TABLE 1.
Up-regulated genes in J2416 related to synthesis of cellulose, hemicellulose, and lignin.
| Trait | Gene_ID | Annotation | FPKM (5237) | FPKM (J2416) | log2(FC) | FDR | Refs |
| Cellulose | Zm00001d032188 | Cellulose synthase | 0.08 | 5.18 | 5.42 | 2.04E−53 | Li et al., 2017 |
| Cellulose | Zm00001d047276 | COBRA-like protein 4(bk2) | 12.99 | 95.8 | 2.88 | 2.79E−71 | Sindhu et al., 2007 |
| Cellulose | Zm00001d027525 | Endochitinase B | 8.09 | 30.8 | 1.86 | 1.32E−08 | Kwon et al., 2007 |
| Hemicellulose | Zm00001d053888 | Glycosyltransferase | 0 | 3.78 | 6.69 | 1.19E−28 | Wu et al., 2010 |
| Hemicellulose | Zm00001d046960 | Glycosyltransferase | 0 | 13.14 | 8.2 | 4.70E−51 | Wu et al., 2010 |
| Hemicellulose | Zm00001d023952 | Glycosyltransferase | 0 | 7.16 | 7.5 | 4.12E−40 | Wu et al., 2010 |
| Hemicellulose | Zm00001d047562 | Glycosyltransferase family 47 | 0.57 | 1.56 | 1.36 | 1.86E−03 | Zhang et al., 2011 |
| Hemicellulose | Zm00001d036122 | Glycosyltransferase family 61 | 1.46 | 4.28 | 1.4 | 6.52E−03 | Chiniquy et al., 2012 |
| Hemicellulose | Zm00001d008496 | Glycosyltransferase family 61 | 0.12 | 1.79 | 3.32 | 4.70E−11 | Chiniquy et al., 2012 |
| Hemicellulose | Zm00001d028642 | Glucuronosyltransferase | 1.01 | 2.49 | 1.24 | 1.29E−03 | Gao et al., 2020 |
| Hemicellulose | Zm00001d008795 | UDP-glycosyltransferase 74B1 | 0.23 | 1.1 | 2.02 | 2.13E−05 | Penning et al., 2009 |
| Hemicellulose | Zm00001d019256 | UDP-glycosyltransferase 76C1 | 10.17 | 20.05 | 1 | 1.24E−10 | Penning et al., 2009 |
| Hemicellulose | Zm00001d034068 | UDP-glycosyltransferase 83A1 | 0.27 | 1.42 | 1.99 | 1.14E−03 | Penning et al., 2009 |
| Hemicellulose | Zm00001d021755 | UDP-glycosyltransferase 88A1 | 1.83 | 10.42 | 2.37 | 7.04E−10 | Guo et al., 2021 |
| Hemicellulose | Zm00001d021732 | UDP-glycosyltransferase 88A1 | 0.04 | 0.94 | 3.64 | 1.37E−09 | Guo et al., 2021 |
| Hemicellulose | Zm00001d003102 | UDP-glycosyltransferase 92A1 | 1.08 | 7.02 | 2.53 | 1.67E−09 | Penning et al., 2009 |
| Hemicellulose | Zm00001d003626 | Xylem NAC domain | 9.83 | 58.86 | 2.56 | 2.79E−33 | Zhong et al., 2008 |
| Hemicellulose | Zm00001d029814 | Xyloglucan endotransglucosylase | 1.95 | 6.67 | 1.74 | 4.95E−12 | Xie et al., 2022 |
| Hemicellulose | Zm00001d024382 | Xyloglucan endotransglucosylase | 0.48 | 1.74 | 1.72 | 4.19E−05 | Xie et al., 2022 |
| Lignin | Zm00001d020402 | Cinnamyl alcohol dehydrogenase 6(CAD6) | 36.4 | 78.31 | 1.12 | 4.24E−12 | Halpin et al., 1998 |
| Lignin | Zm00001d034015 | Exoglucanase1(exg1) | 14.2 | 22.7 | 1.16 | 2.52E−15 | Furukawa et al., 2014 |
| Lignin | Zm00001d039837 | Hydroxy cinnamoyl transferase | 12.76 | 27.49 | 1.15 | 3.65E−27 | Serrani-Yarce et al., 2021 |
| Lignin | Zm00001d025140 | Hydroxy cinnamoyl transferase | 0.03 | 2.2 | 4.25 | 1.40E−10 | Serrani-Yarce et al., 2021 |
| Lignin | Zm00001d020530 | Hydroxy cinnamoyl transferase11 | 25.24 | 56.43 | 1.19 | 1.53E−17 | Serrani-Yarce et al., 2021 |
| Lignin | Zm00001d035055 | Peroxidase 53 | 10.74 | 47.44 | 2.15 | 1.06E−45 | Marjamaa et al., 2009 |
| Lignin | Zm00001d047984 | Peroxidase 53 | 0.13 | 3.08 | 3.57 | 1.4E−12 | Marjamaa et al., 2009 |
| Lignin | Zm00001d003016 | Phenylalanine ammonia lyase2(PAL2) | 13.95 | 61.03 | 2.15 | 4.7E−113 | Rohde et al., 2004 |
| Lignin | Zm00001d029391 | Phospho-2-dehydro 3 deoxyheptonate aldolase 2 (PDA2) | 5.34 | 13.43 | 1.32 | 2.3E−12 | Schomburg and Salzmann, 1990 |