1. Schulman BA, Harper JW: Ubiquitin-like protein activation by E1 enzymes: the apex for downstream signalling pathways. Nat Rev Mol Cell Bio 2009, 10(5):319-331.
2. Ye YH, Rape M: Building ubiquitin chains: E2 enzymes at work. Nat Rev Mol Cell Bio 2009, 10(11):755-764.
3. Smalle J, Vierstra RD: The ubiquitin 26S proteasome proteolytic pathway. Annual Review of Plant Biology 2004, 55:555-590.
4. Moon J, Parry G, Estelle M: The ubiquitin-proteasome pathway and plant development. Plant Cell 2004, 16(12):3181-3195.
5. Cyr DM, Hohfeld J, Patterson C: Protein quality control: U-box-containing E3 ubiquitin ligases join the fold. Trends Biochem Sci 2002, 27(7):368-375.
6. Harper JW, Burton JL, Solomon MJ: The anaphase-promoting complex: it's not just for mitosis any more. Genes Dev 2002, 16(17):2179-2206.
7. Vierstra RD: The ubiquitin-26S proteasome system at the nexus of plant biology. Nat Rev Mol Cell Bio 2009, 10(6):385-397.
8. Jackson PK, Eldridge AG, Freed E, Furstenthal L, Hsu JY, Kaiser BK, Reimann JD: The lore of the RINGs: substrate recognition and catalysis by ubiquitin ligases. Trends Cell Biol 2000, 10(10):429-439.
9. Wiborg J, O'Shea C, Skriver K: Biochemical function of typical and variant Arabidopsis thaliana U-box E3 ubiquitin-protein ligases. Biochem J 2008, 413(3):447-457.
10. Zeng LR, Park CH, Venu RC, Gough J, Wang GL: Classification, expression pattern, and E3 ligase activity assay of rice U-box-containing proteins. Mol Plant 2008, 1(5):800-815.
11. Luo Q, Li Y, Wang W, Fei X, Deng X: Genome-wide survey and expression analysis of Chlamydomonas reinhardtii U-box E3 ubiquitin ligases (CrPUBs) reveal a functional lipid metabolism module. PLoS One 2015, 10(3):e0122600.
12. Wang C, Duan W, Riquicho AR, Jing Z, Liu T, Hou X, Li Y: Genome-wide survey and expression analysis of the PUB family in Chinese cabbage (Brassica rapa ssp. pekinesis). Mol Genet Genomics 2015, 290(6):2241-2260.
13. Wang N, Liu Y, Cong Y, Wang T, Zhong X, Yang S, Li Y, Gai J: Genome-Wide Identification of Soybean U-Box E3 Ubiquitin Ligases and Roles of GmPUB8 in Negative Regulation of Drought Stress Response in Arabidopsis. Plant Cell Physiol 2016, 57(6):1189-1209.
14. Cho SK, Chung HS, Ryu MY, Park MJ, Lee MM, Bahk YY, Kim J, Pai HS, Kim WT: Heterologous expression and molecular and cellular characterization of CaPUB1 encoding a hot pepper U-Box E3 ubiquitin ligase homolog. Plant Physiol 2006, 142(4):1664-1682.
15. Cho SK, Ryu MY, Song C, Kwak JM, Kim WT: Arabidopsis PUB22 and PUB23 are homologous U-Box E3 ubiquitin ligases that play combinatory roles in response to drought stress. Plant Cell 2008, 20(7):1899-1914.
16. Liu YC, Wu YR, Huang XH, Sun J, Xie Q: AtPUB19, a U-Box E3 Ubiquitin Ligase, Negatively Regulates Abscisic Acid and Drought Responses in Arabidopsis thaliana. Molecular Plant 2011, 4(6):938-946.
17. Park JJ, Yi J, Yoon J, Cho LH, Ping J, Jeong HJ, Cho SK, Kim WT, An G: OsPUB15, an E3 ubiquitin ligase, functions to reduce cellular oxidative stress during seedling establishment. Plant Journal 2011, 65(2):194-205.
18. Senchina DS, Alvarez I, Cronn RC, Liu B, Rong JK, Noyes RD, Paterson AH, Wing RA, Wilkins TA, Wendel JF: Rate variation among nuclear genes and the age of polyploidy in Gossypium. Molecular Biology and Evolution 2003, 20(4):633-643.
19. Wendel JF, Cronn RC: Polyploidy and the evolutionary history of cotton. Adv Agron 2003, 78:139-186.
20. Paterson AH, Wendel JF, Gundlach H, Guo H, Jenkins J, Jin DC, Llewellyn D, Showmaker KC, Shu SQ, Udall J et al: Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres. Nature 2012, 492(7429):423-427.
21. Wang KB, Wang ZW, Li FG, Ye WW, Wang JY, Song GL, Yue Z, Cong L, Shang HH, Zhu SL et al: The draft genome of a diploid cotton Gossypium raimondii. Nat Genet 2012, 44(10):1098-1104.
22. Li FG, Fan GY, Wang KB, Sun FM, Yuan YL, Song GL, Li Q, Ma ZY, Lu CR, Zou CS et al: Genome sequence of the cultivated cotton Gossypium arboreum. Nat Genet 2014, 46(6):567-572.
23. Li F, Fan G, Lu C, Xiao G, Zou C, Kohel RJ, Ma Z, Shang H, Ma X, Wu J et al: Genome sequence of cultivated Upland cotton (Gossypium hirsutum TM-1) provides insights into genome evolution. Nat Biotechnol 2015, 33(5):524-530.
24. Zhang T, Hu Y, Jiang W, Fang L, Guan X, Chen J, Zhang J, Saski CA, Scheffler BE, Stelly DM et al: Sequencing of allotetraploid cotton (Gossypium hirsutum L. acc. TM-1) provides a resource for fiber improvement. Nat Biotechnol 2015, 33(5):531-537.
25. Yuan D, Tang Z, Wang M, Gao W, Tu L, Jin X, Chen L, He Y, Zhang L, Zhu L et al: The genome sequence of Sea-Island cotton (Gossypium barbadense) provides insights into the allopolyploidization and development of superior spinnable fibres. Sci Rep 2015, 5:17662.
26. Lu X, Yin Z, Wang J, Chen X, Wang D, Wang S, Guo L, Fan W, Chen C, Wang X et al: Identification and function analysis of drought-specific small RNAs in Gossypium hirsutum L. Plant Sci 2019, 280:187-196.
27. Finn RD, Coggill P, Eberhardt RY, Eddy SR, Mistry J, Mitchell AL, Potter SC, Punta M, Qureshi M, Sangrador-Vegas A et al: The Pfam protein families database: towards a more sustainable future. Nucleic Acids Res 2016, 44(D1):D279-285.
28. Finn RD, Clements J, Arndt W, Miller BL, Wheeler TJ, Schreiber F, Bateman A, Eddy SR: HMMER web server: 2015 update. Nucleic Acids Res 2015, 43(W1):W30-38.
29. Yu CS, Chen YC, Lu CH, Hwang JK: Prediction of protein subcellular localization. Proteins 2006, 64(3):643-651.
30. Schauser L, Wieloch W, Stougaard J: Evolution of NIN-like proteins in Arabidopsis, rice, and Lotus japonicus. J Mol Evol 2005, 60(2):229-237.
31. Wei KF, Wang YM, Xie DX: Identification and expression profile analysis of the protein kinase gene superfamily in maize development. Mol Breeding 2014, 33(1):155-172.
32. Chothia C, Gough J, Vogel C, Teichmann SA: Evolution of the protein repertoire. Science 2003, 300(5626):1701-1703.
33. Zhu YX, Li FG: The Gossypium raimondii Genome, a Huge Leap Forward in Cotton Genomics. Journal of Integrative Plant Biology 2013, 55(7):570-571.
34. Yang SH, Zhang XH, Yue JX, Tian DC, Chen JQ: Recent duplications dominate NBS-encoding gene expansion in two woody species. Molecular Genetics and Genomics 2008, 280(3):187-198.
35. Gu ZL, Cavalcanti A, Chen FC, Bouman P, Li WH: Extent of gene duplication in the genomes of Drosophila, nematode, and yeast. Mol Biol Evol 2002, 19(3):256-262.
36. Stone SL, Anderson EM, Mullen RT, Goring DR: ARC1 is an E3 ubiquitin ligase and promotes the ubiquitination of proteins during the rejection of self-incompatible Brassica pollen. Plant Cell 2003, 15(4):885-898.
37. Wang Y, Tang H, Debarry JD, Tan X, Li J, Wang X, Lee TH, Jin H, Marler B, Guo H et al: MCScanX: a toolkit for detection and evolutionary analysis of gene synteny and collinearity. Nucleic Acids Res 2012, 40(7):e49.
38. Bergler J, Hoth S: Plant U-box armadillo repeat proteins AtPUB18 and AtPUB19 are involved in salt inhibition of germination in Arabidopsis. Plant Biol (Stuttg) 2011, 13(5):725-730.
39. Azevedo C, Santos-Rosa MJ, Shirasu K: The U-box protein family in plants. Trends Plant Sci 2001, 6(8):354-358.
40. Yan JQ, Wang J, Li QT, Hwang JR, Patterson C, Zhang H: AtCHIP, a U-box-containing E3 ubiquitin ligase, plays a critical role in temperature stress tolerance in Arabidopsis. Plant Physiology 2003, 132(2):861-869.
41. Seo DH, Ryu MY, Jammes F, Hwang JH, Turek M, Kang BG, Kwak JM, Kim WT: Roles of Four Arabidopsis U-Box E3 Ubiquitin Ligases in Negative Regulation of Abscisic Acid-Mediated Drought Stress Responses. Plant Physiology 2012, 160(1):556-568.