
macrophage mannose receptors 237
scavenger receptors (SRs) 26 based on domain information in [56]
thioester-containing proteins (TEPs) 31
fibrinogen-related proteins (FREPs) 40
down syndrome cell adhesion molecule (DSCAM) 11
Galectins 20
Toll-like receptors (TLRs) 220
interferon-induced helicase c domain-containing protein 1 (MDA5)/(also RIG-I called) DDX58 22
stabilin-2 3
Immune signaling pathways
myeloid differentiation primary response protein 88 (MyD88) 14
sterile alpha and TIR domain containing protein (SARM1) 3
IL-1R-associated kinase (IRAK) 1
tumor necrosis factor [TNF] receptor-associated factor (TRAF) 31 TRAF7 (8), TRAF6 (3), TRAF2 (3), TRAF4 (3), TRAF3 (1), TRAF6-like isoform 1 (1)
inhibitor of nuclear factor kappa-b kinase (IKK) 6
transforming-growth-factor [TGF]-β-activated kinase 1 (TAK1, also called MEKK7) 6
TAK1-binding protein (TAB1) 3
TAK1-binding protein 2 (TAB2) 2
nuclear factor [NF]-κB essential modulator (NEMO) 2
TRAF-family-member-associated NF-κB activator-binding kinase 1 (TBK1) 13
inhibitor of nuclear factor-κB (IκB) 4
nuclear factor of kappa light polypeptide gene enhancer in b-cells 2, p49/p100 (NFκB2) 2
activator protein 1 (AP-1) 1
interferon regulatory factor (IRF) 7
janus activated kinase (JAK) 2
signal transducer and activator of transcription (STAT) 4
mitogen-activated protein kinases (MAPK) 13 MAPK3 (1), MAPK14 (4), MAPK15 (2), MAPK6 (3) and MAPK7 (1)
mitogen-activated protein kinase kinase (MEK also called MKK) 11
mitogen-activated protein kinase kinase kinase (MAP3K or MEKK) 34 MEKK1 (2), MEKK19 (8), MEKK2 (1), MEKK10 (1), MEKK15 (1), MEKK9 (1), MEKK13 (2)
mitogen-activated protein kinase kinase kinase MLT-like isoform 1 (also called ZAK isoform 1) 1
mitogen-activated protein kinase kinase kinase kinase (MAP4K) 10 MAP4K3 (6) and MAP4K5 (4)
receptor-interacting protein 1 (RIP1) 3
Pellino 2
toll-interacting protein (TOLLIP) 1
suppressor of cytokine signaling (SOCS) 5
NF-kappa-B inhibitor-like protein 1 (NFKBIL1) 1
interleukin-1 receptor-associated kinase 1-binding protein 1 (IRAK1BP1) 1
mitochondrial antiviral-signaling protein (MAVS) 1
nuclear factor of activated T-cells (NFAT) 1
c-jun-amino terminal kinase-interacting protein 4 (JIP4) 12
c-jun-amino terminal kinase-interacting protein 1 (JIP1) 1
endogenous ligands
fibrinogen (α/β/γ-chain) 8
heat shock protein [Hsp]20 family 13
Hsp70 family 40
Hsp90 family 25
Hsp60 2
Hsp10 1
stress-induced-phosphoprotein 1 (STIP1) 2
intraflagellar transport protein 25 homolog (Hspb11) 2
Hypoxia-inducible factors (HIFs)
HIF-1α / HIF-2α 6
HIF-1β 2
hypoxia-inducible factor 1-α inhibitor (HIF1AN) 1
prolyl hydorxylases (PHD) 2
p300 / CREB-binding protein (CBP) 13
Immune effectors
Antioxidant defence system/phagocytosis
superoxide dismutase (SOD) 25 with mitochondrial manganese-SOD domains (4) and copper/zinc-SOD domains (21)
catalase (CAT) 7
glutathione peroxidase (GPX) 7
nitric oxide synthase (NOS) 2
Thioredoxin 6
thioredoxin reductase 4
Peroxiredoxin 11
Glutaredoxin 6
glutathione S-transferase (GST) 53
glutathione synthase (GS) 2
glutamate—cysteine ligase regulatory subunit 1
glutamate—cysteine ligase catalytic subunit 3
methionine sulfoxide reductase A 3
methionine-R-sulfoxide reductase B3 4
glutathione reductase (mitochondrial) 1
NADPH oxidase (NOX) 4
p67phox 1
cytochrome b-245 heavy chain-like (gp91phox) 1
cytochrome b-245 light chain-like (p22phox) 1
dual oxidase (DUOX) 7
small GTPase Rac 2
evolutionarily conserved signaling intermediate in toll pathways, mitochondrial (ECSIT) 1
Cathepsin 59 cathepsin B (9), F (3), L (17), C (1), O (2), Z (1), D (3)
Lysozymes 16
Antimicrobial peptides
big defensins 5
Hydramacin 1
bactericidal permeability increasing protein (BPI) 27
cytokines and cytokine receptors
macrophage migration inhibitory factor (MIF) 3
interleukin [IL]-17 3
interleukin-17 receptor d 5
interleukin-6 receptor 12
Others
Septin 7
c4b-binding protein alpha/beta chain 8
Apoptosis
FAS-associated death domain protein (FADD) 3
TNF receptor superfamily members 9
TNF superfamily members 8
apoptosis-inducing factor 1, mitochondrial (AIF) 1
Bax 2
Caspases 114
baculoviral IAP repeat-containing proteins (IAPs) 75
direct IAP-binding protein of low isoelectric point (DIABLO) 4
interferon alpha-inducible protein 27 (IFI27) 25