Abstract：The COBL (COBRA-like) gene family constitutes a significant gene family, which is involved in the regulation of cell wall amplification. To investigate the function of COBL genes in peanut (Arachis hypogaea), diploid species peanuts Arachis duranensis and Arachis ipaensis , this study mined and identified the peanut COBL gene family and analyzed them for their physicochemical properties, conserved structures, phylogenetic trees and tissue expression patterns. The results showed that there were a total of 51 COBL gene family members in cultivated peanut, diploid peanuts Arachis duranensis and Arachis ipaensis. The peanut COBL gene family members were analogous to those of Arabidopsis thaliana and soybean (Glycine max), which were divided into 2 subfamilies. Each subfamily contained genes that were homologous to those in A. thaliana and soybean. These homologous genes exhibited a high degree of sequence consistency, which indicated the conservativeness of the COBL family genes. The COBL family was shown to to play a pivotal role in the growth and development of the peanut at various stages of its lifecycle. This finding suggested that COBL genes played important regulatory roles in the development of multiple tissues. In the context of salt and drought stress, the expression levels of certain genes in the roots were found to be elevated, suggesting that the activation of these genes in the roots played a crucial role in the perception and response to stress signals when plants were subjected to adverse environmental conditions. This study provides a reference for subsequent functional studies of peanut COBL genes.
张万年, 李玉发, 王伟, 刘红欣, 杨翔宇, 李伟堂, 牛海龙. 花生二倍体Arachis duranensis和Arachis ipaensis与栽培花生COBL基因家族的鉴定与表达分析[J]. 农业生物技术学报, 2025, 33(12): 2581-2594.
ZHANG Wan-Nian, LI Yu-Fa, WANG Wei, LIU Hong-Xin, YANG Xiang-Yu, LI Wei-Tang, NIU Hai-Long. Identification and Expression Analysis of COBL Gene Family in Diploid Species Arachis duranensis, Arachis ipaensis and Arachis hypogaea. 农业生物技术学报, 2025, 33(12): 2581-2594.
[1] 许泽永. 2001. 花生转化和再生研究进展[J]. 农业生物技术学报, 9(2): 107-111. (Xu Z Y.2001. Advances of research on peanut (Archis hypogaea L.) transformation and regeneration[J]. Journal of Agricultural Biotechnology, 9(2): 107-111.) [2] Ahmed M Z, Alqahtani A S, Nasr F A, et al.2024. Comprehensive analysis of the COBRA-like (COBL) gene family through whole-genome analysis of land plants[J]. Genetic Resources and Crop Evolution, 71: 863-872. [3] Bahari M N A, Sakeh N M, Abdullah S N A, et al.2018. Transciptome profiling at early infection of Elaeis guineensis by Ganoderma boninense provides novel insights on fungal transition from biotrophic to necrotrophic phase[J]. BMC Plant Biology, 18(1): 377. [4] Ben-Tov D, Abraham Y, Stav S, et al.2015. COBRA-LIKE2, a member of the glycosylphosphatidylinositol-anchored COBRA-LIKE family, plays a role in cellulose deposition in arabidopsis seed coat mucilage secretory cells[J]. Plant Physiology, 167(3): 711-724. [5] Ben-Tov D, Idan-Molakandov A, Hugger A, et al.2018. The role of COBRALIKE 2 function, as part of the complex network of interacting pathways regulating Arabidopsis seed mucilage polysaccharide matrix organization[J]. The Plant Journal, 94(3): 497-512. [6] Bertioli D J, Cannon S B, Froenicke L, et al.2016. The genome sequences of Arachis duranensis and Arachis ipaensis, the diploid ancestors of cultivated peanut[J]. Nature Genetics, 48(4): 438-446. [7] Bertioli D J, Jenkins J, Clevenger J, et al.2019. The genome sequence of segmental allotetraploid peanut Arachis hypogaea[J]. Nature Genetics, 51(5): 877-884. [8] Brady S M, Song S, Dhugga K S, et al.2007. Combining expression and comparative evolutionary analysis. The COBRA gene family[J]. Plant Physiology, 143(1): 172-187. [9] Carpita N C, Gibeaut D M.1993. Structural models of primary cell walls in flowering land plants: Consistency of molecular structure with the physical properties of the walls during growth[J]. The Plant Journal, 3(1): 1-30. [10] Chen X P, Li H J, Pandey M K, et al.2016. Draft genome of the peanut A-genome progenitor (Arachis duranensis) provides insights into geocarpy, oil biosynthesis, and allergens[J]. Proceedings of the National Academy of Sciences of the USA, 113(24): 6785-6790. [11] Chen X P, Lu Q, Liu H, et al.2019. Sequencing of cultivated peanut, Arachis hypogaea, yields insights into genome evolution and oil improvement[J]. Molecular Plant, 12(7): 920-934. [12] Ching A, Dhugga K S, Appenzeller L, et al.2006. Brittle stalk 2 encodes a putative glycosylphosphatidylinositol- anchored protein that affects mechanical strength of maize tissues by altering the composition and structure of secondary cell walls[J]. Planta, 224(5): 1174-1184. [13] Cosgrove D J.2015. Plant expansins: Diversity and interactions with plant cell walls[J]. Current Opinion in Plant Biology, 25: 162-172. [14] Cosgrove D J.2016. Plant cell wall extensibility: Connecting plant cell growth with cell wall structure, mechanics, and the action of wall-modifying enzymes[J]. Journal of Experimental Botany, 67(2): 463-476. [15] Dai X X, You C J, Wang L, et al.2009. Molecular characterization, expression pattern, and function analysis of the OsBC1L family in rice[J]. Plant Molecular Biology, 71(4-5): 469-481. [16] Francoz E, Ranocha P, Burlat V, et al.2015. Arabidopsis seed mucilage secretory cells: Regulation and dynamics[J]. Trends in Plant Science, 20(8): 515-524. [17] Gritsch C, Wan Y F, Mitchell R A, et al.2015. G-fibre cell wall development in willow stems during tension wood induction[J]. Journal of Experimental Botany, 66(20): 6447-6459. [18] Kumar M, Campbell L, Turner S.2016. Secondary cell walls: Biosynthesis and manipulation[J]. Journal of Experimental Botany, 67(2): 515-531. [19] Li P, Liu Y R, Tan W Q, et al.2019. Brittle culm 1 encodes a COBRA-Like protein involved in secondary cell wall cellulose biosynthesis in sorghum[J]. Plant Cell Physiology, 60(4): 788-801. [20] Li Z Z, Zhou T, Sun P Y, et al.2022. COBL9 and COBL7 synergistically regulate root hair tip growth via controlling apical cellulose deposition[J]. Biochemical and Biophysical Research Communications, 596: 6-13. [21] Liu L F, Shang-Guan K K, Zhang B C, et al.2013. Brittle culm1, a COBRA-like protein, functions in cellulose assembly through binding cellulose microfibrils[J]. PLoS Genetics, 9(8): e1003704. [22] McFarlane H E, Döring A, Persson S.2014. The cell biology of cellulose synthesis[J]. Annual Review of Plant Biology, 65: 69-94. [23] Niu E L, Fang S, Shang, X G, et al.2018. Ectopic expression of GhCOBL9A, a cotton glycosyl-phosphatidyl inositol-anchored protein encoding gene, promotes cell elongation, thickening and increased plant biomass in transgenic Arabidopsis[J]. Molecular Genetics and Genomics, 293(5): 1191-1204. [24] Niu E L, Shang X G, Cheng C Z, et al.2015. Comprehensive analysis of the COBRA-like (COBL) gene family in Gossypium identifies two COBLs potentially associated with fiber quality[J]. PLOS ONE, 10(12): e0145725. [25] Persson S, Wei H R, Milne J, et al.2005. Identification of genes required for cellulose synthesis by regression analysis of public microarray data sets[J]. Proceedings of the National Academy of Sciences of the USA, 102(24): 8633-8638. [26] Qiu C, Chen J H, Wu W H, et al.2023. Genome-wide analysis and abiotic stress-responsive patterns of COBRA-Like gene family in Liriodendron chinense[J]. Plants, 12(8): 1616. [27] Ren P R, Ma L, Bao W, et al.2024. Genome-wide identification and hormone response analysis of the COBL gene family in barley[J]. Genes, 15(5): 612. [28] Roudier F, Fernandez A G, Fujita M, et al.2005. COBRA, an Arabidopsis extracellular glycosyl-phosphatidyl inositolanchored protein, specifically controls highly anisotropic expansion through its involvement in cellulose microfibril orientation[J]. The Plant Cell, 17(6): 1749-1763. [29] Roudier F, Schindelman G, DeSalle R, et al.2002. The COBRA family of putative GPI-anchored proteins in Arabidopsis. A new fellowship in expansion[J]. Plant Physiology, 130(2): 538-548. [30] Sajjad M, Ahmad A, Riaz M W, et al.2023. Recent genome resequencing paraded COBRA-Like gene family roles in abiotic stress and wood formation in poplar[J]. Front Plant Science, 14: 1242836. [31] Sangi S, Araújo P M, Coelho F S, et al.2021. Genome-wide analysis of the COBRA-like gene family supports gene expansion through whole-genome duplication in soybean (Glycine max)[J]. Plants, 10(1): 167. [32] Sato K, Suzuki R, Nishikubo N, et al.2010. Isolation of a novel cell wall architecture mutant of rice with defective Arabidopsis COBL4 ortholog BC1 required for regulated deposition of secondary cell wall components[J]. Plant, 232(1): 257-270. [33] Somerville C.2006. Cellulose synthesis in higher plants[J]. Annual Review of Cell and Developmental Biology, 22(1): 53-78. [34] Taylor N G.2008. Cellulose biosynthesis and deposition in higher plants[J]. The New phytologist, 178(2): 239-252. [35] Yang Q, Wang S, Chen H, et al.2021. Genome-wide identification and expression profiling of the COBRA-like genes reveal likely roles in stem strength in rapeseed (Brassica napus L.)[J]. PLOS ONE, 16(11): e0260268. [36] Yin D M, Ji C M, Ma X L, et al.2018. Genome of an allotetraploid wild peanut Arachis monticola: A de novo assembly[J]. Gigascience, 7(6): giy066. [37] Yoshida K, Sakamoto S, Mitsuda N.2021. In planta cell wall engineering: From mutants to artificial cell walls[J]. Plant and Cell Physiology, 62(12): 1813-1827. [38] Zhang Z B, Gou X W, Xun H W, et al.2020. Homoeologous exchanges occur through intragenic recombination generating novel transcripts and proteins in wheat and other polyploids[J]. Proceedings of the National Academy of Sciences of the USA, 117(25): 14561-14571. [39] Zhuang W J, Chen H, Yang M, et al.2019. The genome of cultivated peanut provides insight into legume karyotypes, polyploid evolution and crop domestication[J]. Nature Genetics, 51(5): 865-876.
