Table 2. The 20 most up-regulated and 20 most down-regulated intestinal IEL transcript levels in C. perfringens/E. maxima co-infected Ross chickens compared with uninfected controls.

Symbol	Entrez Gene Name	Fold Change	Location	Type(s)
Up-regulated
MMP7	Matrix metallopeptidase-7	45.476	Extracellular Space	Peptidase
LYG2	Lysozyme G-like 2	35.509	Extracellular Space	Enzyme
VCAM1	Vascular cell adhesion molecule 1	14.508	Plasma Membrane	Other
ATP13A4	ATPase type 13A4	12.263	Unknown	Transporter
BATF3	Basic leucine zipper transcription factor, ATF-like 3	11.368	Nucleus	Transcription Regulator
TAC1	Tachykinin, precursor 1	9.837	Extracellular Space	Other
C3	Complement component 3	9.8	Extracellular Space	Peptidase
SOCS1	Suppressor of cytokine signaling 1	9.571	Cytoplasm	Other
LAG3	Lymphocyte-activation gene 3	9.217	Plasma Membrane	Transmembrane Receptor
GLDC	Glycine dehydrogenase (decarboxylating)	8.991	Cytoplasm	Enzyme
IL21R	Interleukin 21 receptor	8.101	Plasma Membrane	Transmembrane Receptor
RRM2	Ribonucleotide reductase M2	7.797	Nucleus	Enzyme
SAMHD1	SAM domain and HD domain 1	7.729	Nucleus	Enzyme
MIS12	MIS12, MIND kinetochore complex component, homolog (S. pombe)	7.474	Nucleus	Other
CSF2RA	Colony stimulating factor 2 receptor, alpha, low-affinity (granulocyte-macrophage)	7.444	Plasma Membrane	Transmembrane Receptor
IRG1	Immunoresponsive 1 homolog (mouse)	7.171	Unknown	Other
MDFI	MyoD family inhibitor	7.161	Cytoplasm	Other
TRAIP	TRAF interacting protein	7.09	Cytoplasm	Other
SFTPA1	Surfactant protein A1	7.003	Extracellular Space	Transporter
SMC2	Structural maintenance of chromosomes 2	6.872	Nucleus	Transporter
Down-regulated
C13orf15	Chromosome 13 open reading frame 15	−104.868	Cytoplasm	Other
AGXT2L1	Alanine-glyoxylate aminotransferase 2-like 1	−70.677	Unknown	Enzyme
CMBL	Carboxymethylenebutenolidase homolog (Pseudomonas)	−28.026	Unknown	Enzyme
HES6	Hairy and enhancer of split 6 (Drosophila)	−25.238	Nucleus	Transcription Regulator
RBPMS2	RNA binding protein with multiple splicing 2	−22.282	Unknown	Other
S100B	S100 calcium binding protein B	−17.322	Cytoplasm	Other
SERPINF1	Serpin peptidase inhibitor, clade F (alpha-2 antiplasmin, pigment epithelium derived factor), member 1	−17.216	Extracellular Space	Other
SERPINB2	Serpin peptidase inhibitor, clade B (ovalbumin), member 2	−16.241	Extracellular Space	Other
BBOX1	Butyrobetaine (gamma), 2-oxoglutarate dioxygenase (gamma-butyrobetaine hydroxylase) 1	−15.873	Cytoplasm	Enzyme
RHAG	Rh-associated glycoprotein	−13.518	Plasma Membrane	Peptidase
CXCL14	Chemokine (C-X-C motif) ligand 14	−13.029	Extracellular Space	Cytokine
MYL10	Myosin, light chain 10, regulatory	−12.77	Cytoplasm	Other
TMEM199	Transmembrane protein 199	−12.112	Unknown	Other
ANXA1	Annexin A1	−11.609	Plasma Membrane	Other
NRG4	Neuregulin 4	−11.399	Extracellular Space	Growth Factor
ALDH1A1	Aldehyde dehydrogenase 1 family, member A1	−10.85	Cytoplasm	Enzyme
RNF152	Ring finger protein 152	−10.558	Cytoplasm	Enzyme
COL1A2	Collagen, type I, alpha 2	−10.196	Extracellular Space	Other
SYNM	Synemin, intermediate filament protein	−9.059	Cytoplasm	Other
CALB1	Calbindin 1, 28 kDa	−8.966	Cytoplasm	Other