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作物学报

作物学报 ›› 2021, Vol. 47 ›› Issue (5): 837-846.doi: 10.3724/SP.J.1006.2021.04173

• 作物遗传育种·种质资源·分子遗传学 • 上一篇    下一篇

谷子穗发育期转录组与叶酸代谢谱联合分析

马贵芳1(), 满夏夏1, 张益娟2, 高豪1, 孙朝霞1,3, 李红英1,3, 韩渊怀1,3, 侯思宇1,3,*()   

  1. 1山西农业大学农学院 / 农业生物工程研究所, 山西太谷 030801
    2山西农业大学生命科学学院, 山西太谷 030801
    3杂粮种质资源发掘与遗传改良山西省重点实验室, 山西太原 030031
  • 收稿日期:2020-07-29 接受日期:2020-11-13 出版日期:2021-05-12 网络出版日期:2020-12-15
  • 通讯作者: 侯思宇
  • 作者简介:E-mail: 1783526621@qq.com
  • 基金资助:
    国家重点研发计划项目(2018YFD1000705-2);山西省高等学校科学研究优秀成果培育项目(2019KJ020);山西农谷建设科研专项(SXNGJSKYZX201702);山西农业大学青年科技创新基金项目(2019005)

Integrated analysis between folate metabolites profiles and transcriptome of panicle in foxtail millet

MA Gui-Fang1(), MAN Xia-Xia1, ZHANG Yi-Juan2, GAO Hao1, SUN Zhao-Xia1,3, LI Hong-Ying1,3, HAN Yuan-Huai1,3, HOU Si-Yu1,3,*()   

  1. 1College of Agriculture / Institute of Agricultural Bioengineer, Shanxi Agricultural University, Taigu 030801, Shanxi, China
    2College of Life Sciences, Shanxi Agricultural University, Taigu 030801, Shanxi, China
    3Shanxi Key Laboratory of Genetic Resources and Breeding in Minor Crops, Taiyuan 030031, Shanxi, China
  • Received:2020-07-29 Accepted:2020-11-13 Published:2021-05-12 Published online:2020-12-15
  • Contact: HOU Si-Yu
  • Supported by:
    National Key Research and Development Program of China(2018YFD1000705-2);Cultivation Project of Excellent Scientific Research Achievements in Shanxi Universities(2019KJ020);Shanxi Agricultural Valley Construction Research Project(SXNGJSKYZX201702);Shanxi Agricultural University Youth Science and Technology Innovation Found Project(2019005)

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摘要：

植物叶酸(Folate, FA)参与细胞内一碳单位转移反应, 是能量代谢、氨基酸和核酸合成的重要供体。前期我们发现, 谷子籽粒叶酸含量高于其他禾谷类作物, 但叶酸代谢组分特征目前尚不清楚。本研究以‘晋谷21’为试验材料, 对3个穗发育期小穗进行叶酸代谢组分析; 通过RNA-seq分析穗发育期差异表达基因及叶酸合成途径相关代谢通路, 探究叶酸组分与叶酸代谢途径基因表达模式及其与可变剪切的相关性, 同时预测分析叶酸合成途径基因的蛋白互作网络。结果表明, 总叶酸含量随穗发育阶段呈下降趋势; 5-甲基四氢叶酸(5-methyltetrahydrofolate, 5-M-THF)和10-甲酰叶酸(10-formyl folic acid, 10-F-FA)是穗发育期的主要组分。17个叶酸合成关键基因表达模式可划分为2个不同类群。转录起始区域(transcription start site, TSS)和转录终止区域(transcription terminal site, TTS)可变剪切是叶酸合成关键基因在穗发育3个时期均发生的可变剪切类型, 外显子跳跃型(exon skipping, ES)、内含子滞留型(intron retention, IR)和可变5'或3'端剪切(alternative exon ends, AE)是特有类型。同时发现叶酸合成、一碳代谢和激素信号传导途径关键基因与叶酸组分差异具有相关性, 初步推测谷子穗发育过程叶酸合成途径及偶联途径相关基因的表达一定程度影响叶酸含量变化, 其中ADCS、DHFR2和GGH基因的差异表达可能为影响谷穗叶酸含量的主要原因, 可作为利用遗传工程提高谷子叶酸含量及生物强化分子育种的关键靶基因。

关键词: 谷子, 叶酸, 转录组, 代谢组

Abstract:

Folate (FA) is an important donor for energy metabolism, amino acid and nucleic acid synthesis, and participates in the intracellular carbon unit transfer reaction. In previous study, we found that folate content in panicle of foxtail millet was higher than other cereal crops, but the composition characteristics of folate metabolites are still unclear. In this study, in order to explore the expression patterns of folic acid components and folic acid metabolism pathway genes and their correlation with variable shear, and to predict the protein interaction network of folic acid synthesis pathway genes, folate metabolome was performed on three panicle development stages using the middle part of the ‘Jingu 21’ panicles as the experimental materials by RNA-seq. The results showed that the total folate content decreased with panicle development stage, and the contents of 5-methyl tetrahydrofolate (5-M-THF) and 10-formyl folate (10-F-FA) were the main components of panicle development. The expression pattern analysis of 17 key genes of folate synthesis can be divided into two groups during the panicle development in foxtail millet. The alternative splicing showed that the 16 key genes for folate synthesis produced transcription start site (TSS) and transcription terminal site (TTS) during the panicle development, the number of other types of alternative splicing was different at each stage, and this specific alternative splicing affects folate content. In addition, methylation pathway, hormone signaling pathway and immune pathway related genes showed a certain correlation with different folate metabolite content, and we preliminarily hypothesized that the expression of folate synthesis related and coupling pathway genes would influence the folate content during the panicle development. The different expression of ADCS, DHFR2, and GGH may be the main reason for the influence of folate content in panicle, and could be used as key target gen 837-846es for folate biofortification of foxtail millet by genetic engineering technology in the future.

Key words: foxtail millet, folate, transcriptome, metabolomics

图1

植物细胞中叶酸的生物合成"

附表1

质谱仪测定12种叶酸参数设置"

化合物
Analytes		 保留时间
tr (min)		 前体
Precursorion (m/z)		 产物
Production (m/z)		 碰撞能量
Collision energy (eV)
5-甲基四氢叶酸5-M-THF 3.754 460 313 20
双谷氨酰基5-甲基四氢叶酸酯5-M-THFGlu2 4.097 589 313 20
三谷氨酰基5-甲基四氢叶酸酯5-M-THFGlu3 4.867 718 313 30
四谷氨酰基5-甲基四氢叶酸酯5-M-THFGlu4 5.607 847 313 40
5-甲酰四氢叶酸5-F-THF 7.072 475 328 30
双谷氨酰胺基5-甲酰基四氢叶酸5-F-THFGlu2 7.338 603 327 20
三谷氨酰胺基5-甲酰基四氢叶酸5-F-THFGlu3 7.485 732 327 30
四谷氨酰胺基5-甲酰基四氢叶酸5-F-THFGlu4 7.767 861 327 40
四氢叶酸THF 2.668 446 299 30
10-甲酰叶酸10-F-FA 6.832 470 295 20
5,10-亚甲基四氢叶酸5,10-CH=THF 5.830 456 412 30
叶酸FA 8.131 442 295 20

图2

穗发育不同时期叶酸含量及种类 S1: 灌浆中前期; S2: 灌浆中后期; S3: 收获期。柱上不同小写字母表示在0.05水平差异显著。"

附图1

两两样品的表达量相关性热图 S1: 灌浆中前期; S2: 灌浆中后期; S3: 收获期。"

附表2

样品reads分布情况"

样品
Sample		 原始序列
Raw reads		 过滤后序列
Clean reads		 高质量序列
Clean reads (%)		 比对到基因组序列
Mapped reads		 锚定比例
Mapped (%)		 单一位置序列
Unique mapped reads (%)		 过滤后Q30比例
Q30 after filter (%)
S1-1 47381498 44433844 93.77 40683987 91.56 97.23 93.50
S1-2 49046244 45860746 93.50 41996800 91.57 97.26 93.27
S1-3 46450810 43418190 93.47 39219806 90.33 97.14 94.01
S2-1 43629752 41410962 94.91 39262950 94.81 92.57 93.47
S2-2 51156392 48385928 94.58 45812419 94.68 92.90 93.69
S2-3 47754204 45141994 94.52 42655979 94.49 93.15 93.61
S3-1 45693728 43128684 94.38 36319571 84.21 96.07 93.63
S3-2 43824250 41043096 93.65 34490126 84.03 96.08 93.48
S3-3 46573564 43758700 93.95 36830384 84.17 95.96 93.51

图3

穗发育不同时期DEGs表达数量(a)和差异表达基因韦恩图(b) 缩写同图2。"

附图2

不同数据库基因功能注释 S1: 灌浆中前期; S2: 灌浆中后期; S3: 收获期。"

附图3

KEGG途径注释及分类 S1: 灌浆中前期; S2: 灌浆中后期; S3: 收获期。a: S1 vs S2; b: S1 vs S3; c: S2 vs S3."

图4

穗发育不同时期可变剪切数目 缩写同图2。"

附表3

16个叶酸合成关键基因可变剪切事件统计"

基因名称
Gene ID		 S1 S2 S3
染色体
Chr.		 起始位点
Event_start		 终止位点
Event_end		 剪切类型
Event_type		 染色体
Chr.		 起始位点
Event_start		 终止位点
Event_end		 剪切类型
Event_type		 染色体
Chr.		 起始位点
Event_Start		 终止位点
Event_end		 剪切类型
Event_type
ADCS Si005831m.g scaffold_4 36720083 36720416 TSS scaffold_4 36720083 36720714 TSS scaffold_4 36720083 36720666 TSS
scaffold_4 36714947 36715745 TTS scaffold_4 36714906 36715745 TTS scaffold_4 36719830 36720403 TSS
scaffold_4 36716869 36717210 IR scaffold_4 36718684 36718804 AE scaffold_4 36714937 36715745 TTS
scaffold_4 36718586 36718684 IR scaffold_4 36718697 36718804 AE scaffold_4 36714904 36715745 TTS
scaffold_4 36718586 36718664 IR scaffold_4 36718664 36718804 AE scaffold_4 36718586 36718697 IR
scaffold_4 36718586 36718697 IR scaffold_4 36718586 36718684 IR
scaffold_4 36718684 36718804 AE scaffold_4 36718697 36718804 AE
scaffold_4 36718697 36718804 AE scaffold_4 36718684 36718804 AE
scaffold_4 36718664 36718804 AE scaffold_4 36718664 36718804 AE
scaffold_4 36718335 36718586 AE
scaffold_4 36718335 36718606 AE
ADCL1 Si017411m.g scaffold_1 10445656 10445931 TSS scaffold_1 10445656 10445931 TSS scaffold_1 10445656 10445931 TSS
scaffold_1 10451775 10452094 TTS scaffold_1 10451775 10452094 TTS scaffold_1 10451775 10452094 TTS
scaffold_1 10448493 10450227 ES scaffold_1 10448493 10448548 ES
ADCL3 Si002147m.g scaffold_5 286063 286217 TSS scaffold_5 286063 286217 TSS scaffold_5 286063 286217 TSS
scaffold_5 284297 285428 TTS scaffold_5 284297 285428 TTS scaffold_5 284297 285428 TTS
scaffold_5 284297 285702 TTS scaffold_5 284297 285702 TTS scaffold_5 284297 285702 TTS
GTPCHI
Si021939m.g		 scaffold_3 1626381 1626634 TSS scaffold_3 1626381 1626634 TSS scaffold_3 1626381 1626634 TSS
scaffold_3 1622984 1624611 TTS scaffold_3 1622984 1624611 TTS scaffold_3 1622984 1624611 TTS
DHNA1 Si030989m.g scaffold_2 39956335 39956388 TSS scaffold_2 39956335 39956388 TSS scaffold_2 39956335 39956388 TSS
scaffold_2 39957340 39957698 TTS scaffold_2 39957340 39957698 TTS scaffold_2 39957340 39957698 TTS
DHNA2 Si014629m.g scaffold_6 35419038 35419453 TSS scaffold_6 35419038 35419453 TSS scaffold_6 35419038 35419453 TSS
scaffold_6 35417984 35418412 TTS scaffold_6 35417984 35418412 TTS scaffold_6 35417984 35418412 TTS
HPPK1/DHP
S1
Si000970m.g		 scaffold_5 2400515 2400903 TSS scaffold_5 2400518 2400903 TSS scaffold_5 2400656 2400903 TSS
scaffold_5 2401861 2403377 TTS scaffold_5 2401861 2403377 TTS scaffold_5 2401861 2403377 TTS
scaffold_5 2401898 2403377 TTS scaffold_5 2401898 2403377 TTS
HPPK2/DHP
S2
Si026336m.g		 scaffold_8 927507 927755 TSS scaffold_8 927507 927751 TSS scaffold_8 927507 927748 TSS
scaffold_8 927568 927755 TSS scaffold_8 927568 927743 TSS scaffold_8 927568 927748 TSS
scaffold_8 925298 926981 TTS scaffold_8 925298 927006 TTS scaffold_8 925298 927006 TTS
scaffold_8 925298 927006 TTS scaffold_8 928346 928456 TSS
DHFS Si029390m.g scaffold_2 45202748 45203091 TSS scaffold_2 45202748 45203091 TSS scaffold_2 45202748 45203091 TSS
scaffold_2 45197629 45198523 TTS scaffold_2 45197629 45198523 TTS scaffold_2 45197629 45198523 TTS
scaffold_2 45200269 45200995 IR scaffold_2 45200269 45200995 IR
scaffold_2 45200269 45200991 IR
DHFR1 Si029497m.g scaffold_2 46935689 46935812 TSS scaffold_2 46935689 46935812 TSS scaffold_2 46935689 46935812 TSS
scaffold_2 46941948 46942341 TTS scaffold_2 46941948 46942330 TTS scaffold_2 46941948 46942333 TTS
scaffold_2 46941454 46941535 IR scaffold_2 46936888 46936960 ES scaffold_2 46936888 46936960 ES
scaffold_2 46941454 46941535 IR scaffold_2 46939375 46939410 ES
scaffold_2 46941454 46941535 IR
DHFR2 Si026222m.g scaffold_8 23086218 23086319 TSS scaffold_8 23086218 23086319 TSS scaffold_8 23086218 23086319 TSS
scaffold_8 23093650 23094000 TTS scaffold_8 23093650 23094000 TTS scaffold_8 23093650 23093993 TTS
scaffold_8 23090412 23090460 ES scaffold_8 23087345 23087422 ES scaffold_8 23087345 23087422 ES
scaffold_8 23087345 23087422 ES scaffold_8 23087345 23087400 ES scaffold_8 23090412 23090460 ES
scaffold_8 23087422 23087911 IR scaffold_8 23087422 23087911 IR scaffold_8 23087422 23087911 IR
scaffold_8 23087345 23088437 AE scaffold_8 23087400 23087911 IR scaffold_8 23087345 23088437 AE
scaffold_8 23087911 23088437 AE scaffold_8 23087345 23087422 AE
scaffold_8 23087911 23088437 AE
scaffold_8 23087345 23088437 AE
FPGS1 Si034828m.g scaffold_9 14396623 14396875 TSS scaffold_9 14396623 14396875 TSS scaffold_9 14396623 14396875 TSS
scaffold_9 14396623 14397092 TSS scaffold_9 14401708 14401931 TTS scaffold_9 14396623 14397092 TSS
scaffold_9 14401708 14401931 TTS scaffold_9 14404546 14404875 TTS scaffold_9 14401708 14401931 TTS
scaffold_9 14404546 14405008 TTS scaffold_9 14398067 14398207 IR scaffold_9 14398067 14398207 IR
scaffold_9 14398067 14398207 IR scaffold_9 14396965 14397092 AE scaffold_9 14396965 14397092 AE
scaffold_9 14399581 14399711 IR scaffold_9 14396965 14397082 AE scaffold_9 14396965 14397082 AE
scaffold_9 14396965 14397082 AE
scaffold_9 14396965 14397092 AE
FPGS2 Si035045m.g scaffold_9 58273141 58273265 TSS scaffold_9 58273141 58273469 TSS scaffold_9 58273141 58273265 TSS
scaffold_9 58273141 58273469 TSS scaffold_9 58273141 58273265 TSS scaffold_9 58273141 58273261 TSS
scaffold_9 58277131 58277474 TTS scaffold_9 58277131 58277474 TTS scaffold_9 58273141 58273469 TSS
scaffold_9 58273333 58273469 AE scaffold_9 58273333 58273469 AE scaffold_9 58277253 58277474 TTS
scaffold_9 58273345 58273469 AE scaffold_9 58273345 58273469 AE scaffold_9 58273333 58273469 AE
scaffold_9 58273345 58273469 AE
GGH Si022538m.g scaffold_3 13171089 13171472 TSS scaffold_3 13171089 13171472 TSS scaffold_3 13171089 13171472 TSS
scaffold_3 13174465 13174749 TTS scaffold_3 13174465 13174749 TTS scaffold_3 13174465 13174749 TTS

图5

叶酸代谢相关基因表达分析 缩写同图2。"

附表4

不同穗发育时期叶酸合成基因表达量"

基因名称
Gene ID		 S1 S2 S3
ADCS 11.851 5.611 6.334
ADCL1 10.768 9.268 5.769
ADCL2 0.124 0.0873 0.167
ADCL3 28.234 37.516 33.193
GTPCHI 26.686 24.936 48.024
DHNA1 5.884 2.425 4.933
DHNA2 22.406 21.536 84.926
HPPK1 5.676 2.074 5.595
HPPK2 11.536 6.834 10.729
DHFS 5.078 3.889 5.610
DHFR1 36.485 28.580 13.507
DHFR2 18.495 13.686 11.735
FPGS1 8.169 4.998 11.119
FPGS2 35.046 16.451 35.591
GGH 34.266 37.316 22.790
DHPS1 5.676 2.074 5.595
DHPS2 11.536 6.834 10.729

附表5

叶酸合成关键基因与叶酸化合物相关性分析"

5-M-THF 5-M-THFGlu3 5-M-THFGlu4 5,10-CH=THF 10-F-FA 5-F-THF 5-F-THFGlu2 5-FTHFGlu4 FA ADCS ADCL1 ADCL2 ADCL3 GCHI DHNA1 DHNA2 HPPK1 HPPK2 DHFS DHFR1 DHFR2 FPGS1 FPGS2 GGH DHPS1 DHPS2
5-M-THF 1
5-M-THFGlu3 -0.454 1
5-M-THFGlu4 -0.705 0.952 1
5,10-CH=THF 0.551 0.493 0.204 1
10-F-FA 0.703 -0.953 -1.000** -0.206 1
5-F-THF 0.998* -0.400 -0.661 0.600 0.659 1
5-F-THFGlu2 0.983 -0.283 -0.562 0.695 0.560 0.992 1
5-F-THFGlu4 0.231 0.762 0.528 0.939 -0.529 0.289 0.406 1
FA 0.334 -0.991 -0.904 -0.602 0.905 0.277 0.155 -0.840 1
ADCS 0.350 -0.994 -0.911 -0.589 0.912 0.293 0.172 -0.831 1.000* 1
ADCL1 0.937 -0.737 -0.908 0.225 0.907 0.914 0.857 -0.124 0.643 0.655 1
ADCL2 -0.915 0.056 0.358 -0.841 -0.356 -0.937 -0.973 -0.604 0.075 -0.716 0.058 1
ADCL3 0.021 0.881 0.695 0.846 -0.696 0.081 0.204 0.978 -0.935 -0.929 -0.330 -0.423 1
GCHI -1.000** 0.447 0.699 -0.558 -0.698 -0.999* -0.984 -0.239 -0.327 -0.342 -0.934 0.918 -0.029 1
DHNA1 -0.309 -0.707 -0.457 -0.964 0.459 -0.366 -0.479 -0.997 0.793 0.783 0.043 0.667 -0.957 0.317 1
DHNA2 -0.999* 0.497 0.738 -0.510 -0.737 -0.994 -0.973 -0.184 -0.379 -0.395 -0.953 0.894 0.028 -0.998* 0.263 1
HPPK1 -0.535 -0.510 -0.223 -1.000* 0.225 -0.584 -0.681 -0.946 0.618 0.605 -0.206 0.830 -0.856 0.541 0.969 0.493 1
HPPK2 -0.410 -0.626 -0.358 -0.987 0.360 -0.464 -0.571 -0.982 0.722 0.711 -0.066 0.743 -0.920 0.417 0.994 0.366 0.990 1
DHFS -0.777 -0.207 0.101 -0.953 -0.099 -0.814 -0.880 -0.792 0.333 0.317 -0.508 0.965 -0.645 0.782 0.839 0.746 0.947 0.893 1
DHFR1 0.919 -0.769 -0.927 0.177 0.927 0.894 0.831 -0.172 0.679 0.691 0.999* -0.681 -0.375 -0.916 0.091 -0.937 -0.158 -0.017 -0.466 1
DHFR2 0.680 -0.962 -0.999* -0.237 0.999* 0.635 0.533 -0.556 0.918 0.925 0.893 -0.326 -0.719 -0.674 0.487 -0.714 0.256 0.390 -0.067 0.914 1
FPGS1 -0.885 -0.013 0.293 -0.876 -0.291 -0.911 -0.956 -0.657 0.143 0.126 -0.667 0.998* -0.484 0.889 0.716 0.862 0.867 0.788 0.981 -0.630 -0.260 1
FPGS2 -0.572 -0.471 -0.179 -1.000* 0.181 -0.620 -0.713 -0.930 0.582 0.568 -0.249 0.854 -0.832 0.578 0.957 0.532 0.999* 0.983 0.961 -0.202 0.213 0.888 1
GGH 0.990 -0.325 -0.598 0.662 0.597 0.997 0.999* 0.365 0.199 0.215 0.879 -0.962 0.160 -0.991 -0.439 -0.982 -0.647 -0.534 -0.858 0.855 0.571 -0.941 -0.681 1
DHPS1 -0.535 -0.510 -0.223 -1.000* 0.225 -0.584 -0.681 -0.946 0.618 0.605 -0.206 0.830 -0.856 0.541 0.969 0.493 1.000** 0.990 0.947 -0.158 0.256 0.867 0.999* -0.647 1
DHPS2 -0.410 -0.626 -0.358 -0.987 0.360 -0.464 -0.571 -0.982 0.722 0.711 -0.066 0.743 -0.920 0.417 0.994 0.366 0.990 1.000** 0.893 -0.017 0.390 0.788 0.983 -0.534 0.990 1

图6

叶酸偶联的一碳代谢(a)和激素信号传导(b)相关途径基因表达水平分析 缩写同图2。"

附表6

一碳途径关键基因与叶酸化合物相关性分析"

5-M-THF 5-M-THFGlu3 5-M-THFGlu4 5,10-CH=THF 10-F-FA 5-F-THF 5-F-THFGlu2 5-FTHFGlu4 FA MET1 MET2 MET3 CMT1 CMT3 CMT2 DDM2 DDM1 DME1 DME3 DRM1 SHMT3 PGFT FTHFS FTHFD MTRF SHMT1 SHMT2 ATM MTHFS MTHFR
5-M-THF 1
5-M-THFGlu3 -0.454 1
5-M-THFGlu4 -0.705 0.952 1
5,10-CH=THF 0.551 0.493 0.204 1
10-F-FA 0.703 -0.953 -1.000** -0.206 1
5-F-THF 0.998* -0.400 -0.661 0.600 0.659 1
5-F-THFGlu2 0.983 -0.283 -0.562 0.695 0.560 0.992 1
5-F-THFGlu4 0.231 0.762 0.528 0.939 -0.529 0.289 0.406 1
FA 0.334 -0.991 -0.904 -0.602 0.905 0.277 0.155 -0.840 1
MET1 0.735 0.270 -0.037 0.971 0.036 0.775 0.848 0.829 -0.393 1
MET2 0.759 0.235 -0.073 0.962 0.071 0.797 0.866 0.809 -0.360 0.999* 1
MET3 0.684 -0.961 -1.000* -0.232 1.000* 0.639 0.538 -0.552 0.916 0.009 0.045 1
CMT1 -0.220 0.969 0.847 0.693 -0.848 -0.161 -0.036 0.899 -0.993 0.500 0.468 -0.862 1
CMT3 0.637 -0.976 -0.996 -0.292 0.996 0.590 0.484 -0.603 0.939 -0.054 -0.018 0.998* -0.892 1
CMT2 0.860 -0.846 -0.968 0.048 0.968 0.828 0.751 -0.298 0.769 0.286 0.320 0.961 -0.687 0.941 1
DDM2 0.900 -0.021 -0.326 0.859 0.324 0.925 0.965 0.631 -0.109 0.957 0.967 0.299 0.227 0.238 0.552 1
DDM1 0.987 -0.590 -0.808 0.411 0.807 0.976 0.941 0.073 0.480 0.618 0.646 0.791 -0.372 0.752 0.930 0.820 1
DME1 0.933 -0.744 -0.912 0.215 0.911 0.910 0.851 -0.133 0.650 0.443 0.475 0.900 -0.555 0.871 0.986 0.684 0.979 1
DME3 0.239 -0.974 -0.858 -0.678 0.859 0.181 0.057 -0.889 0.995 -0.482 -0.450 0.872 -1.000* 0.901 0.702 -0.207 0.391 0.572 1
DRM1 0.678 0.347 0.044 0.987 -0.046 0.721 0.802 0.872 -0.466 0.997 0.993 -0.072 0.568 -0.134 0.208 0.930 0.553 0.369 -0.551 1
SHMT3 0.494 -0.999* -0.965 -0.453 0.966 0.441 0.326 -0.732 0.985 -0.226 -0.191 0.972 -0.957 0.985 0.869 0.067 0.626 0.773 0.962 -0.304 1
PGFT -0.996 0.375 0.640 -0.622 -0.639 -1.000* -0.995 -0.315 -0.251 -0.792 -0.813 -0.618 0.134 -0.567 -0.812 -0.935 -0.970 -0.899 -0.154 -0.740 -0.416 1
FTHFS -0.111 0.936 0.784 0.768 -0.785 -0.052 0.073 0.941 -0.974 0.591 0.562 -0.801 0.994 -0.837 -0.603 0.332 -0.268 -0.461 -0.992 0.655 -0.919 0.024 1
FTHFD -0.765 -0.226 0.082 -0.959 -0.080 -0.802 -0.871 -0.803 0.351 -0.999* -1.000** -0.054 -0.460 0.009 -0.329 -0.969 -0.653 -0.483 0.442 -0.992 0.182 0.818 -0.555 1
MTRF -0.803 -0.166 0.143 -0.940 -0.141 -0.837 -0.899 -0.765 0.293 -0.994 -0.998* -0.114 -0.405 -0.052 -0.386 -0.982 -0.698 -0.536 0.386 -0.983 0.121 0.852 -0.503 .0998* 1
SHMT1 -0.968 0.216 0.503 -0.743 -0.502 -0.981 -0.998* -0.468 -0.087 -0.882 -0.898 -0.479 -0.033 -0.423 -0.704 -0.981 -0.916 -0.813 0.012 -0.841 -0.260 0.986 -0.142 0.903 0.927 1
SHMT2 -0.115 -0.833 -0.624 -0.892 0.625 -0.175 -0.296 -0.993 0.898 -0.758 -0.734 0.646 -0.944 0.692 0.408 -0.536 0.044 0.249 0.937 -0.808 0.807 0.202 -0.974 0.728 0.685 0.361 1
ATM 0.632 -0.977 -0.995 -0.298 0.995 0.584 0.479 -0.608 0.942 -0.060 -0.024 0.998* -0.895 1.000** 0.939 0.232 0.747 0.868 0.904 -0.141 0.986 -0.562 -0.841 0.015 -0.046 -0.417 0.697 1
MTHFS -0.991 0.571 0.795 -0.433 -0.793 -0.981 -0.949 -0.096 -0.459 -0.637 -0.664 -0.777 0.350 -0.736 -0.921 -0.833 -1.000* -0.974 -0.369 -0.572 -0.608 0.975 0.246 0.670 0.714 0.925 -0.021 -0.732 1
MTHFR 0.583 -0.989 -0.987 -0.357 0.988 0.533 0.423 -0.656 0.961 -0.122 -0.087 0.991 -0.921 0.998* 0.916 0.171 0.705 0.835 0.929 -0.202 0.994 -0.510 -0.873 0.077 0.016 -0.360 0.740 0.998* -0.688 1

附表7

激素信号传导途径关键基因与叶酸化合物相关性分析"

5-M-THF 5-M-THFGlu3 5-M-THFGlu4 5,10-CH=THF 10-F-FA 5-F-THF 5-F-THFGlu2 FA ARF GH3 PP2C ABF MPK6 EIN3 BRI1 BKR1 BIN2 NPP1
5-M-THF 1.000
5-M-THFGlu3 -0.454 1.000
5-M-THFGlu4 -0.705 0.952 1.000
5,10-CH=THF 0.551 0.493 0.204 1.000
10-F-FA 0.703 -0.953 -1.000** -0.206 1.000
5-F-THF 0.998* -0.400 -0.661 0.600 0.659 1.000
5-F-THFGlu2 0.983 -0.283 -0.562 0.695 0.560 0.992 1.000
FA 0.334 -0.992 -0.904 -0.602 0.905 0.277 0.155 1.000
ARF 0.358 -0.994 -0.915 -0.582 0.916 0.301 0.180 1.000* 1.000
GH3 0.693 -0.957 -1.000* -0.219 1.000** 0.649 0.549 0.911 0.921 1.000
PP2C -0.988 0.311 0.586 -0.674 -0.585 -0.995 -1.000* -0.185 -0.209 -0.573 1.000
ABF 0.504 0.541 0.258 0.998* -0.260 0.555 0.654 -0.646 -0.626 -0.274 -0.631 1.000
MPK6 0.425 -0.999* -0.942 -0.521 0.942 0.370 0.251 0.995 0.997* 0.947 -0.280 -0.568 1.000
EIN3 -0.998* 0.510 0.749 -0.497 -0.747 -0.992 -0.969 -0.394 -0.417 -0.738 0.976 -0.447 -0.482 1.000
BRI1 -0.992 0.336 0.607 -0.654 -0.606 -0.998* -0.998* -0.210 -0.235 -0.594 1.000* -0.611 -0.305 0.981 1.000
BKR1 0.299 -0.986 -0.888 -0.631 0.889 0.241 0.118 0.999* 0.998* 0.895 -0.148 -0.674 0.991 -0.360 -0.174 1.000
BIN2 0.992 -0.340 -0.611 0.650 0.610 0.998* 0.998* 0.215 0.240 0.598 -1.000* 0.607 0.309 -0.982 -1.000** 0.179 1.000
NPP1 0.349 -0.993 -0.911 -0.589 0.912 0.293 0.171 1.000* 1.000** 0.918 -0.200 -0.634 0.997 -0.409 -0.226 0.999* 0.231 1.000

图7

差异表达基因蛋白网络互作模式图 a: 叶酸合成蛋白与一碳代谢关键蛋白网络分析; b: 叶酸合成蛋白与激素传导蛋白网络分析。DDM1(2): DNA甲基化降解酶1(2); MET1(3): 甲基转移酶1(3); elfl8: 延伸因子; HSP90: 热休克蛋白90; SGT1: skp1基因G2等位基因的抑制子; FLS2: 跨膜受体激酶; MPK6: 丝裂原活化蛋白激酶; MAPK1/3: 有丝分裂原激活蛋白激酶1/3; COI1: 冠氨酸不敏感蛋白1; EDS1: 增强疾病易感性1蛋白; RAR1: 抗病蛋白。浅蓝色及粉色线条: 已知互作蛋白; 深绿、红色、深蓝线条: 预测互作蛋白; 浅绿线条: 文本挖掘; 黑色线条: 共表达; 紫色线条: 同源蛋白。"

附表8

叶酸合成基因与甲基化关键基因相关性分析"

基因名称
Gene ID		 DHFR1 DHFR2 MET1 MET3 DDM1 DDM2
DHFR1 1
DHFR2 0.914 1
MET1 0.404 -0.002 1
MET3 0.916 1.000** 0.004 1
DDM1 0.970 0.788 0.614 0.791 1
DDM2 0.656 0.293 0.955 0.299 0.820 1

附表9

叶酸合成基因与免疫途径及激素信号传导途径关键基因相关性分析"

基因名称Gene ID DHFR1 DHFR2 elfl8 SGT1 HSP90 FLS2 MPK6 MAPK1/3 COI1 EDS1 RAR1
DHFR1 1
DHFR2 0.914 1
elfl8 0.985 0.971 1
SGT1 0.731 0.945 0.839 1
HSP90 0.838 0.987 0.921 0.985 1
FLS2 0.636 0.894 0.761 0.992 0.954 1
MPK6 0.748 0.953 0.852 1.000* 0.989 0.988 1
MAPK1/3 0.574 0.857 0.708 0.978 0.927 0.997* 0.973 1
COI1 0.531 0.829 0.670 0.966 0.907 0.992 0.960 0.999* 1
EDS1 0.430 0.759 0.581 0.930 0.853 0.970 0.921 0.986 0.993 1
RAR1 0.622 0.886 0.749 0.989 0.948 1.000* 0.985 0.998* 0.994 0.974 1
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