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Table 4 Complete list of candidate genes for hydroxycinnamatesa identified in a maize diversity panel. Genes in bold are the ones mentioned in the manuscript

From: Genome-wide association analysis for maize stem Cell Wall-bound Hydroxycinnamates

TraitaMarkerChrbBincPhysical positiondGene eGene Functionf
PCAS1_17463768611.05174,637,686Zm00001d031086Nced2 - nine-cis-epoxycarotenoid dioxygenase2
     Zm00001d031088Putative kelch repeat-containing protein containing ser/thr protein kinase family protein
     Zm00001d031090GTP binding protein
     Zm00001d031091Hypothetical protein
PCAS1_10807129211.05108,071,292Zm00001d030173Calmodulin-binding receptor-like cytoplasmic kinase 3
PCAS1_10807129311.05108,071,293Zm00001d030174Lecithin-cholesterol acyltransferase-like 1
     Zm00001d030176Hypothetical protein
     Zm00001d030177Hypothetical protein
FAS1_18759040511.06187,590,405Zm00001d031426Serine/threonine-protein kinase UCNL
     Zm00001d031427Leucine-rich repeat receptor-like protein kinase PEPR1
     Zm00001d031428Monogalactosyldiacylglycerol synthase 2 chloroplastic
     Zm00001d031429pfkB-like carbohydrate kinase family protein
     Zm00001d031430Hypothetical protein
FA
DFA 8–O–4
DFA 5–5
S1_22006781211.07220,067,812Zm00001d032339Hypothetical protein
     Zm00001d032342Leucine-rich repeat receptor protein kinase EMS1
     Zm00001d032343sdg103 - SET domain group 103)
FA
DFA 8–O–4
DFA 8–5 l
DFA 5–5
S1_22006781111.07220,067,811Zm00001d032344Receptor-like protein kinase HSL1
     Zm00001d032345Nudix hydrolase 15 mitochondrial
     Zm00001d032346UDP-glucose 4-epimerase 4
     Zm00001d032347DNAJ heat shock family protein
     Zm00001d032348Zinc finger BED domain-containing protein RICESLEEPER 2
     Zm00001d032350Hypothetical protein
PCAS1_28869678211.11288,696,782Zm00001d034469PRA1 prenylated Rab receptor 2
     Zm00001d034471Ketol-acid reductoisomerase chloroplastic
     Zm00001d034473Metal transporter Nramp6-heavy metal uptake
     Zm00001d034475WRKY12 -WRKY-transcription factor 12
     Zm00001d034476Hypothetical protein
     Zm00001d034477Hypothetical protein
     Zm00001d034479hon110 histone one H1
     Zm00001d034480Seed Specific protein Bn15D14A
     Zm00001d034482Hypothetical protein
     Zm00001d034483Hypothetical protein
     Zm00001d034484Hypothetical protein
     Zm00001d034485rtl4- reversion-to-ethylene sensitivity1 like4
     Zm00001d034486GTP binding protein
FAS1_29547657611.11295,476,576Zm00001d034727Polygalacturonase
     Zm00001d034728Uncharacterized
     Zm00001d034729Carbohydrate-binding X8 domain superfamily protein
     Zm00001d034730sbp17 - SBP-transcription factor 17
FAS1_29547633811.11295,476,338Zm00001d034731Short-chain dehydrogenase reductase 3b
     Zm00001d034732gpat3 - glycerol-3-phosphate acyltransferase3
     Zm00001d034733Galactokinase
     Zm00001d034734Nucleic acid-binding proteins superfamily
     Zm00001d034735Methyltransferase superfamily protein
     Zm00001d034736cps1 - chloroplast protein synthesis1
     Zm00001d034737Hypothetical protein
     Zm00001d034739Fumarylacetoacetate FAA hydrolase family
     Zm00001d034740Epoxide hydrolase 2
     Zm00001d034741Hypothetical protein
     Zm00001d034742Hypothetical protein
     Zm00001d034743OsNAC protein-like
     Zm00001d034744Pentatricopeptide repeat-containing protein
DFA 8–5 l
DFA 8–5
DFA 5–5
S1_29749029511.11297,490,295Zm00001d034817Protein phosphatase 2A regulatory subunit B′
     Zm00001d034818GDSL esterase/lipase
     Zm00001d034819Putative replication protein
     Zm00001d034820Defective in cullin neddylation protein
     Zm00001d034822Hypothetical protein
     Zm00001d034823ALBINO3-like protein 1 chloroplastic
     Zm00001d034824aldose-1-epimerase
     Zm00001d034826Elongation factor G-1 mitochondrial
PCAS3_2042642133.0420,426,421Zm00001d039926WAK1 - OsWAK receptor-like cytoplasmic kinase OsWAK-RLCK
     Zm00001d039927Hypothetical protein
     Zm00001d039928Hypothetical protein
     Zm00001d039929Hypothetical protein
     Zm00001d039930Hypothetical protein
     Zm00001d039931Leaf rust 10 disease-resistance locus receptor-like protein kinase-like 1.1
     Zm00001d039932Hypothetical protein
     Zm00001d03993316.9 kDa class I heat shock protein 1
     Zm00001d039935hsp17.2 - heat shock protein17.2
     Zm00001d039936hsp12 - heat shock protein12
     Zm00001d039937TIM-barrel signal transduction protein isoform 2
     Zm00001d039938Calmodulin-binding transcription activator 1
DFAT
DFA 5–5
S3_18460845833.06184,608,458Zm00001d043050RING-H2 finger protein ATL74
     Zm00001d043052Unknown Endoplasmic reticulum vesicle transporter protein
     Zm00001d043056Serine/threonine-protein kinase NAK
     Zm00001d043057Unknown Protein kinase
     Zm00001d043058Leucine-rich repeat receptor-like serine/threonine-protein kinase IRK
DFA 5–5ss3_6094107733.0460,941,077Zm00001d040735invan10 - invertase alkaline neutral10
     Zm00001d040737ga2ox5 - gibberellin 2-oxidase5
FAss4_1022093544.0110,220,935Zm00001d048968Leucine-rich repeat receptor-like serine/threonine-protein kinase BAM1
     Zm00001d048969phd28 - PHD-transcription factor 28
     Zm00001d048970Glycerophosphodiester phosphodiesterase GDPD4
     Zm00001d048972Hypothetical protein
     Zm00001d048973Hypothetical protein
     Zm00001d048974Glycine cleavage system H protein 2 mitochondrial
     Zm00001d048975Hypothetical protein
     Zm00001d048977Hypothetical protein
     Zm00001d048978F-box domain containing protein
     Zm00001d048979Probable sucrose-phosphate synthase 5
FAss5_16992776055.04169,927,760Zm00001d016731Digalactosyldiacylglycerol synthase 1
     Zm00001d016732bzip103 - bZIP-transcription factor 103
     Zm00001d016733NDR1/HIN1-like 1
     Zm00001d016734Hypothetical protein
     Zm00001d016735Protein SMAX1-LIKE 3
     Zm00001d0167362-cys peroxiredoxin BAS1
     Zm00001d016737e2f4 - E2F-DP-transcription factor 24)
     Zm00001d016738Pectinesterase inhibitor domain containing protein
     Zm00001d016740Hypothetical protein
     Zm00001d016741Pectinesterase inhibitor domain containing protein
     Zm00001d016742Hypothetical protein
     Zm00001d016743Hypothetical protein
     Zm00001d016744Hypothetical protein
FAS8_13832212788.05138,322,127Zm00001d011187bhlh92 - bHLH-transcription factor 92
     Zm00001d0111883′-5′ exonuclease domain-containing protein / K homology domain-containing protein / KH domain-containing protein
     Zm00001d011189DUF3511 domain protein
     Zm00001d011190Hypothetical protein
     Zm00001d011192Carbamoyl-phosphate synthase large chain, chloroplastic
     Zm00001d011193Integral membrane protein
     Zm00001d011195Putative protein phosphatase 2C 74
DFAT
DFA 8–O–4,
DFA 5–5
S10_225210881010.0322,521,088Zm00001d023813Polygalacturonase, pectin
     Zm00001d023815Triacylglycerol lipase
  1. a: a: PCA: p-coumaric acid; FA: ferulic acid; DFA 8–5 l: 8–5 linear diferulic acid; DFA 5–5: 5–5 diferulic acid; DFA 8–O–4: 8–O–4 diferulic acid; DFA 8–5b: 8–5 benzofuran diferulic acid; DFA 8–5: sum (DFA 8–5 l + DFA 8–5b); DFAT: total diferulates sum (DFA 5–5 + DFA 8–O–4 + DFA 8–5b + DFA 8–5 l)
  2. b: Chr: Chromosome
  3. c: A bin is the interval that includes all loci from the leftmost or top Core Marker to the next Core Marker. The genetic maps are divided into 100 segments of approximately 20 centiMorgans designated with the chromosome number followed by a two-digit decimal [26]
  4. d: Physical position of the marker in the B73 Reference Genome version 2
  5. e: Name of the gene in B73 Reference Genome version 4
  6. f: Gene function according to Zm-B73 reference form Gramene