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molecules Review Checking NEKs: Overcoming a Bottleneck in Human Diseases 1, 1,2, 1,2,3, Andressa Peres de Oliveira y, Luidy Kazuo Issayama y, Isadora Carolina Betim Pavan y, Fernando Riback Silva 1,2, Talita Diniz Melo-Hanchuk 1,2, Fernando Moreira Simabuco 3 and Jörg Kobarg 2,* 1 Instituto de Biologia, Departamento de Bioquímica e Biologia Tecidual, Universidade Estadual de Campinas, Campinas, São Paulo 13083-862, Brazil; [email protected] (A.P.d.O.); [email protected] (L.K.I.); [email protected] (I.C.B.P.); [email protected] (F.R.S.); [email protected] (T.D.M.-H.) 2 Faculdade de Ciências Farmacêuticas, Universidade Estadual de Campinas, Campinas, São Paulo 13083-871, Brazil 3 Laboratório Multidisciplinar em Alimentos e Saúde, Faculdade de Ciências Aplicadas, Universidade Estadual de Campinas, São Paulo 13484-350, Brazil; [email protected] * Correspondence: [email protected]; Tel.: +55-19-3521-8143 These authors contributed equally to this work. y Received: 10 March 2020; Accepted: 9 April 2020; Published: 13 April 2020 Abstract: In previous years, several kinases, such as phosphoinositide 3-kinase (PI3K), mammalian target of rapamycin (mTOR), and extracellular-signal-regulated kinase (ERK), have been linked to important human diseases, although some kinase families remain neglected in terms of research, hiding their relevance to therapeutic approaches. Here, a review regarding the NEK family is presented, shedding light on important information related to NEKs and human diseases. NEKs are a large group of homologous kinases with related functions and structures that participate in several cellular processes such as the cell cycle, cell division, cilia formation, and the DNA damage response. The review of the literature points to the pivotal participation of NEKs in important human diseases, like different types of cancer, diabetes, ciliopathies and central nervous system related and inflammatory-related diseases. The different known regulatory molecular mechanisms specific to each NEK are also presented, relating to their involvement in different diseases. In addition, important information about NEKs remains to be elucidated and is highlighted in this review, showing the need for other studies and research regarding this kinase family. Therefore, the NEK family represents an important group of kinases with potential applications in the therapy of human diseases. Keywords: NEKs; cancer; disorders 1. Introduction In humans, the Never in Mitosis A (NIMA)-related kinases, or simply NEKs, belong to a family with eleven different members that share significant homology with Aspergillus nidulans NIMA proteins [1,2]. Differences, especially in the C-terminal regulatory and docking domains of each family member, suggest that they have distinct functions [3]. NEKs were initially characterized by their function in regulating mitosis, being the least characterized family of kinases involved in this process, aside from the cyclin-dependent kinase (CDK), and Polo and Aurora kinase families [4–6]. However in recent years, new functions have been designated to the NEK family members, especially those related to primary ciliary and DNA damage response functions [7]. Members of the NEK family participate in one or more of the functions shown in Figure1. Cell cycle: NEK1 [ 8], NEK2 [9], NEK3 [10], NEK6 [11], NEK7 [12], and NEK10 [13]; mitosis: NEK6 [14], NEK7 [15], NEK8 [7], and NEK9 [16]; meiosis: Molecules 2020, 25, 1778; doi:10.3390/molecules25081778 www.mdpi.com/journal/molecules Molecules 2020, 25, 1778 2 of 32 Molecules 2020, 25, x 2 of 32 [10]NEK1, NEK6 [17], NEK4[11], NEK7 [18], and[12], NEK11 and NEK10 [19]; centrosome[13]; mitosis organization:: NEK6 [14], NEK7 NEK2 [15] [20],, NEK8 NEK5 [[7]21,], and NEK8 NEK9 [7], [16]and; NEK9meiosis [16: ];NEK1 gametogenesis: [17], NEK4 NEK1 [18], [and22]; NEK11 primary [19] cilia:; centrosome NEK1 [23], organization NEK2 [24], NEK4: NEK2 [25 ],[20] NEK8, NEK5 [7], [21]and, NEK10NEK8 [7] [26, and]; RNA NEK9 Splicing: [16]; gametogenesis NEK4 [18];: NEK1 myogenic [22]; diprimaryfferentiation: cilia: NEK1 NEK5 [23] [27, NEK2]; inflammation: [24], NEK4 [25]NEK6, NEK8 [28], and[7], NEK7and NEK10 [29]; intracellular [26]; RNA proteinSplicing transport:: NEK4 [18] NEK7; myogenic [12]; and differentiation finally, the DNA: NEK5 damage [27]; iresponsenflammation: (DDR): NEK6 NEK1 [28] [30, ],and NEK4 NEK7 [31 ],[29] NEK5; intracellular [32], NEK7 protein [12], NEK8 transport [33],: NEK10 NEK7 [[12]13],; andand NEK11finally, [ 34the]. DNACell cycle damage deregulation, response (DDR) defects: NEK1 in ciliary [30], functions,NEK4 [31], and NEK5 the [32] response, NEK7 to[12] DNA, NEK8 damage [33], NEK10 are known [13], andcharacteristics NEK11 [34] of. severalCell cycle diseases, deregulation, such as defects the development in ciliary functions of tumors,, and which the isresponse one of theto DNA most damagecharacterized are known and studied characteristics areas [35 of,36 several]. diseases, such as the development of tumors, which is one of the most characterized and studied areas [35,36]. Figure 1. Schematic overview of of the functions of NEK (Never in Mitosis A (NIMA)-related(NIMA)-related kinase) family members.members. In In the the c clockwiselockwise direction the the pie charts represent the described functions for each member of the NEK family, asas shownshown inin thethe subtitlessubtitles atat thethe bottom.bottom. DDR: DNA DamageDamage Response.Response. Members of the NEK family are involved in the development and/or and/or progression of several diseases [4,7,35,36] [4,7,35,36].. In In recent recent year years,s, information information about about the the NEK NEK family family has has been been accumulating accumulating [7,37 [7–, 39]37–,39 although], although there there is a large is a large gap in gap knowledge in knowledge for some for somelesser- lesser-studiedstudied members members of the family. of the family. Thus, Thus,considering considering the main the functions main functions of the ofNEK the family, NEK family, this review this review outlines outlines the individual the individual roles rolesof each of familyeach family member member and andtheir their involvement involvement in diverse in diverse types types of ofdiseases diseases,, as as shown shown in in F Figureigure 22.. FigureFigure3 3 summarizes the diseases described in this review andand indicatesindicates thethe organorgan oror tissuetissue aaffected.ffected. Molecules 2020, 25, x 3 of 32 Molecules 2020, 25, x 3 of 32 Molecules 2020, 25, 1778 3 of 32 Figure 2. The NIMA-related kinase (NEK) family is involved in various human diseases. The Figure 2. The NIMA-related kinase (NEK) family is involved in various human diseases. The schematic schematic circle shows that the 11 members of the NEK family are related to different human diseases, circle shows that the 11 members of the NEK family are related to different human diseases, such as such as cancer, bone, neuronal, skeletal muscle, inflammatory, cutaneous, and ciliopathic diseases. Figurecancer, 2. bone, The neuronal,NIMA-related skeletal kinase muscle, (NEK) inflammatory, family is cutaneous,involved in and various ciliopathic human diseases. diseases All. NEKsThe All NEKs are involved in cancer. schematicare involved circle in shows cancer. that the 11 members of the NEK family are related to different human diseases, such as cancer, bone, neuronal, skeletal muscle, inflammatory, cutaneous, and ciliopathic diseases. All NEKs are involved in cancer. Figure 3. Schematic overview of NEKs and human diseases. At the top left, a human embryo is Figure 3. Schematic overview of NEKs and human diseases. At the top left, a human embryo is represented. It shows the relevance of NEK5 and NEK10 in the development of some tissues. In the represented. It shows the relevance of NEK5 and NEK10 in the development of some tissues. In the middle, the correlations between NEKs and human diseases are presented, for each corresponding middle, the correlations between NEKs and human diseases are presented, for each corresponding Figureorgan. 3. There Schematic are no overview major diff oferences NEKs between and human men diseases. and women, At the except top forleft, the a reproductivehuman embryo organs is organ. There are no major differences between men and women, except for the reproductive organs representedand breasts.. It For shows schematic the relevance purposes, of NEK5 the figure and only NEK10 highlights in the development some organs forof some each sex.tissues. In the and breasts. For schematic purposes, the figure only highlights some organs for each sex. middle, the correlations between NEKs and human diseases are presented, for each corresponding 2. NEK1organ. There are no major differences between men and women, except for the reproductive organs 2. NEK1 andNEK1 breasts. is aFor widely schematic studied purposes, kinase the figure from theonly NEKhighlights family, some and organs its keyfor each role sex. in several cellular functions is still a focus of human disease studies, since alterations in its expressions can lead to several 2. NEK1 Molecules 2020, 25, 1778 4 of 32 pathologies. It was demonstrated to have pleiotropic effects and a correlation with Polycystic Kidney Disease (PKD) through underexpression in mice, which also suggested a ciliary function [23]; this was confirmed by subsequent studies [8]. Additionally, NEK1 is involved in cell cycle progression and many DNA Damage Response (DDR) pathways. NEK1 was shown to
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  • Exploration of the Cell-Cycle Genes Found Within the RIKEN Fantom2data Set Alistair R.R

    Exploration of the Cell-Cycle Genes Found Within the RIKEN Fantom2data Set Alistair R.R

    Downloaded from genome.cshlp.org on September 30, 2015 - Published by Cold Spring Harbor Laboratory Press Letter Exploration of the Cell-Cycle Genes Found Within the RIKEN FANTOM2Data Set Alistair R.R. Forrest,1,2,3,7 Darrin Taylor,1,2,3 RIKEN GER Group4 and GSL Members,5,6 and Sean Grimmond1,2 1The Institute for Molecular Bioscience, University of Queensland, Queensland Q4072, Australia; 2University of Queensland, Queensland Q4072, Australia; 3The Australian Research Council Special Research Centre for Functional and Applied Genomics, University of Queensland, Queensland Q4072, Australia; 4Laboratory for Genome Exploration Research Group, RIKEN Genomic Sciences Center (GSC), RIKEN Yokohama Institute, Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa, 230-0045, Japan; 5Genome Science Laboratory, RIKEN, Hirosawa, Wako, Saitama 351-0198, Japan The cell cycle is one of the most fundamental processes within a cell. Phase-dependent expression and cell-cycle checkpoints require a high level of control. A large number of genes with varying functions and modes of action are responsible for this biology. In a targeted exploration of the FANTOM2–Variable Protein Set, a number of mouse homologs to known cell-cycle regulators as well as novel members of cell-cycle families were identified. Focusing on two prototype cell-cycle families, the cyclins and the NIMA-related kinases (NEKs), we believe we have identified all of the mouse members of these families, 24 cyclins and 10 NEKs, and mapped them to ENSEMBL transcripts. To attempt to globally identify all potential cell cycle-related genes within mouse, the MGI (Mouse Genome Database) assignments for the RIKEN Representative Set (RPS) and the results from two homology-based queries were merged.