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 5

An analysis compared the 3 dpi syncytia undergoing an incompatible reaction directly to the 3 dpi compatible syncytium samples. Selected genes that were unique to the 3 dpi syncytia undergoing a compatible reaction but that were not differentially expressed as compared directly to the 3 dpi incompatible syncytium samples (Figure 8(h)) comprising the Disease and Defense, Signaling, and Transcription categories.

C-3 dpi genes in the comparison of I-3 dpi to C-3 dpi

Probe set IDPublic IDAvg 𝑃 -valueGene

Disease & defense

GmaAffx.36484.1.S1_s_atBI4254410.001672877PR1a
Gma.6091.1.S1_atAW3107620.00221961haem peroxidase
Gma.2523.1.S1_s_atCA8524400.002747901R 14 protein
GmaAffx.85114.1.S1_s_atAW7608440.003021268Malus major allergen (Mal d 1.07)
Gma.4312.3.S1_a_atBF4242400.003822926glutathione peroxidase (GSH-PX3)
Gma.257.2.S1_a_atCD4003640.005553929cysteine proteinase inhibitor
GmaAffx.36514.1.S1_atBE6583410.005553929cationic peroxidase
Gma.6299.3.S1_atBU5477010.00603523selenium binding protein
GmaAffx.92699.1.S1_s_atCF8084240.006308596PR-5 protein
Gma.5141.1.S1_atBI9711020.007667593laccase 3 (LAC3)
Gma.9504.1.S1_atCA8031300.007680178plant disease resistance response protein
Gma.18084.1.S1_atBI3175570.008396837RESPIRATORY BURST OXIDASE HOMOLOG (ATRBOHB)
Gma.8144.1.A1_atBU5485990.009323331cationic peroxidase
GmaAffx.11893.1.A1_atCD4141880.01212639regulator of chromatin condensation-1 (RCC1)
Gma.4077.1.S1_atCD4141180.012696314ASR protein
Gma.7257.2.S1_atBG1554890.016427052soluble epoxide hydrolase
GmaAffx.71331.1.S1_atAW5971010.018428453galactosyltransferase family protein
GmaAffx.52146.1.S1_atCA9349660.028086024PATHOGENESIS-RELATED 4 (PR4)
Gma.9638.1.A1_atCA9364030.029056963ADR6

Signal transduction

GmaAffx.92136.1.S1_s_atCF8074510.001672877Curculin-like (mannose-binding) lectin protein kinase
Gma.6338.1.S1_atAI4427750.001946244protein phosphatase 2C (PP2C)
Gma.3893.1.S1_atU44850.10.002298236Arabidopsis thaliana Homolog of the Tobacco ArcA (ATARCA)
Gma.4228.1.S1_atAI8567640.002298236RelA-SpoT like protein (RSH3)
Gma.13033.1.A1_a_atCD3927950.002298236calcium-dependent calmodulin-independent protein kinase (CDPK)
Gma.6709.1.S1_atBE8232910.002747901CBL-interacting protein kinase 22
Gma.10697.2.S1_atAW4241510.003591192protein phosphatase 2A catalytic subunit
Gma.11006.1.S1_s_atAW7062040.00492857CBL-interacting protein kinase
Gma.6359.1.S1_atCD3984810.005201937caltractin-like
GmaAffx.92229.1.S1_s_atCF8063810.00555392914-3-3 protein
Gma.4507.1.S1_atBG6532550.006308596leucine-rich repeat protein
Gma.568.1.S1_atBI9679840.007110254LRR receptor-like protein kinase
GmaAffx.90655.1.S1_s_atCF8063800.00768017814-3-3-like protein C (SGF14C)
GmaAffx.91570.1.A1_s_atCF8077320.008019584JUN-activation-domain-binding protein
Gma.4049.1.S1_atBQ7865190.008184263 wall-associated kinase (WAK-like kinase)
Gma.3083.1.S1_atBE4744660.008396837BAK1 (BRI1-ASSOCIATED RECEPTOR KINASE)
Gma.7517.1.S1_atBU5482720.009290923protein kinase
GmaAffx.25928.1.S1_atCD4140130.012305657WD-40 repeat protein
Gma.15907.1.A1_atCD4071540.014307059leucine-rich repeat protein
Gma.3852.1.S1_atCD3991040.014771313serine/threonine-protein phosphatase PP1
GmaAffx.57055.1.S1_atAW2034110.015413718Arabidopsis thaliana MAP kinase 2 (ATMPK20)
Gma.10215.1.S1_a_atAY263347.10.016307345 Pti1-like kinase
GmaAffx.85565.1.S1_atBE6110820.018428453calcium-dependent protein kinase 29 (CPK29)
Gma.7177.2.A1_a_atBI4253720.018428453Cdc2-related protein kinase (CRK2)
GmaAffx.35805.2.S1_atBF3241780.019563038MAP3K delta-1 protein kinase-like
Gma.10798.1.S1_atCD4011680.019563038protein phosphatase 2A (PP2A)
Gma.2314.1.S1_atAW3103850.019678474ARABIDOPSIS FUS3-COMPLEMENTING GENE (AFC2)
Gma.1517.2.S1_a_atBE0598590.019951841calcium dependent calmodulin independent protein kinase (CDPK)
Gma.6123.1.S1_atAW3498000.020669698VERNALIZATION INDEPENDENCE 3 (VIP3)
GmaAffx.69025.1.S1_atBM2711950.020753499RIO kinase
GmaAffx.62926.1.S1_atBE8049490.020828644extra-large GTP-binding protein 3 (XLG3)
GmaAffx.40750.1.S1_s_atBG3524690.022028694protein phosphatase 2A regulatory subunit (PP2A)
GmaAffx.44305.1.S1_atBU5513930.022830045transmembrane protein
Gma.3185.2.S1_atBM8907150.023684433leucine-rich repeat transmembrane protein
Gma.11015.1.S1_atCD3981100.023684433leucine-rich repeat transmembrane protein
GmaAffx.15664.1.S1_atBE6076420.024040827leucine-rich repeat transmembrane protein
Gma.1423.1.S1_s_atAI9600450.024040827BRASSINAZOLE-RESISTANT 1 (BZR1)
Gma.4044.1.S1_atBE8212330.025399823Pescadillo-like
GmaAffx.89525.1.S1_s_atCK6065170.027055562protein phosphatase 1 (PP1)
Gma.7387.1.A1_a_atCD3969100.027055562pseudo-response regulator
Gma.5722.1.S1_atBU5462280.029056963Ste20-related protein kinase
Transcription

Gma.1538.1.S1_a_atAW3511150.002298236salt tolerance protein 6
Gma.12279.1.A1_atCD3978260.00337326basic helix-loop-helix (bHLH)
Gma.5331.1.S1_atBI8927020.004307852no apical meristem (NAM) protein NAC4
Gma.593.2.S1_x_atCA8002860.00492857MYB transcription factor (MYB173)
GmaAffx.5069.2.A1_atBM1215650.005201937basic-leucine zipper (bZIP111)
GmaAffx.50673.1.S1-atBF4257420.005679433no apical meristem (NAM) protein (NAC)
GmaAffx.93436.1.A1-s-atCF8091610.007680178AP2/EREBP transcription factor ERF-2
GmaAffx.38951.1.S1_atBI3220980.008396837basic-leucine zipper (bZIP)
Gma.16172.1.S1_atCD4116270.009049965CONSTANS-LIKE 13
Gma.3730.2.S1_a_atBI3208460.009290923WRKY27
Gma.15862.1.S1_atBI9705930.009323331pathogenesis-related transcriptional factor and ERF
Gma.2702.2.S1_atAI8555870.010649919no apical meristem (NAM) protein
Gma.163.1.S1_atAB029269.10.014076915MYB transcription factor (MYB12)
Gma.16613.1.S1_s_atBU7606510.014307059zinc finger
GmaAffx.81234.1.A1_atBE8237650.014307059MYB-TRFL8 (TRF-LIKE 8)
GmaAffx.15471.1.S1_atBQ6117470.014526581MYB transcription factor (MYB139)
Gma.17432.1.S1_s_atAW2777830.015813164RNA polymerase subunit (RPB5)
Gma.13174.1.S1_s_atCD4146860.016772715aux/IAA protein (IAA13)
GmaAffx.71523.1.S1_atBU5440120.01738237Polycomb group-NAP1-RELATED PROTEIN 1 (NRP1)
Gma.15460.1.S1_atCD4034960.018032044ethylene-induced calmodulin binding protein (EICBP.B)
GmaAffx.92212.1.A1_s_atCF8079370.018428453MYB transcription factor (MYB92)
Gma.5483.1.S1_s_atCD4145810.019563038basic-leucine zipper (bZIP105)
Gma.7891.1.S1_atAW3106250.020753499basic helix-loop-helix
Gma.3632.1.A1_atBI3169500.020828644zinc finger protein
Gma.17664.1.S1_atAW3489170.020828644zinc finger (DHHC type) family protein
Gma.752.1.A1_atAW4324630.022830045helix-loop-helix DNA-binding
Gma.7341.1.A1_s_atCA9533500.022830045aux/IAA protein (IAA3)
GmaAffx.44143.1.S1_atBU5477300.023684433CCR4-Not complex component (Not1)
GmaAffx.50295.1.S1_atBI4241230.024040827zinc finger (C2H2 type, AN1-like)
GmaAffx.76537.1.S1_atCD4164170.025399823MYC1
Gma.5274.1.S1_atBM1784260.025399823transcription factor EIL2
GmaAffx.91768.1.S1_s_atCF8074930.031457154WRKY27
Gma.6571.2.S1_a_atBE1916210.031457154transcription initiation factor IIA (TFIIA)
Gma.4281.1.S1_atAW1563480.037684072WRKY
Gma.15184.1.S1_atBM5229920.037684072homeobox-leucine zipper protein 22 (HAT22)