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1. Association between CLEC4E gene polymorphism of mincle and pulmonary tuberculosis infection in a northern Chinese population

Author:
Kabuye, Deo; Chu, Yang; Lao, Wenting; Jin, Guojiang; Kang, Hui
Source:
Gene 2019 v.710 pp. 24-29
ISSN:
0378-1119
Subject:
Mycobacterium tuberculosis; alleles; chromosomes; gene frequency; genotype; genotyping; humans; lectins; lungs; melting; models; odds ratio; pathogens; patients; receptors; single nucleotide polymorphism; tuberculosis
Abstract:
... Pulmonary tuberculosis caused by an intracellular pathogen, Mycobacterium tuberculosis continues to exist as a hazardous disease to human life globally. Genetic polymorphisms regulate resistance and susceptibility to tuberculosis. The C-type lectin receptor of family 4 member E (CLEC4E) confers protection against tuberculosis in laboratory animals but its function in influencing exposure or resist ...
DOI:
10.1016/j.gene.2019.05.011

2. Association of CDKN2BAS gene polymorphism with periodontitis and Coronary Artery Disease from South Indian population

Author:
Mangalarapu, Madhavi; Vinukonda, Swetha; Komaravalli, Prasanna Latha; Nagula, Praveen; Koduganti, Rekha Rani; Korripally, Premsagar; Sagurthi, Someswar Rao
Source:
Gene 2019 v.710 pp. 324-332
ISSN:
0378-1119
Subject:
DNA; alleles; atherosclerosis; case-control studies; coronary artery disease; epithelial cells; fibroblasts; gene expression; gene expression regulation; genotyping; haplotypes; heterozygosity; loci; mouth; non-coding RNA; patients; periodontitis; restriction fragment length polymorphism; reverse transcriptase polymerase chain reaction; risk
Abstract:
... Periodontal disease (PD), a chronic inflammatory disorder mediated by progressive destruction of the oral cavity is one of the key factors for many systemic disorders including Coronary Artery Disease (CAD). The upregulation of CDKN2BAS, a long noncoding RNA gene expression in gingival epithelial cells and gingival fibroblasts of periodontitis shows a strong correlation between the severity of ath ...
DOI:
10.1016/j.gene.2019.06.002

3. Characterization and diverse evolution patterns of glycerol-3-phosphate dehydrogenase family genes in Dunaliella salina

Author:
Wu, Qian; Lan, Yanhong; Cao, Xiyue; Yao, Huiying; Qiao, Dairong; Xu, Hui; Cao, Yi
Source:
Gene 2019 v.710 pp. 161-169
ISSN:
0378-1119
Subject:
Arabidopsis thaliana; Dunaliella salina; abiotic stress; algae; chloroplasts; cytosol; evolution; genes; glycerol; glycerol-3-phosphate dehydrogenase; mitochondria; protein domains; protoplasts; quantitative polymerase chain reaction; salt tolerance
Abstract:
... The glycerol-3-phosphate dehydrogenase (GPD) gene family plays a major role in glycerol synthesis and adaptation to abiotic stresses. Few studies on GPD family genes from the halotolerant algae Dunaliella salina are available. In this study, seven DsaGPD genes were identified by mining D. salina sequencing data. Among them, DsaGPD5 contained the canonical NAD+-GPD protein domain, called si-GPD. In ...
DOI:
10.1016/j.gene.2019.05.056

4. Circular RNA circ KMT2E is up-regulated in diabetic cataract lenses and is associated with miR-204-5p sponge function

Author:
Fan, Caixia; Liu, Xiaomin; Li, Wenfeng; Wang, Haiyan; Teng, Yingli; Ren, Jun; Huang, Yusen
Source:
Gene 2019 v.710 pp. 170-177
ISSN:
0378-1119
Subject:
cataract; chemical bonding; circular RNA; gene expression regulation; gene ontology; genes; microRNA; pathogenesis; quantitative polymerase chain reaction; reverse transcriptase polymerase chain reaction; sequence analysis; tissues
Abstract:
... Covalently closed, single-stranded circular RNAs (circRNAs) are a class of newly discovered endogenous RNAs involved in the pathological process of various types of diseases through sponging microRNAs (miRNAs). However, the role of circRNAs in diabetic cataract (DC) is unclear. Our previous studies have demonstrated that miR-204-5p was expressed more lowly in DC than the normal controls, but wheth ...
DOI:
10.1016/j.gene.2019.05.054

5. Coronary artery disease associated specific modules and feature genes revealed by integrative methods of WGCNA, MetaDE and machine learning

Author:
Wang, Yan; Liu, Tao; Liu, Yan; Chen, Jun; Xin, Benqiang; Wu, Maoyuan; Cui, Weigang
Source:
Gene 2019 v.710 pp. 122-130
ISSN:
0378-1119
Subject:
coronary artery disease; data collection; databases; gene expression; gene expression regulation; genes; microarray technology; morbidity; mortality; protein-protein interactions; support vector machines
Abstract:
... Coronary artery disease (CAD) is one of the most common causes of morbidity and mortality globally. This work aimed to investigate the specific modules and feature genes associated with CAD.Three microarray datasets were downloaded from the Gene Expression Omnibus database, which included CAD and healthy samples. WGCNA was applied to identify highly preserved modules across the three datasets. Met ...
DOI:
10.1016/j.gene.2019.05.010

6. De novo transcriptome assembly and co-expression network analysis of Cynanchum thesioides: Identification of genes involved in resistance to drought stress

Author:
Zhang, Xiaoyan; Yang, Zhongren; Li, Zhi; Zhang, Fenglan; Hao, Lizhen
Source:
Gene 2019 v.710 pp. 375-386
ISSN:
0378-1119
Subject:
Cynanchum; amino acids; biochemical pathways; biosynthesis; carbon metabolism; drought tolerance; gene expression regulation; gene ontology; plant hormones; resistance genes; semiarid zones; shrubs; signal transduction; starch; sucrose; transcription factors; transcriptome; transcriptomics; unigenes; water stress; China; Mongolia; North Korea; Siberia
Abstract:
... Cynanchum thesioides are upright, xerophytic shrubs that are widely distributed in arid and semi-arid areas of China, North Korea, Mongolia and Siberia. To date, little is known about the molecular mechanisms of drought resistance in C. thesioides. To better understand drought resistance, we used transcriptome analysis and Illumina sequencing technology on C. thesioides, to identify drought-respon ...
DOI:
10.1016/j.gene.2019.05.055

7. De novo transcriptome assembly of a facultative parasitic nematode Pelodera (syn. Rhabditis) strongyloides

Author:
Zhang, Menglei; Heikkinen, Liisa; Knott, K. Emily; Wong, Garry
Source:
Gene 2019 v.710 pp. 30-38
ISSN:
0378-1119
Subject:
Necator americanus; RNA interference; RNA transport; RNA-directed RNA polymerase; Rhabditis; Strongyloides stercoralis; Trichuris trichiura; evolution; genes; larvae; light microscopy; nucleotide sequences; parasitism; parasitoses; ribosomal RNA; sequence analysis; transcriptome; transport proteins
Abstract:
... Pelodera strongyloides is a generally free-living gonochoristic facultative nematode. The whole genomic sequence of P. strongyloides remains unknown but 4 small subunit ribosomal RNA (ssrRNA) gene sequences are available. This project launched a de novo transcriptome assembly with 100 bp paired-end RNA-seq reads from normal, starved and wet-plate cultured animals. Trinity assembly tool generated 1 ...
DOI:
10.1016/j.gene.2019.05.041

8. Discovery of sex-related genes from embryonic development stage based on transcriptome analysis in Eriocheir sinensis

Author:
Du, Jing; Liu, Yuan; Song, Chengwen; Cui, Zhaoxia
Source:
Gene 2019 v.710 pp. 1-8
ISSN:
0378-1119
Subject:
Eriocheir sinensis; eggs; embryogenesis; gene expression regulation; growth traits; heart rate; models; sex determination; transcriptomics; unigenes
Abstract:
... Investigation of sex determination system in Eriocheir sinensis is important because of sex-dimorphism in its growth traits. However, little information about the sex-related genes in embryonic development stages were exposed. To obtain more information of sex determination in Chinese mitten crab, we performed the transcriptome analysis in embryonic development stage (fertilized egg stage, cleavag ...
DOI:
10.1016/j.gene.2019.05.021

9. Efficiency of different fragment lengths of the ubiquitous chromatin opening element HNRPA2B1-CBX3 in driving human CD18 gene expression within self-inactivating lentiviral vectors for gene therapy applications

Author:
Gopinath, Chitra; Chodisetty, Sarvani; Ghosh, Arkasubhra; Nelson, Everette Jacob Remington
Source:
Gene 2019 v.710 pp. 265-272
ISSN:
0378-1119
Subject:
CD18 antigen; bacterial infections; cell adhesion; chromatin; gene expression; gene therapy; genes; hematopoietic stem cells; humans; in vitro studies; leukocytes; loci; mice; models; mutation; patients; peptide elongation factors; phenotype; promoter regions; viruses
Abstract:
... Patients with leukocyte adhesion deficiency type 1 (LAD1) suffer from life-threatening bacterial infections due to mutations in the common β2 integrin subunit (CD18/ITGB2 gene).We tested different fragments of the ubiquitous chromatin opening element (UCOE) from the human HNRPA2B1-CBX3 locus for their efficiency in driving the human CD18 gene expression and compared it with that of an elongation f ...
DOI:
10.1016/j.gene.2019.06.016

10. Estrogen receptor α and β gene polymorphism in relation to bone mineral density and lipid profile in Northeast Indian women

Author:
Saoji, Rucha; Desai, Meena; Das, Rajat Subhra; Das, Tapan Kumar; Khatkhatay, M. Ikram
Source:
Gene 2019 v.710 pp. 202-209
ISSN:
0378-1119
Subject:
alcohol drinking; alleles; body mass index; bone density; cardioprotective effect; estrogen receptors; estrogens; femur; genetic polymorphism; genotype; homeostasis; lipid composition; lipids; osteopenia; osteoporosis; postmenopause; premenopause; regression analysis; tobacco; women; India
Abstract:
... Estrogen regulates bone homeostasis and has a cardio-protective effect. Its physiological functions are mediated through receptors (ER) whose expression can be regulated by presence or absence of polymorphisms. However, the association between ER polymorphisms and BMD as well as lipids are inconsistent. The aim of the study was to investigate whether polymorphisms in ESR are associated with bone m ...
DOI:
10.1016/j.gene.2019.05.060

11. Evaluation of the epidemiological and prognosis significance of ESR2 rs3020450 polymorphism in ovarian cancer

Author:
Feng, Yajing; Peng, Zhen; Liu, Weigang; Yang, Zhongyu; Shang, Jia; Cui, Liuxin; Duan, Fujiao
Source:
Gene 2019 v.710 pp. 316-323
ISSN:
0378-1119
Subject:
alleles; animal ovaries; case-control studies; estrogen receptors; gene expression regulation; heterozygosity; meta-analysis; models; ovarian neoplasms; patients; prognosis; regression analysis; risk; risk reduction; tissues
Abstract:
... To investigate the correlation between the polymorphism of estrogen receptor β gene (ESR2) rs3020450 and cancer susceptibility, and explore the epidemiological significance and the effect of ESR2 expression levels on the prognosis of ovarian cancer.Based on meta-analysis the association between ESR2 rs3020450 polymorphism and cancer susceptibility was estimated and a case-control design was used t ...
DOI:
10.1016/j.gene.2019.06.017

12. Exogenous hydrogen sulfide prevents lipopolysaccharide-induced inflammation by blocking the TLR4/NF-κB pathway in MAC-T cells

Author:
Sun, Liting; Chen, Lu; Wang, Fengge; Zheng, Xue; Yuan, Chenfeng; Niu, Qiaoge; Li, Zheng; Deng, Liang; Zheng, Biaobiao; Li, Chunjin; Zhou, Xu
Source:
Gene 2019 v.710 pp. 114-121
ISSN:
0378-1119
Subject:
Toll-like receptor 4; animal health; anti-inflammatory activity; cattle; cell lines; cell viability; epithelial cells; financial economics; gene expression; hydrogen sulfide; immune response; inflammation; interleukin-1beta; interleukin-6; interleukin-8; lipopolysaccharides; mammary glands; mastitis; models; oxidative stress; signal transduction; transcription factor NF-kappa B; tumor necrosis factor-alpha
Abstract:
... Mastitis impairs animal health and results in economic loss. Lipopolysaccharide (LPS) may cause immune response and inflammation in the bovine mammary gland. Hydrogen sulfide (H2S) is the third gasotransmitter that acts as an anti-inflammation regulator in many cells. Despite the importance of H2S in regulating inflammation, the effect and mechanism of exogenous H2S on LPS-induced inflammation in ...
DOI:
10.1016/j.gene.2019.05.033

13. Expression and single-nucleotide polymorphisms of the H-FABP gene in pigs

Author:
Shang, Peng; Zhang, Bo; Zhang, Jian; Duan, Mengqi; Wu, Lvcao; Gong, Xinglong; Tang, Keren; Zhang, Hao; Chamba, Yangzom
Source:
Gene 2019 v.710 pp. 156-160
ISSN:
0378-1119
Subject:
Large White; Tibetan (swine breed); backfat; fatty acid-binding proteins; gene expression; genotyping; heart; intramuscular fat; liver; long chain fatty acids; longissimus muscle; messenger RNA; protein content; protein synthesis; single nucleotide polymorphism; start codon; swine; tissues
Abstract:
... Heart fatty acid-binding protein (H-FABP) belongs to a family of intracellular fatty acid-binding proteins that are involved in the transport of long-chain fatty acids. Previous studies have indicated that H-FABP is significantly associated with intramuscular fat (IMF) content in pig. In this study, we compared the mRNA and protein expression of H-FABP between Tibetan pig (with high IMF) and Large ...
DOI:
10.1016/j.gene.2019.05.061

14. Extracellular vesicles from osteosarcoma cell lines contain miRNAs associated with cell adhesion and apoptosis

Author:
Jerez, Sofía; Araya, Héctor; Hevia, Daniel; Irarrázaval, Carlos E.; Thaler, Roman; van Wijnen, Andre J.; Galindo, Mario
Source:
Gene 2019 v.710 pp. 246-257
ISSN:
0378-1119
Subject:
adolescence; apoptosis; biomarkers; blood serum; cell adhesion; cell lines; childhood; gene ontology; genes; humans; metastasis; microRNA; osteoblasts; osteosarcoma; sequence analysis
Abstract:
... Osteosarcoma is the most common primary bone tumor during childhood and adolescence. Several reports have presented data on serum biomarkers for osteosarcoma, but few reports have analyzed circulating microRNAs (miRNAs). In this study, we used next generation miRNA sequencing to examine miRNAs isolated from microvesicle-depleted extracellular vesicles (EVs) derived from six different human osteosa ...
DOI:
10.1016/j.gene.2019.06.005
PubMed:
31176732
PubMed Central:
PMC6684290

15. FoxL2 combined with Cyp19a1a regulate the spawning upstream migration in Coilia nasus

Author:
Fang, Di-An; Yang, Xue-jun; Feng, Xiaoting; Zhou, Yan-Feng; Xu, Dong-Po; Zhang, Min-Ying; Liu, Kai
Source:
Gene 2019 v.710 pp. 307-315
ISSN:
0378-1119
Subject:
Coilia nasus; anadromous fish; aromatase; complementary DNA; cytoplasm; gene expression; gene expression regulation; genes; messenger RNA; olfactory bulb; oocytes; ovarian development; protein content; spawning; tissue distribution; transcription factors
Abstract:
... FoxL2 is a member of the forkhead/HNF-3-related family of transcription factors which provides tissue specific gene regulation. It is known to regulate ovarian aromatase, which plays a crucial role in ovarian development and mature. To understand the role of FoxL2/ovarian aromatase encoded gene Cyp19a1a during ovarian development and recrudescence, we identified cDNA characteristics of FoxL2 and C ...
DOI:
10.1016/j.gene.2019.05.037

16. Gene expression profile evaluation of integrins in 3T3-L1 cells differentiated to adipocyte, insulin resistant and hypertrophied cells

Author:
Malekpour-Dehkordi, Zahra; Mohiti-Ardakani, Javad; Nourbakhsh, Mitra; Teimourian, Shahram; Naghiaee, Yousof; Hemati, Mahdie; Jafary, Farzaneh
Source:
Gene 2019 v.710 pp. 406-414
ISSN:
0378-1119
Subject:
Western blotting; adipocytes; collagen; fibrosis; gene expression; gene expression regulation; genes; insulin resistance; integrins; mice; mitogen-activated protein kinase; obesity; phosphorylation; quantitative polymerase chain reaction; receptors
Abstract:
... Integrins are cell attachment receptors that function in the communication between the intracellular and extracellular compartments. Integrins and extra cellular matrix (ECM) collaborate to regulate gene expression by extracellular signal-regulated kinases (ERKs). Integrins as regulators, have critical role in ECM remodeling. Fibrosis is the hallmark of obesity and insulin resistance originated by ...
DOI:
10.1016/j.gene.2019.06.019

17. Gene promoter methylation and cancer: An umbrella review

Author:
Bouras, Emmanouil; Karakioulaki, Meropi; Bougioukas, Konstantinos I.; Aivaliotis, Michalis; Tzimagiorgis, Georgios; Chourdakis, Michael
Source:
Gene 2019 v.710 pp. 333-340
ISSN:
0378-1119
Subject:
DNA methylation; biomarkers; carcinogenesis; databases; epigenetics; genes; loci; meta-analysis; models; odds ratio; promoter regions; prostatic neoplasms; risk; systematic review; urinary bladder neoplasms
Abstract:
... Gene promoter methylation is a common epigenetic event, taking place in the early phase of tumorigenesis, which has a great potential as a diagnostic and prognostic cancer biomarker. In this umbrella review, we provide an overview on the association between gene-promoter methylation of protein-coding genes and cancer risk based on currently available meta-analyses data on gene promoter methylation ...
DOI:
10.1016/j.gene.2019.06.023

18. High throughput sequencing identifies breast cancer-secreted exosomal LncRNAs initiating pulmonary pre-metastatic niche formation

Author:
Feng, Tongbao; Zhang, Ping; Sun, Yingxin; Wang, Yan; Tong, Jichun; Dai, Hong; Hua, Zichun
Source:
Gene 2019 v.710 pp. 258-264
ISSN:
0378-1119
Subject:
breast neoplasms; exosomes; fibroblasts; gene expression regulation; gene ontology; genes; high-throughput nucleotide sequencing; lungs; metastasis; non-coding RNA; quantitative polymerase chain reaction; reverse transcriptase polymerase chain reaction; ultracentrifugation
Abstract:
... Increasing evidence indicated that cancer-secreted exosomes played an important role in tumor metastasis. However, the function of exosomes in breast cancer pulmonary metastasis remains unknown. The aim of the study was to investigate the role of exosome-derived from breast cancer-secreted long non-coding RNAs (LncRNAs) on pre-metastatic niche formation in pulmonary metastasis.Exosomes-derived fro ...
DOI:
10.1016/j.gene.2019.06.004

19. Identification and characterization of WD40 superfamily genes in peach

Author:
Feng, Ruchao; Zhang, Chunhua; Ma, Ruijuan; Cai, Zhixiang; Lin, Yao; Yu, Mingliang
Source:
Gene 2019 v.710 pp. 291-306
ISSN:
0378-1119
Subject:
Arabidopsis; Prunus persica; chromosomes; cytoplasm; developmental stages; genes; nuclear membrane; peaches; phylogeny; transcription factors
Abstract:
... The WD40 transcription factor family is a superfamily found in all eukaryotes that plays important roles in regulating growth and development. To our knowledge, to date, WD40 superfamily genes have been identified and characterized in several plant species, but little information is available on the WD40 superfamily genes in peach. In this study, we identified 220 members of the WD40 superfamily i ...
DOI:
10.1016/j.gene.2019.06.010

20. Identification of complete F-type mitochondrial genome in Lamprotula scripta and Lamprotula caveata and analysis on DUI

Author:
Wang, Guiling; Wu, Congdi; Ge, Jingyuan; Chen, Ya; Han, Zhenyong; Guo, Pengfei; Li, Jiale
Source:
Gene 2019 v.710 pp. 59-65
ISSN:
0378-1119
Subject:
amino acid sequences; freshwater mussels; genes; genetic variation; inheritance (genetics); mitochondria; mitochondrial DNA; mitochondrial genome; phylogeny; progeny; ribosomal RNA; sex determination; transfer RNA
Abstract:
... Mitochondrial DNA is typically passed to offspring through maternal inheritance. However, in mussels, two kinds of mitochondrial DNA exist: F and M type, which are referred to as doubly uniparental inheritance (DUI). Studies have shown that DUI may be related to gender determination. In this study, we obtained the first complete F-type mitochondrial genome of Lamprotula scripta and Lamprotula cave ...
DOI:
10.1016/j.gene.2019.04.075