Research Article

Microarray Detection Call Methodology as a Means to Identify and Compare Transcripts Expressed within Syncytial Cells from Soybean (Glycine max) Roots Undergoing Resistant and Susceptible Reactions to the Soybean Cyst Nematode (Heterodera glycines)

Table 3

Select genes that were unique to the 8 dpi syncytia undergoing a compatible reaction but that were not differentially expressed as compared to a pericycle control sample (Figure 8(f)) comprising the Disease and Defense, Signaling, and Transcription categories.

3 C-8 dpi

Probe set IDPublic IDAvg 𝑃 -valueGene

Disease & defense

GmaAffx.91273.1.S1_s_atCF8059640.002747901wound-induced protein
Gma.4305.1.S1_atAW3506870.00337326haem peroxidase
GmaAffx.90134.1.S1_s_atCF8058590.004659843purple acid phosphatase-like protein
Gma.8512.1.S1_atAF236108.10.014307059purple acid phosphatase-like protein
Gma.7301.1.S1_atBM5282500.019563038gamma-glutamyl transferase
GmaAffx.78614.1.S1_atBQ6119910.019678474Suppressor-of-White-APricot splicing regulator
GmaAffx.59573.1.S1_atAW3509860.019951841purple acid phosphatase-like protein
GmaAffx.91519.1.S1_s_atCF8072440.027055562double-stranded DNA-binding protein
Gma.11154.1.S1_a_atAW3099270.031457154putative elicitor-responsive gene-3
GmaAffx.83232.1.S1_atBE0231280.037684072MILDEW RESISTANCE LOCUS O 10 (MLO10)

Signal transduction

Gma.1965.1.S1_x_atL01432.10.001946244calmodulin (SCaM-3)
GmaAffx.90377.1.S1_s_atCF8061020.001946244PP2A regulatory subunit
Gma.9902.1.A1_atAW3953280.002571602FUSCA 5 MAP kinase kinase (FUS5)
Gma.7517.1.S1_atBU5482720.002923594U box-containing protein kinase
Gma.17655.1.S1_atBE0572590.00492857calcium/calmodulin-dependent protein kinase
GmaAffx.50980.1.S1_atBE8230950.007394226protein phpsphatase 2C (PP2C)
Gma.4455.3.S1_atCB0636320.009290923PROTEIN KINASE 2B (APK2B)
Gma.5188.1.S1_atAW3494540.010397582protein phosphatase type-2C
Gma.9853.1.A1_atAW3503350.010397582LysM domain-containing receptor-like kinase 7
Gma.10515.1.S1_atBM5287010.011324733calmodulin-binding receptor-like cytoplasmic kinase 3 (CRCK3)
Gma.5304.2.S1_atCD4106570.01212639membrane-associated progesterone-binding protein 2 (ATMAPR2)
Gma.1068.1.S1_atL19360.10.013412317protein kinase 2
Gma.4631.1.S1_atBE8242100.013412974MITOGEN-ACTIVATED PROTEIN KINASE 1 (ATMPK1)
Gma.5722.1.S1_atBU5462280.013451556Ste20-related protein kinase
Gma.596.1.S1_atAF228501.10.01541371814-3-3-like protein
Gma.2222.1.S1_atCD4161680.015413718Inositol monophosphatase
GmaAffx.82748.1.S1_s_atBM0856040.016427052protein phosphatase 2C (PP2C)
GmaAffx.67957.1.S1_atBG1576220.016772715RhoGAP small G protein family protein
Gma.15250.1.S1_x_atAI8562280.016772715calmodulin
Gma.10649.1.S1_atBE6592560.016932704BRI1-associated receptor kinase 1
Gma.8364.1.S1_atBE6592260.016932704ARABIDOPSIS FUS3-COMPLEMENTING GENE (AFC1)
Gma.10697.2.S1_atAW4241510.01738237protein phosphatase 2A (PP2A) catalytic subunit
Gma.9706.1.S1_atBE6574000.018668953protein phosphatase 1 (PP1)
GmaAffx.65281.1.S1_atCA8198080.019563038transmembrane protein
Gma.2314.1.S1_atAW3103850.022040082ARABIDOPSIS FUS3-COMPLEMENTING GENE (AFC2)
Gma.10927.1.S1_atCD3989610.023684433root hair defective 3 (RHD3)
Gma.2471.1.S1_atAI9380290.025399823FUSCA PROTEIN (FUS6)
Gma.4629.1.A1_atCA8201950.028086024SGT1
GmaAffx.78968.2.S1_atBM1885870.030941813cysteine protease
Gma.1518.2.S1_a_atBM5246840.030941813cysteine protease
GmaAffx.19821.1.S1_atCA7825360.030941813protein kinase
Gma.4536.1.A1_atBI9454860.034312943receptor-like protein kinase

Transcription

GmaAffx.92861.1.S1_s_atCF8085860.002923594HMG-protein
Gma.1748.2.S1_a_atCA8203720.003591192no apical meristem (NAM) protein (NAC1)
Gma.17736.1.S1_atAW5985700.00603523zinc finger, C2H2-type
Gma.4165.1.S1_atBI9691430.007394226Homeodomain-related
Gma.6739.1.S1_s_atAI8560420.007667593RNA polymerase II (RPB15.9)
Gma.2844.1.S1_atBI9723780.008019584auxin-induced protein 2
Gma.2258.2.S1_a_atBG2372800.008396837pre-mRNA processing ribonucleoprotein (NOP5)
GmaAffx.54382.1.A1_atBE8075920.00846925calmodulin-binding transcription activator 4
GmaAffx.50673.1.S1_atBF4257420.009049965no apical meristem (NAM) protein
GmaAffx.41946.1.S1_atBM5283570.009290923helix-loop-helix DNA-binding
GmaAffx.78992.1.S1_atBU7608190.010397582HMG-I and HMG-Y DNA-binding protein
Gma.2465.1.S1_atCD3905770.010694912ARABIDOPSIS THALIANA HOMEOBOX PROTEIN 54 (ATHB54)
GmaAffx.42667.1.S1_atBU7611640.011051366SCARECROW-LIKE 1 (SCL1)
GmaAffx.66085.1.S1_atBQ6303990.011411572basic helix-loop-helix (bHLH)
Gma.4975.1.S1_atBI9701780.011756578zinc finger, CCCH-type; Zinc finger, RING-type
Gma.6838.1.S1_atAW3496330.011756578NIM1-like protein 1 (NPR-1)
GmaAffx.91768.1.S1_s_atCF8074930.013412317WRKY27
GmaAffx.81622.1.S1_atBM0931590.013412317bZIP transcription factor bZIP123
Gma.3609.1.S1_atCD3920100.013412317helix-loop-helix DNA-binding
GmaAffx.85579.1.S1_atBQ2733520.014307059lipoamide dehydrogenase-UNE12 (unfertilized embryo sac 12)
GmaAffx.60479.4.S1_atBG5073690.014307059BEL1-like homeodomain transcription factor
GmaAffx.24357.1.A1_atBU5448270.014526581zinc finger (DHHC type) family protein
Gma.7212.1.S1_atBE6581020.016772715SUPPRESSOR OF FRIGIDA4 (SUF4)
Gma.3632.1.A1_atBI3169500.016772715zinc finger protein
Gma.15748.1.A1_atAI9005300.017813909WRKY15
Gma.16645.1.S1_atBM1434290.017952293no apical meristem (NAM) protein (NAC2)
Gma.4225.1.S1_a_atAW3173870.018428453transcription initiation factor IID (TFIID)
Gma.1772.1.S1_atCD4060360.019678474transcription factor IIA (TFIIA)
Gma.16172.1.S1_atCD4116270.020429855CONSTANS-like B-box zinc finger
GmaAffx.65829.1.A1_atCD3924180.020669698pathogenesis-related transcriptional factor and ERF
Gma.4281.1.S1_atAW1563480.020669698WRKY
Gma.12798.1.S1_atCD3905010.020828644PHYTOCHROME A SIGNAL TRANSDUCTION 1 (PAT1)
GmaAffx.85720.1.S1_atCD4151930.022040082basic helix-loop-helix (bHLH)
GmaAffx.87860.1.S1_atBU0812750.023684433MYB transcription factor
Gma.11345.1.S1_atBE0240360.025230236MYB transcription factor (MYB92)
GmaAffx.41422.2.S1_atBI3218070.027055562PHD1
GmaAffx.552.1.S1_atBI7850200.027055562RNA polymerase dimerisation domain containing protein (Rpb3/Rpb11)
GmaAffx.37827.1.S1_atCD4149120.028086024gibberellic acid-insensitive mutant protein 1 (GAI1)/DELLA protein
GmaAffx.73813.1.S1_atBU5512660.029056963Arabidopsis NAC domain containing protein 104 (ANAC104/XND1)
GmaAffx.67609.1.S1_atBG5510130.029056963SAR DNA-binding protein-1
GmaAffx.91229.1.S1_s_atCF8069540.030941813AUXIN RESISTANT 3 (AXR3)
GmaAffx.1957.1.S1_atBM2712850.030941813WIP1 protein
Gma.4207.3.S1_a_atBE8048030.031457154MYB transcription factor (MYB48)