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The Bioinformatics Identification and Analysis of the ANK Family Genes Encoding the Melon Anchored Protein

Rongrong ZHANGManliang FANSimin LUKai PENGJiejie HUIXuefei NING()
School of Life Science and Technology, Xinjiang University, Urumqi Xinjiang 830017, China
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Abstract

The ANK anchored protein family encodes the ANK domain, ANK family genes in plants are involved in regulating plant responses to biotic and abiotic stresses, with overexpression of ANK genes enhancing plant stress resistance. Based on the whole genome and transcriptome sequencing data of melon, the structures, phylogenetic relationship, genome localizations and expression profiles of 78 ankyrin repeat genes identified in melon (CmANK). Domain composition analysis showed that CmANK proteins formed 11 subfamilies. The phylogenetic tree analysis classified melon ANK members into 7 major subclusters, with 8 pairs of collinearity within the species and a linear relationship with 5 genes among Arabidopsis, rice and cucumber. The CmANK family genes are differentially expressed in different tissues and vary in expression under different stresses. The expression profiles analysis of melon ANK genes under biotic and abiotic stress conditions revealed that melon ANK gene, CmANK30, showed significant up-regulation of expression in response to all stresses, which meant this gene played an important role in stress response regulation.

CLC number: S652 Document code: A Article ID: 2096-7675(2025)01-0055-011

References

[1]
BREEDEN L, NASMYTH K. Cell cycle control of the yeast HO gene: Cis- and Trans-acting regulators[J]. Cell, 1987, 48(3): 389-397.
[2]
ELMENDORF H G, ROHRER S C, KHOURY R S, et al. Examination of a novel head-stalk protein family in Giardia lamblia characterised by the pairing of ankyrin repeats and coiled-coil domains[J]. International Journal for Parasitology, 2005, 35(9): 1001-1011.
[3]
ZHANG H, SCHEIRER D C, FOWLE W H, et al. Expression of antisense or sense RNA of an ankyrin repeat-containing gene blocks chloroplast differentiation in Arabidopsis[J]. The Plant Cell, 1992, 4(12): 1575-1588.
[4]
BECERRA C, JAHRMANN T, PUIGDOMÈNECH P, et al. Ankyrin repeat-containing proteins in Arabidopsis: Characterization of a novel and abundant group of genes coding ankyrin-transmembrane proteins[J]. Gene, 2004, 340(1): 111-121.
[5]
HUANG J Y, ZHAO X B, YU H H, et al. The ankyrin repeat gene family in rice: Genome-wide identification, classification and expression profiling[J]. Plant Molecular Biology, 2009, 71(3): 207-226.
[6]
YUAN X W, ZHANG S Z, QING X H, et al. Superfamily of ankyrin repeat proteins in tomato[J]. Gene, 2013, 523(2): 126-136.
[7]
JIANG H Y, WU Q Q, JIN J, et al. Genome-wide identification and expression profiling of ankyrin-repeat gene family in maize[J]. Development Genes and Evolution, 2013, 223(5): 303-318.
[8]
LOPEZ-ORTIZ C, PEÑA-GARCIA Y, NATARAJAN P, et al. The ankyrin repeat gene family in Capsicum spp: Genome-wide survey, characterization and gene expression profile[J]. Scientific Reports, 2020, 10: 4044.
[9]
ZHAO J Y. Identification of ANK family genes in foxtail millet and soybean and function analysis of SiANK37 and GmANK114[D]. Yangling: Northwest A&F University, 2022. (in Chinese)
[10]
ZHANG D Y, WAN Q, HE X L, et al. Genome-wide characterization of the ankyrin repeats gene family under salt stress in soybean[J]. Science of the Total Environment, 2016, 568: 899-909.
[11]
HUANG C. Transcriptome analysis of responding to low temperature in melon (Cucumis melo L.)[D]. Harbin: Northeast Agricultural University, 2018. (in Chinese)
[12]
WANG L M, ZHANG L D, CHEN J B, et al. Physiological analysis and transcriptome comparison of two muskmelon (Cucumis melo L.) cultivars in response to salt stress[J]. Genetics and Molecular Research, 2016, 15(3): 15038738.
[13]
ZHU Q L, GAO P, WAN Y, et al. Comparative transcriptome profiling of genes and pathways related to resistance against powdery mildew in two contrasting melon genotypes[J]. Scientia Horticulturae, 2018, 227: 169-180.
[14]
HUANG J, CHEN F, DEL CASINO C, et al. An ankyrin repeat-containing protein, characterized as a ubiquitin ligase, is closely associated with membrane-enclosed organelles and required for pollen germination and pollen tube growth in lily[J]. Plant Physiology, 2006, 140(4): 1374-1383.
[15]
CARVALHO S D, SARAIVA R, MAIA T M, et al. XBAT35, a novel Arabidopsis RING E3 ligase exhibiting dual targeting of its splice isoforms, is involved in ethylene-mediated regulation of apical hook curvature[J]. Molecular Plant, 2012, 5(6): 1295-1309.
[16]
NODZON L A, XU W H, WANG Y S, et al. The ubiquitin ligase XBAT32 regulates lateral root development in Arabidopsis[J]. The Plant Journal, 2004, 40(6): 996-1006.
[17]
LYZENGA W J, BOOTH J K, STONE S L. The Arabidopsis RING-type E3 ligase XBAT32 mediates the proteasomal degradation of the ethylene biosynthetic enzyme, 1-aminocyclopropane-1-carboxylate synthase 7[J]. The Plant Journal, 2012, 71(1): 23-34.
[18]
TIAN Z, HAN J D, CHE G, et al. Genome-wide characterization and expression analysis of SAUR gene family in melon (Cucumis melo L.)[J]. Planta, 2022, 255(6): 123.
[19]
DERELLI TUFEKCI E. Genome-wide identification and analysis of Lateral Organ Boundaries Domain (LBD) transcription factor gene family in melon (Cucumis melo L.)[J]. PeerJ, 2023, 11: e16020.
[20]
WANG S S, WANG C, LYU F T, et al. Genome-wide identification of the OMT gene family in Cucumis melo L. and expression analysis under abiotic and biotic stress[J]. PeerJ, 2023, 11: e16483.
[21]
ZHANG T F, XU N, AMANULLAH S, et al. Genome-wide identification, evolution, and expression analysis of MLO gene family in melon (Cucumis melo L.)[J]. Frontiers in Plant Science, 2023, 14: 1144317.
[22]
FU L N, WANG H Z, LENG X F, et al. Genome-wide identification and expression analysis of the CmHAK gene family in melon (Cucumis melo L.)[J]. Horticulturae, 2023, 9(10): 1138.
[23]
WEI S W, GAO L W, ZHANG Y D, et al. Genome-wide investigation of the NAC transcription factor family in melon (Cucumis melo L.) and their expression analysis under salt stress[J]. Plant Cell Reports, 2016, 35(9): 1827-1839.
[24]
MISTRY J, CHUGURANSKY S, WILLIAMS L, et al. Pfam: The protein families database in 2021[J]. Nucleic Acids Research, 2021, 49(D1): D412-D419.
[25]
CASTANERA R, RUGGIERI V, PUJOL M, et al. An improved melon reference genome with single-molecule sequencing uncovers a recent burst of transposable elements with potential impact on genes[J]. Frontiers in Plant Science, 2019, 10: 1815.
[26]
ARTIMO P, JONNALAGEDDA M, ARNOLD K, et al. ExPASy: SIB bioinformatics resource portal[J]. Nucleic Acids Research, 2012, 40(W1): W597-W603.
[27]
YU C S, LIN C J, HWANG J K. Predicting subcellular localization of proteins for Gram-negative bacteria by support vector machines based on n-peptide compositions[J]. Protein Science, 2004, 13(5): 1402-1406.
[28]
CHEN C J, WU Y, LI J W, et al. TBtools-II: A“one for all, all for one” bioinformatics platform for biological big-data mining[J]. Molecular Plant, 2023, 16(11): 1733-1742.
[29]
ZHOU T, XU K D, ZHAO F, et al. Itol.toolkit accelerates working with iTOL (interactive Tree of Life) by an automated generation of annotation files[J]. Bioinformatics, 2023, 39(6): btad339.
[30]
RASCHE H, HILTEMANN S. Galactic Circos: User-friendly Circos plots within the Galaxy platform[J]. GigaScience, 2020, 9(6): giaa065.
[31]
LI Y X, LIN J Z, LI L, et al. DHHC-cysteine-rich domain S-acyltransferase protein family in rice: Organization, phylogenetic relationship and expression pattern during development and stress[J]. Plant Systematics and Evolution, 2016, 302(10): 1405-1417.
[32]
CANNON S B, MITRA A, BAUMGARTEN A, et al. The roles of segmental and tandem gene duplication in the evolution of large gene families in Arabidopsis thaliana[J]. BMC Plant Biology, 2004, 4(1): 10.
[33]
HUANG Y L, ZHANG L K, ZHANG K, et al. The impact of tandem duplication on gene evolution in Solanaceae species[J]. Journal of Integrative Agriculture, 2022, 21(4): 1004-1014.
[34]
SHEN G X, KUPPU S, VENKATARAMANI S, et al. ANKYRIN REPEAT-CONTAINING PROTEIN 2A is an essential molecular chaperone for peroxisomal membrane-bound ASCORBATE PEROXIDASE3 in Arabidopsis[J]. The Plant Cell, 2010, 22(3): 811-831.
[35]
TANG Q, ZHAO Y N, LUO S, et al. AKR2A is involved in the flowering process of Arabidopsis thaliana[J]. Plant Signaling & Behavior, 2022, 17(1): 2100685.
[36]
YU F, SHI J, ZHOU J Y, et al. ANK6, a mitochondrial ankyrin repeat protein, is required for male-female gamete recognition in Arabidopsis thaliana[J]. Proceedings of the National Academy of Sciences of the United States of America, 2010, 107(51): 22332-22337.
[37]
VO K T X, KIM C Y, CHANDRAN A K N, et al. Molecular insights into the function of ankyrin proteins in plants[J]. Journal of Plant Biology, 2015, 58(5): 271-284.
[38]
XIONG L M, SCHUMAKER K S, ZHU J K. Cell signaling during cold, drought, and salt stress[J]. The Plant Cell, 2002, 14(S1): S165-S183.
[39]
WANG Y S, PI L Y, CHEN X H, et al. Rice XA21 binding protein 3 is a ubiquitin ligase required for full Xa21-mediated disease resistance[J]. The Plant Cell, 2006, 18(12): 3635-3646.
[40]
DONG X N. The role of membrane-bound ankyrin-repeat protein ACD6 in programmed cell death and plant defense[J]. Science Signaling, 2004, 2004(221): pe6.
[41]
KOLODZIEJ M C, SINGLA J, SÁNCHEZ-MARTÍN J, et al. A membrane-bound ankyrin repeat protein confers race-specific leaf rust disease resistance in wheat[J]. Nature Communications, 2021, 12: 956.
Journal of Xinjiang University(Natural Science Edition in Chinese and English)
Pages 55-65
Cite this article:
ZHANG R, FAN M, LU S, et al. The Bioinformatics Identification and Analysis of the ANK Family Genes Encoding the Melon Anchored Protein. Journal of Xinjiang University(Natural Science Edition in Chinese and English), 2025, 42(1): 55-65. https://doi.org/10.13568/j.cnki.651094.651316.2024.02.20.0001
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