Genomics最新文献

{"title":"Metabolomic and transcriptomic reveal flavonoid biosynthesis and regulation mechanism in Phlomoides rotata from different habitats","authors":"Zuxia Li ,&nbsp;Guigong Geng ,&nbsp;Huichun Xie ,&nbsp;Lianyu Zhou ,&nbsp;Luhao Wang ,&nbsp;Feng Qiao","doi":"10.1016/j.ygeno.2024.110850","DOIUrl":"https://doi.org/10.1016/j.ygeno.2024.110850","url":null,"abstract":"<div><p><em>Phlomoides rotata</em> is a traditional medical plant at 3100–5200 m altitude in the Tibet Plateau. In this study, flavonoid metabolites were investigated in <em>P. rotata</em> from Henan County (HN), Guoluo County (GL), Yushu County (YS), and Chengduo County (CD) habitats in Qinghai. The level of kaempferol 3-neohesperidoside, sakuranetin, and biochanin A was high in HN. The content of limocitrin and isoquercetin was high in YS. The levels of ikarisoside A and chrysosplenol D in GL were high. Schaftoside, miquelianin, malvidin chloride, and glabrene in CD exhibited high levels. The results showed a significant correlation between 59 flavonoids and 29 DEGs. Eleven flavonoids increased with altitude. <em>PAL2, UFGT6, COMT1, HCT2, 4CL4,</em> and <em>HCT3</em> genes were crucial in regulating flavonoid biosynthesis. Three enzymes CHS, 4CL, and UFGT, were crucial in regulating flavonoid biosynthesis. This study provided biological and chemical evidence for the different uses of various regional plants of <em>P. rotata</em>.</p></div>","PeriodicalId":12521,"journal":{"name":"Genomics","volume":null,"pages":null},"PeriodicalIF":4.4,"publicationDate":"2024-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S0888754324000715/pdfft?md5=87feb4cb1cdf4fc0c4a2270b694475e4&pid=1-s2.0-S0888754324000715-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140815819","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Polymorphic transposable elements provide new insights on high-altitude adaptation in the Tibetan Plateau","authors":"Giorgia Modenini ,&nbsp;Paolo Abondio ,&nbsp;Marco Sazzini ,&nbsp;Alessio Boattini","doi":"10.1016/j.ygeno.2024.110854","DOIUrl":"https://doi.org/10.1016/j.ygeno.2024.110854","url":null,"abstract":"<div><p>Several studies demonstrated that populations living in the Tibetan plateau are genetically and physiologically adapted to high-altitude conditions, showing genomic signatures ascribable to the action of natural selection. However, so far most of them relied solely on inferences drawn from the analysis of coding variants and point mutations. To fill this gap, we focused on the possible role of polymorphic transposable elements in influencing the adaptation of Tibetan and Sherpa highlanders. To do so, we compared high-altitude and middle/low-lander individuals of East Asian ancestry by performing <em>in silico</em> analyses and differentiation tests on 118 modern and ancient samples. We detected several transposable elements associated with high altitude, which map genes involved in cardiovascular, hematological, chem-dependent and respiratory conditions, suggesting that metabolic and signaling pathways taking part in these functions are disproportionately impacted by the effect of environmental stressors in high-altitude individuals. To our knowledge, our study is the first hinting to a possible role of transposable elements in the adaptation of Tibetan and Sherpa highlanders.</p></div>","PeriodicalId":12521,"journal":{"name":"Genomics","volume":null,"pages":null},"PeriodicalIF":4.4,"publicationDate":"2024-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S0888754324000752/pdfft?md5=376bb819328f8d2aa7a7c42904d53329&pid=1-s2.0-S0888754324000752-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140825148","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"The two autophagy-related proteins 8a and 8b play distinct physiological roles in Drosophila","authors":"Yuchen Xu ,&nbsp;Wei Liu ,&nbsp;Zhaolin Sun ,&nbsp;Yurun Yu ,&nbsp;Tianhao Yang ,&nbsp;Xirui Lu ,&nbsp;Guiqiang Zhang ,&nbsp;Jianwei Jiao ,&nbsp;Xiuying Duan","doi":"10.1016/j.ygeno.2024.110853","DOIUrl":"10.1016/j.ygeno.2024.110853","url":null,"abstract":"<div><p>Atg8 family proteins play crucial roles in autophagy to maintain cellular homeostasis. However, the physiological roles of Atg8 family proteins have not been systematically determined. In this study, we generated <em>Atg8a</em> and <em>Atg8b</em> (homologs of Atg8 in <em>Drosophila melanogaster</em>) knockout flies. We found that the loss of Atg8a affected autophagy and resulted in partial lethality, abnormal wings, decreased lifespan, and decreased climbing ability in flies. Furthermore, the loss of Atg8a resulted in reduced muscle integrity and the progressive degeneration of the neuron system. We also found that the phosphorylation at Ser88 of Atg8a is important for autophagy and neuronal integrity. The loss of Atg8b did not affect autophagy but induced male sterility in flies. Here, we take full advantage of the fly system to elucidate the physiological function of Atg8a and Atg8b in <em>Drosophila</em>.</p></div>","PeriodicalId":12521,"journal":{"name":"Genomics","volume":null,"pages":null},"PeriodicalIF":4.4,"publicationDate":"2024-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S0888754324000740/pdfft?md5=1182da8a82f807d59c5e6ed1c8fa5bc0&pid=1-s2.0-S0888754324000740-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140859118","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Integrative ATAC-seq and RNA-seq analysis of myogenic differentiation of ovine skeletal muscle satellite cell","authors":"Yingxiao Su ,&nbsp;Siqi He ,&nbsp;Qian Chen ,&nbsp;Hechun Zhang ,&nbsp;Chang Huang ,&nbsp;Qian Zhao ,&nbsp;Yabin Pu ,&nbsp;Xiaohong He ,&nbsp;Lin Jiang ,&nbsp;Yuehui Ma ,&nbsp;Qianjun Zhao","doi":"10.1016/j.ygeno.2024.110851","DOIUrl":"https://doi.org/10.1016/j.ygeno.2024.110851","url":null,"abstract":"<div><p>Skeletal muscle satellite cells (SMSCs) play an important role in regulating muscle growth and regeneration. Chromatin accessibility allows physical interactions that synergistically regulate gene expression through enhancers, promoters, insulators, and chromatin binding factors. However, the chromatin accessibility altas and its regulatory role in ovine myoblast differentiation is still unclear. Therefore, ATAC-seq and RNA-seq analysis were performed on ovine SMSCs at the proliferation stage (SCG) and differentiation stage (SCD). 17,460 DARs (differential accessibility regions) and 3732 DEGs (differentially expressed genes) were identified. Based on joint analysis of ATAC-seq and RNA-seq, we revealed that PI3K-Akt, TGF-β and other signaling pathways regulated SMSCs differentiation. We identified two novel candidate genes, <em>FZD5</em> and <em>MAP2K6</em>, which may affect the proliferation and differentiation of SMSCs. Our data identify potential cis regulatory elements of ovine SMSCs. This study can provide a reference for exploring the mechanisms of the differentiation and regeneration of SMSCs in the future.</p></div>","PeriodicalId":12521,"journal":{"name":"Genomics","volume":null,"pages":null},"PeriodicalIF":4.4,"publicationDate":"2024-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S0888754324000727/pdfft?md5=6ce4f86f98e15320a6568a3f58a7e04a&pid=1-s2.0-S0888754324000727-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140825140","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Integrative analysis of miRNA-mRNA expression in the brain during high temperature-induced masculinization of female Nile tilapia (Oreochromis niloticus)","authors":"Bingjie Jiang ,&nbsp;Siqi Lu ,&nbsp;Yan Li ,&nbsp;M.F. Badran ,&nbsp;Yalun Dong ,&nbsp;Pao Xu ,&nbsp;Jun Qiang ,&nbsp;Yifan Tao","doi":"10.1016/j.ygeno.2024.110856","DOIUrl":"10.1016/j.ygeno.2024.110856","url":null,"abstract":"<div><p>Temperature is one of the most important non-genetic sex differentiation factors for fish. The technique of high temperature-induced sex reversal is commonly used in Nile tilapia (<em>Oreochromis niloticus</em>) culture, although the molecular regulatory mechanisms involved in this process remain unclear. The brain is an essential organ for the regulation of neural signals involved in germ cell differentiation and gonad development. To investigate the regulatory roles of miRNAs-mRNAs in the conversion of female to male Nile tilapia gender under high-temperature stress, we compared RNA-Seq data from brain tissues between a control group (28 °C) and a high temperature-treated group (36 °C). The result showed that a total of 123,432,984 miRNA valid reads, 288,202,524 mRNA clean reads, 1128 miRNAs, and 32,918 mRNAs were obtained. Among them, there were 222 significant differentially expressed miRNAs (DE miRNAs) and 810 differentially expressed mRNAs (DE mRNAs) between the two groups. Eight DE miRNAs and eight DE mRNAs were randomly selected, and their expression patterns were validated by qRT-PCR. The miRNA-mRNA co-expression network demonstrated that 40 DE miRNAs targeted 136 protein-coding genes. Functional enrichment analysis demonstrated that these genes were involved in several gonadal differentiation pathways, including the oocyte meiosis signaling pathway, progesterone-mediated oocyte maturation signaling pathway, cell cycle signaling pathway and GnRH signaling pathway. Then, an interaction network was constructed for 8 miRNAs (mir-137-5p, let-7d, mir-1388-5p, mir-124-4-5p, mir-1306, mir-99, mir-130b and mir-21) and 10 mRNAs (<em>smc1al</em>, <em>itpr2</em>, <em>mapk1</em>, <em>ints8</em>, <em>cpeb1b</em>, <em>bub1</em>, <em>fbxo5</em>, <em>mmp14b</em>, <em>cdk1</em> and <em>hrasb</em>) involved in the oocyte meiosis signaling pathway. These findings provide novel information about the mechanisms underlying miRNA-mediated sex reversal in female Nile tilapia.</p></div>","PeriodicalId":12521,"journal":{"name":"Genomics","volume":null,"pages":null},"PeriodicalIF":4.4,"publicationDate":"2024-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S0888754324000776/pdfft?md5=850201f30352d5e79e448537eb85d3c4&pid=1-s2.0-S0888754324000776-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140908516","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Spatio-temporal analysis of toxigenic genes expression in the growing Bufo gargarizans based on RNA sequencing data","authors":"Wenxiao Chen ,&nbsp;Jinghong Hu ,&nbsp;Jing Chen ,&nbsp;Yuanyuan Guo ,&nbsp;Yongjian Hong ,&nbsp;Houkai Xia","doi":"10.1016/j.ygeno.2024.110847","DOIUrl":"10.1016/j.ygeno.2024.110847","url":null,"abstract":"<div><h3>Background</h3><p><em>Bufo gargarizans</em> Cantor, a widely distributed amphibian species in Asia, produces and releases toxins through its retroauricular and granular glands. Although various tissues have been sequenced, the molecular mechanisms underlying the toxin production remain unclear. To elucidate these mechanisms, abdominal skin (non-toxic secretory glands) and retroauricular gland (toxic secreting glands) samples were collected at different time points (3, 6, 12, 24, and 36 months) for RNA sequencing (RNA-seq) and analysis.</p></div><div><h3>Results</h3><p>In comparison to the S group during the same period, a total of 3053, 3026, 1516, 1028, and 2061 differentially expressed genes (DEGs) were identified across five developmental stages. Gene Ontology (GO) analysis revealed that DEGs were primarily enriched in biological processes including cellular processes, single-organism processes, metabolic processes, and biological regulation. In terms of cellular components, the DEGs were predominantly localized in the cell and cell parts, whereas molecular function indicated significant enrichment in binding and catalytic activity. Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis showed that the metabolism and synthesis of various substances, such as lipid metabolism, cofactor and vitamin metabolism, tryptophan metabolism, steroid biosynthesis, and primary bile acid biosynthesis, were accompanied by the development of toads. Additionally, using trend analysis, we discovered candidate genes that were upregulated in the retroauricular glands during development, and the abundance of these genes in the abdominal skin was extremely low. Finally, we identified 26 genes that are likely to be involved in toxin production and that are likely to be involved in toxin anabolism.</p></div><div><h3>Conclusion</h3><p>Overall, these results provide new insights into the genes involved in toxin production in <em>B. gargarizans</em>, which will improve our understanding of the molecular mechanisms underlying toxigenic gene expression.</p></div>","PeriodicalId":12521,"journal":{"name":"Genomics","volume":null,"pages":null},"PeriodicalIF":4.4,"publicationDate":"2024-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S0888754324000685/pdfft?md5=33cfce8aa693b41dd8a3f1f51a2090f6&pid=1-s2.0-S0888754324000685-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140849830","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Pangenome analyses of Clostridium butyricum provide insights into its genetic characteristics and industrial application","authors":"Yicheng Yang ,&nbsp;Yuan Shao ,&nbsp;Chenchen Pei ,&nbsp;Yangyang Liu ,&nbsp;Min Zhang ,&nbsp;Xi Zhu ,&nbsp;Jinshan Li ,&nbsp;Lifei Feng ,&nbsp;Guanghua Li ,&nbsp;Keke Li ,&nbsp;Yunxiang Liang ,&nbsp;Yingjun Li","doi":"10.1016/j.ygeno.2024.110855","DOIUrl":"10.1016/j.ygeno.2024.110855","url":null,"abstract":"<div><p><em>Clostridium butyricum</em> is a Gram-positive anaerobic bacterium known for its ability to produce butyate. In this study, we conducted whole-genome sequencing and assembly of 14<em>C. butyricum</em> industrial strains collected from various parts of China. We performed a pan-genome comparative analysis of the 14 assembled strains and 139 strains downloaded from NCBI. We found that the genes related to critical industrial production pathways were primarily present in the core and soft-core gene categories. The phylogenetic analysis revealed that strains from the same clade of the phylogenetic tree possessed similar antibiotic resistance and virulence factors, with most of these genes present in the shell and cloud gene categories. Finally, we predicted the genes producing bacteriocins and botulinum toxins as well as CRISPR systems responsible for host defense. In conclusion, our research provides a desirable pan-genome database for the industrial production, food application, and genetic research of <em>C. butyricum</em>.</p></div>","PeriodicalId":12521,"journal":{"name":"Genomics","volume":null,"pages":null},"PeriodicalIF":4.4,"publicationDate":"2024-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S0888754324000764/pdfft?md5=b70980c1f3e695590bb35fae06aae96e&pid=1-s2.0-S0888754324000764-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140862638","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Assembly and comparative analysis of the complete mitochondrial genome of white towel gourd (Luffa cylindrica)","authors":"Yihui Gong ,&nbsp;Xuan Luo ,&nbsp;Ting Zhang ,&nbsp;Guihua Zhou ,&nbsp;Jingyi Li ,&nbsp;Bin Zhang ,&nbsp;Peng Li ,&nbsp;Hua Huang","doi":"10.1016/j.ygeno.2024.110859","DOIUrl":"10.1016/j.ygeno.2024.110859","url":null,"abstract":"<div><p>Mitochondria play an important role in the energy production of plant cells through independent genetic systems. This study has aimed to assemble and annotate the functions of the mitochondrial (mt) genome of <em>Luffa cylindrica</em>. The mt genome of <em>L. cylindrica</em> contained two chromosomes with lengths of 380,879 bp and 67,982 bp, respectively. Seventy-seven genes including 39 protein-coding genes, 34 tRNA genes, 3 rRNA genes, and 1 pseudogene, were identified. About 90.63% of the codons ended with A or U bases, and 98.63% of monomers contained A/T, which contributed to the high A/T content (55.91%) of the complete mt genome. Six genes (<em>ATP8, CCMFC, NAD4, RPL10, RPL5</em> and <em>RPS</em>4) showed positive selection. Phylogenetic analysis indicates that L. <em>cylindrica</em> is closely related to <em>L. acutangula</em>. The present results provide the mt genome of L. <em>cylindrica</em>, which may facilitate possible genetic variation, evolutionary, and molecular breeding studies of L. <em>cylindrica</em>.</p></div>","PeriodicalId":12521,"journal":{"name":"Genomics","volume":null,"pages":null},"PeriodicalIF":4.4,"publicationDate":"2024-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S0888754324000806/pdfft?md5=1c6eb87519146fab240119875fc8163b&pid=1-s2.0-S0888754324000806-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140944706","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Population genomics analysis reveals footprints of selective breeding in a rapid-growth variety of Paulownia fortunei with apical dominance","authors":"Guo-Le Qin ,&nbsp;Chuan-Ming Fu ,&nbsp;Fan Tang ,&nbsp;Jian Yin ,&nbsp;De-Long Guan ,&nbsp;Chen-Yu Shi","doi":"10.1016/j.ygeno.2024.110849","DOIUrl":"https://doi.org/10.1016/j.ygeno.2024.110849","url":null,"abstract":"<div><p><em>Paulownia fortunei</em> is an ecologically and economically valuable tree cultivated for its rapid growth and high-quality timber. To enhance <em>Paulownia</em> germplasm, we have developed the elite variety QingT with patented advantages in growth rate and apical dominance. To illuminate the genetic basis of QingT's superior traits, here we harness comparative population genomics to analyze genomic variation patterns between QingT and common <em>Paulownia</em>. We performed whole-genome re-sequencing of 30 QingT and 30 common samples, detecting 15.6 million SNPs and 2.6 million indels. Phylogeny and population structure analyses robustly partitioned common and QingT into distinct groups which indicate robust genome stabilization. QingT exhibited reduced heterozygosity and linkage disequilibrium decay compared to common <em>Paulownia</em>, reflecting high recombination, indicating hybridizing effects with common white-flowered string is the source of its patented advantages. Genome selection scans uncovered 25 regions of 169 genes with elevated nucleotide diversity, indicating selection sweeps among groups. Functional analysis of sweep genes revealed upregulation of ribosomal, biosynthesis, and growth pathways in QingT, implicating enhanced protein production and developmental processes in its rapid growth phenotype. This study's insights comprehensively chart genomic variation during <em>Paulownia</em> breeding, localizing candidate loci governing agronomic traits, and underpinnings of future molecular breeding efforts to boost productivity.</p></div>","PeriodicalId":12521,"journal":{"name":"Genomics","volume":null,"pages":null},"PeriodicalIF":4.4,"publicationDate":"2024-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S0888754324000703/pdfft?md5=177ff9f7358e8c8b41b4ae8cd4f3ff97&pid=1-s2.0-S0888754324000703-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140816008","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"GLYR1 transcriptionally regulates PER3 expression to promote the proliferation and migration of multiple myeloma","authors":"Xiao Yan ,&nbsp;Kaihong Xu ,&nbsp;Zhijuan Xu ,&nbsp;Cong Shi ,&nbsp;Binbin Lai ,&nbsp;Hao Wu ,&nbsp;Shujun Yang ,&nbsp;Lixia Sheng ,&nbsp;Keting Wang ,&nbsp;Yuhan Zheng ,&nbsp;Guifang Ouyang ,&nbsp;Di Yang","doi":"10.1016/j.ygeno.2024.110846","DOIUrl":"10.1016/j.ygeno.2024.110846","url":null,"abstract":"<div><p>Period circadian regulator 3 (PER3) functions as a tumor suppressor in various cancers. However, the role of PER3 in multiple myeloma (MM) has not been reported yet. Through this study, we aimed to investigate the potential role of PER3 in MM and the underlying mechanisms. RT-qPCR and western blotting were used to determine the mRNA and protein expression levels of PER3. Glyoxylate reductase 1 homolog (GLYR1) was predicted to be a transcription factor of PER3. The binding sites of GLYR1 on the promoter region of PER3 were analyzed using UCSC and confirmed using luciferase and chromatin immunoprecipitation assays. Viability, apoptosis, and metathesis were determined using CCK-8, colony formation, TUNEL, and transwell assays. We found that PER3 expression decreased in MM. Low PER3 levels may predict poor survival rates; PER3 overexpression suppresses the viability and migration of MM cells and promotes apoptosis. Moreover, GLYR1 transcriptionally activates PER3, and the knockdown of PER3 alleviates the effects of GLYR1 and induces its malignant behavior in MM cells. To conclude, GLYR1 upregulates PER3 and suppresses the aggressive behavior of MM cells, suggesting that GLYR1/PER3 signaling may be a potential therapeutic target for MM.</p></div>","PeriodicalId":12521,"journal":{"name":"Genomics","volume":null,"pages":null},"PeriodicalIF":4.4,"publicationDate":"2024-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S0888754324000673/pdfft?md5=1db0208b29c310e79e0ade3ca93b6973&pid=1-s2.0-S0888754324000673-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140760169","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}