Active ingredients and mechanisms of Phellinus linteus (grown on Rosa multiflora) for alleviation of Type 2 diabetes mellitus through network pharmacology.
Abstract Phellinus linteus (mushroom) grown on Rosa multiflora (PL@RM), exposed beneficial effect and safety on Type 2 diabetes mellitus (T2DM) from Korean folk remedies. However, its active chemical constituents and mechanism(s) against T2DM have not been confirmed. Hence, we deciphered the active compounds and mechanism(s) of PL@RM against T2DM through network pharmacology. GC-MS of PL@RM manifested 54 compounds and drug-likeness properties of these compounds were confirmed by Lipinski's rule. The compound (40) related genes were composed of Similarity Ensemble Approach (SEA) and SwissTargetPrediction (STP). The...
Source: Gene - November 25, 2020 Category: Genetics & Stem Cells Authors: Oh KK, Adnan M, Cho DH Tags: Gene Source Type: research

Characterization of muscle development and gene expression in early embryos of chicken, quail, and their hybrids.
We examined muscle fiber diameter using scanning electron microscopy. The results showed that muscle development was two days slower in chicken, egg hybrid, and meat hybrid than in quail. Muscle fiber spacing was the largest in chicken, followed by meat hybrid, egg hybrid, and quail. A similar trend was obtained for muscle fiber diameter. Additionally, muscle fiber diameter increased with embryogenesis. The sarcomere was present on day 17 of incubation in quail, but not in the other species. MUSTN1 could up-regulated IGF-1 by activating PI3K/Akt. IGF-1 expression was consistent with myoblast proliferation and myotube fusio...
Source: Gene - November 24, 2020 Category: Genetics & Stem Cells Authors: Zhu M, Wang M, Shao Y, Nan Y, Blair HT, Todd Morris S, Zhao Z, Zhang H Tags: Gene Source Type: research

Low-intensity pulsed ultrasound promotes aggrecan expression via ZNT-9 in temporomandibular joint chondrocytes.
Abstract Temporomandibular joint osteoarthritis (TMJ-OA) is one of the most common joint diseases. It causes severe pain and poor quality of life. One key feature of TMJ-OA is degeneration of the chondrocyte extracellular matrix (ECM). Low-intensity pulsed ultrasound (LIPUS) can promote the synthesis of ECM in cartilage. However, the exact mechanism is still unclear. We aimed to explore the mechanism by which LIPUS promotes the expression of aggrecan in chondrocytes. In vivo, TMJ-OA rats established by unilateral occlusal trauma were treated with LIPUS. In our RNA sequencing data, we found that ADAMTS-8 was downre...
Source: Gene - November 20, 2020 Category: Genetics & Stem Cells Authors: He D, Wang J, Li Y, Wu G, Zhu G, Chen L Tags: Gene Source Type: research

Emerging histone glutamine modifications mediated gene expression in cell differentiation and the VTA reward pathway.
Abstract Gene expression is the key to cellular functions and homeostasis. Histone modifications regulate chromatin dynamics and gene expression. Neuronal cell functions largely depend on fluxes of neurotransmitters for activation of chromatin and gene expression. New studies by Lepack et al. and Farrelly et al. recently demonstrated how tissue transglutaminase 2 (TGM2) mediated histone glutamine modifications, either dopaminylation in the dopaminergic reward pathway or serotonylation in the context of cellular differentiation and signaling regulate gene expression and decipher striking differences from their know...
Source: Gene - November 19, 2020 Category: Genetics & Stem Cells Authors: Kumar Patra S Tags: Gene Source Type: research

ABCA7 links sterol metabolism to the host defense system: Molecular background for potential management measure of Alzheimer's disease.
Abstract ATP-binding cassette transporter (ABC) A7 is a membrane protein that belongs to the large family of ABC transporters. It is 54 % homologous in amino acid residue sequence to ABCA1 which mediates biogenesis of plasma high density lipoprotein (HDL) from cellular phospholipid and cholesterol with extracellular helical apolipoproteins such as apolipoprotein (apo) A-I. When transfected and expressed, ABCA7 also mediates generation of HDL-like particles but small and of less cholesterol content. However, endogenous ABCA7 is unlikely involved in HDL biogenesis and rather to regulate the host-defense system such ...
Source: Gene - November 19, 2020 Category: Genetics & Stem Cells Authors: Abe-Dohmae S, Yokoyama S Tags: Gene Source Type: research

Bucky ball induces primordial germ cell increase in medaka.
Abstract Balbaini body (Bb) plays a vital role in germ plasm (GP) assembly and dorsoventral pattern, which is of critical important in germline specification and development. Bucky ball (buc) is reported to be essential for boosting primordial germ cell (PGC) through Bb in previous research. In the present study, a buc homolog (Olbuc) was identified in medaka (Oryzias latipes), and the roles of Olbuc on PGC development were further elucidated. The full length of Olbuc was 2148 bp, which contains a 1724 bp CDS (Coding sequence), a 167 bp 5' UTR (Untranslated region), and a 257 bp 3' UTR. By RT-PCR, the Olbuc RNA ex...
Source: Gene - November 19, 2020 Category: Genetics & Stem Cells Authors: Song P, Sun B, Zhu Y, Zhong Y, Guo J, Gui L, Li M Tags: Gene Source Type: research

Cloning and functional analysis of c/ebp α as negative regulator of dmrt1 in Chinese tongue sole (Cynoglossus semilaevis).
Cloning and functional analysis of c/ebpα as negative regulator of dmrt1 in Chinese tongue sole (Cynoglossus semilaevis). Gene. 2020 Nov 19;:145321 Authors: Wang Q, Wang R, Feng B, Li S, Mahboob S, Shao C Abstract c/ebpα is a member of the C/EBP family of transcription factors, which are involved in cell growth and differentiation and have a conserved basic leucine zipper (bZIP) domain. However, little is known about its function in sex determination and differentiation. In the present study, c/ebpα was cloned from the gonads of Chinese tongue sole (Cynoglossus semilaevis). The full-...
Source: Gene - November 19, 2020 Category: Genetics & Stem Cells Authors: Wang Q, Wang R, Feng B, Li S, Mahboob S, Shao C Tags: Gene Source Type: research

Transcriptional regulation of human T-box 5 gene (TBX5) by bone- and cardiac-related transcription factors.
Cancela ML PMID: 33221539 [PubMed - as supplied by publisher] (Source: Gene)
Source: Gene - November 19, 2020 Category: Genetics & Stem Cells Authors: Varela D, Conceição N, Cancela ML Tags: Gene Source Type: research

The mechanisms and functions of Circular RNAs in human diseases.
PMID: 33221540 [PubMed - as supplied by publisher] (Source: Gene)
Source: Gene - November 19, 2020 Category: Genetics & Stem Cells Authors: Weng X, Lu XJ Tags: Gene Source Type: research

CRISPR/Cas9-mediated mutagenesis of Ago2 and Siwi in silkworm cultured cells.
Abstract The BmN-4 cell line, originated from the silkworm Bombyx mori ovary, possesses endogenous small interfering RNA (siRNA) and PIWI-interacting RNA (piRNA) pathways. We performed CRISPR/Cas9-mediated genome editing of Ago2 and Siwi, which are the core factors for siRNA and piRNA pathways, respectively, to understand the importance of the two distinct small RNA pathways in this cell line. We found that approximately half of the alleles contained loss-of-function mutations in both Ago2- and Siwi-mutated cells. The mutated cells grew at a slower rate compared to the control cells, strongly suggesting that the s...
Source: Gene - November 18, 2020 Category: Genetics & Stem Cells Authors: Katsuma S, Shoji K, Suzuki Y, Kiuchi T Tags: Gene Source Type: research

Identification and expression analysis of Langerhans cells marker Langerin/CD207 in grasscarp, Ctenopharyngodon idella.
Abstract Langerhans cells (LCs) play an essential role in the initiation of immune response and maintenance of immune tolerance. However, the function and the molecular marker of grass carp LCs remains unclear. The grass carp LCs were firstly identified by immunofluorescence (IF) using a commercial anti-human Langerin/CD207 polyclonal antibody (pAb) and transmissionelectronmicroscope (TEM) technology in this study. After that, a cDNA sequence that homology with human and mouse CD207 gene was obtained by the bBLASTn program in NCBI. The open reading frame (ORF) of the grass carp CD207 gene contains 903 bp encoding ...
Source: Gene - November 18, 2020 Category: Genetics & Stem Cells Authors: Wang H, Chen X, Li S, Zhou C, Xu L, Wu Z, Chen X Tags: Gene Source Type: research

Identification of Shaker K+ channel family members in sweetpotato and functional exploration of IbAKT1.
Abstract The Shaker K+ channel family plays a vital role in potassium absorption and stress resistance in plants. However little information on the genes family is available about sweetpotato. In the present study, eleven sweetpotato Shaker K+ channel genes were identified and classified into five groups based on phylogenetic relationships, conserved motifs, and gene structure analyses. Based on synteny analysis, four duplicated gene pairs were identified, derived from both ancient and recent duplication, whereas only one resulted from tandem duplication events. Different expression pattern of Shaker K+ channel ge...
Source: Gene - November 18, 2020 Category: Genetics & Stem Cells Authors: Jin R, Zhang A, Sun J, Chen X, Liu M, Zhao P, Jiang W, Tang Z Tags: Gene Source Type: research

Essential functional molecules associated with SARS-CoV-2 infection: Potential therapeutic targets for COVID-19.
Abstract The whole world is still suffering substantially from the coronavirus disease 2019 (COVID-19) outbreak. Several protein-based molecules that are associated with the Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), which are essential for its functionality, survival, and pathogenesis have been identified and are considered as potential therapeutic targets. These protein-based molecules are either structural/non-structural components of SARS-CoV-2 or host factors, which play a crucial role in this infection. Developing drug molecules against these essential functional molecules to hinder their ...
Source: Gene - November 18, 2020 Category: Genetics & Stem Cells Authors: Rajarshi K, Khan R, Singh MK, Ranjan T, Ray S, Ray S Tags: Gene Source Type: research

Structure, gene order, and nucleotide composition of mitochondrial genomes in parasitic lice from Amblycera.
Abstract Parasitic lice have unique mitochondrial (mt) genomes characterized by rearranged gene orders, variable genome structures, and less AT content compared to most other insects. However, relatively little is known about the mt genomes of Amblycera, the suborder sister to all other parasitic lice. Comparing among nine different genera (including representative of all seven families), we show that Amblycera have variable and highly rearranged mt genomes. Some genera have fragmented genomes that vary considerably in length, whereas others have a single mt chromosome. Notably, these genomes are more AT-biased th...
Source: Gene - November 18, 2020 Category: Genetics & Stem Cells Authors: Sweet AD, Johnson KP, Cao Y, de Moya RS, Skinner RK, Tan M, Virrueta-Herrera S, Cameron SL Tags: Gene Source Type: research

Whole Exome Sequencing for Non-selective Pediatric Patients with Hyperlipidemia.
CONCLUSION: We expanded the mutation and phenotype spectra of familial hyperlipidemia. Our study demonstrated the effectiveness of genome-first approach for evaluation pediatric hyperlipidemia patients and showed that WES can be used as the first-tier test for patients with suspected Mendelian hyperlipidemia disorder. PMID: 33217533 [PubMed - as supplied by publisher] (Source: Gene)
Source: Gene - November 17, 2020 Category: Genetics & Stem Cells Authors: Hu X, Chen L, Gong C, Guo J, Chen Y, Wang Q, Guo R, Li W, Hao C Tags: Gene Source Type: research

The functional roles of the non-coding RNAs in molluscs.
Abstract This review focus on the current knowledge of non-coding RNAs (ncRNAs) in molluscs. In this review, we provide an overview of long ncRNAs (lncRNA), microRNAs (miRNA) and piwi-interacting RNAs (piRNA), followed by evidence for the regulation of ncRNAs in variety of biological process in molluscs, including development, biomineralization and innate immune response. This review advances our understanding on the roles of ncRNAs in molluscs and suggest the future direction to fully understand the epigenetic regulatory network of molluscs. PMID: 33207256 [PubMed - as supplied by publisher] (Source: Gene)
Source: Gene - November 15, 2020 Category: Genetics & Stem Cells Authors: Hongkuan Z, Karsoon T, Shengkang L, Hongyu M, Huaiping Z Tags: Gene Source Type: research

Retraction notice to "Identification of FOXN4 as a tumor suppressor of breast carcinogenesis via the activation of TP53 and deactivation of Notch signaling" [Gene 722 (2020) 144057].
Retraction notice to "Identification of FOXN4 as a tumor suppressor of breast carcinogenesis via the activation of TP53 and deactivation of Notch signaling" [Gene 722 (2020) 144057]. Gene. 2020 Nov 15;:145161 Authors: Wang X, Su D, Qin Z, Chen Z PMID: 33208228 [PubMed - as supplied by publisher] (Source: Gene)
Source: Gene - November 15, 2020 Category: Genetics & Stem Cells Authors: Wang X, Su D, Qin Z, Chen Z Tags: Gene Source Type: research

Retraction notice to "Linc-ROR targets FGF2 to regulate HASMC proliferation and migration via sponging miR-195-5p" [Gene 725 (2020) 144143].
Retraction notice to "Linc-ROR targets FGF2 to regulate HASMC proliferation and migration via sponging miR-195-5p" [Gene 725 (2020) 144143]. Gene. 2020 Nov 14;:145160 Authors: Ji Z, Chi J, Sun H, Ru A, Ni T, Zhang J, Jiang F, Lv H, Peng F, Guo H, Chen Y PMID: 33199126 [PubMed - as supplied by publisher] (Source: Gene)
Source: Gene - November 14, 2020 Category: Genetics & Stem Cells Authors: Ji Z, Chi J, Sun H, Ru A, Ni T, Zhang J, Jiang F, Lv H, Peng F, Guo H, Chen Y Tags: Gene Source Type: research

Trehalose protects motorneuron after brachial plexus root avulsion by activating autophagy and inhibiting apoptosis mediated by the AMPK signaling pathway.
Abstract Brachial plexus root avulsion (BPRA) is one of the most serious injuries of the upper extremity, which requires more effective treatment. Trehalose, a natural disaccharide, has reported to has a protective effect in neurodegenerative diseases. However, the effective effects and mechanism of trehalose on BPRA are still unclear. BPRA rat model were established, and then effects of trehalose on BPRA were investigated. TBHP-treated NSC34 cells with or without trehalose treatment were used for mechanism studies by Western blotting, Immunofluorescence and Flow cytometry analysis.Trehalose elevated the survival ...
Source: Gene - November 13, 2020 Category: Genetics & Stem Cells Authors: Li B, Li P, Weng R, Wu Z, Qin B, Fang J, Wang Y, Qiu S, Yang J, Gu L Tags: Gene Source Type: research

Dynamics of HOX gene expression and regulation in adipocyte development.
In this study, we have reported a time-dependent expression analysis of HOXA5, HOXD4, HOXD8, and HOXC13 in preadipocytes and mature adipocytes. Also, we have suggested PPARγ/RAR dependent regulation for these genes during adipogenesis. PMID: 33197517 [PubMed - as supplied by publisher] (Source: Gene)
Source: Gene - November 13, 2020 Category: Genetics & Stem Cells Authors: Kumar V, Mouliganesh S, Sarkar P, Acharya KK, Thirumurugan K Tags: Gene Source Type: research

Effect of vitamin D on malignant behavior of non-small cell lung cancer cells.
CONCLUSION: Vitamin D can inhibit the proliferation, invasion and metastasis of non-small cell lung cancer (NSCLC) cells A549 and NCI-H1975 and promote apoptosis, up-regulate the sensitivity of chemotherapy drugs. The effect of vitamin D on NSCLC cells A549 and NCI-H1975 was correlated with the PI3K/AKT/mTOR signaling pathway. Vitamin D also promotes the therapeutic effect of CDDP. PMID: 33197518 [PubMed - as supplied by publisher] (Source: Gene)
Source: Gene - November 13, 2020 Category: Genetics & Stem Cells Authors: Songyang Y, Song T, Shi Z, Li W, Yang S, Li D Tags: Gene Source Type: research

KALRN: a central regulator of synaptic function and synaptopathies.
Abstract The synaptic regulator, kalirin, plays a key role in synaptic plasticity and formation of dendritic arbors and spines. Dysregulation of the KALRN gene has been linked to various neurological disorders, including autism spectrum disorder, Alzheimer's disease, schizophrenia, addiction and intellectual disabilities. Both genetic and molecular studies highlight the importance of normal KALRN expression for healthy neurodevelopment and function. This review aims to give an in-depth analysis of the structure and molecular mechanisms of kalirin function, particularly within the brain. These data are correlated t...
Source: Gene - November 12, 2020 Category: Genetics & Stem Cells Authors: Parnell E, Shapiro LP, Voorn R, Forrest MP, Jalloul HA, Loizzo DD, Penzes P Tags: Gene Source Type: research

Single nucleotide variants c.-13G →C (rs17429833) and c.108C→T (rs72466472) in the CLDN1 gene and increased risk for familial colorectal cancer.
CONCLUSIONS: The GC genotype for the SNV rs17429833 or combined genotypes for SNVs rs17429833(GC) and rs72466472(CC) seems to be risk factors for patients with FCC in Brazilian patients; however, a larger number of patients needs to be evaluated to confirm our results. PMID: 33186612 [PubMed - as supplied by publisher] (Source: Gene)
Source: Gene - November 10, 2020 Category: Genetics & Stem Cells Authors: Battagin AS, Bertuzzo CS, Carvalho PO, Ortega MM, Marson FAL Tags: Gene Source Type: research

Nbnrp1 Mediates Verticillium dahliae Effector PevD1-Triggered Defense Responses by Regulating Sesquiterpenoid Phytoalexins Biosynthesis Pathway in Nicotiana benthamiana.
In this study, we further investigated PevD1-induced immune responses in both wild-type (WT) and Nbnrp1-RNAi lines through RNA-seq, in order to reveal the underlying mechanism of Nbnrp1-modulated PevD1-induced disease resistance in N. benthamiana. Results showed that Nbnrp1-RNAi lines exhibited reduced PevD1-induced immune responses, like inhibiting H2O2 accumulation and MAPK phosphorylation. To silence Nbnrp1 inhibited the expression of PevD1-induced differential expression genes (DEGs) involved in pathways associated with sesquiterpenoid and triterpenoid biosynthesis, flavone and flavonol biosynthesis, plant-pathogen int...
Source: Gene - November 10, 2020 Category: Genetics & Stem Cells Authors: Liang Y, Li Z, Zhang Y, Meng F, Qiu D, Zeng H, Li G, Yang X Tags: Gene Source Type: research

Functional analysis of the brain natriuretic peptide gene for high-altitude adaptation in Tibetan pigs.
Abstract High-altitude adaptation in Tibetan pigs (TP) is associated with positively-selected genes. The brain natriuretic peptide (BNP) gene is critical in the regulation of cardiovascular homeostasis and energy metabolism. The present study was conducted to identify the function of BNP for high-altitude adaptations in TP. RT-qPCR and western blotting results indicated that BNP expression could be upregulated when the pigs (especially for the Tibetan pigs) were raised to high altitude. In the 5' flanking region, three polymorphic sites, A-1964G, C-1780G, and T-940C were detected, and the genotype distribution of ...
Source: Gene - November 10, 2020 Category: Genetics & Stem Cells Authors: Tian X, Ma J, Wu Y, Zhang P, Li Q, Zhang H, Wu C Tags: Gene Source Type: research

Corrigendum to "Correlation study between ADA and IFN- γ gene polymorphisms and the risk of developing tuberculous pericarditis" [Gene 676 (2018) 214-218/https://doi.org/10.1016/j.gene.2018.07.032].
Corrigendum to "Correlation study between ADA and IFN-γ gene polymorphisms and the risk of developing tuberculous pericarditis" [Gene 676 (2018) 214-218/https://doi.org/10.1016/j.gene.2018.07.032]. Gene. 2020 Nov 09;:145230 Authors: Zhong F, Dai T, Sheng Y PMID: 33183907 [PubMed - as supplied by publisher] (Source: Gene)
Source: Gene - November 9, 2020 Category: Genetics & Stem Cells Authors: Zhong F, Dai T, Sheng Y Tags: Gene Source Type: research

A Novel Missense Mutation within KRT75 Gene Strongly Affects Heat Stress in Chinese Cattle.
Abstract The KRT75 gene (Keratin 75) is a member of the type II epithelial α-keratin gene family which plays a key role in hair and nail formation. And the coat conformation affects heat tolarence in mammals. Therefore, the aim of this study was to identify novel single nucleotide polymorphisms (SNPs) of the KRT75 gene and further evaluate its relation to heat stress in Chinese cattle. A missense mutation (NC_037332.1: g.1052 T> C) of the bovine KRT75 was identified using the Bovine Genome Variation Database (BGVD). The g.1052 T> C variant was then genotyped in 519 individuals of 22 cattle breeds. Furt...
Source: Gene - November 9, 2020 Category: Genetics & Stem Cells Authors: Cai C, Huang B, Qu K, Zhang J, Lei C Tags: Gene Source Type: research

The carriage rates of αααanti3.7, αααanti4.2, and HKαα in the population of Guangxi, China measured using a rapid detection qPCR system to determine CNV in the α-globin gene cluster.
CONCLUSIONS: The individuals carrying αααanti3.7, αααanti4.2, and HKαα genes suffer harms related to β0 thalassemia, and these variations are not included in the detection range of conventional gene analysis reagents; therefore, these individuals are at risk. Prenatal diagnosis institutions could pay more attention to carriage of copy number variations of α-globin, so as to give more accurate prenatal advice to patients. PMID: 33181251 [PubMed - as supplied by publisher] (Source: Gene)
Source: Gene - November 9, 2020 Category: Genetics & Stem Cells Authors: Long J, Liu E Tags: Gene Source Type: research

Genome-wide characterization and expression analyses of the auxin/indole-3-acetic acid (Aux/IAA) gene family in apple (Malus domestica).
This study proved that the Aux/IAA gene families may perform a different function in apple fruit development and ripening, more importantly, it provided a foundation for further exploring the biological function of these MdAux/IAAs. PMID: 33181252 [PubMed - as supplied by publisher] (Source: Gene)
Source: Gene - November 9, 2020 Category: Genetics & Stem Cells Authors: Su Y, He H, Wang P, Ma Z, Mao J, Chen B Tags: Gene Source Type: research

DNA repair pathways important for the survival of Escherichia coli to hydrogen peroxide mediated killing.
In this study we have investigated the role of multiple DNA repair pathways in survival to oxidative killing and assessed their relative importance. Results show that both nucleotide excision repair pathway as well as the RecF pathway of recombination repair are important for repair of the DNA damage caused by exposure to hydrogen peroxide. The study also provides the evidence that RecG helicase which is known for the resolution of Holliday junction intermediates plays a critical role in the survival of mode-one killing by peroxide. There is a severe impact on the survival of repair mutants when parameters like aeration an...
Source: Gene - November 9, 2020 Category: Genetics & Stem Cells Authors: Dhawale A, Bindal G, Rath D, Rath A Tags: Gene Source Type: research

Heat shock transcription factor 2 reduces the secretion of IL-1 β by inhibiting NLRP3 inflammasome activation in ulcerative colitis.
In this study, hsf-/- DSS model mice showed highest levels of expression of the NLRP3 inflammasome and the secretion of IL-1β. In Caco-2 cells, the levels of expression of the NLRP3 inflammasome and the secretion of IL-1β were inhibited by overexpression of HSF2, and inhibited HSF2 increased activation of the NLRP3 inflammasome and the secretion of IL-1β. These findings indicated that HSF2 might be an important target for inflammatory modulation in UC. PMID: 33181254 [PubMed - as supplied by publisher] (Source: Gene)
Source: Gene - November 9, 2020 Category: Genetics & Stem Cells Authors: Zhang F, Zhao W, Zhou J, Wang W, Luo J, Feng Y, Wu J, Li M, Wang K, Niu J, Miao Y Tags: Gene Source Type: research

A missense variant in the nuclear export signal of the FMR1 gene causes intellectual disability.
We describe a missense variant in the FMR1 gene, identified through whole-exome sequencing, in a boy with intellectual disability and behavioral problems. The variant is located in the FMRP's nuclear export signal (NES). We performed expression and localization studies of the variant in hair roots and HEK293 cells. Our results show normal expression but significant retention of the FMRP in the cells' nucleus. This finding suggests a possible FMRP reduction at its essential functional sites in the dendrites and the synaptic compartments and possible interference of other cellular processes in the nucleus. Together, this mig...
Source: Gene - November 9, 2020 Category: Genetics & Stem Cells Authors: Zeidler S, Anne Severijnen L, de Boer H, van der Toorn EC, Ruivenkamp CAL, Bijlsma EK, Willemsen R Tags: Gene Source Type: research

Comparative population genomic analysis provides insights into breeding of modern indica rice in China.
Abstract Comparative genomic analysis within Asian cultivated rice (Oryza sativa L.) populations has greatly enriched our knowledge regarding rice domestication and the divergence of the indica and japonica subspecies, while study on genomic regions associated with improvement within the indica subspecies is still limited. Here, through combined investigation of 2,429 indica cultivar genomes from public sequencing projects, we depict the improvement of modern indica rice in China. We identify three subgroups within indica populations: two geographically distinct, historical subgroups indica I (Ind_I) and indica II...
Source: Gene - November 9, 2020 Category: Genetics & Stem Cells Authors: Qin C, Guo Y, Wu J, Wang L, Traw MB, Zhang Y Tags: Gene Source Type: research

RcsB-dependent Regulation of Type VI Secretion System in Porcine Extra-intestinal Pathogenic Escherichia coli.
In conclusion, Rcs system orchestrates Rcs cascade to trigger antioxidant defense of T6SS, and presents a typical model in which a bacterium reschedule its transcription network via the Rcs phosphorelay pathway in response to membrane perturbations for survival and pathogenesis. PMID: 33181257 [PubMed - as supplied by publisher] (Source: Gene)
Source: Gene - November 9, 2020 Category: Genetics & Stem Cells Authors: Hu L, Yu F, Liu M, Chen J, Zong B, Zhang Y, Chen T, Wang C, Zhang T, Zhang J, Zhu Y, Wang X, Chen H, Tan C Tags: Gene Source Type: research

Integrated gene-based and pathway analyses using UK Biobank data identify novel genes for chronic respiratory diseases.
Abstract BACKGROUND: Chronic respiratory diseases have become a non-negligible cause of death globally. Although smoking and environmental exposures are primary risk factors for chronic respiratory diseases, genetic factors also play an important role in determining individual's susceptibility to diseases. Here we performed integrated gene-based and pathway analyses to systematically illuminate the heritable characteristics of chronic respiratory diseases. METHODS: UK (United Kingdom) Biobank is a very large, population-based prospective study with over 500,000 participants, established to allow detailed inve...
Source: Gene - November 9, 2020 Category: Genetics & Stem Cells Authors: Wang L, Fang R, Zhu M, Qin N, Wang Y, Fan J, Sun Q, Ji M, Fan X, Xie J, Ma H, Dai J Tags: Gene Source Type: research

Chitosan-stabilized selenium nanoparticles alleviate cardio-hepatic damage in type 2 diabetes mellitus model via regulation of caspase, Bax/Bcl-2, and Fas/FasL- pathway.
Abstract The present study was carried out to explore a novel strategy with the hypothesis that the combined treatment with standard antidiabetic drug metformin (MET) and chitosan stabilized nanoparticles (CTS-Se-NPs) may have a potential role on insulin level, hepatic damage and apoptosis, and cardiac injury markers of type 2 diabetes mellitus (T2DM) in rat model. T2DM was induced by a high fat diet (HFD) for 8 weeks and a single injection of a low dose streptozotocin (STZ) (35 mg/kg) in Sprague Dawley rats. A total number of one hundred rats were divided into five groups; the first served as a control (non-diabe...
Source: Gene - November 9, 2020 Category: Genetics & Stem Cells Authors: Abdel-Rahman Mohamed A, Khater SI, Hamed Arisha A, Metwally MMM, Mostafa-Hedeab G, El-Shetry ES Tags: Gene Source Type: research

Association of FOXP3 and GAGE10 Promoter Polymorphisms and Decreased FOXP3 Expression in Regulatory T cells with Susceptibility to Generalized Vitiligo in Gujarat Population.
Abstract Alterations in regulatory T (Treg) cells have been observed in generalized vitiligo (GV) patients and decreased Forkhead Box P3 (FOXP3) has been implicated in the disease pathogenesis. The present study examined FOXP3 rs3761547(A>G), rs3761548(C>A), rs2232365(A>G) and GAGE10 rs11798415(A>T) promoter single nucleotide polymorphisms (SNPs) in 419 GV patients and 429 controls from Gujarat population using PCR-RFLP and ARMS-PCR. Real-time PCR and flow cytometry were used for assessment of FOXP3 mRNA and protein levels respectively in 96 GV patients and 90 controls. The frequency of genotypes (pG) ...
Source: Gene - November 9, 2020 Category: Genetics & Stem Cells Authors: Giri PS, Patel S, Begum R, Dwivedi M Tags: Gene Source Type: research

Identification of genetic factors controlling phosphorus utilization efficiency in wheat by genome-wide association study with principal component analysis.
Abstract Despite the economic importance of P utilization efficiency, information on genetic factors underlying this trait remains elusive. To address that, we performed a genome-wide association study in a spring wheat diversity panel ranging from landraces to elite varieties. We evaluated the phenotype variation for P utilization efficiency in controlled conditions and genotype variation using wheat 90K SNP array. Phenotype variables were transformed into a smaller set of uncorrelated principal components that captured the most important variation data. We identified two significant loci associated with both P u...
Source: Gene - November 9, 2020 Category: Genetics & Stem Cells Authors: Bin Safdar L, Jawad Umer M, Almas F, Uddin S, Safdar QT, Blighe K, Masood Quraishi U Tags: Gene Source Type: research

Overexpression of OsRLCK241 confers enhanced salt and drought tolerance in transgenic rice (Oryza sativa L.).
In this study, we present data on OsRLCK241, a receptor-like cytoplasmic kinase that is induced by salt and drought stresses. Subcellular localization revealed the presence of an OsRLCK241-GFP fusion protein at the plasma membrane. Under normal conditions, we did not observe any measurable discrepancies between the development and growth of WT and OsRLCK241 transgenic plants. In OsRLCK241 transgenic plants, the overexpression of OsRLCK241 conferred improved tolerance to salt and drought stresses. OsRLCK241 expression improved ROS detoxification by enhancing the activities of ROS scavengers as well as the accumulation of co...
Source: Gene - November 6, 2020 Category: Genetics & Stem Cells Authors: Zhang H, Zhai N, Ma X, Zhou H, Cui Y, Wang C, Xu G Tags: Gene Source Type: research

SLC30A8 Gene Polymorphism rs13266634 Associated with Increased Risk for Developing Type 2 Diabetes Mellitus in Jordanian Population.
CONCLUSIONS: The rs13266634 SNP is significantly associated with T2DM susceptibility among Jordanian Population. PMID: 33161057 [PubMed - as supplied by publisher] (Source: Gene)
Source: Gene - November 5, 2020 Category: Genetics & Stem Cells Authors: Mashal S, Khanfar M, Al-Khalayfa S, Srour L, Mustafa L, Hakooz NM, Zayed AA, Khader YS, Azab B Tags: Gene Source Type: research

A genomic analysis of osmotolerance in Staphylococcus aureus.
Abstract A key phenotypic characteristic of the Gram-positive bacterial pathogen, Staphylococcus aureus, is its ability to grow in low aw environments. A homology transfer based approach, using the well characterised osmotic stress response systems of Bacillus subtilis and Escherichia coli, was used to identify putative osmotolerance loci in Staphylococcus aureus ST772-MRSA-V. A total of 17 distinct putative hyper and hypo-osmotic stress response systems, comprising 78 genes, were identified. The ST772-MRSA-V genome exhibits significant degeneracy in terms of the osmotic stress response; with three copies of opuD,...
Source: Gene - November 3, 2020 Category: Genetics & Stem Cells Authors: Casey D, Sleator RD Tags: Gene Source Type: research

ALK-1 to ALK-5 ratio dictated by the Akt1- β-catenin pathway regulates TGFβ-induced endothelial-to-mesenchymal transition.
ALK-1 to ALK-5 ratio dictated by the Akt1-β-catenin pathway regulates TGFβ-induced endothelial-to-mesenchymal transition. Gene. 2020 Nov 03;:145293 Authors: Verma A, Artham S, Somanath PR Abstract Endothelial-to-mesenchymal transition (EndMT) indispensable in embryogenesis also occurs in several human pathologies. Although transforming growth factor-β (TGFβ) has been demonstrated to induce EndMT, the type-I receptors (ALK-1 and ALK-5) responsible for TGFβ-induced EndMT is unclear. In the current study, we investigated the role of the Akt1 pathway in ALK1 and ALK5 expression re...
Source: Gene - November 3, 2020 Category: Genetics & Stem Cells Authors: Verma A, Artham S, Somanath PR Tags: Gene Source Type: research

Neuropilin and tolloid-like 2 regulates the progression of osteosarcoma.
In conclusion, this study showed that NETO2 functions as an oncogene of osteosarcomas by activating the PI3K/AKT pathway. PMID: 33157203 [PubMed - as supplied by publisher] (Source: Gene)
Source: Gene - November 3, 2020 Category: Genetics & Stem Cells Authors: Wang X, Bian Z, Hou C, Li M, Jiang W, Zhu L Tags: Gene Source Type: research

Transcriptome analysis provides insights into the mechanisms underlying wheat cultivar Shumai126 responding to stripe rust.
Abstract Stripe rust, caused by Puccinia striiformis f. sp. tritici (Pst), is a destructive fungal disease of wheat globally. Breeding resistance cultivars is one of the most cost-effective methods to control Pst. Shumai126 (SM126), a high-yielding commercial wheat cultivar, showed strong stripe rust resistance for more than ten years. However, the molecular mechanisms and the responsive genes underlying the SM126 resistance to Pst have not been explored yet. In the present study, RNA-seq was used to analyze changes in the transcriptome at different time points of Pst infection in seedling leaves of SM126. In tota...
Source: Gene - November 3, 2020 Category: Genetics & Stem Cells Authors: Wang Y, Huang L, Luo W, Jin Y, Gong F, He J, Liu D, Zheng Y, Wu B Tags: Gene Source Type: research

Vitamin D receptor Fok1 polymorphism and invasive ovarian carcinoma risk - A case-control study.
PMID: 33157205 [PubMed - as supplied by publisher] (Source: Gene)
Source: Gene - November 3, 2020 Category: Genetics & Stem Cells Authors: Arumugam M, Sonkusare S, Goripalli S, Shivappa P, Shetty P, Kumari N S Tags: Gene Source Type: research

Capillary electroporation affects the expression of miRNA-122-5p from bull sperm cells.
In this study, bull sperm was electroporated using voltages of 600V, 1500V, and 0V (control group), with or without exogenous DNA. Parameters of sperm quality were analyzed using CASA and flow cytometry, and expression of the miRNA-122-5p was analyzed using RT-qPCR. It was observed that electroporation increased the internalization of exogenous DNA (P0.05). It reduced sperm motility (P
Source: Gene - October 31, 2020 Category: Genetics & Stem Cells Authors: Dos Santos da Silva L, Borges Domingues W, Fagundes Barreto B, da Silveira Martins AW, Dellagostin EN, Komninou ER, Corcini CD, Junior ASV, Campos VF Tags: Gene Source Type: research

Capacity for freshwater acclimation and differences in the transcription of ion transporter genes underlying different migratory life histories of Takifugu fish.
Abstract The genus Takifugu is a group of approximately 20 species of puffer fishes living in a wide range of salinity environments around East Asian countries. This group presents a broad spectrum of evolutionary stages adapted to anadromy as a result of speciation that occurred a short time (2-5 million years) ago on an evolutionary timescale. This group thus can be considered as a model for studying the evolutionary mechanisms of anadromy. We firstly conducted a transfer experiment from seawater to low-salinity waters on five Takifugu species: two anadromous species T. obscurus and T. ocellatus, two euryhaline ...
Source: Gene - October 31, 2020 Category: Genetics & Stem Cells Authors: Nakamura M, Jiang T, Xu G, Yang J, Xu P, Watanabe S, Kaneko T, Koyama T, Kikuchi K, Tsukamoto K, Otake T Tags: Gene Source Type: research

Association of XRCC2 rs2040639 with the survival of patients with oral squamous cell carcinoma undergoing concurrent chemoradiotherapy.
CONCLUSION: The A-allele of XRCC2 rs2040639 is a favorable prognostic factor for disease-free survival. Patients with these genotypes may benefit from concurrent chemoradiotherapy. Additional confirmation from studies with larger samples or other ethnic populations is warranted. PMID: 33144272 [PubMed - as supplied by publisher] (Source: Gene)
Source: Gene - October 31, 2020 Category: Genetics & Stem Cells Authors: Senghore T, Wang WC, Chien HT, Chen YX, Young CK, Huang SF, Yeh CC Tags: Gene Source Type: research

Complete genome sequence and bioinformatics analysis of nine Egyptian females with clinical information from different geographic regions in Egypt.
In conclusion, we present whole-genome sequences of nine Egyptian females with personal clinical information that cover the diverse regions of Egypt. Although limited in sample size, the whole genomes data provides possible geno-phenotype candidate markers that are relevant to the region's diseases. PMID: 33127537 [PubMed - as supplied by publisher] (Source: Gene)
Source: Gene - October 27, 2020 Category: Genetics & Stem Cells Authors: ElHefnawi M, Hegazy E, ElFiky A, Jeon Y, Jeon S, Bhak J, Mohamed Metwally F, Sugano S, Horiuchi T, Kazumi A, Blazyte A Tags: Gene Source Type: research

TCTP participates in hepatic metabolism by regulating gene expression involved in insulin resistance.
Abstract Translationally controlled tumor protein (TCTP) has various cellular functions and molecular interactions, many related to its growth-promoting and antiapoptotic properties. Recently, TCTP expression was reported to increases in insulin-resistant mice fed with high-fat diet. TCTP is a multifunctional protein, but its role in liver metabolism is unclear. Here, we investigated the function and mechanism of TCTP in HepG2 cells. Knock-down of TCTP led to 287 differentially expressed genes (DEGs) that were highly associated with cellular apoptosis and signal response, TNF and NF-κB signaling pathways, gl...
Source: Gene - October 26, 2020 Category: Genetics & Stem Cells Authors: Dong K, Zhao Q, Xue Y, Wei Y, Zhang Y, Yang Y Tags: Gene Source Type: research