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Table 2 List of representative Arabidopsis orthologs of PS DEGs (nodes) forming subnetworks as shown in Fig. 6

From: Genome-wide transcriptional changes triggered by water deficit on a drought-tolerant common bean cultivar

DEG

Cluster

P. vulgaris ID

Arabidopsis ortholog gene

Gene symbol

Function

Up-regulated

Cell wall dynamics

Phvul.009G242700

AT5G44030

CESA4

Cellulose synthase A4; required for beta-1,4-glucan microfibril crystallization, a major mechanism of the cell wall formation

Phvul.009G090100

AT4G18780

IRX1

IRREGULAR XYLEM 1; required for beta-1,4-glucan microfibril crystallization, a major mechanism of the cell wall formation

Phvul.003G154600

AT5G17420

IRX3

IRREGULAR XYLEM 3; required for beta-1,4-glucan microfibril crystallization, a major mechanism of the cell wall formation

Phvul.008G029000

AT5G15630

IRX6

IRREGULAR XYLEM 6, a COBRA-like extracellular glycosyl-phosphatidyl inositol-anchored protein family involved in secondary cell wall biosynthesis

Phvul.006G065800

AT2G38080

IRX12

Laccase-4; required for secondary xylem cell wall lignification

Phvul.009G148800

AT3G18660

PGSIP1

Plant glycogenin-like starch initiation protein 1; glycosyltransferase required for the addition of both glucuronic acid and 4-O-methylglucuronic acid branches to xylan in stem cell walls

Phvul.001G021800

AT4G33330

PGSIP3

Plant glycogenin-like starch initiation protein 3; glycosyltransferase required for the addition of both glucuronic acid and 4-O-methylglucuronic acid branches to xylan in stem cell walls

Phvul.005G091200

AT5G54690

GAUT12

Galacturonosyltransferase 12; involved in pectin assembly and/or distribution, and in the synthesis of secondary wall glucuronoxylan

Phvul.007G026900

AT1G68560

XYL1

Alpha-xylosidase 1; glycoside hydrolase releasing xylosyl residues from xyloglucan oligosaccharides at the non-reducing end

Phvul.006G133700

AT5G49720

GH9A1

Endoglucanase 25; required for cellulose microfibrils formation. Involved in cell wall assembly during cell elongation and cell plate maturation in cytokinesis

Phvul.009G016100

AT1G75680

GH9B7

Endoglucanase 10, glycosyl hydrolase 9B7. Endohydrolysis of (1- > 4)-beta-D-glucosidic linkages in cellulose, lichenin and cereal beta-D-glucans

Phvul.007G218400

AT4G02290

GH9B13

Endoglucanase 17, glycosyl hydrolase 9B13. Endohydrolysis of (1- > 4)-beta-D-glucosidic linkages in cellulose, lichenin and cereal beta-D-glucans

Phvul.010G123100

AT3G14310

PME3

Pectinesterase 3; acts in the modification of cell walls via demethylesterification of cell wall pectin

Phvul.008G288800

AT4G12730

FLA2

Fasciclin-like arabinogalactan 2; may be a cell surface adhesion protein

Phvul.005G011900

AT3G10720

AT3G10720

Pectinesterase 25; acts in the modification of cell walls via demethylesterification of cell wall pectin

Phvul.009G252200

AT3G16850

AT3G16850

Pectin lyase-like superfamily protein

Phvul.006G028800

AT4G23820

AT4G23820

Pectin lyase-like superfamily protein

Cell cycle, signaling and cytoskeleton organization

Phvul.001G211000

AT1G02730

CSLD5

Cellulose synthase like D5; 1,4-beta-D-xylan synthase involved in stem and root growth

Phvul.009G017300

AT1G75780

TUB1

Tubulin beta; tubulin is the major constituent of microtubules

Phvul.009G114100

AT1G50010

TUA2

Tubulin alpha-2 chain; tubulin is the major constituent of microtubules

Phvul.007G047300

AT1G04820

TUA4

Tubulin alpha-4 chain. Encodes an alpha tubulin isoform, an structural constituent of cytoskeleton

Phvul.008G203300

AT2G26760

CYCB1;4

Cyclin B1;4, a G2/mitotic-specific cyclin-B involved in centrosome formation and ciliogenesis

Phvul.001G000500

AT1G20930

CDKB2;2

Cyclin-dependent kinase B2–2, regulation of G2/M transition of mitotic cell cycle

Phvul.003G293500

AT3G19050

POK2

Phragmoplast orienting kinesin 2; involved in the spatial control of cytokinesis by a proper phragmoplast guidance

Phvul.007G159100

AT2G37420

AT2G37420

ATP binding microtubule motor family protein; responsible for microtubule translocation

Phvul.006G052700

AT3G20150

AT3G20150

Kinesin motor family protein, ATP-dependent microtubule motor activity

Phvul.002G093500

AT1G70950

TPX2

Targeting protein for Xklp2; microtubule-associated protein (MAP) that regulates the orientation of interphase cortical microtubules

Phvul.001G028200

AT1G10200

WLIM1

LIM domain-containing protein WLIM1; binds to actin filaments and promotes cross-linking into thick bundles

Phvul.009G082500

AT2G26330

TE1

ERECTA; receptor kinase that, together with ERL1 and ERL2, regulates aerial architecture, including inflorescence and stomatal patterning

Phvul.007G063200

AT5G62230

ERL1

ERECTA-like 1; receptor kinase that regulates inflorescence architecture and organ shape as well as stomatal patterning, including density and clustering, together with ER and ERL2

Phvul.002G196200

AT5G46330

MPL12.8

FLAGELLIN-SENSITIVE 2; constitutes the pattern-recognition receptor (PPR) that determines the specific perception of flagellin (flg22)

Phvul.008G017400

AT3G28040

AT3G28040

Leucine-rich receptor-like protein kinase family protein, probably inactive

Phvul.005G099100

AT5G45970

RAC2

RAC-like 2; inactive GDP-bound Rho GTPases reside in the cytosol, are found in a complex with Rho GDP-dissociation inhibitors

Phvul.006G115500

AT1G01200

RABA3

Rab family protein; intracellular vesicle trafficking and protein transport

Down-regulated

Protein folding

Phvul.004G107700

AT5G52640

HSP90.1

Heat shock protein 81–1; functions as a holding molecular chaperone which stabilizes unfolding protein intermediates

Phvul.004G162100

AT3G24500

MBF1C

Multiprotein bridging factor 1C; involved in the tolerance to heat and osmotic stress

Phvul.004G044100

AT1G74310

HSP101

Heat shock protein 101; molecular chaperone that plays an important role in thermotolerance

Phvul.009G078300

AT2G26150

HSFA2

Heat shock transcription factor A2; transcriptional activator involved in heat stress responses

Phvul.011G065000

AT3G12580

HSP70

Heat shock protein 70; a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes

Phvul.003G154800

AT1G16030

Hsp70b

Heat shock protein 70B; in cooperation with other chaperones, stabilize preexistent proteins against aggregation and mediate the folding of newly translated polypeptides

Phvul.008G013000

AT5G02500

HSC70–1

Heat shock 70 kDa protein 1/8; a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes

Phvul.008G095600

AT3G08970

ATERDJ3A

DnaJ domain-containing protein; regulates protein folding in the endoplasmic reticulum (ER) lumen

Phvul.010G024500

AT3G25230

ROF1

Rotamase FKBP 1; co-chaperone that positively modulates thermotolerance by interacting with HSP90 and increasing the HSFA2-mediated accumulation of chaperones of the small-HSPs family

Phvul.009G046500

AT4G27670

HSP21

Heat shock protein 21; protein processing in endoplasmic reticulum

Phvul.011G016100

AT4G25200

HSP23.6

Small heat shock protein 23.6; protein processing in endoplasmic reticulum

Phvul.010G024500

AT3G25230

ROF1

Rotamase FKBP 1; co-chaperone that positively modulates thermotolerance by interacting with HSP90 and increasing the HSFA2-mediated accumulation of chaperones of the small-HSPs family

Phvul.010G155300

AT1G52560

AT1G52560

HSP20-like chaperone; protein processing in endoplasmic reticulum

Phvul.002G095400

AT1G23100

AT1G23100

GroES-like protein; chaperone cofactor-dependent protein refolding

Chloroplast-associated processes

Phvul.009G259600

AT2G46830

CCA1

Protein CCA1; transcription factor involved in the circadian clock and in the phytochrome regulation

Phvul.008G022800

AT3G02380

COL2

CONSTANS-like 2; putative transcription factor involved in chloroplast organization

Phvul.001G061400

AT5G24120

SIGE

Sigma factor E; essential for blue light-mediated transcription of psbD, which encodes the photosystem II reaction center protein D2

Phvul.010G018200

AT3G17609

HYH

HY5-homolog; transcription factor that promotes photomorphogenesis in light

Phvul.007G226300

AT5G03555

NCS1

Nucleobase cation symporter 1; nucleobase-proton symporter that facilitates uracil import into plastids

Phvul.008G254400

AT3G21150

BBX32

B-box 32 protein; repressor of light-mediated regulation of seedling development

Phvul.006G040800

AT4G27030

FADA

Fatty acid desaturase A; fatty acid desaturase involved in the production of chloroplast-specific phosphatidylglycerol molecular species

Phvul.005G113200

AT3G21890

BBX31

B-box domain protein 31; involved in the CO-mediated long-day flowering-promotion pathway