Supplementary Tables and Figures s2

Supplementary Tables and Figures

Suppl. Table S1 Primer information for qPCR analysis

Code / Primer No. / Primer sequence (5'-3') / Annealing temperature (℃)
1 / c116161_g1-F / TAAATCCCTACCCATAAGC / 62
c116161_g1-R / ATATCTCACCACGCAACG
2 / c125820_g2-F / CCGCTCAGTGATAAAGGA / 62
c125820_g2-R / CGTTACTCAAGCCGACATT
3 / c119035_g1-F / CAGCCTACTTCAACGACTC / 62
c119035_g1-R / AATCCTCACCTCCCAAAT
4 / c130912_g1-F / TGTTGCCTGTGGGAGTAG / 62
c130912_g1-R / CTTAGAAATGAAGGGATG
5 / c121895_g2-F / CCGTAATGGCTATGGTCT / 62
c121895_g2-R / AACTTCCGAGGCTCCTAT
6 / c72938_g2-F / ACGAACCTGGTGGAGACA / 62
c72938_g2-R / CGACATGATGCTGCTAAAA
7 / c120498_g1-F / CCTCTACCTTGCTCGTCG / 62
c120498_g1-R / CTGCTGCTTGATATGTTGTC
8 / c112593_g1-F / GCTTCGGAAGAGGTCAAA / 62
c112593_g1-R / ATTACCACTGCCCTACACT
9 / c127148_g1-F / AGAAACAGGCTGGAGAAT / 62
c127148_g1-R / AACCCTTTGGAATAGTGTAA
10 / c124470_g1-F / ACACTGCTGTTCCCACTATCC / 62
c124470_g1-R / AGCCATTTCCTGACCCAC
11 / c132172_g1-F / TCGTCTGGTGATGTTCCGCTAA / 62
c132172_g1-R / TACTCGGTTGCTCGGTGGC
12 / CsACT7-F / TTGGATTCTGGGGATGGTGTTAGC / 62
CsACT7-R / AGCAAGTTTCTCTTTCACATCACGG

Suppl. Table S2 Summary of tea plant's short-read data produced based on RNA-Seq

Samples / Clean reads / Clean bases (G) / Q30(%)
Al- Null (0 μM Al3+, absent) / 1.61×108 / 24.16 / 87.71
Al- CK (200 μM Al3+, optimal) / 1.54×108 / 23.09 / 87.67
Al- High (1000 μM Al3+, toxic) / 1.53×108 / 22.93 / 87.22

Suppl. Table S3 Number of De novo assembly of the tea plant's transcripts and unigenes

Transcript length interval / <300bp / 301bp-500bp / 501bp-1kbp / 1k-2kbp / >2kbp / Total
Number of transcripts / 112649 / 69730 / 61932 / 45771 / 26118 / 316200
Number of unigenes / 99041 / 52046 / 35245 / 18008 / 9359 / 213699

Suppl. Table S4 List of transcripts and unigenes length based on De novo assembly

Min Length / Mean Length / Median Length / Max Length / N50 / N90 / Total Nucleotides
Transcripts / 201 / 758 / 407 / 14082 / 1304 / 283 / 239551233
Unigenes / 201 / 565 / 319 / 14082 / 802 / 242 / 120837888

Suppl. Table S5 Triggered differentially expressed unigenes in response to various Al3+ levels

/ Unigene ID / Description / Log2 (Fold changes) /
/ High Al/ Optimal Al / Null Al/ Optimal Al /
Transporters
1 / c120498_g1 / Multidrug/pheromone exporter, ABC superfamily / 1.51 / -0.82
2 / c125259_g1 / Multidrug resistance protein ABC transporter / 0.59 / ns
3 / c102462_g1 / ABC transporter / 0.95 / ns
4 / c129951_g4 / ABC transporter / 0.94 / ns
5 / c127585_g1 / ABC transporter / 0.92 / ns
6 / c131657_g2 / Magnesium chelatase, subunit ChlI//ABC transporter / 0.91 / ns
7 / c132218_g1 / ABC transporter A family member 2-like / 0.75 / ns
8 / c131073_g3 / Heavy-metal-associated domain,ABC transporter / 0.67 / ns
9 / c133151_g1 / ABC transporter / 0.66 / ns
10 / c130641_g2 / ABC transporter / -0.68 / ns
11 / c117055_g1 / ATP-binding cassette, subfamily F2 / -5.05 / ns
12 / c128410_g2 / ABC transporter A family member 7 / 0.73 / -0.49
13 / c130327_g1 / ABC transporter C family member 10 / 0.50 / ns
14 / c129606_g1 / ABC transporter G family member 36-like / 1.17 / ns
15 / c93424_g1 / ABC transporter I family member 17 / 1.04 / ns
16 / c121442_g1 / aluminum-activated malate transporter 10 / 2.30 / 2.02
17 / c104545_g1 / aluminum-activated malate transporter 10 / 2.08 / 2.17
18 / c76336_g1 / aluminum-activated malate transporter 10 / 2.03 / ns
19 / c131513_g1 / aluminum-activated malate transporter 2-like / 1.69 / ns
20 / c124808_g2 / auxin transporter-like 2 / -0.56 / ns
21 / c100619_g1 / Biopolymer transporter / 3.16 / ns
22 / c116733_g2 / high-affinity nitrate transporter NRT2.3 / 0.87 / ns
23 / c81909_g1 / nitrate transporter 1.7 / 1.04 / ns
24 / c121895_g2 / NRT1/ PTR FAMILY 7.3 / 2.80 / ns
25 / c131035_g1 / probable nitrite transporter,NRT1/ PTR FAMILY 3.1 / 1.11 / ns
26 / c111974_g1 / NRT1/ PTR FAMILY 7.3 / 2.71 / ns
27 / c131830_g1 / NRT1/ PTR FAMILY 5.5 / 0.58 / ns
28 / c128371_g1 / NRT1/ PTR FAMILY 5.5 / 1.17 / ns
29 / c102937_g1 / drug transmembrane transporter / 1.08 / ns
30 / c128403_g1 / drug transmembrane transporter / 0.53 / ns
31 / c35495_g1 / Usually multiple acids move in and out transporters 22, nodulin MtN21-like transporter family protein / 0.52 / 0.72
32 / c95508_g1 / EamA-like transporter family, usually multiple acids move in and out transporters 9，nodulin MtN21-like transporter family protein / 1.07 / 0.65
33 / c85625_g1 / cation transmembrane transporter activity, cation efflux family / -1.26 / ns
34 / c131624_g2 / hydrogen ion transmembrane transporter activity / 1.26 / ns
35 / c113978_g1 / extracellular-glutamate-gated ion channel transporter / 0.92 / ns
36 / c132984_g1 / mercury ion transmembrane transporter / 0.80 / ns
37 / c11949_g1 / metal ion transport//transmembrane transporter / 4.60 / ns
38 / c124250_g1 / Mitochondrial ADP/ATP inner-carrier proteins / -4.45 / ns
39 / c126419_g2 / mitochondrial oxoglutarate transporter / 2.18 / ns
40 / c111910_g1 / mitochondrial phosphate transporter 3 / 1.33 / ns
41 / c128815_g1 / Nucleoside transporter / 0.57 / ns
42 / c80700_g1 / P5-type ATPase cation transporter, ALS3 / 0.67 / ns
43 / c128179_g1 / phosphate transporter PHO1 homolog 1 / 0.84 / ns
44 / c25608_g1 / potassium transporter, potassium ion transmembrane transporter / -2.33 / ns
45 / c116161_g1 / potassium transporter 5-like / 1.92 / ns
46 / c74523_g1 / Aquaporin PIP2-4, major intrinsic transporter / -0.64 / ns
47 / c62492_g2 / Aquaporin PIP1-5, major intrinsic transporter / 1.08 / ns
48 / c80565_g1 / Probable aquaporin TIP-type, major intrinsic transporter / -0.52 / ns
49 / c127961_g1 / sulfate transporter 3.5 / 1.43 / ns
50 / c112593_g1 / ZIP family metal transporter, Zinc transporter 5 / 1.60 / ns
51 / c122960_g1 / ZIP family metal transporter, zinc transporter 4 / 1.22 / ns
52 / c132983_g1 / ZIP Zinc transporter / 0.55 / ns
53 / c118055_g1 / ZIP Zinc transporter / -1.40 / ns
54 / c124092_g1 / CorA-like Mg2+ transporter / 0.57 / ns
55 / c73767_g1 / Magnesium transporter MRS2-F / 1.54 / ns
56 / c132104_g1 / magnesium transporter / 0.50 / ns
57 / c122347_g1 / Amino acid permease, polyamine transport / 0.74 / ns
58 / c112876_g1 / cationic amino acid transporter 7 / -0.78 / ns
59 / c131314_g1 / neutral amino acid transporter 4-like / 0.43 / ns
60 / c74489_g1 / lysine histidine transporter 1 / 0.59 / ns
61 / c125534_g1 / lysine histidine transporter-like 8 / 5.27 / ns
62 / c122479_g1 / Lysine histidine transporter-like 8 / 3.27 / ns
63 / c107686_g1 / lysine histidine transporter-like 8 / 2.12 / ns
64 / c121464_g1 / Lysine histidine transporter-like 8 / 1.09 / ns
65 / c128892_g2 / vacuolar amino acid transporter 1-like / -0.65 / ns
66 / c102888_g1 / polyol transporter 6, Sugar (and other) transporter / -1.13 / ns
67 / c106343_g1 / Sugar (and other) transporter, Sucrose transporter / -0.75 / ns
68 / c120820_g2 / Sugar transporter, Sucrose transporter / -0.46 / ns
69 / c62338_g1 / plastidic glucose transporter 2-like / 0.70 / ns
70 / c121683_g2 / Uncharacterized transporter / 1.08 / ns
Transcription factors
1 / c125088_g1 / AP2/ERF domain-containing transcription factor / -0.55 / ns
2 / c129225_g1 / bHLH123-like transcription factor / -2.01 / ns
3 / c130025_g6 / bZIP transcription factor / -0.71 / ns
4 / c93173_g1 / bZIP transcription factor / 2.53 / ns
5 / c119846_g1 / bZIP transcription factor / 0.78 / ns
6 / c94240_g1 / bZIP transcription factor / -0.80 / ns
7 / c125796_g2 / ethylene-responsive transcription factor / -0.84 / ns
8 / c54815_g1 / Ethylene-responsive transcription factor 1B / 3.14 / ns
9 / c25239_g1 / ethylene-responsive transcription factor 1B-like / 4.85 / ns
10 / c131876_g6 / ethylene-responsive transcription factor 2 / 1.07 / ns
11 / c108728_g1 / ethylene-responsive transcription factor ERF106-like / 0.74 / ns
12 / c119426_g1 / GATA transcription factor 5-like / 0.74 / ns
13 / c131145_g2 / GRAS family transcription factor / 1.24 / ns
14 / c73564_g1 / MADS-box transcription factor 23-like / -0.78 / ns
15 / c72393_g1 / MYB (LUX arrhythmo) Transcription factor / -1.49 / ns
16 / c95786_g1 / MYB transcription factor / 0.74 / ns
17 / c65190_g1 / MYB1R1 Transcription factor / 0.82 / ns
18 / c116965_g2 / MYB3 Transcription factor / 1.11 / ns
19 / c120382_g2 / MYB39 Transcription factor / -0.65 / ns
20 / c68588_g1 / MYB44 Transcription factor / 1.41 / ns
21 / c89484_g1 / MYB-related transcription factor (MYB4) / 4.25 / ns
22 / c110243_g2 / MYB-related transcription factor (MYB66) / 1.25 / ns
23 / c122252_g2 / r2r3-myb transcription factor / 0.81 / ns
24 / c116186_g2 / NAC2 transcription factor / 0.60 / ns
25 / c116186_g1 / NAC2 transcription factor / 1.72 / ns
26 / c131425_g2 / NAC86 transcription factor / 0.74 / ns
27 / c116588_g1 / S-II Transcription factor / 1.40 / ns
28 / c105094_g1 / Cys2- His2 zinc finger (C2H2), STOP1 / 0.74 / ns
29 / c126528_g2 / Cys2- His2 zinc finger (C2H2), STOP1 / 0.88 / ns
30 / c98173_g1 / WRKY transcription factor 57.1 / 1.34 / ns
31 / c125465_g3 / WRKY33-like transcription factor / 1.44 / ns
32 / c129163_g2 / WRKY40 transcription factor / 2.17 / ns
33 / c89420_g3 / WRKY70 transcription factor 70 / 1.72 / ns
34 / c89420_g2 / WRKY70 transcription factor 70 / 1.26 / ns
35 / c89420_g4 / WRKY70 transcription factor 70-like / 1.38 / ns
36 / c101983_g1 / DREB,dehydration-responsive element-binding protein / 0.90 / ns
Oxidase and peroxidase
1 / c116702_g1 / class III peroxidase / 1.22 / ns
2 / c130254_g1 / NADPH oxidase A / 0.52 / ns
3 / c112657_g1 / peroxidase 64-like isoform 1 / -0.47 / ns
4 / c112679_g1 / peroxidase 27 / -0.53 / ns
5 / c64931_g1 / peroxidase 4-like / -0.54 / ns
6 / c36304_g1 / peroxidase 16-like / -0.60 / ns
7 / c98223_g1 / peroxidase 12 / -0.61 / ns
8 / c127640_g1 / glutathione S-transferase 1 / 1.57 / ns
9 / c119155_g1 / probable glutathione S-transferase-like / 0.75 / ns
10 / c70414_g1 / glutathione S-transferase / 0.74 / ns
11 / c123076_g2 / glutathione S-transferase / 0.49 / ns
12 / c32624_g2 / lactoylglutathione lyase / 1.11 / ns
13 / c125651_g1 / probable glutathione S-transferase / 1.04 / ns
14 / c104223_g1 / glutathione S-transferase / -4.09 / ns
Cytochrome P450
1 / c113698_g1 / Cytochrome P450 94A2 / 1.78 / ns
2 / c127148_g1 / Cytochrome P450 / 1.56 / ns
3 / c107938_g1 / Cytochrome P450 82G1 / 1.53 / ns
4 / c99272_g1 / Cytochrome P450 82C4 / 1.44 / ns
5 / c76867_g1 / Cytochrome P450 75B1 / 1.43 / ns
6 / c105071_g1 / Cytochrome P450 94A1 / 1.10 / ns
7 / c130912_g1 / Cytochrome P450 87A3 / 1.08 / ns
8 / c117444_g1 / Cytochrome P450 78A4 / 0.90 / 0.83
9 / c113745_g1 / Cytochrome P450 736A12 / 0.82 / ns
10 / c107220_g2 / Cytochrome P450 72A219 / 0.75 / ns
11 / c131317_g2 / Cytochrome P450 734A1 / 0.74 / ns
12 / c117641_g1 / Cytochrome P450 82C4 / 0.70 / ns
13 / c119074_g1 / Cytochrome P450 / 0.69 / ns
14 / c130353_g1 / Cytochrome P450 81E8 / 0.69 / ns
15 / c129506_g1 / Cytochrome P450 72A219 / 0.68 / ns
16 / c125297_g3 / Cytochrome P450 74A / 0.52 / ns
17 / c112400_g1 / Cytochrome P450 71D55 / -0.70 / ns
18 / c111838_g1 / Cytochrome P450 735A1 / -0.84 / ns
Ubiquitin ligase
1 / c44859_g1 / E3 ubiquitin ligase / 0.69 / ns
2 / c127607_g2 / E3 ubiquitin-protein ligase / 3.33 / ns
3 / c128341_g3 / E3 ubiquitin-protein ligase / 1.18 / ns
4 / c123916_g1 / E3 ubiquitin-protein ligase / 1.04 / ns
5 / c77470_g1 / E3 ubiquitin-protein ligase / 0.83 / ns
6 / c130971_g3 / E3 ubiquitin-protein ligase / 0.81 / ns
7 / c62428_g1 / E3 ubiquitin-protein ligase / 0.68 / ns
8 / c116078_g1 / E4 ubiquitin-protein ligase / 1.02 / ns
9 / c130336_g1 / protein ubiquitination / 0.93 / ns
10 / c120007_g1 / E3 ubiquitin-protein ligase / 0.70 / ns
11 / c109451_g1 / E4 ubiquitin-protein ligase / 0.59 / ns
12 / c120283_g1 / E3 ubiquitin-protein ligase / -0.69 / ns
13 / c130212_g1 / E4 ubiquitin-protein ligase / 0.51 / ns
Organic acid
1 / c77943_g1 / malate dehydrogenase / 0.84 / ns
2 / c99829_g1 / malate dehydrogenase / 0.92 / ns
3 / c124470_g1 / Oxalate--CoA ligase / 1.55 / ns
Heat shock proteins
1 / c119035_g1 / Heat shock cognate protein 70 / 1.90 / 0.89
2 / c119035_g2 / Heat shock cognate protein 70 / 0.41 / ns
3 / c112414_g2 / Heat shock cognate protein 70 / -2.27 / ns
4 / c125789_g2 / Heat shock cognate protein 70 / -2.45 / ns
5 / c127307_g1 / Heat shock cognate protein 70 / -3.01 / ns

Suppl. Table S6 Comparison of expression profiling between ART1/ STOP1-regulated genes and corresponding genes in tea plant roots

/ Description / Unigene ID / Log2(Fold changes) / Homolog /
/ High Al/ Optimal Al / Null Al/ Optimal Al /
Cell wall maintenance and root elongation
1 / PGIP1 (polygalacturonaseinhibiting protein 1) / c123782_g1
c130673_g1
c128111_g2
c118675_g1
c115933_g1
c125791_g1
/ -2.32
ns
0.86
-0.76
-0.62
ns / ns
ns
ns
ns
ns
ns / At5g06860
2 / Class IV Chitinase / c129174_g2
c129174_g1 / ns
ns / ns
ns / At2g43590，Os01g0860500
3 / Expansin-A / c120297_g3
c120297_g2
c131733_g2
c78276_g1
c111500_g1
/ -0.56
-0.57 -1.05
-1.09
ns / ns
ns
ns
ns
ns / Os04g058350
4 / Subtilisin-like protease / c130082_g1
c130664_g1 / 0.73
-1.10 / ns
ns / Os09g0479900
5 / OsCDT3, tolerant to Al and rich in cysteine / c119524_g3